Diff of the two buildlogs: -- --- b1/build.log 2024-05-26 06:05:31.711174887 +0000 +++ b2/build.log 2024-05-26 05:40:00.952444099 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Jun 28 00:03:04 -12 2025 -I: pbuilder-time-stamp: 1751112184 +I: Current time: Sun May 26 19:08:28 +14 2024 +I: pbuilder-time-stamp: 1716700108 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -46,53 +46,85 @@ 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/21736/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/8384/tmp/hooks/D01_modify_environment starting +debug: Running on infom07-i386. +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 May 26 05:08 /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/8384/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/8384/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='i386' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='i386' + 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]="21" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=i386 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=5 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=i686 + HOST_ARCH=i386 IFS=' ' - INVOCATION_ID='b1635d351adc45d8bdbaccf8db80860d' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - LD_LIBRARY_PATH='/usr/lib/libeatmydata' - LD_PRELOAD='libeatmydata.so' - 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='21736' - PS1='# ' - PS2='> ' + INVOCATION_ID=160261ad06ce43a18bc84e251aa12caf + LANG=C + LANGUAGE=de_CH:de + LC_ALL=C + LD_LIBRARY_PATH=/usr/lib/libeatmydata + LD_PRELOAD=libeatmydata.so + MACHTYPE=i686-pc-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=8384 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.Xt48izMR/pbuilderrc_Ohx1 --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Xt48izMR/b1 --logfile b1/build.log ncbi-blast+_2.12.0+ds-4.dsc' - SUDO_GID='111' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + 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.Xt48izMR/pbuilderrc_L2b9 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Xt48izMR/b2 --logfile b2/build.log ncbi-blast+_2.12.0+ds-4.dsc' + SUDO_GID=111 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom08-i386 6.7.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.7.12-1~bpo12+1 (2024-05-06) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Jun 27 17:48 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/21736/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 24 11:23 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/8384/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -216,7 +248,7 @@ Get: 68 http://deb.debian.org/debian trixie/main i386 libmbedtls-dev i386 2.28.8-1 [732 kB] Get: 69 http://deb.debian.org/debian trixie/main i386 time i386 1.9-0.2 [50.9 kB] Get: 70 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1 [915 kB] -Fetched 46.1 MB in 0s (119 MB/s) +Fetched 46.1 MB in 1s (83.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:i386. (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 ... 19685 files and directories currently installed.) @@ -460,8 +492,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Jun 28 12:03:26 UTC 2025. -Universal Time is now: Sat Jun 28 12:03:26 UTC 2025. +Local time is now: Sun May 26 05:08:58 UTC 2024. +Universal Time is now: Sun May 26 05:08:58 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -523,7 +555,11 @@ 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-4_source.changes +I: user script /srv/workspace/pbuilder/8384/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/8384/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-4_source.changes dpkg-buildpackage: info: source package ncbi-blast+ dpkg-buildpackage: info: source version 2.12.0+ds-4 dpkg-buildpackage: info: source distribution unstable @@ -555,78 +591,78 @@ 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:146: 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 @@ -1183,207 +1219,207 @@ configure: ...done configure: updating cache config.cache configure: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/config.status -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/db/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/db/sqlite/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/test/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/third_party/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/third_party_static/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util/Makefile config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split/Makefile config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/creaders/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/bitset/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/Makefile +config.status: 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creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client/test/Makefile -config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mim/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1/Makefile +config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/objprt/Makefile config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/./Makefile config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc/common/ncbi_build_ver.h config.status: creating /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/common/ncbi_revision.h @@ -5294,1011 +5330,892 @@ debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds' cd c++/BUILD/build && \ - make -j6 -f Makefile.flat all_projects="algo/blast/ app/ objmgr/ objtools/align_format/ objtools/blast/" + make -j5 -f Makefile.flat all_projects="algo/blast/ app/ objmgr/ objtools/align_format/ objtools/blast/" make[2]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -/usr/bin/make -w -j6 --jobserver-auth=3,4 -f Makefile.flat ptb_all.real MTARGET= +/usr/bin/make -w -j5 --jobserver-auth=3,4 -f Makefile.flat ptb_all.real MTARGET= make[3]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[3]: warning: -j6 forced in submake: resetting jobserver mode. -cd corelib/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd util/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd serial/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd serial/datatool/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd algo/blast/composition_adjustment/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[3]: warning: -j5 forced in submake: resetting jobserver mode. +cd corelib/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +cd util/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +cd serial/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +cd serial/datatool/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +cd algo/blast/composition_adjustment/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd util/tables/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' +make[4]: warning: -j5 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/serial/datatool' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -cd connect/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd util/tables/ && /usr/bin/make -w -j5 --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: -j5 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[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[5]: warning: -j5 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: -j5 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/algo/blast/composition_adjustment' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: 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' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/connect' -make[4]: warning: -j6 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/algo/blast/composition_adjustment' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/algo/blast/composition_adjustment' -make[5]: Entering 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/corelib' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `export-headers'. +/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' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -/usr/bin/make[4] (Makefile.serial.lib): Nothing to be done for `export-headers'. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -cd algo/blast/core/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +cd connect/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +cd algo/blast/core/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +/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/serial' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.composition_adjustment.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j5 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/algo/blast/composition_adjustment' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +/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' +cd util/sequtil/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -cd util/sequtil/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -/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' -cd objtools/blast/services/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 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/connect' +make[5]: warning: -j5 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: -j6 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' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: 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/corelib' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.cserial.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/core' -make[5]: warning: -j6 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[6]: 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/algo/blast/core' +make[5]: warning: -j5 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: -j5 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[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[6]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /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/util/sequtil' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[6]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[5]: warning: -j6 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: -j6 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.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' -cd objmgr/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +cd objtools/blast/services/ && /usr/bin/make -w -j5 --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: -j5 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/blast/services' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.sequtil.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: -j6 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +cd objmgr/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[5] (Makefile.precompile): Nothing to be done for `all'. -cd objtools/blast/seqdb_reader/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' +make[4]: warning: -j5 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/seqdb_reader' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -/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' -cd objtools/logging/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -make[5]: warning: -j6 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[4]: warning: -j6 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' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' /usr/bin/make[4] (Makefile.connect.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/services' +make[5]: warning: -j5 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: -j5 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]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[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/corelib' +make[5]: warning: -j5 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/objtools/blast/services' +make[5]: warning: -j5 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' +make[5]: warning: -j5 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[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j6 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]: warning: -j5 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/corelib' +/usr/bin/make[4] (Makefile.objmgr.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' +cd objtools/blast/seqdb_reader/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +/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' +cd objtools/logging/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xxconnect.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/logging' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/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/connect' +make[5]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +cd objtools/readers/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +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/corelib' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +make[5]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +make[4]: warning: -j5 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/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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/objtools/blast/seqdb_reader' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -/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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -cd objtools/readers/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 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]: 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/readers' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xconnect.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.test_mt.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/readers' +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.seqdb.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/objtools/blast/seqdb_reader' -cd objmgr/util/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objmgr/util/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.logging.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/util' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -cd objtools/seqmasks_io/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -make[4]: warning: -j6 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.xxconnect.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/readers' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[4]: warning: -j5 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[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/serial' -cd util/profile/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +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[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[5]: warning: -j5 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.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' +cd objtools/seqmasks_io/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/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/objmgr/util' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/objtools/readers' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. 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/objtools/readers' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[4]: warning: -j6 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/objtools/seqmasks_io' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.test_boost.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: -j5 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: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.test_mt.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j5 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: -j5 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/objmgr/util' -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/readers' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +make[4]: warning: -j5 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: -j6 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: -j6 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]: warning: -j5 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.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/corelib' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.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/readers' -make[5]: warning: -j6 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/objmgr/util' +cd util/profile/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.xobjreadex.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[4]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xthrserv.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/seqmasks_io' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +make[5]: warning: -j5 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/util/profile' -make[5]: warning: -j6 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[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.seqmasks_io.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/readers' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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.xconnect.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.seqmasks_io.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/seqmasks_io' -cd algo/blast/dbindex/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -cd algo/dustmask/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -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/util/profile' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +cd algo/blast/dbindex/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j5 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]: Entering 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/algo/dustmask' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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/connect' -/usr/bin/make[4] (Makefile.xobjreadex.lib): Nothing to be done for `export-headers'. /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' -cd algo/winmask/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -make[4]: warning: -j6 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/connect' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -NOTE: skipping project "xxconnect2" due to unmet requirements -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/dustmask/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[5]: 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/algo/dustmask' +make[4]: warning: -j5 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: -j5 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' +/usr/bin/make[4] (Makefile.xalgoblastdbindex.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/dbindex' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/winmask/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources 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' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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]: warning: -j5 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]: 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]: warning: -j6 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: -j6 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/winmask' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.xalgodustmask.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.xalgoblastdbindex.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/winmask' -make[4]: 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/connect' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/alnmgr/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -cd algo/blast/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objtools/alnmgr/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +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/algo/winmask' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/alnmgr' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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/corelib' +cd algo/blast/api/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.xalgowinmask.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.xthrserv.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/winmask' -cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: 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/objtools/alnmgr' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/algo/blast/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -cd util/compress/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +cd util/compress/api/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j5 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' -make[5]: warning: -j6 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]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.alnmgr.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' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +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/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' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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' +make[5]: warning: -j5 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[4] (Makefile.xblast.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/compress/api' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -cd objtools/data_loaders/genbank/cache/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j6 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: -j5 forced in submake: resetting jobserver mode. /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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' +cd objtools/data_loaders/genbank/cache/ && /usr/bin/make -w -j5 --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' +make[5]: warning: -j5 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[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j6 --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/objtools/data_loaders/genbank/id1' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/id1' +make[4]: warning: -j5 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: -j5 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/genbank/id2' +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/cache' +make[5]: warning: -j5 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[4] (Makefile.ncbi_xreader.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.compress.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/compress/api' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd cgi/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j5 --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/cache' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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: -j5 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]: 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' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/objtools/data_loaders/genbank/cache' 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' +make[5]: warning: -j5 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.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 cgi/ && /usr/bin/make -w -j5 --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/id2' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[4]: warning: -j5 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/cgi' -make[5]: warning: -j6 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: -j6 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[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' +cd html/ && /usr/bin/make -w -j5 --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/id2' -make[5]: warning: -j6 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/cgi' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[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' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -/usr/bin/make[4] (Makefile.ncbi_xreader.lib): Nothing to be done for `export-headers'. -cd html/ && /usr/bin/make -w -j6 --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' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[4]: warning: -j6 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]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.ncbi_xloader_genbank.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.ncbi_xreader_id2.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.ncbi_xreader_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/cgi' +make[5]: warning: -j5 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' -/usr/bin/make[4] (Makefile.cgi.lib): Nothing to be done for `export-headers'. -cd objtools/align_format/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: 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' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -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/align_format' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +cd objtools/align_format/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +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/cgi' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[4]: warning: -j5 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/html' -make[5]: warning: -j6 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[5]: 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/cgi' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.ncbi_xloader_genbank.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/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/html' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: warning: -j5 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/align_format' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.fcgi.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/blastdb_format' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[5]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.html.lib): Nothing to be done for `export-headers'. +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/html' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 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' +cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources 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/blast/blastdb_format' +make[5]: warning: -j5 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/blastdb' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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.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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -cd algo/blast/blastinput/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. +cd algo/blast/blastinput/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources /usr/bin/make[4] (Makefile.align_format.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/blastinput' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -cd objtools/eutils/api/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. +cd objtools/eutils/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/eutils/api' -make[5]: warning: -j6 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/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/objtools/eutils/api' -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/objtools/eutils/api' -make[5]: warning: -j6 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' +make[5]: warning: -j5 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]: warning: -j5 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/objtools/eutils/api' +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/algo/blast/blastinput' +make[5]: warning: -j5 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]: warning: -j5 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' -/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb.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' -cd algo/blast/proteinkmer/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +cd algo/blast/proteinkmer/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources /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' -cd connect/services/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd connect/services/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb_rmt.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.blastinput.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' make[4]: 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 -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.ncbi_xloader_blastdb_rmt.lib): Nothing to be done for `export-headers'. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -cd util/regexp/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +make[5]: warning: -j5 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]: warning: -j5 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]: Leaving 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/pubseq_gateway/client' -make[5]: warning: -j6 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +/usr/bin/make[4] (Makefile.xconnserv.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/pubseq_gateway/client' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.proteinkmer.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/proteinkmer' +cd util/regexp/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources 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' -/usr/bin/make[4] (Makefile.proteinkmer.lib): Nothing to be done for `export-headers'. NOTE: skipping project "psg_client" due to unmet requirements -make[4]: Leaving 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/util/regexp' +make[4]: warning: -j5 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]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -cd util/xregexp/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd objtools/edit/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +cd util/xregexp/ && /usr/bin/make -w -j5 --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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +make[5]: warning: -j5 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: -j6 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[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.xconnserv.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/regexp' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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/pubseq_gateway/client' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -cd objtools/cleanup/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. +cd objtools/edit/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/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/util/xregexp' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' 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: -j6 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: -j6 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]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/util/xregexp' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[5]: warning: -j6 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]: warning: -j6 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]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.regexp.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/services' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' +cd objtools/cleanup/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +/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/objtools/cleanup' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.ncbi_xblobstorage_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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/format/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 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: -j5 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/edit' +make[5]: warning: -j5 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/edit' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.xregexp.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]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' /usr/bin/make[4] (Makefile.edit.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]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +cd objtools/format/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[5]: Leaving 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/cleanup' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.ncbi_xcache_netcache.lib): Nothing to be done for `export-headers'. -cd algo/blast/format/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -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: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' +make[4]: warning: -j5 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/objtools/cleanup' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +/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/format/ && /usr/bin/make -w -j5 --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: -j6 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +make[4]: warning: -j5 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]: Leaving 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/connect/services' -make[5]: warning: -j6 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: -j6 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]: warning: -j5 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[4] (Makefile.cleanup.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/format' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -cd algo/blast/blastinput/unit_test/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -/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/blastinput/unit_test' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.ncbi_xblobstorage_netcache.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/format' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +cd algo/blast/blastinput/unit_test/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[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 -j6 --jobserver-auth=5,6 sources /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/algo/blast/format' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[4]: warning: -j5 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[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd algo/blast/igblast/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: warning: -j5 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.xblastformat.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/blast/blastinput/unit_test' +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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' +cd algo/blast/igblast/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +cd objtools/simple/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/simple/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -cd algo/blast/proteinkmer/unit_test/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/blast/proteinkmer/unit_test/ && /usr/bin/make -w -j5 --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: -j6 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/dbindex/makeindex' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 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]: warning: -j5 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/proteinkmer/unit_test' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[5]: Entering 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 -j6 --jobserver-auth=5,6 sources -make[5]: warning: -j6 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[5]: warning: -j6 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/algo/blast/unit_tests/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/objtools/simple' -make[5]: warning: -j6 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/blast_format' +make[4]: warning: -j5 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/algo/blast/igblast' +make[5]: warning: -j5 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: -j5 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]: 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/algo/blast/unit_tests/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: warning: -j6 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[4] (Makefile.xobjsimple.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.igblast.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/simple' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -/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/algo/blast/unit_tests/blastdb' -make[4]: warning: -j6 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/blast_format' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objtools/blast/seqdb_writer/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.igblast.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/unit_tests/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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 -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xobjsimple.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/unit_tests/api' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +cd app/blast/ && /usr/bin/make -w -j5 --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/seqdb_reader' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[4]: warning: -j5 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/blast/ && /usr/bin/make -w -j6 --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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -cd app/blastdb/ && /usr/bin/make -w -j6 --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: -j5 forced in submake: resetting jobserver mode. +cd app/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd app/dustmasker/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: warning: -j5 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/app/blastdb' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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.seqalign_util.lib): Nothing to be done for `export-headers'. +/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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[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 -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[4]: warning: -j6 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: -j5 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[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 -j6 --jobserver-auth=5,6 sources +cd app/dustmasker/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.seqalign_util.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/app/dustmasker' +cd algo/segmask/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +make[4]: warning: -j5 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: -j5 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/seqdb_reader' +cd app/segmasker/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +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: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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]: warning: -j6 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/segmasker' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/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 -j5 --jobserver-auth=9,10 all make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -cd app/winmasker/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[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' +cd app/winmasker/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[4]: warning: -j5 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 objmgr/split/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objmgr/split/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[4]: warning: -j6 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/seqdb_reader' -cd objtools/align_format/unit_test/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j6 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.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 -j6 --jobserver-auth=9,10 all +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' +make[5]: warning: -j5 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[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' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 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[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[6]: warning: -j6 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/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' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j5 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[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' -cd objtools/blast/gene_info_reader/demo/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +cd objtools/align_format/unit_test/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[6]: Leaving 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/objtools/align_format/unit_test' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/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 -j5 --jobserver-auth=9,10 all 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 -j6 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' make[6]: Entering 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/demo' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[6]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources 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: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 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/blastdb_format/unit_test' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/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 -j5 --jobserver-auth=9,10 all 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]: 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/demo/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[6]: warning: -j5 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/demo' +make[4]: warning: -j5 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/unit_test' -cd objtools/blast/seqdb_reader/demo/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -/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 -j6 --jobserver-auth=9,10 all -cd objtools/blast/seqdb_reader/test/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 forced in submake: resetting jobserver mode. +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/gene_info_reader/unit_test/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources 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 +/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[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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. -make[6]: warning: -j6 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/seqdb_reader/test' -cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j6 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_writer/unit_test' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -/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 -j6 --jobserver-auth=9,10 all -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 corelib/ && /usr/bin/make -w -j6 --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/corelib' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[6]: warning: -j6 forced in submake: resetting jobserver mode. 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/corelib' -make[5]: warning: -j6 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]: warning: -j6 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 -j5 --jobserver-auth=9,10 all +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' +cd objtools/blast/seqdb_reader/demo/ && /usr/bin/make -w -j5 --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: -j5 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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -cd algo/blast/composition_adjustment/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=composition_adjustment UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +cd objtools/blast/seqdb_reader/test/ && /usr/bin/make -w -j5 --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/seqdb_reader/demo' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +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: -j5 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/seqdb_reader/test' +cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[4]: warning: -j5 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/services/unit_test' +cd corelib/ && /usr/bin/make -w -j5 --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/corelib' +make[4]: warning: -j5 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 +/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' -/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `all'. make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j6 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' +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -cd util/tables/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=tables UNIX_PROJ="" sources= configurables=configurables.null -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/util/tables' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/logging/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=logging UNIX_PROJ="" sources= configurables=configurables.null make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[6]: warning: -j6 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[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 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 -j6 --jobserver-auth=9,10 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -make[5]: warning: -j6 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/algo/blast/composition_adjustment' -make[5]: warning: -j6 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/objtools/logging' -make[5]: warning: -j6 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]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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: -j5 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]: warning: -j5 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 -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 -j5 --jobserver-auth=9,10 all +/usr/bin/make[4] (Makefile.corelib.lib): Nothing to be done for `all'. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' +cd algo/blast/composition_adjustment/ && /usr/bin/make -w -j5 --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/corelib' +cd util/tables/ && /usr/bin/make -w -j5 --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/algo/blast/composition_adjustment' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +make[4]: warning: -j5 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 connect/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xconnect UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/objtools/logging' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/util/tables TMPL=tables -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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[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' -make[5]: warning: -j6 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: -j6 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: -j6 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.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 -j6 --jobserver-auth=9,10 all -/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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -cd util/profile/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=utrtprof UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[6]: warning: -j6 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: -j6 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' /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' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' -make[5]: warning: -j6 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 -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 -j6 --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: -j5 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: -j5 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]: 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/connect' +make[5]: warning: -j5 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/util/tables TMPL=tables -w -j5 --jobserver-auth=7,8 all make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[5]: warning: -j6 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/composition_adjustment TMPL=composition_adjustment -w -j5 --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/connect TMPL=xconnect -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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++/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/app/blast' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[4] (Makefile.blast_app_util.lib): Nothing to be done for `export-headers'. -/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/util/tables' -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -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' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gene_info 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' -make[4]: warning: -j6 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' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[5]: warning: -j6 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/objtools/blast/gene_info_reader TMPL=gene_info -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/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/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -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' -cd html/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=html UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: 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/html' -make[5]: warning: -j6 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/html TMPL=html -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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 corelib/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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]: warning: -j6 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.test_boost.lib): Nothing to be done for `all'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -cd util/regexp/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=regexp UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -/usr/bin/make[4] (Makefile.regexp.lib): Nothing to be done for `all'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -cd util/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=util UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[4]: warning: -j6 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: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `all'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -cd connect/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xconnect UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[4]: warning: -j6 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: -j6 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/connect' -make[5]: warning: -j6 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/connect TMPL=xconnect -w -j6 --jobserver-auth=7,8 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]: warning: -j6 forced in submake: resetting jobserver mode. -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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_types.c -o ncbi_types.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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+-2In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: /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' before C2X [-Wpedantic] @@ -6307,7 +6224,16 @@ /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' before C2X [-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, +/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[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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_types.c -o ncbi_types.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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+-2In 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] @@ -6329,9 +6255,16 @@ /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' before C2X [-Wpedantic] 48 | eNcbiCred_MbedTls = 0xC12CC114 | ^~~~~~~~~~ -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': +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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_once.h:40, + 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++/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6344,34 +6277,24 @@ /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_connector.c:41:5: note: in expansion of macro 'CORE_LOGF_X' - 41 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c:63:13: note: in expansion of macro 'METACONN_LOG' - 63 | METACONN_LOG(34, eLOG_Error, - | ^~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c: In function 'METACONN_Insert': +/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: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: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: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_connector.c:41:5: note: in expansion of macro 'CORE_LOGF_X' - 41 | CORE_LOGF_X(subcode, level, \ - | ^~~~~~~~~~~ -/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, +/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, | ^~~~~~~~~~~~ -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] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6384,15 +6307,9 @@ /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:282:13: note: in expansion of macro 'CONN_LOG' - 282 | CONN_LOG(4, ReInit, eLOG_Critical, "Partial re-init not allowed"); - | ^~~~~~~~ +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6405,15 +6322,16 @@ /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:311:21: note: in expansion of macro 'CONN_LOG' - 311 | CONN_LOG(3, Close, - | ^~~~~~~~ +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6423,19 +6341,12 @@ /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: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_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: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_connection.c: In function 's_Open': +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6445,45 +6356,28 @@ /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: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_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: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_connection.c: In function 'CONN_CreateEx': +/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: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_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: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++/src/connect/ncbi_connection.c: In function 'CONN_ReInit': -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, - 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++/src/connect/ncbi_socket.c: In function 's_DoLog': +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6496,24 +6390,26 @@ /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: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_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: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: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: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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6526,9 +6422,10 @@ /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: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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6541,31 +6438,26 @@ /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: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: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_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++/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: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:906:13: note: in expansion of macro 'CORE_LOGF' - 906 | CORE_LOGF(eLOG_Critical, - | ^~~~~~~~~ +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6575,12 +6467,13 @@ /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_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: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: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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6593,64 +6486,72 @@ /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: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:458:5: note: in expansion of macro 'CONN_NOT_NULL' - 458 | CONN_NOT_NULL(1, ReInit); +/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__ + | ^~~~~~~~~~~~~~~~~~~ +/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: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_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:458:5: note: in expansion of macro 'CONN_NOT_NULL' - 458 | CONN_NOT_NULL(1, ReInit); +/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_connection.c: In function 'CONN_GetType': +/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++/include/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_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:466:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 466 | CONN_NOT_NULL_EX(6, GetType, 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++/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6660,40 +6561,27 @@ /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: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_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:466:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 466 | CONN_NOT_NULL_EX(6, GetType, 0); - | ^~~~~~~~~~~~~~~~ -/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++/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: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_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:475:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 475 | CONN_NOT_NULL_EX(7, Description, 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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6703,61 +6591,47 @@ /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_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:475:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 475 | CONN_NOT_NULL_EX(7, Description, 0); - | ^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetPosition': +/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++/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: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_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:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 487 | CONN_NOT_NULL_EX(30, GetPosition, 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++/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: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_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:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 487 | CONN_NOT_NULL_EX(30, GetPosition, 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, + | ^~~~~~~~~~~~~~~~~ +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': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6770,14 +6644,13 @@ /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:500:9: note: in expansion of macro 'CONN_LOG_EX' - 500 | CONN_LOG_EX(31, GetPosition, eLOG_Error, errbuf, 0); - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_SetTimeout': -/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++/src/connect/ncbi_connector.c:41:5: note: in expansion of macro 'CORE_LOGF_X' + 41 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c:63:13: note: in expansion of macro 'METACONN_LOG' + 63 | METACONN_LOG(34, eLOG_Error, + | ^~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c: In function 'METACONN_Insert': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6790,18 +6663,39 @@ /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_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:516:5: note: in expansion of macro 'CONN_NOT_NULL' - 516 | CONN_NOT_NULL(8, SetTimeout); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connector.c:41:5: note: in expansion of macro 'CORE_LOGF_X' + 41 | CORE_LOGF_X(subcode, level, \ + | ^~~~~~~~~~~ +/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, + | ^~~~~~~~~~~~ +/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++/src/connect/ncbi_socket.c: In function 's_WritePending': +/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) + | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6811,12 +6705,13 @@ /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_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: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++/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -6829,97 +6724,101 @@ /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:516:5: note: in expansion of macro 'CONN_NOT_NULL' - 516 | CONN_NOT_NULL(8, SetTimeout); +/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, + | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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:556:9: note: in expansion of macro 'CONN_LOG_EX' - 556 | CONN_LOG_EX(9, SetTimeout, eLOG_Error, errbuf, eIO_InvalidArg); - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetTimeout': +/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: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_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:572:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 572 | CONN_NOT_NULL_EX(10, GetTimeout, 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: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_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:572:5: note: in expansion of macro 'CONN_NOT_NULL_EX' - 572 | CONN_NOT_NULL_EX(10, GetTimeout, 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: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_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:580:9: note: in expansion of macro 'CONN_LOG_EX' - 580 | CONN_LOG_EX(11, GetTimeout, 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: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, + | ^~~~~~~~~~~~~~~~~~~ +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -6932,8 +6831,8 @@ /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: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: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__ @@ -6947,135 +6846,116 @@ /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:595:9: note: in expansion of macro 'CONN_LOG_EX' - 595 | CONN_LOG_EX(12, GetTimeout, eLOG_Error, errbuf, 0); - | ^~~~~~~~~~~ -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 -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' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Wait': +/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, + | ^~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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:611:5: note: in expansion of macro 'CONN_NOT_NULL' - 611 | CONN_NOT_NULL(13, Wait); +/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: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_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:611:5: note: in expansion of macro 'CONN_NOT_NULL' - 611 | CONN_NOT_NULL(13, Wait); +/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: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_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:659:9: note: in expansion of macro 'CONN_LOG' - 659 | CONN_LOG(event != eIO_Read ? 15 : 14, Wait, level, - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 's_CONN_Write': +/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++/include/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_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:680:9: note: in expansion of macro 'CONN_LOG' - 680 | CONN_LOG(16, Write, eLOG_Critical, "Cannot write data"); - | ^~~~~~~~ +/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: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_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:723:13: note: in expansion of macro 'CONN_LOG' - 723 | CONN_LOG(17, Write, level, "Unable to write data"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Write': +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7088,18 +6968,24 @@ /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_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:762:5: note: in expansion of macro 'CONN_NOT_NULL' - 762 | CONN_NOT_NULL(18, Write); +/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++/include/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7112,43 +6998,54 @@ /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:762:5: note: in expansion of macro 'CONN_NOT_NULL' - 762 | CONN_NOT_NULL(18, Write); +/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_connection.c: In function 'CONN_Pushback': +/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__ | ^~~~~~~~~~~~~~~~~~~ /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_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: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_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, + | ^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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: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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7158,46 +7055,73 @@ /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_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_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__ + | ^~~~~~~~~~~~~~~~~~~ +/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: In function 'CONN_Flush': +/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++/include/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_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: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: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__ + | ^~~~~~~~~~~~~~~~~~~ +/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, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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, + | ^~~~~~~~~~~~~~~~~~~ +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7210,40 +7134,72 @@ /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_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: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: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_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, - | ^~~~~~~~ -/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++/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__ + | ^~~~~~~~~~~~~~~~~~~ +/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__ + | ^~~~~~~~~~~~~~~~~~~ +/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, + | ^~~~~~~~~~~~~~~~~~~ +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] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7262,27 +7218,24 @@ /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:856:9: note: in expansion of macro 'CONN_LOG' - 856 | CONN_LOG(22, Read, eLOG_Critical, "Cannot read data"); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:282:13: note: in expansion of macro 'CONN_LOG' + 282 | CONN_LOG(4, ReInit, eLOG_Critical, "Partial re-init not allowed"); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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:898:17: note: in expansion of macro 'CONN_LOG_EX' - 898 | CONN_LOG_EX(32, Read, eLOG_Critical, - | ^~~~~~~~~~~ +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7295,16 +7248,10 @@ /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: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:924:13: note: in expansion of macro 'CONN_LOG' - 924 | CONN_LOG(23, Read, level, "Unable to read data"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Read': +/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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7320,15 +7267,12 @@ /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: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_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:311:21: note: in expansion of macro 'CONN_LOG' + 311 | CONN_LOG(3, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7344,17 +7288,13 @@ /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: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_connection.c: In function 'CONN_ReadLine': -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +/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: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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7367,18 +7307,9 @@ /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: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:1020:5: note: in expansion of macro 'CONN_NOT_NULL' - 1020 | CONN_NOT_NULL(25, ReadLine); - | ^~~~~~~~~~~~~ +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7394,15 +7325,13 @@ /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:1020:5: note: in expansion of macro 'CONN_NOT_NULL' - 1020 | CONN_NOT_NULL(25, ReadLine); - | ^~~~~~~~~~~~~ +/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: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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7418,10 +7347,13 @@ /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: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++/src/connect/ncbi_connection.c: In function 'CONN_Status': +/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: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++/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7443,8 +7375,8 @@ /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_connection.c:458:5: note: in expansion of macro 'CONN_NOT_NULL' + 458 | CONN_NOT_NULL(1, 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__ @@ -7452,26 +7384,34 @@ /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_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: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__ + | ^~~~~~~~~~~~~~~~~~~ +/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) | ^~~~~~~~~~~~~ -cd util/sequtil/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=sequtil UNIX_PROJ="" sources= configurables=configurables.null -/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_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:5517:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' + 5517 | CORE_LOGF_ERRNO_EXX(41, eLOG_Error, + | ^~~~~~~~~~~~~~~~~~~ +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' before C2X [-Wpedantic] + 48 | eNcbiCred_MbedTls = 0xC12CC114 + | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7484,10 +7424,9 @@ /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: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++/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7500,10 +7439,19 @@ /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: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: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:458:5: note: in expansion of macro 'CONN_NOT_NULL' + 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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7516,10 +7464,15 @@ /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++/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:466:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 466 | CONN_NOT_NULL_EX(6, GetType, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7532,10 +7485,9 @@ /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: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: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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7548,10 +7500,16 @@ /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_Close': +/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:466:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 466 | CONN_NOT_NULL_EX(6, GetType, 0); + | ^~~~~~~~~~~~~~~~ +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7570,12 +7528,9 @@ /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: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_connection.c:475:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 475 | CONN_NOT_NULL_EX(7, Description, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7594,13 +7549,25 @@ /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: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_connection.c:475:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 475 | CONN_NOT_NULL_EX(7, Description, 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__ + | ^~~~~~~~~~~~~~~~~~~ +/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: In function 'CONN_SetCallback': +/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, + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetPosition': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7619,12 +7586,9 @@ /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: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_connection.c:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 487 | CONN_NOT_NULL_EX(30, GetPosition, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7643,12 +7607,9 @@ /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: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_connection.c:487:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 487 | CONN_NOT_NULL_EX(30, GetPosition, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7664,10 +7625,10 @@ /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:1158:9: note: in expansion of macro 'CONN_LOG_EX' - 1158 | CONN_LOG_EX(29, SetCallback, eLOG_Error, errbuf, eIO_InvalidArg); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:500:9: note: in expansion of macro 'CONN_LOG_EX' + 500 | CONN_LOG_EX(31, GetPosition, eLOG_Error, errbuf, 0); | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_GetSOCK': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7689,28 +7650,9 @@ /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:1180:5: note: in expansion of macro 'CONN_NOT_NULL' - 1180 | CONN_NOT_NULL(36, GetSOCK); - | ^~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -/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_connection.c:516:5: note: in expansion of macro 'CONN_NOT_NULL' + 516 | CONN_NOT_NULL(8, SetTimeout); | ^~~~~~~~~~~~~ -/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7720,12 +7662,12 @@ /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, - | ^~~~~~~~~~~~~~~~~ +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7747,40 +7689,65 @@ /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:1180:5: note: in expansion of macro 'CONN_NOT_NULL' - 1180 | CONN_NOT_NULL(36, GetSOCK); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c:516:5: note: in expansion of macro 'CONN_NOT_NULL' + 516 | CONN_NOT_NULL(8, SetTimeout); | ^~~~~~~~~~~~~ +/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__ | ^~~~~~~~~~~~~~~~~~~ /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: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++/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:556:9: note: in expansion of macro 'CONN_LOG_EX' + 556 | CONN_LOG_EX(9, SetTimeout, eLOG_Error, errbuf, eIO_InvalidArg); + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_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__ | ^~~~~~~~~~~~~~~~~~~ /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: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_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: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:572:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 572 | CONN_NOT_NULL_EX(10, GetTimeout, 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__ + | ^~~~~~~~~~~~~~~~~~~ +/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: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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7793,10 +7760,9 @@ /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: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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7806,27 +7772,36 @@ /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: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_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:572:5: note: in expansion of macro 'CONN_NOT_NULL_EX' + 572 | CONN_NOT_NULL_EX(10, GetTimeout, 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__ | ^~~~~~~~~~~~~~~~~~~ /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: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_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:580:9: note: in expansion of macro 'CONN_LOG_EX' + 580 | CONN_LOG_EX(11, GetTimeout, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7836,105 +7811,88 @@ /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:2795:25: note: in expansion of macro 'CORE_LOGF' - 2795 | CORE_LOGF(eLOG_Trace, - | ^~~~~~~~~ -/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_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:595:9: note: in expansion of macro 'CONN_LOG_EX' + 595 | CONN_LOG_EX(12, GetTimeout, eLOG_Error, errbuf, 0); + | ^~~~~~~~~~~ +/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++/include/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:2951:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 2951 | CORE_LOGF_ERRNO_EXX(7, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -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' before C2X [-Wpedantic] - 48 | eNcbiCred_MbedTls = 0xC12CC114 - | ^~~~~~~~~~ -/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: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, + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_Wait': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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: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: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:611:5: note: in expansion of macro 'CONN_NOT_NULL' + 611 | CONN_NOT_NULL(13, Wait); | ^~~~~~~~~~~~~ -/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_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: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:611:5: note: in expansion of macro 'CONN_NOT_NULL' + 611 | CONN_NOT_NULL(13, Wait); | ^~~~~~~~~~~~~ -/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); - | ^ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -make[5]: warning: -j6 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' before C2X [-Wpedantic] 91 | fSERV_IncludePrivate = 0x80000000, | ^~~~~~~~~~ -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' /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' before C2X [-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/sequtil' -/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 - | ^~~~~~~~~~~~~~~~~~~ -.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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_buffer.c -o ncbi_buffer.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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/repmake[5]: warning: -j6 forced in submake: resetting jobserver mode. -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 's_Shutdown': -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7947,9 +7905,15 @@ /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++/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:659:9: note: in expansion of macro 'CONN_LOG' + 659 | CONN_LOG(event != eIO_Read ? 15 : 14, Wait, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -7962,25 +7926,32 @@ /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: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_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_connection.c: In function 's_CONN_Write': +/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: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++/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:680:9: note: in expansion of macro 'CONN_LOG' + 680 | CONN_LOG(16, Write, eLOG_Critical, "Cannot write data"); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -7990,59 +7961,58 @@ /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: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++/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: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++/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:723:13: note: in expansion of macro 'CONN_LOG' + 723 | CONN_LOG(17, Write, level, "Unable to write data"); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function 'CONN_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: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:4059:9: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 4059 | CORE_LOGF_ERRNO_EXX(19, eLOG_Trace, - | ^~~~~~~~~~~~~~~~~~~ -/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 -j6 --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: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: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:762:5: note: in expansion of macro 'CONN_NOT_NULL' + 762 | CONN_NOT_NULL(18, Write); | ^~~~~~~~~~~~~ -/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8055,9 +8025,18 @@ /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_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:762:5: note: in expansion of macro 'CONN_NOT_NULL' + 762 | CONN_NOT_NULL(18, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8070,130 +8049,144 @@ /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, - | ^~~~~~~~~~~ +/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++/include/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: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++/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_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__ | ^~~~~~~~~~~~~~~~~~~ /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: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: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: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++/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, - | ^~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j6 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: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: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++/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: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__ | ^~~~~~~~~~~~~~~~~~~ /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: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: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: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: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 - | ^~~~~~~~~~~~~~~~~~~ -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++/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: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_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++/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++/include/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: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++/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_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, + | ^~~~~~~~~~~ +.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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_buffer.c -o ncbi_buffer.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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/rep/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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' @@ -8205,9 +8198,15 @@ /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_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, + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8220,10 +8219,10 @@ /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_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_connutil.c: In function 'URL_ConnectEx': +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8233,12 +8232,18 @@ /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: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_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:856:9: note: in expansion of macro 'CONN_LOG' + 856 | CONN_LOG(22, Read, eLOG_Critical, "Cannot read data"); + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8251,9 +8256,13 @@ /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_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:898:17: note: in expansion of macro 'CONN_LOG_EX' + 898 | CONN_LOG_EX(32, Read, eLOG_Critical, | ^~~~~~~~~~~ +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8266,24 +8275,16 @@ /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++/include/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++/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:924:13: note: in expansion of macro 'CONN_LOG' + 924 | CONN_LOG(23, Read, level, "Unable to read data"); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_connection.c: In function '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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8296,9 +8297,9 @@ /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, - | ^~~~~~~~~~~~~~~~~ +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8311,9 +8312,18 @@ /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_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: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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8323,12 +8333,12 @@ /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: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++/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8338,57 +8348,22 @@ /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++/include/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: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__ - | ^~~~~~~~~~~~~~~~~~~ -/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_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: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_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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8401,24 +8376,18 @@ /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: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:1020:5: note: in expansion of macro 'CONN_NOT_NULL' + 1020 | CONN_NOT_NULL(25, ReadLine); | ^~~~~~~~~~~~~ -/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8428,13 +8397,12 @@ /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: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++/src/connect/ncbi_connutil.c: In function 'URL_Connect': +/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8444,12 +8412,21 @@ /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_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:1020:5: note: in expansion of macro 'CONN_NOT_NULL' + 1020 | CONN_NOT_NULL(25, 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8462,25 +8439,9 @@ /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++/include/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, - | ^~~~~~~~~~~~~~~~~~~ -/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++/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8493,106 +8454,77 @@ /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_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__ | ^~~~~~~~~~~~~~~~~~~ /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: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_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: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++/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__ | ^~~~~~~~~~~~~~~~~~~ /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, - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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: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: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: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__ | ^~~~~~~~~~~~~~~~~~~ /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:5228:13: note: in expansion of macro 'CORE_LOGF_ERRNO_EXX' - 5228 | CORE_LOGF_ERRNO_EXX(150, eLOG_Error, - | ^~~~~~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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: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: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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8605,22 +8537,11 @@ /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: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_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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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_connection.c: In function 'CONN_Close': +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8633,100 +8554,82 @@ /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_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++/include/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: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_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__ | ^~~~~~~~~~~~~~~~~~~ /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: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__ - | ^~~~~~~~~~~~~~~~~~~ -/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: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: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_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: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++/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__ | ^~~~~~~~~~~~~~~~~~~ /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: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_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++/include/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: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++/include/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: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: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: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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8739,25 +8642,18 @@ /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++/include/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: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: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_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': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8770,40 +8666,25 @@ /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:5780:17: note: in expansion of macro 'CORE_LOGF_X' - 5780 | 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__ - | ^~~~~~~~~~~~~~~~~~~ -/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: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_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:1158:9: note: in expansion of macro 'CONN_LOG_EX' + 1158 | CONN_LOG_EX(29, SetCallback, eLOG_Error, errbuf, eIO_InvalidArg); + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_socket.c: In function 'SOCK_Reconnect': +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++/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: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: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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8816,9 +8697,10 @@ /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: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_connection.c: In function 'CONN_GetSOCK': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8831,9 +8713,18 @@ /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_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:1180:5: note: in expansion of macro 'CONN_NOT_NULL' + 1180 | CONN_NOT_NULL(36, GetSOCK); + | ^~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8846,85 +8737,80 @@ /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++/include/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: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:1180:5: note: in expansion of macro 'CONN_NOT_NULL' + 1180 | CONN_NOT_NULL(36, GetSOCK); | ^~~~~~~~~~~~~ -/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, - | ^~~~~~~~~~~~~~~~~~~ -/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++/include/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: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: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: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': +/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: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: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: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, - | ^~~~~~~~~~~~~~~~~ +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8937,10 +8823,9 @@ /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: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++/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -8953,10 +8838,9 @@ /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++/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_socket.c: In function 'LSOCK_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8969,10 +8853,9 @@ /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: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: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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -8985,8 +8868,8 @@ /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: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_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__ @@ -8994,31 +8877,31 @@ /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: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_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++/src/connect/ncbi_socket.c: In function 'SOCK_Wait': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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': +/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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9031,8 +8914,8 @@ /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: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: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__ @@ -9046,9 +8929,10 @@ /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_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_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__ | ^~~~~~~~~~~~~~~~~~~ @@ -9058,28 +8942,27 @@ /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: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_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++/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: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: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_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++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9095,6 +8978,14 @@ /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, | ^~~~~~~~~~~ +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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -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__ | ^~~~~~~~~~~~~~~~~~~ @@ -9110,6 +9001,8 @@ /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, | ^~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' +cd util/sequtil/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=sequtil 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -9140,6 +9033,8 @@ /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, | ^~~~~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[4]: warning: -j5 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -9389,6 +9284,9 @@ /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, | ^~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9420,6 +9318,9 @@ /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, | ^~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -9543,6 +9444,7 @@ /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, | ^~~~~~~~~~~ +/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 -j5 --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__ | ^~~~~~~~~~~~~~~~~~~ @@ -9604,6 +9506,7 @@ 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': +make[5]: warning: -j5 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -9712,15 +9615,6 @@ /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++/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: -/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' before C2X [-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' before C2X [-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__ | ^~~~~~~~~~~~~~~~~~~ @@ -9797,15 +9691,6 @@ /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, | ^~~~~~~~~~~~~~~~~~~ -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' before C2X [-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' before C2X [-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_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__ @@ -9822,10 +9707,53 @@ /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++/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__ + | ^~~~~~~~~~~~~~~~~~~ +/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: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++/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: +/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' before C2X [-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' before C2X [-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_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' before C2X [-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' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/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/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -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_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++/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__ | ^~~~~~~~~~~~~~~~~~~ @@ -9872,21 +9800,10 @@ /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__ - | ^~~~~~~~~~~~~~~~~~~ -/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:8674:13: note: in expansion of macro 'CORE_LOGF' - 8674 | CORE_LOGF(eLOG_Critical, ("%s reset SSL while it is in use",verb)); - | ^~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' +cd objtools/logging/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=logging UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. /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); @@ -9896,6 +9813,14 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1114 | + 2/*"=\0"*/) + strlen(typ))) { | ~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +make[5]: warning: -j5 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/logging' +make[5]: warning: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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_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' before C2X [-Wpedantic] @@ -11461,7 +11386,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_http_connector.c:2176:17: note: in expansion of macro 'CORE_LOGF_X' 2176 | CORE_LOGF_X(16, 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] +.0+ds/c++/BUILD/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_lb.c -o ncbi_lb.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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' @@ -11492,20 +11423,6 @@ /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, | ^~~~~~~~~~~ -.0+ds/c++/BUILD/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_lb.c -o ncbi_lb.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_SOURCEmake[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 -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++/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' before C2X [-Wpedantic] @@ -11514,17 +11431,6 @@ /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' before C2X [-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/util/profile' -cd util/compress/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=compress UNIX_PROJ="" sources= configurables=configurables.null -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 make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[4]: warning: -j6 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, 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': @@ -11618,13 +11524,6 @@ /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, | ^~~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' -make[5]: warning: -j6 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' -/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 -j6 --jobserver-auth=7,8 all 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' before C2X [-Wpedantic] @@ -11636,7 +11535,6 @@ 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': -make[5]: warning: -j6 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -11865,7 +11763,21 @@ /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' before C2X [-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_servicep.h:38, +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-pi=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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.c -o ncbi_ftp_connector.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -DIn 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: /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' before C2X [-Wpedantic] @@ -11892,21 +11804,7 @@ /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, | ^~~~~~~~~~~ -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-pi=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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.c -o ncbi_ftp_connector.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -DIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_servicep.h:38, +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' before C2X [-Wpedantic] @@ -13118,12 +13016,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:337:9: note: in expansion of macro 'CORE_LOG_X' 337 | CORE_LOG_X(eLSub_Alloc, 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_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' before C2X [-Wpedantic] - 91 | fSERV_IncludePrivate = 0x80000000, - | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/ncbi_util.h:166:34: warning: ISO C does not support '__PRETTY_FUNCTION__' predefined identifier [-Wpedantic] 166 | # define CORE_CURRENT_FUNCTION __PRETTY_FUNCTION__ | ^~~~~~~~~~~~~~~~~~~ @@ -13322,9 +13214,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_linkerd.c:538:9: note: in expansion of macro 'CORE_LOG_X' 538 | CORE_LOG_X(eLSub_Logic, eLOG_Critical, | ^~~~~~~~~~ -/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' before C2X [-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__ | ^~~~~~~~~~~~~~~~~~~ @@ -13702,6 +13591,34 @@ /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."); | ^~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd util/profile/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=utrtprof UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[4]: warning: -j5 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: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/profile' +make[5]: warning: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +e-link.specs -Wl,-z,relro -Wl,-z,now -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/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' before C2X [-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' before C2X [-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/util/sequtil' +cd objtools/blast/gene_info_reader/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gene_info 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_once.h:40, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:39: @@ -13907,6 +13824,8 @@ 399 | CORE_LOG_X(eNSub_Alloc, eLOG_Critical, "Couldn't alloc for dtab."); | ^~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c: In function 's_GetReqMethod': +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[4]: warning: -j5 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -14656,15 +14575,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:1564:9: note: in expansion of macro 'CORE_LOGF_X' 1564 | CORE_LOGF_X(eNSub_BadData, eLOG_Error, | ^~~~~~~~~~~ -e-link.specs -Wl,-z,relro -Wl,-z,now -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' -cd cgi/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cgi UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[4]: warning: -j6 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__ | ^~~~~~~~~~~~~~~~~~~ @@ -14740,19 +14650,59 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_namerd.c:1615:9: note: in expansion of macro 'CORE_LOG_X' 1615 | CORE_LOG_X(eNSub_BadData, eLOG_Critical, | ^~~~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -make[5]: warning: -j6 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/cgi' -make[5]: warning: -j6 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/cgi TMPL=cgi -w -j6 --jobserver-auth=7,8 all -/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. -make[5]: warning: -j6 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' +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' +make[5]: warning: -j5 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/objtools/blast/gene_info_reader TMPL=gene_info -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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_localip.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' before C2X [-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' before C2X [-Wpedantic] + 92 | fSERV_Promiscuous = 0xF8000000 /**< Evrthng and the kitchen sink */ + | ^~~~~~~~~~ +_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_namerd.c -o ncbi_namerd.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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-b/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)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/parson.c: In function 'x_json_value_init_string': +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 -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' +/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); + | ^~~~~~~~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' +cd html/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=html UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[4]: warning: -j5 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/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/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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -14861,28 +14811,150 @@ /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++/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)); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: 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/html' +make[5]: warning: -j5 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/html TMPL=html -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +last+-2.12.0+ds/c++/BUILD/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/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_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.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 -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 corelib/ && /usr/bin/make -w -j5 --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: -j5 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/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -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' +cd util/regexp/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=regexp UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[4]: warning: -j5 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: -j5 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]: warning: -j5 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.test_boost.lib): Nothing to be done for `all'. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' +cd util/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=util UNIX_PROJ="" sources= configurables=configurables.null +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.regexp.lib): Nothing to be done for `all'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' +cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +/usr/bin/make[4] (Makefile.util.lib): Nothing to be done for `all'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' +cd serial/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' +make[5]: warning: -j5 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/serial' +make[5]: warning: -j5 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]: warning: -j5 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/serial TMPL=serial -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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/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()) | ^ @@ -14991,138 +15063,119 @@ /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: -/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++/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: +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 /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); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-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/connect/error_codes.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp:40: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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_LARGEFIn 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_connector.cpp -o ncbi_pipe_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_conn_reader_writer.cpp -o ncbi_conn_reader_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/connect/ncbi_userhost.cpp -o ncbi_userhost.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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-blaIn 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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -15231,42 +15284,306 @@ /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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -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 -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' -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: +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +-D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -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' +cd util/compress/api/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=compress UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[4]: warning: -j5 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: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' +make[5]: warning: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +st+-2.12.0+ds/c++/BUILD/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/reproducible-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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -fopenmIn 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' before C2X [-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_gnutls.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' before C2X [-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' before C2X [-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_gnutls.c:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c: In function 's_GnuTlsInit': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_gnutls.c:811:5: note: in expansion of macro 'CORE_LOG' + 811 | CORE_LOG(eLOG_Critical, "Unavailable feature GNUTLS"); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c: In function 'NcbiSetupGnuTls': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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' before C2X [-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' before C2X [-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' before C2X [-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_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] + 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_mbedtls.c:169:5: note: in expansion of macro 'CORE_LOGF' + 169 | CORE_LOGF(eLOG_Note, ("MBEDTLS%d: %.*s", level, (int) len, message)); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 's_MbedTlsCreate': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_mbedtls.c:331:9: note: in expansion of macro 'CORE_LOG' + 331 | CORE_LOG(eLOG_Error, "Server-side SSL not yet supported with MBEDTLS"); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_mbedtls.c:339:13: note: in expansion of macro 'CORE_LOGF' + 339 | CORE_LOGF(eLOG_Error, + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 's_MbedTlsWrite': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:551:9: warning: 'mbedtls_ssl_get_max_frag_len' is deprecated [-Wdeprecated-declarations] + 551 | = mbedtls_ssl_get_max_frag_len((mbedtls_ssl_context*) session); + | ^ +In file included from /usr/include/mbedtls/debug.h:19, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:44: +/usr/include/mbedtls/ssl.h:3831:27: note: declared here + 3831 | MBEDTLS_DEPRECATED size_t mbedtls_ssl_get_max_frag_len( + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 's_MbedTlsInit': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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++/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' before C2X [-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_tls.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' before C2X [-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' before C2X [-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_tls.c:35: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c: In function 's_NoTlsInit': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_tls.c:60:5: note: in expansion of macro 'CORE_LOG' + 60 | CORE_LOG(eLOG_Critical, "SSL has been explicitly disabled"); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c: In function 'x_SetupNoTls': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_tls.c:71:5: note: in expansion of macro 'CORE_LOG' + 71 | CORE_LOG(eLOG_Trace, "SSL has been explicitly disabled"); + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c: In function 'NcbiSetupTls': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_tls.c:93:17: note: in expansion of macro 'CORE_LOGF' + 93 | CORE_LOGF(eLOG_Critical, ("Unknown TLS provider \"%s\"", str)); + | ^~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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/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-securit/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; + | ^~~~ +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 -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' +cd cgi/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cgi UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' +make[4]: warning: -j5 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]: warning: -j5 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/cgi' +make[5]: warning: -j5 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/cgi TMPL=cgi -w -j5 --jobserver-auth=7,8 all +/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. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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-blastIn 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: /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()) | ^ -make[4]: 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++/include/corelib/version.hpp:52:26: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 52 | # define NCBI_BUILD_TIME __DATE__ " " __TIME__ | ^~~~~~~~ @@ -15282,7 +15599,6 @@ /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()) | ^~~~~~~~~~~~~~~~~~~~~~~ -cd util/xregexp/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xregexp UNIX_PROJ="" sources= configurables=configurables.null /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()) | ^ @@ -15373,55 +15689,10 @@ /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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -make[4]: warning: -j6 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: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `all'. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -cd objtools/blast/gene_info_reader/unit_test/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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_localip.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' before C2X [-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' before C2X [-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++/src/objtools/blast/gene_info_reader/unit_test/gene_info_test.cpp:31: + 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: /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()) | ^ @@ -15530,116 +15801,9 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_namerd.c -o ncbi_namerd.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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-b/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)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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] - 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/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__ | ^~~~~~~~ @@ -15652,123 +15816,13 @@ /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/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)); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -cd serial/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[5]: warning: -j6 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/serial' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -In 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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_SOURIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +/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++/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/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()) | ^ @@ -15895,198 +15949,10 @@ /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/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_LARGEFlast+-2.12.0+ds/c++/BUILD/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/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_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.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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ --D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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); - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-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/connect/error_codes.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_pipe.cpp:40: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_connector.cpp -o ncbi_pipe_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_conn_reader_writer.cpp -o ncbi_conn_reader_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/connect/ncbi_userhost.cpp -o ncbi_userhost.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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-blaIn 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] - 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++/include/cgi/cgiapp.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp_cached.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.cpp:34: + 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()) | ^ @@ -16213,16 +16079,10 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_session.cpp -o cgi_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/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/corelib/ncbiapp.hpp:43, +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: + 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: /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()) | ^ @@ -16349,290 +16209,6 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -st+-2.12.0+ds/c++/BUILD/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/reproducible-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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -fopenmIn 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' before C2X [-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_gnutls.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' before C2X [-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' before C2X [-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_gnutls.c:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c: In function 's_GnuTlsInit': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_gnutls.c:811:5: note: in expansion of macro 'CORE_LOG' - 811 | CORE_LOG(eLOG_Critical, "Unavailable feature GNUTLS"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_gnutls.c: In function 'NcbiSetupGnuTls': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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' before C2X [-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' before C2X [-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' before C2X [-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_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] - 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_mbedtls.c:169:5: note: in expansion of macro 'CORE_LOGF' - 169 | CORE_LOGF(eLOG_Note, ("MBEDTLS%d: %.*s", level, (int) len, message)); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 's_MbedTlsCreate': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_mbedtls.c:331:9: note: in expansion of macro 'CORE_LOG' - 331 | CORE_LOG(eLOG_Error, "Server-side SSL not yet supported with MBEDTLS"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_mbedtls.c:339:13: note: in expansion of macro 'CORE_LOGF' - 339 | CORE_LOGF(eLOG_Error, - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 's_MbedTlsWrite': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:551:9: warning: 'mbedtls_ssl_get_max_frag_len' is deprecated [-Wdeprecated-declarations] - 551 | = mbedtls_ssl_get_max_frag_len((mbedtls_ssl_context*) session); - | ^ -In file included from /usr/include/mbedtls/debug.h:19, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c:44: -/usr/include/mbedtls/ssl.h:3831:27: note: declared here - 3831 | MBEDTLS_DEPRECATED size_t mbedtls_ssl_get_max_frag_len( - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_mbedtls.c: In function 's_MbedTlsInit': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_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++/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' before C2X [-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_tls.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' before C2X [-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' before C2X [-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_tls.c:35: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c: In function 's_NoTlsInit': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_tls.c:60:5: note: in expansion of macro 'CORE_LOG' - 60 | CORE_LOG(eLOG_Critical, "SSL has been explicitly disabled"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c: In function 'x_SetupNoTls': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_tls.c:71:5: note: in expansion of macro 'CORE_LOG' - 71 | CORE_LOG(eLOG_Trace, "SSL has been explicitly disabled"); - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/ncbi_tls.c: In function 'NcbiSetupTls': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_tls.c:93:17: note: in expansion of macro 'CORE_LOGF' - 93 | CORE_LOGF(eLOG_Critical, ("Unknown TLS provider \"%s\"", str)); - | ^~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/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_tls.c:97:13: note: in expansion of macro 'CORE_LOG' - 97 | CORE_LOG(eLOG_Critical, "No TLS support included in this build"); - | ^~~~~~~~ -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-blast/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; - | ^~~~ -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 -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' -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ p -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_tls.c -o ncbi_tls.o @@ -16643,35 +16219,29 @@ /bin/ln -f .xconnect.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xconnect.dep 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 -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast UNIX_PROJ="" sources= configurables=configurables.null -cd connect/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xthrserv UNIX_PROJ="" sources= configurables=configurables.null +cd util/xregexp/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xregexp UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +make[4]: warning: -j5 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: -j5 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: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +/usr/bin/make[4] (Makefile.xregexp.lib): Nothing to be done for `all'. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' +cd algo/blast/core/ && /usr/bin/make -w -j5 --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/algo/blast/core' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[5]: warning: -j6 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/connect' -make[5]: warning: -j6 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/algo/blast/core' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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' -/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 -j6 --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/connect TMPL=xthrserv -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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' -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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/aa_ungapped.c -o aa_ungapped.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_diagnostics.c -o blast_diagnostics.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_engine.c -o blast_engine.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_extend.c -o blast_extend.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_filter.c -o blast_filter.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/aa_ungapped.c: In function 's_BlastAaWordFinder_TwoHit': +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/aa_ungapped.c: In function 's_BlastAaWordFinder_TwoHit': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/aa_ungapped.c:484:19: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 484 | scansub = (TAaScanSubjectFunction)(lookup->scansub_callback); | ^ @@ -16685,7 +16255,13 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/aa_ungapped.c:758:19: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 758 | scansub = (TAaScanSubjectFunction)(lookup->scansub_callback); | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c: In function 'BLAST_PreliminarySearchEngine': +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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/aa_ungapped.c -o aa_ungapped.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_diagnostics.c -o blast_diagnostics.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_engine.c -o blast_engine.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_extend.c -o blast_extend.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_filter.c -o blast_filter.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c: In function 'BLAST_PreliminarySearchEngine': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_engine.c:1366:9: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 1366 | (T_MB_IdbCheckOid)lookup_wrap->check_index_oid; | ^ @@ -16696,7 +16272,7 @@ 1591 | ((T_MB_IdxEndSearchIndication)( | ^ 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: + 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; | ^~~~~~~~ @@ -16704,7 +16280,8 @@ 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/serial/variant.cpp:35: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -16724,6 +16301,17 @@ /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' +cd connect/ && /usr/bin/make -w -j5 --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/connect' +make[4]: warning: -j5 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: -j5 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/connect' +make[5]: warning: -j5 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/connect TMPL=xthrserv -w -j5 --jobserver-auth=7,8 all /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; @@ -16736,63 +16324,7 @@ /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, | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/threaded_server.hpp:77:44: note: declared here - 77 | NCBI_DEPRECATED_CLASS NCBI_XCONNECT_EXPORT CThreadedServer - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp:52:22: warning: 'CThreadedServer' is deprecated [-Wdeprecated-declarations] - 52 | CThreadedServer& m_Server; // NCBI_FAKE_WARNING - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/threaded_server.hpp:77:44: note: declared here - 77 | NCBI_DEPRECATED_CLASS NCBI_XCONNECT_EXPORT CThreadedServer - | ^~~~~~~~~~~~~~~ -/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()); - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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/connect/server_monitor.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server_monitor.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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 -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' -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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-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/connect/error_codes.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/impl/server_connection.hpp:145:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 145 | auto_ptr m_Factory; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /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; @@ -16919,44 +16451,6 @@ /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; | ^ -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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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/connect/server.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/impl/server_connection.hpp:145:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 145 | auto_ptr m_Factory; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_THRE/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp: In constructor 'ncbi::CAcceptRequest::CAcceptRequest(ncbi::EServIO_Event, ncbi::CServer_ConnectionPool&, const STimeout*, ncbi::CServer_Listener*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:389:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 389 | auto_ptr conn( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ _THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/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_aalookup.c -o blast_aalookup.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_aascan.c -o blast_aascan.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 @@ -17056,34 +16550,76 @@ /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; | ^ ++-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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+/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()); + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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/connect/server_monitor.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server_monitor.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ _LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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/na_ungapped.c -o na_ungapped.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_seqsrc.c -o blast_seqsrc.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_setup.c -o blast_setup.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -DND/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_util.c: In function 'BlastProgram2Number': +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -DND/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/threaded_server.hpp:77:44: note: declared here + 77 | NCBI_DEPRECATED_CLASS NCBI_XCONNECT_EXPORT CThreadedServer + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/threaded_server.cpp:52:22: warning: 'CThreadedServer' is deprecated [-Wdeprecated-declarations] + 52 | CThreadedServer& m_Server; // NCBI_FAKE_WARNING + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/threaded_server.hpp:77:44: note: declared here + 77 | NCBI_DEPRECATED_CLASS NCBI_XCONNECT_EXPORT CThreadedServer + | ^~~~~~~~~~~~~~~ +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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-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/connect/error_codes.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/connection_pool.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/impl/server_connection.hpp:145:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 145 | auto_ptr m_Factory; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_util.c: In function 'BlastProgram2Number': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/core/blast_util.c:306:10: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 306 | else if (strcasecmp("mapper", program) == 0) | ^~ /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; | ^~~~~~ -EBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/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_stat.c -o blast_stat.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_traceback.c -o blast_traceback.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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/greedy_align.c -o greedy_align.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-stro/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++/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/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; | ^~~~~~~~ @@ -17091,12 +16627,43 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-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/classinfob.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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/connect/server.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/connect/impl/server_connection.hpp:145:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 145 | auto_ptr m_Factory; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp: In constructor 'ncbi::CAcceptRequest::CAcceptRequest(ncbi::EServIO_Event, ncbi::CServer_ConnectionPool&, const STimeout*, ncbi::CServer_Listener*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/server.cpp:389:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 389 | auto_ptr conn( + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objostr.cpp:62: + 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; | ^~~~~~~~ @@ -17104,18 +16671,161 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-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++/src/serial/member.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -ng -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 -Werror=implicit-function-declaration -ffile-prefix-map=/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-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-bIn 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: +EBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/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_stat.c -o blast_stat.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_traceback.c -o blast_traceback.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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/greedy_align.c -o greedy_align.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-stromake[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/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++/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: +/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/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/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; | ^~~~~~~~ @@ -17123,11 +16833,17 @@ 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++/src/serial/objistr.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/variant.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -last+-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 +ng -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 -Werror=implicit-function-declaration -ffile-prefix-map=/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-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 @@ -17146,31 +16862,25 @@ /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 | ^~~~~~~~~~~~ -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 -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 /builix-map=/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 +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 -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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -pthd/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' -read -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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/split_query.c -o split_query.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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/gencode_singleton.c -o gencode_singleton.o /usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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/index_ungapped.c -o index_ungapped.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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_traceback_mt_priv.c -o blastmake[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 -Werror=implicit-function-declaration -ffile-prefix-map=/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_traceback_mt_priv.c -o blastds/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_THREmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -o threaded_server.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/server.cpp -o server.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/server_monitor.cpp -o server_monitor.o @@ -17182,30 +16892,22 @@ /bin/ln -f .xthrserv.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xthrserv.dep 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 connect/services/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xconnserv UNIX_PROJ="" sources= configurables=configurables.null +cd connect/services/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xconnserv UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -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/services TMPL=xconnserv -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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: -/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()) - | ^ +/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/services TMPL=xconnserv -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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/grid_worker.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()) | ^ @@ -17224,6 +16926,9 @@ /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__ | ^~~~~~~~ @@ -17236,15 +16941,12 @@ /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:158:82: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] +/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__ | ^~~~~~~~ @@ -17257,9 +16959,12 @@ /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:170:45: 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__ | ^~~~~~~~ @@ -17272,15 +16977,12 @@ /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: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/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__ | ^~~~~~~~ @@ -17293,9 +16995,12 @@ /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: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__ | ^~~~~~~~ @@ -17308,14 +17013,87 @@ /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/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/cgi/cgiapp.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/cgi/cgiapp_cached.hpp:35, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/cgi/cgiapp_cached.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: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: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__ @@ -17329,9 +17107,12 @@ /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: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__ | ^~~~~~~~ @@ -17350,9 +17131,6 @@ /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: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__ | ^~~~~~~~ @@ -17368,6 +17146,9 @@ /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__ | ^~~~~~~~ @@ -17380,15 +17161,17 @@ /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: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/ncbiapp.hpp:94:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] +/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/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: +/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__ | ^~~~~~~~ @@ -17401,9 +17184,12 @@ /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/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: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__ | ^~~~~~~~ @@ -17416,15 +17202,66 @@ /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' +/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/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/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__ | ^~~~~~~~ @@ -17437,11 +17274,11 @@ /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/connect/services/grid_worker_app.hpp:89:51: note: in expansion of macro '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/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/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__ @@ -17476,6 +17313,9 @@ /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/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__ | ^~~~~~~~ @@ -17488,14 +17328,12 @@ /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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/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/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.cpp:34: + 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()) | ^ @@ -17604,9 +17442,45 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/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()); - | ^ +_traceback_mt_priv.o +/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 +/usr/bin/g++ -std=gnu++14 -shared -o libblast.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 -gdwarf-3 -O2 -fPIC aa_ungapped.o blast_diagnostics.o blast_engine.o blast_extend.o blast_filter.o blast_gapalign.o blast_hits.o blast_hspstream.o blast_itree.o blast_kappa.o blast_lookup.o blast_aalookup.o blast_aascan.o blast_nalookup.o blast_nascan.o blast_message.o blast_options.o blast_psi.o na_ungapped.o blast_psi_priv.o blast_seg.o blast_seqsrc.o blast_setup.o blast_stat.o blast_traceback.o blast_util.o gapinfo.o greedy_align.o hspfilter_collector.o hspfilter_besthit.o hspfilter_culling.o link_hsps.o lookup_util.o lookup_wrap.o matrix_freq_ratios.o ncbi_std.o ncbi_math.o blast_encoding.o pattern.o phi_extend.o phi_gapalign.o phi_lookup.o blast_parameters.o blast_posit.o blast_program.o blast_query_info.o blast_tune.o blast_sw.o blast_dynarray.o split_query.o gencode_singleton.o index_ungapped.o blast_traceback_mt_priv.o blast_hspstream_mt_utils.o boost_erf.o jumper.o hspfilter_mapper.o spliced_hits.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 -lcomposition_adjustment -lxconnect -ltables -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast.so +/bin/ln -f .blast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' +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: +/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/objistr.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_session.cpp -o cgi_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/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/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] + 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__ | ^~~~~~~~ @@ -17619,12 +17493,12 @@ /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: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: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__ | ^~~~~~~~ @@ -17637,12 +17511,130 @@ /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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/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/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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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/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()) | ^ @@ -17751,14 +17743,50 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -_traceback_mt_priv.o -/usr/bin/gcc -std=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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=gnu11 -fgnu89-inline -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -Werror=implicit-function-declaration -ffile-prefix-map=/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 -/usr/bin/g++ -std=gnu++14 -shared -o libblast.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 -gdwarf-3 -O2 -fPIC aa_ungapped.o blast_diagnostics.o blast_engine.o blast_extend.o blast_filter.o blast_gapalign.o blast_hits.o blast_hspstream.o blast_itree.o blast_kappa.o blast_lookup.o blast_aalookup.o blast_aascan.o blast_nalookup.o blast_nascan.o blast_message.o blast_options.o blast_psi.o na_ungapped.o blast_psi_priv.o blast_seg.o blaIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, +/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()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/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/connect/services/grid_worker.cpp -o grid_worker.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/ns_client_factory.cpp -o ns_client_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/connect/services/grid_worker_app.cpp -o grid_worker_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/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.speIn 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; @@ -17771,27 +17799,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -AD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/objcopy.cpp -o objcopy.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/iterator.cpp -o 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/serial/serial.cpp -o 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/serial/delaybuf.cpp -o delaybuf.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/pack_string.cpp -o pack_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/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-st_seqsrc.o blast_setup.o blast_stat.o blast_traceback.o blast_util.o gapinfo.o greedy_align.o hspfilter_collector.o hspfilter_besthit.o hspfilter_culling.o link_hsps.o lookup_util.o lookup_wrap.o matrix_freq_ratios.o ncbi_std.o ncbi_math.o blast_encoding.o pattern.o phi_extend.o phi_gapalign.o phi_lookup.o blast_parameters.o blast_posit.o blast_program.o blast_query_info.o blast_tune.o blast_sw.o blast_dynarray.o split_query.o gencode_singleton.o index_ungapped.o blast_traceback_mt_priv.o blast_hspstream_mt_utils.o boost_erf.o jumper.o hspfilter_mapper.o spliced_hits.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 -lcomposition_adjustment -lxconnect -ltables -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblast.so -/bin/ln -f .blast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blast.dep -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -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/connect/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/connect/services/grid_worker.cpp -o grid_worker.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/ns_client_factory.cpp -o ns_client_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/connect/services/grid_worker_app.cpp -o grid_worker_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/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.speIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +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: @@ -18235,6 +18243,34 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ +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 -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' +AD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/objcopy.cpp -o objcopy.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/iterator.cpp -o 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/serial/serial.cpp -o 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/serial/delaybuf.cpp -o delaybuf.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/pack_string.cpp -o pack_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/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-specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -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' 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, @@ -18384,52 +18420,33 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 +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=. 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-I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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=. 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-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/reproducibld/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -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 -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxser.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxser.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxser.so -/bin/ln -f .xser.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xser.dep -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/serial' -cd serial/datatool/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -make[5]: warning: -j6 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' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -/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/serial/datatool TMPL=datatool -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/reproducib/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/buiIn 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, @@ -18578,9 +18595,34 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ +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_SOld/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -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 +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxser.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxser.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxser.so +/bin/ln -f .xser.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xser.dep +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/serial' +cd serial/datatool/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' +make[5]: warning: -j5 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' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' +/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/serial/datatool TMPL=datatool -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/serial/datatool/datatool.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/type.cpp:49: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.cpp:59: /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()) | ^ @@ -18691,7 +18733,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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++/src/serial/datatool/datatool.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/datatool.cpp:59: + 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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -18800,20 +18842,14 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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_SOmake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/datatool.cpp -o datatool.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/type.cpp -o type.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/namespace.cpp -o namespace.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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++/src/serial/datatool/statictype.cpp:41: +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/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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_search.cpp -o netcache_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 -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_protocol_parser.cpp -o netservice_protocol_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/connect/services/util.cpp -o util.o +/usr/bin/g++ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/statictype.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; | ^~~~~~~~ @@ -18826,7 +18862,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/datatool.cpp -o datatool.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/type.cpp -o type.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/namespace.cpp -o namespace.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/serial/serialimpl.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/reftype.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; @@ -18853,14 +18896,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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/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 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_search.cpp -o netcache_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 -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_protocol_parser.cpp -o netservice_protocol_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/connect/services/util.cpp -o util.o -/usr/bin/g++ 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 +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp: In constructor 'ncbi::CSendJsonOverSocket::CSendJsonOverSocket(ncbi::CSocket&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp:115:55: warning: member 'ncbi::CSendJsonOverSocket::m_UTTPWriter' is used uninitialized [-Wuninitialized] + 115 | CSendJsonOverSocket(CSocket& sock) : m_JSONWriter(m_UTTPWriter), m_Socket(sock) {} + | ^~~~~~~~~~~~ +-std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_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 @@ -18979,7 +19025,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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++/src/serial/datatool/datatool.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choicestr.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choiceptrstr.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()) | ^ @@ -19090,7 +19136,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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++/src/serial/datatool/datatool.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choiceptrstr.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/choicestr.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()) | ^ @@ -19205,17 +19251,7 @@ /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_/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp: In constructor 'ncbi::CSendJsonOverSocket::CSendJsonOverSocket(ncbi::CSocket&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/connect/services/netstorage_rpc.cpp:115:55: warning: member 'ncbi::CSendJsonOverSocket::m_UTTPWriter' is used uninitialized [-Wuninitialized] - 115 | CSendJsonOverSocket(CSocket& sock) : m_JSONWriter(m_UTTPWriter), m_Socket(sock) {} - | ^~~~~~~~~~~~ --std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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()) @@ -19325,14 +19361,27 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -APP_BUILT_AS=datatool /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/serial/datatool/mcontainer.cpp -o mcontainer.o +LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_direct_nc.cpp -o netstorage_direct_nc.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/ns_output_parser.cpp -o ns_output_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/connect/services/ns_job_serializer.cpp -o ns_job_serializer.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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.cpp -o compound_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/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 -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 netsAPP_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-map=/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/alexer.cpp -o alexer.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-mchedule_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' +ap=/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/alexer.cpp -o alexer.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/aparser.cpp -o aparser.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/parser.cpp -o 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 -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 @@ -19449,26 +19498,13 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_direct_nc.cpp -o netstorage_direct_nc.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/ns_output_parser.cpp -o ns_output_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/connect/services/ns_job_serializer.cpp -o ns_job_serializer.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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.cpp -o compound_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/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 -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 netsEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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 +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/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 /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/rpcgen.cpp -o rpcgen.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/aliasstr.cpp -o aliasstr.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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_APchedule_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' -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_APIn 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/xsdparser.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] @@ -19707,46 +19743,43 @@ /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' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -cd objects/general/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd objects/biblio/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd objects/medline/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd objects/pub/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objects/general/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +cd objects/biblio/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +cd objects/medline/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objects/seqcode/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. -cd objects/seq/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objects/pub/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objects/seqcode/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -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/general && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh general 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 +make[4]: warning: -j5 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/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/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/pub && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pub all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[6]: warning: -j6 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 -j6 --jobserver-auth=9,10 all -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --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 +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 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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 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/medline' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' +/usr/bin/make -w -j5 --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++ \ -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqcode.asn -M "" -oA \ @@ -19755,28 +19788,27 @@ 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++/BUILD/build/objects/medline' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqcode' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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++/BUILD/build/objects/seqcode' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[5]: warning: -j6 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'. -/usr/bin/make -w -j6 --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]: warning: -j5 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 -w -j5 --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 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 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/medline' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --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]: 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++/BUILD/build/objects/medline' +make[5]: warning: -j5 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++/src/objects/seqcode' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/biblio' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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++ \ -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m pub.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn" -oA \ @@ -19785,25 +19817,34 @@ datatool: 2.20.1 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/medline' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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++/BUILD/build/objects/seqcode' +make[5]: warning: -j5 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++/BUILD/build/objects/medline' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +make[5]: warning: -j5 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: -j5 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/seqcode' +/usr/bin/make[4] (Makefile.medline.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/biblio' +make[5]: warning: -j5 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: -j6 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]: warning: -j5 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/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++/BUILD/build/objects/pub' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.medline.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j5 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.biblio.lib): Nothing to be done for `export-headers'. /usr/bin/make[4] (Makefile.pub.lib): Nothing to be done for `export-headers'. -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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 \ @@ -19813,38 +19854,141 @@ datatool: 2.20.1 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' /usr/bin/make[4] (Makefile.general.lib): Nothing to be done for `export-headers'. -/usr/bin/make -w -j6 --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' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' +cd objects/seq/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +make[4]: warning: -j5 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/seqset/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' +cd objects/scoremat/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +cd objects/blast/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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 +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 +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]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' +cd objects/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +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 +/usr/bin/make -w -j5 --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++ \ - -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 seqset.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/seq/seq.asn" -oA \ + -oc seqset -or objects/seqset -odi -od seqset.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd seqset.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: -j6 forced in submake: resetting jobserver mode. -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++/BUILD/build/objects/biblio' -make[5]: warning: -j6 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: -j6 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[4] (Makefile.biblio.lib): Nothing to be done for `export-headers'. -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' +/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 -j5 --jobserver-auth=9,10 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/seqset' +make[5]: warning: -j5 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[6]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +/usr/bin/make[4] (Makefile.seqset.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +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++/BUILD/build/objects/blast' +make[5]: warning: -j5 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: -j5 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.blast.lib): Nothing to be done for `export-headers'. +/usr/bin/make -w -j5 --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/blast' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' +make[5]: warning: -j5 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: -j5 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/scoremat' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +make[5]: warning: -j5 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/scoremat' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.xnetblastcli.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.scoremat.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: warning: -j5 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: -j5 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[4] (Makefile.blastdb.lib): Nothing to be done for `export-headers'. +make[7]: warning: -j5 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 ; \ -MAKE="/usr/bin/make -w -j6 --jobserver-auth=12,14"; \ +MAKE="/usr/bin/make -w -j5 --jobserver-auth=12,14"; \ export MAKE; \ for x in seqalign seqblock seqfeat seqloc seqres seqtable; do \ d=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../$x ; \ @@ -19855,7 +19999,7 @@ echo "#include \"../$x/${x}___.cpp\"" > ${x}___.cpp ; \ done ; \ exit $status -/usr/bin/make -w -j6 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqalign MODULE_PATH=objects/seqalign MODULE_ASN=seqalign.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/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.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/medline/medline.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 +/usr/bin/make -w -j5 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqalign MODULE_PATH=objects/seqalign MODULE_ASN=seqalign.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/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.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/medline/medline.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 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign' /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 seqalign.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/seqloc/seqloc.asn" -oA \ @@ -19864,7 +20008,7 @@ datatool: 2.20.1 make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqalign' -/usr/bin/make -w -j6 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqblock MODULE_PATH=objects/seqblock MODULE_ASN=seqblock.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/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.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/medline/medline.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 +/usr/bin/make -w -j5 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqblock MODULE_PATH=objects/seqblock MODULE_ASN=seqblock.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/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline.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/medline/medline.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 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqblock' /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 seqblock.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/seqloc/seqloc.asn" -oA \ @@ -19872,10 +20016,10 @@ -ocvs -pch 'ncbi_pch.hpp' -fd seqblock.dump \ datatool: 2.20.1 -make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.make[7]: warning: -j6 forced in submake: resetting jobserver mode. -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.make[7]: warning: -j5 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. 12.0+ds/c++/src/objects/seqblock' -/usr/bin/make -w -j6 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqfeat MODULE_PATH=objects/seqfeat MODULE_ASN=seqfeat.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline objects/pub/pub objects/seqloc/seqloc 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/pub/pub.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/seq/seq.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/pub/pub.asn objects/seqloc/seqloc.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 +/usr/bin/make -w -j5 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqfeat MODULE_PATH=objects/seqfeat MODULE_ASN=seqfeat.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/medline/medline objects/pub/pub objects/seqloc/seqloc 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/pub/pub.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/seq/seq.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/pub/pub.asn objects/seqloc/seqloc.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 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat' /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 seqfeat.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/pub/pub.asn objects/seqloc/seqloc.asn objects/seq/seq.asn" -oA \ @@ -19884,7 +20028,7 @@ datatool: 2.20.1 make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqfeat' -/usr/bin/make -w -j6 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqloc MODULE_PATH=objects/seqloc MODULE_ASN=seqloc.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/seqfeat/seqfeat' 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/seqfeat/seqfeat.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.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 +/usr/bin/make -w -j5 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqloc MODULE_PATH=objects/seqloc MODULE_ASN=seqloc.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/seqfeat/seqfeat' 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/seqfeat/seqfeat.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.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 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc' /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 seqloc.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/seqfeat/seqfeat.asn" -oA \ @@ -19893,92 +20037,26 @@ datatool: 2.20.1 make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc' -/usr/bin/make -w -j6 --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/ncbi-blasmake[7]: warning: -j6 forced in submake: resetting jobserver mode. -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -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/general' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -cd objects/seqset/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd objects/scoremat/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd objects/blast/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objects/blastdb/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objects/genomecoll/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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/ncbi-blasmake[7]: warning: -j5 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' +cd objects/genomecoll/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -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 -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 -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[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' +cd objects/seqedit/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[4]: warning: -j5 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 -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --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' -/usr/bin/make -w -j6 --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++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqset.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn objects/seq/seq.asn" -oA \ - -oc seqset -or objects/seqset -odi -od seqset.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd seqset.dump \ - -datatool: 2.20.1 -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++/src/objects/blastdb' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqset' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastdb' -/usr/bin/make -w -j6 --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/seqset' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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++/BUILD/build/objects/seqset' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/scoremat' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: warning: -j6 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/seqset' -make[5]: warning: -j6 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/scoremat' -/usr/bin/make[4] (Makefile.blastdb.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.seqset.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' -make[5]: warning: -j6 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 -w -j6 --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 +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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' +cd objects/seqsplit/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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 \ @@ -19987,40 +20065,74 @@ 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/scoremat' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll' 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 -/usr/bin/make[4] (Makefile.scoremat.lib): Nothing to be done for `export-headers'. -/usr/bin/make -w -j6 --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' +/usr/bin/make -w -j5 --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++ \ - -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 seqedit.asn -M "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" -oA \ + -oc seqedit -or objects/seqedit -odi -od seqedit.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd seqedit.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: -j6 forced in submake: resetting jobserver mode. -Waiting for /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lockmake[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++/BUILD/build/objects/blast' -make[5]: warning: -j6 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: -j6 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.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: -j6 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: -j6 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[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +Waiting for /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lockmake[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[5]: warning: -j5 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/seqedit' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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.seqedit.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/blastdb' +cd objects/submit/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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 +/usr/bin/make -w -j5 --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' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +make[5]: warning: -j5 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/seqsplit' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +/usr/bin/make[4] (Makefile.seqsplit.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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 \ + -oc submit -or objects/submit -odi -od submit.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd submit.dump \ + +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/submit' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/submit' +make[5]: warning: -j5 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/submit' +make[5]: warning: -j5 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[4] (Makefile.submit.lib): Nothing to be done for `export-headers'. t+-2.12.0+ds/c++/src/objects/medline/medline.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/medline/medline.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 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqres' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/datatool -oR /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++ \ @@ -20030,7 +20142,7 @@ datatool: 2.20.1 make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqres' -/usr/bin/make -w -j6 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqtable MODULE_PATH=objects/seqtable MODULE_ASN=seqtable.asn MODULE_IMPORT='objects/general/general objects/seq/seq 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/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/general/general.asn objects/seq/seq.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 +/usr/bin/make -w -j5 --jobserver-auth=12,14 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seqtable MODULE_PATH=objects/seqtable MODULE_ASN=seqtable.asn MODULE_IMPORT='objects/general/general objects/seq/seq 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/seq/seq.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqloc/seqloc.asn' IMPFILES='objects/general/general.asn objects/seq/seq.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 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqtable' /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 seqtable.asn -M "objects/general/general.asn objects/seq/seq.asn objects/seqloc/seqloc.asn" -oA \ @@ -20042,8 +20154,8 @@ make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh seq all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seq MODULE_PATH=objects/seq MODULE_ASN=seq.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/pub/pub objects/medline/medline objects/seqloc/seqloc objects/seqblock/seqblock objects/seqalign/seqalign objects/seqfeat/seqfeat objects/seqres/seqres objects/seqtable/seqtable' 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/pub/pub.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/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqblock/seqblock.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 /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqtable/seqtable.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/pub/pub.asn objects/medline/medline.asn objects/seqloc/seqloc.asn objects/seqblock/seqblock.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn objects/seqres/seqres.asn objects/seqtable/seqtable.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: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=seq MODULE_PATH=objects/seq MODULE_ASN=seq.asn MODULE_IMPORT='objects/general/general objects/biblio/biblio objects/pub/pub objects/medline/medline objects/seqloc/seqloc objects/seqblock/seqblock objects/seqalign/seqalign objects/seqfeat/seqfeat objects/seqres/seqres objects/seqtable/seqtable' 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/pub/pub.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/seqloc/seqloc.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqblock/seqblock.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 /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqtable/seqtable.asn' IMPFILES='objects/general/general.asn objects/biblio/biblio.asn objects/pub/pub.asn objects/medline/medline.asn objects/seqloc/seqloc.asn objects/seqblock/seqblock.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn objects/seqres/seqres.asn objects/seqtable/seqtable.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/seq' /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 seq.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/pub/pub.asn objects/medline/medline.asn objects/seqloc/seqloc.asn objects/seqblock/seqblock.asn objects/seqalign/seqalign.asn objects/seqfeat/seqfeat.asn objects/seqres/seqres.asn objects/seqtable/seqtable.asn" -oA \ @@ -20053,104 +20165,27 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/seqset' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -cd objects/seqedit/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -cd objects/seqsplit/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[4]: warning: -j6 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 objects/submit/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -cd objects/variation/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +cd objects/variation/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -make[4]: warning: -j6 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[5]: warning: -j6 forced in submake: resetting jobserver mode. -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 /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[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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 23567 (make_asn) +make[4]: warning: -j5 forced in submake: resetting jobserver mode. 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 -/usr/bin/make -w -j6 --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' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -make[5]: warning: -j6 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/seqsplit' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -/usr/bin/make[4] (Makefile.seqsplit.lib): Nothing to be done for `export-headers'. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --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++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m seqedit.asn -M "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" -oA \ - -oc seqedit -or objects/seqedit -odi -od seqedit.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd seqedit.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqedit' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: warning: -j6 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/seqedit' -make[5]: warning: -j6 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.seqedit.lib): Nothing to be done for `export-headers'. -/usr/bin/make -w -j6 --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 \ - -oc submit -or objects/submit -odi -od submit.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd submit.dump \ - -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/submit' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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/submit' -make[5]: warning: -j6 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/submit' -make[5]: warning: -j6 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[4] (Makefile.submit.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/seq' -cd objects/id1/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +cd objects/id1/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --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[4]: warning: -j5 forced in submake: resetting jobserver mode. +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 +./usr/bin/make -w -j5 --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 \ @@ -20159,19 +20194,25 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' + +Acquired /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/genomecoll/make_asn.lock for PID 8376 (make_asn) make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/variation' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. 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++/BUILD/build/objects/variation' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/variation' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' /usr/bin/make[4] (Makefile.variation.lib): Nothing to be done for `export-headers'. -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[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --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]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' +cd objects/id2/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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' /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 gencoll_client.asn -M "objects/genomecoll/genome_collection.asn" -oA \ @@ -20180,53 +20221,10 @@ 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++/src/objects/genomecoll' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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/genomecoll' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -/usr/bin/make[4] (Makefile.genome_collection.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/genomecoll' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[5]: warning: -j6 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/genomecoll' -NOTE: skipping project "gencoll_client" due to unmet requirements -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[5]: warning: -j6 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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -cd objects/id2/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -make[4]: warning: -j6 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 objects/taxon1/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -cd objects/blastxml/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -cd objects/blastxml2/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -cd objtools/eutils/egquery/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[4]: warning: -j6 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/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/id2 && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh id2 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/objects/blastxml && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh blastxml all -/usr/bin/make -w -j6 --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/genomecoll' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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 \ @@ -20236,29 +20234,123 @@ datatool: 2.20.1 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/genomecoll' +make[5]: warning: -j5 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]: 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/genomecoll' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/id1' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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.genome_collection.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/genomecoll' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' /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/genomecoll' +make[5]: warning: -j5 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/genomecoll' +NOTE: skipping project "gencoll_client" due to unmet requirements +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/genomecoll' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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.id1cli.lib): Nothing to be done for `export-headers'. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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 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/id2' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id2' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/objects/id2' +make[5]: warning: -j5 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/id2' +make[5]: warning: -j5 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.id2.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: -j5 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/id2' +make[5]: warning: -j5 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.id2cli.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/seq' +cd objects/taxon1/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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++/BUILD/build/objects/taxon1' +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: warning: -j5 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[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/taxon1' +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' +make[5]: warning: -j5 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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +cd objects/blastxml/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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 +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +cd objects/blastxml2/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +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 objtools/eutils/egquery/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. File blastxml.module not found. Using defaults... -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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' /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 blastxml.asn -M "" -oA \ @@ -20268,16 +20360,18 @@ datatool: 2.20.1 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++/src/objects/blastxml' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -cd objtools/eutils/ehistory/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +cd objtools/eutils/ehistory/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[4]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. File egquery.module not found. Using defaults... -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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 \ @@ -20286,13 +20380,22 @@ datatool: 2.20.1 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++/BUILD/build/objects/blastxml' +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 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/objtools/eutils/egquery' +/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/egquery' +make[5]: warning: -j5 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/egquery' +make[5]: warning: -j5 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' File blastxml2.module not found. Using defaults... -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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' /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 blastxml2.asn -M "" -oA \ @@ -20301,86 +20404,20 @@ 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 -j6 --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' -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++/src/objects/taxon1' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery' +/usr/bin/make[4] (Makefile.egquery.lib): Nothing to be done for `export-headers'. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/blastxml2' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving 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'. -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 -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/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/objects/taxon1' -make[5]: warning: -j6 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: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -make[5]: warning: -j6 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' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[4] (Makefile.egquery.lib): Nothing to be done for `export-headers'. -/usr/bin/make -w -j6 --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 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/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++/src/objects/id2' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. /usr/bin/make[4] (Makefile.blastxml2.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: -j6 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++/src/objects/id2' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j6 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: -j6 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/id2' -make[5]: warning: -j6 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' -/usr/bin/make[4] (Makefile.id2.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: -j6 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/id2' -make[5]: warning: -j6 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]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make[4] (Makefile.id2cli.lib): Nothing to be done for `export-headers'. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. File ehistory.module not found. Using defaults... -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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 \ @@ -20390,47 +20427,23 @@ 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/ehistory' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. 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/objtools/eutils/ehistory' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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.ehistory.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/taxon1' -cd objtools/eutils/einfo/ && /usr/bin/make -w -j6 --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/elink/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objtools/eutils/einfo/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objects/entrez2/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -cd objtools/eutils/epost/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -cd objtools/eutils/esearch/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: warning: -j5 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 -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -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 -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 /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 -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. File einfo.module not found. Using defaults... -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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 make[5]: Entering directory '/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/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 einfo.dtd -M "" -oA \ @@ -20440,26 +20453,38 @@ datatool: 2.20.1 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++/src/objtools/eutils/einfo' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -File epost.module not found. Using defaults... -/usr/bin/make -w -j6 --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' -/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 epost.dtd -M "" -oA \ - -oc epost -or objtools/eutils/epost -odi -od epost.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd epost.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' +make[5]: warning: -j5 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++/src/objtools/eutils/epost' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' +make[5]: warning: -j5 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/einfo' +make[5]: warning: -j5 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[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/blastxml' +cd objtools/eutils/elink/ && /usr/bin/make -w -j5 --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: -j5 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 +cd objects/entrez2/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +cd objtools/eutils/epost/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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 /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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +cd objtools/eutils/esearch/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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[5]: warning: -j5 forced in submake: resetting jobserver mode. File elink.module not found. Using defaults... -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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 elink.dtd -M "" -oA \ @@ -20468,46 +20493,44 @@ datatool: 2.20.1 make[5]: Leaving 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 -j6 --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[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' +make[5]: warning: -j5 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/objtools/eutils/elink' +make[5]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.elink.lib): Nothing to be done for `export-headers'. +File epost.module not found. Using defaults... +/usr/bin/make -w -j5 --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' /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 epost.dtd -M "" -oA \ + -oc epost -or objtools/eutils/epost -odi -od epost.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd epost.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/einfo' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' -make[5]: warning: -j6 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/epost' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/epost' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/epost' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/objtools/eutils/elink' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[5]: warning: -j6 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]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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++/BUILD/build/objtools/eutils/esearch' -make[5]: warning: -j6 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]: 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/elink' -make[5]: warning: -j6 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: -j6 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: -j5 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/objtools/eutils/esearch' -/usr/bin/make -w -j6 --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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +cd objtools/eutils/espell/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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++ \ -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m entrez2.asn -M "" -oA \ @@ -20517,32 +20540,46 @@ datatool: 2.20.1 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++/src/objects/entrez2' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +File esearch.module not found. Using defaults... +/usr/bin/make -w -j5 --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 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/esearch' +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 +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2' -/usr/bin/make[4] (Makefile.elink.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.esearch.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/esearch' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/objtools/eutils/esearch' +make[5]: warning: -j5 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: -j5 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.entrez2.lib): Nothing to be done for `export-headers'. +/usr/bin/make[4] (Makefile.esearch.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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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.entrez2cli.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/ehistory' -cd objtools/eutils/espell/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[4]: warning: -j6 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 -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. File espell.module not found. Using defaults... -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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' /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 espell.dtd -M "" -oA \ @@ -20552,46 +20589,60 @@ datatool: 2.20.1 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++/src/objtools/eutils/espell' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/espell' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[4] (Makefile.espell.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/elink' -cd objtools/eutils/esummary/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' +cd objtools/eutils/esummary/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objtools/eutils/uilist/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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/epost' +cd objtools/eutils/uilist/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +File esummary.module not found. Using defaults... +/usr/bin/make -w -j5 --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' +/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 esummary.dtd -M "" -oA \ + -oc esummary -or objtools/eutils/esummary -odi -od esummary.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd esummary.dump \ + +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/esummary' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/esummary' +make[5]: warning: -j5 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: -j5 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[4] (Makefile.esummary.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/entrez2' -cd objects/gbseq/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -cd objects/medlars/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objects/gbseq/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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/medlars/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -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]: warning: -j5 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 -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -cd objects/pubmed/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources 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 -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. 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/pubmed && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh pubmed all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. File uilist.module not found. Using defaults... -/usr/bin/make -w -j6 --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 +/usr/bin/make -w -j5 --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 \ @@ -20600,33 +20651,17 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' -File esummary.module not found. Using defaults... -/usr/bin/make -w -j6 --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' -/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 esummary.dtd -M "" -oA \ - -oc esummary -or objtools/eutils/esummary -odi -od esummary.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd esummary.dump \ - -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/esummary' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist' -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/uilist' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/esummary' -make[5]: warning: -j6 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: -j6 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]: warning: -j5 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' -/usr/bin/make -w -j6 --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]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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++ \ -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m gbseq.asn -M "" -oA \ @@ -20635,12 +20670,22 @@ datatool: 2.20.1 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++/BUILD/build/objtools/eutils/esummary' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq' -make[5]: warning: -j6 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 -w -j6 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=medlars MODULE_PATH=objects/medlars MODULE_ASN=medlars.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]: warning: -j5 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' +cd objects/pubmed/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources +/usr/bin/make[4] (Makefile.uilist.lib): Nothing to be done for `export-headers'. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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++/BUILD/build/objects/gbseq' +make[5]: warning: -j5 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: -j5 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'. +/usr/bin/make -w -j5 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=medlars MODULE_PATH=objects/medlars MODULE_ASN=medlars.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/medlars' /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 medlars.asn -M "objects/general/general.asn objects/biblio/biblio.asn" -oA \ @@ -20649,8 +20694,19 @@ 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' -/usr/bin/make -w -j6 --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/medlars' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/medlars' +make[5]: warning: -j5 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: -j5 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.medlars.lib): Nothing to be done for `export-headers'. +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 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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' /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 pubmed.asn -M "objects/general/general.asn objects/biblio/biblio.asn objects/medline/medline.asn" -oA \ @@ -20659,42 +20715,23 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed' -/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++/src/objects/medlars' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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++/BUILD/build/objects/gbseq' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed' -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: -j6 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/pubmed' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: 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/pubmed' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: 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.pubmed.lib): Nothing to be done for `export-headers'. -/usr/bin/make[4] (Makefile.medlars.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/espell' -cd objects/mla/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' +cd objects/mla/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla && /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/new_module.sh mla all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=mla MODULE_PATH=objects/mla MODULE_ASN=mla.asn MODULE_IMPORT='objects/biblio/biblio objects/medline/medline objects/medlars/medlars objects/pubmed/pubmed objects/pub/pub' IMPDEPS='/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/medlars/medlars.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed/pubmed.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/pub.asn' IMPFILES='objects/biblio/biblio.asn objects/medline/medline.asn objects/medlars/medlars.asn objects/pubmed/pubmed.asn objects/pub/pub.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: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --jobserver-auth=7,8 -f /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/build-system/Makefile.module MODULE=mla MODULE_PATH=objects/mla MODULE_ASN=mla.asn MODULE_IMPORT='objects/biblio/biblio objects/medline/medline objects/medlars/medlars objects/pubmed/pubmed objects/pub/pub' IMPDEPS='/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/medlars/medlars.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed/pubmed.asn /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pub/pub.asn' IMPFILES='objects/biblio/biblio.asn objects/medline/medline.asn objects/medlars/medlars.asn objects/pubmed/pubmed.asn objects/pub/pub.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/mla' /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 mla.asn -M "objects/biblio/biblio.asn objects/medline/medline.asn objects/medlars/medlars.asn objects/pubmed/pubmed.asn objects/pub/pub.asn" -oA \ @@ -20704,87 +20741,47 @@ datatool: 2.20.1 make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/mla' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[4] (Makefile.mla.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/mla' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[4] (Makefile.mlacli.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/esummary' -cd objects/taxon3/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' +cd objects/taxon3/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 sources make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -cd objects/valid/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 sources +cd objects/valid/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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 /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/objects/gbseq' -cd objects/general/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=general 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: -j6 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -cd objects/seqcode/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -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/pubmed' -cd objects/blastxml/ && /usr/bin/make -w -j6 --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/blastxml' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +cd objects/general/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=general 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: -j5 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: -j6 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: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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' -/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 -j6 --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: -j6 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/seqcode TMPL=seqcode -w -j6 --jobserver-auth=7,8 all -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/blastxml' -make[5]: warning: -j6 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/blastxml TMPL=blastxml -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -w -j6 --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++ \ - -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m taxon3.asn -M "objects/seqfeat/seqfeat.asn" -oA \ - -oc taxon3 -or objects/taxon3 -odi -od taxon3.def -oex '' \ - -ocvs -pch 'ncbi_pch.hpp' -fd taxon3.dump \ - -datatool: 2.20.1 -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: warning: -j6 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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -/usr/bin/make -w -j6 --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 +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -w -j5 --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++ \ -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m valid.asn -M "" -oA \ @@ -20793,31 +20790,47 @@ 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -cd objects/blastxml2/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastxml2 UNIX_PROJ="" sources= configurables=configurables.null -/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++/src/objects/valid' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid' +/usr/bin/make -w -j5 --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++ \ + -opm /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src -m taxon3.asn -M "objects/seqfeat/seqfeat.asn" -oA \ + -oc taxon3 -or objects/taxon3 -odi -od taxon3.def -oex '' \ + -ocvs -pch 'ncbi_pch.hpp' -fd taxon3.dump \ + +datatool: 2.20.1 +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon3' +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/blastxml2' -make[5]: warning: -j6 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: -j6 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/taxon3' +make[5]: warning: -j5 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/taxon3' +make[5]: warning: -j5 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.valid.lib): Nothing to be done for `export-headers'. -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +/usr/bin/make[4] (Makefile.taxon3.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/pubmed' +cd objects/seqcode/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +make[5]: warning: -j5 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/seqcode TMPL=seqcode -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/general/Date_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/general/general___.cpp:2: @@ -20833,8 +20846,8 @@ 65 | 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/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/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; | ^~~~~~~~ @@ -20846,9 +20859,66 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' +cd objects/blastxml/ && /usr/bin/make -w -j5 --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/blastxml' +make[4]: warning: -j5 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: -j5 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/blastxml' +make[5]: warning: -j5 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/blastxml TMPL=blastxml -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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 objects/blastxml2/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastxml2 UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' +make[4]: warning: -j5 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/egquery/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=egquery 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: -j5 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: -j5 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: -j5 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/objtools/eutils/egquery' +make[5]: warning: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' +make[5]: warning: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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 +/bin/rm -f libseqcode.so .libseqcode.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libseqcode.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 -gdwarf-3 -O2 -fPIC seqcode__.o seqcode___.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 libseqcode.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/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' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' +cd objtools/eutils/ehistory/ && /usr/bin/make -w -j5 --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/ehistory' +make[4]: warning: -j5 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' +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' +make[5]: warning: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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/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; | ^~~~~~~~ @@ -20861,8 +20931,8 @@ 65 | 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/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/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; | ^~~~~~~~ @@ -20874,48 +20944,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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 -/bin/rm -f libseqcode.so .libseqcode.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libseqcode.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 -gdwarf-3 -O2 -fPIC seqcode__.o seqcode___.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 libseqcode.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/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' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -cd objtools/eutils/egquery/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=egquery 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: -j6 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: -j6 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/egquery' -make[5]: warning: -j6 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 -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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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 -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' -cd objtools/eutils/ehistory/ && /usr/bin/make -w -j6 --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/ehistory' -make[4]: warning: -j6 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' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -make[5]: warning: -j6 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 -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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/egquery/EGQueryResult_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/egquery/egquery___.cpp:2: @@ -20930,54 +20958,65 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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 -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' -cd objtools/eutils/einfo/ && /usr/bin/make -w -j6 --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/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 -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/einfo/ && /usr/bin/make -w -j5 --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/einfo' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/einfo' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/einfo TMPL=einfo -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/elink/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=elink UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -cd objects/entrez2/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=entrez2 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/einfo TMPL=einfo -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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' +cd objtools/eutils/elink/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=elink UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/entrez2' -make[5]: warning: -j6 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/objtools/eutils/elink' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: 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/objtools/eutils/elink TMPL=elink -w -j6 --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/entrez2 TMPL=entrez2 -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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/elink TMPL=elink -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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/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; | ^~~~~~~~ @@ -20989,27 +21028,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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/epost/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=epost UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[4]: warning: -j6 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: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -make[5]: warning: -j6 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 -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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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 @@ -21020,20 +21038,33 @@ /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/esearch/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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: -j6 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 -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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +cd objects/entrez2/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=entrez2 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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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 -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' +cd objtools/eutils/epost/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=epost UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[4]: warning: -j5 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/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/objtools/eutils/elink/ELinkResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink___.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; | ^~~~~~~~ @@ -21045,6 +21076,57 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' +make[5]: warning: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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 -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 objtools/eutils/esearch/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 -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' +cd objtools/eutils/espell/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=espell UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' +make[4]: warning: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/entrez2/E2Reply_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/entrez2/entrez2___.cpp:2: @@ -21060,8 +21142,8 @@ 65 | 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/elink/ELinkResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/elink/elink___.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; | ^~~~~~~~ @@ -21074,8 +21156,8 @@ 65 | 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/esearch/ESearchResult_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch___.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; | ^~~~~~~~ @@ -21088,8 +21170,8 @@ 65 | 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/esearch/ESearchResult_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esearch/esearch___.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; | ^~~~~~~~ @@ -21101,27 +21183,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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 -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' -cd objtools/eutils/espell/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=espell UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -make[4]: warning: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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 @@ -21132,53 +21193,17 @@ /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/esummary/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=esummary UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/eutils/esummary/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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 -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 objtools/eutils/uilist/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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/uilist' -make[5]: warning: -j6 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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/esummary TMPL=esummary -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 @@ -21189,17 +21214,38 @@ /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' -cd objects/gbseq/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=gbseq UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/eutils/uilist/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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/uilist' +make[5]: warning: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +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 -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[5]: warning: -j5 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' +cd objects/gbseq/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/gbseq TMPL=gbseq -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/esummary/DocSum_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/esummary/esummary___.cpp:2: @@ -21215,6 +21261,20 @@ 65 | 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/gbseq/GBAltSeqData_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/gbseq/gbseq___.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/uilist/IdList_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/eutils/uilist/uilist___.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] @@ -21228,27 +21288,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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/valid/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=valid UNIX_PROJ="" sources= configurables=configurables.null +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 +/bin/rm -f libelink.so .libelink.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libelink.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 -gdwarf-3 -O2 -fPIC elink__.o elink___.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 libelink.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libelink.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libelink.so +/bin/ln -f .elink.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.elink.dep +make[5]: 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/elink' +cd objects/valid/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/valid TMPL=valid -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/valid TMPL=valid -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 @@ -21259,52 +21319,16 @@ /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' -cd objects/biblio/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=biblio UNIX_PROJ="" sources= configurables=configurables.null +cd objects/biblio/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/biblio TMPL=biblio -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/biblio TMPL=biblio -w -j5 --jobserver-auth=7,8 all 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 @@ -21314,42 +21338,40 @@ /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[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 -/bin/rm -f libelink.so .libelink.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libelink.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 -gdwarf-3 -O2 -fPIC elink__.o elink___.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 libelink.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libelink.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libelink.so -/bin/ln -f .elink.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.elink.dep -make[5]: 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/esummary' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -cd objtools/eutils/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=eutils UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/eutils/api/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=eutils UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/eutils/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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' -/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/api TMPL=eutils -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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' +/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/api TMPL=eutils -w -j5 --jobserver-auth=7,8 all +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 -j5 --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: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/valid/Comment_set.cpp:49, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/valid/valid__.cpp:3: @@ -21375,16 +21397,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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/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/objtools/eutils/api/epost.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -21415,8 +21438,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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/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; | ^~~~~~~~ @@ -21424,25 +21447,16 @@ 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/egquery.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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/efetch.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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/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; | ^~~~~~~~ @@ -21450,14 +21464,10 @@ 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/eutils/api/efetch.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/eutils/api/egquery.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; @@ -21483,6 +21493,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/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/objtools/eutils/api/eutils.cpp -o eutils.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/efetch.cpp -o efetch.o @@ -21490,7 +21513,20 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/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 -DNDEBUGIn 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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_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 @@ -21539,19 +21575,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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/objtools/eutils/api/ehistory.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ 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 @@ -21572,6 +21595,19 @@ /bin/ln -f .valid.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.valid.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' +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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 @@ -21594,31 +21630,31 @@ /bin/ln -f .biblio.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.biblio.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -cd objects/medline/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=medline UNIX_PROJ="" sources= configurables=configurables.null -cd objects/medlars/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=medlars UNIX_PROJ="" sources= configurables=configurables.null +cd objects/medline/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=medline UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objects/medlars/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=medlars UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[4]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: warning: -j6 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]: warning: -j5 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/medline' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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 -j6 --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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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: -j5 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/medline TMPL=medline -w -j5 --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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/medlars/Medlars_entry_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars/medlars___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/DocRef_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline___.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; | ^~~~~~~~ @@ -21631,8 +21667,8 @@ 65 | 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/medline/DocRef_.cpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medline/medline___.cpp:2: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars/Medlars_entry_.cpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/medlars/medlars___.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; | ^~~~~~~~ @@ -21664,28 +21700,28 @@ /bin/ln -f .medline.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.medline.dep 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 -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=pub UNIX_PROJ="" sources= configurables=configurables.null -cd objects/pubmed/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=pubmed UNIX_PROJ="" sources= configurables=configurables.null +cd objects/pub/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=pub 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objects/pubmed/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/pubmed' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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: -j5 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 -j6 --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/pubmed TMPL=pubmed -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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/pub TMPL=pub -w -j5 --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/pubmed TMPL=pubmed -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/pubmed/Pubmed_entry_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/pubmed/pubmed___.cpp:2: @@ -21734,28 +21770,28 @@ /bin/ln -f .pub.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.pub.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -cd objects/seq/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seq UNIX_PROJ="" sources= configurables=configurables.null -cd objects/mla/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=mla UNIX_PROJ="" sources= configurables=configurables.null +cd objects/seq/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seq UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objects/mla/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=mla 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/seq' +make[5]: warning: -j5 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/mla TMPL=mla -w -j6 --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/seq TMPL=seq -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' +make[5]: warning: -j5 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 -j5 --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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/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 seqalign__.cpp -o seqalign__.o @@ -21795,10 +21831,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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] - 4648 | auto_ptr pid_map_minus(use_strand ? +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -21826,6 +21888,27 @@ /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++/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] + 249 | pos = NStr::Find(seq, "i", pos, NPOS, NStr::eFirst, NStr::eCase); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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 '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] + 4648 | auto_ptr pid_map_minus(use_strand ? + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ /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 ? @@ -21847,25 +21930,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp: In member function 'ncbi::CRef ncbi::objects::CSeq_loc::Subtract(const ncbi::objects::CSeq_loc&, TOpFlags, ncbi::objects::ISynonymMapper*, ncbi::objects::ILengthGetter*) const': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/Seq_loc.cpp:5092:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 5092 | auto_ptr p_mapper; @@ -21892,55 +21956,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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] - 249 | pos = NStr::Find(seq, "i", pos, NPOS, NStr::eFirst, NStr::eCase); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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 'unsigned int'} [-Wsign-compare] - 124 | if (idx > 0 && idx < ArraySize(sc_TrnaList)) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~ -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 -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 -j6 --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: -j6 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: -j6 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: -j6 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/mla TMPL=mlacli -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:44: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SeqFeatData.cpp: In static member function 'static const ncbi::objects::CFeatList* ncbi::objects::CSeqFeatData::GetFeatList()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SeqFeatData.cpp:3752:12: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -21963,20 +21978,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -j5 --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: -j5 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: -j5 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: -j5 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/mla TMPL=mlacli -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat__.cpp:48: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SubSource.cpp: In static member function 'static void ncbi::objects::CSubSource::IsCorrectDateFormat(const std::string&, bool&, bool&)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/SubSource.cpp:464:14: warning: catching polymorphic type 'class ncbi::CException' by value [-Wcatch-value=] @@ -22032,6 +22054,20 @@ 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' 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: @@ -22061,13 +22097,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 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/seq___.cpp -o seq___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/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 seqalign___.cpp -o seqalign___.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/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, +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/BinomialOrgName_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqfeat/seqfeat___.cpp:2, from seqfeat___.cpp:1: @@ -22082,7 +22112,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/serial/serialimpl.hpp:39, +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 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/seq___.cpp -o seq___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/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 seqalign___.cpp -o seqalign___.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/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/seq/../seqloc/Giimport_id_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seq/../seqloc/seqloc___.cpp:2, from seqloc___.cpp:1: @@ -22231,75 +22267,64 @@ /bin/ln -f .seq.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seq.dep 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 -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqset UNIX_PROJ="" sources= configurables=configurables.null -cd objects/blastdb/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastdb UNIX_PROJ="" sources= configurables=configurables.null -cd objects/genomecoll/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=genome_collection UNIX_PROJ="" sources= configurables=configurables.null -cd objects/variation/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=variation UNIX_PROJ="" sources= configurables=configurables.null -cd objects/taxon1/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon1 UNIX_PROJ="" sources= configurables=configurables.null +cd objects/seqset/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqset UNIX_PROJ="" sources= configurables=configurables.null +cd objects/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastdb UNIX_PROJ="" sources= configurables=configurables.null +cd objects/genomecoll/ && /usr/bin/make -w -j5 --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/seqset' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objects/variation/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=variation 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: -j6 forced in submake: resetting jobserver mode. -cd objects/taxon3/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon3 UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +cd objects/taxon1/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=taxon1 UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j5 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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j5 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: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/genomecoll' -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/taxon1' -make[5]: warning: -j6 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/taxon3' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 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: -j6 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/blastdb' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/genomecoll' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +make[5]: warning: -j5 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: -j5 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++/BUILD/build/objects/taxon1' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -make[5]: warning: -j6 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: -j6 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/taxon3' -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/blastdb' +make[5]: warning: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +make[5]: warning: -j5 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/genomecoll TMPL=genome_collection -w -j5 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --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/blastdb TMPL=blastdb -w -j6 --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/seqset TMPL=seqset -w -j6 --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 -j6 --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 -j6 --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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/taxon1 TMPL=taxon1 -w -j5 --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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/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/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; | ^~~~~~~~ @@ -22326,8 +22351,8 @@ 65 | 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/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; | ^~~~~~~~ @@ -22339,23 +22364,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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/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/serial/serialimpl.hpp:36: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -22368,8 +22391,8 @@ 65 | 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; | ^~~~~~~~ @@ -22381,22 +22404,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ +/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 '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/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; @@ -22414,25 +22425,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/src/objects/taxon3/taxon3.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/taxon1/taxon1.cpp:143:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 143 | auto_ptr pIn; | ^~~~~~~~ @@ -22458,10 +22450,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 '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 @@ -22472,6 +22460,17 @@ /bin/ln -f .blastdb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastdb.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' +cd objects/taxon3/ && /usr/bin/make -w -j5 --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/taxon3' +make[4]: warning: -j5 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: -j5 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/taxon3' +make[5]: warning: -j5 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/taxon3 TMPL=taxon3 -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. 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 @@ -22483,78 +22482,20 @@ /bin/ln -f .seqset.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqset.dep make[5]: 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/seqset' -cd objects/scoremat/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=scoremat UNIX_PROJ="" sources= configurables=configurables.null -cd objects/seqedit/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqedit UNIX_PROJ="" sources= configurables=configurables.null +cd objects/scoremat/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=scoremat 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]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: warning: -j6 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[4]: warning: -j5 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]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/scoremat' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -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 -j6 --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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 -/bin/rm -f libtaxon3.so .libtaxon3.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libtaxon3.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 -gdwarf-3 -O2 -fPIC taxon3__.o taxon3___.o taxon3.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 libtaxon3.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libtaxon3.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtaxon3.so -/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' -cd objects/seqsplit/ && /usr/bin/make -w -j6 --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/seqsplit' -make[4]: warning: -j6 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]: warning: -j6 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/seqsplit' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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 -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' -cd objects/submit/ && /usr/bin/make -w -j6 --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/submit' -make[4]: warning: -j6 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: -j6 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/submit' -make[5]: warning: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/scoremat TMPL=scoremat -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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/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; | ^~~~~~~~ @@ -22566,9 +22507,32 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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/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; | ^~~~~~~~ @@ -22590,17 +22554,26 @@ /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' -cd objects/id1/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=id1 UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -make[5]: warning: -j6 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/id1' -make[5]: warning: -j6 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/id1 TMPL=id1 -w -j6 --jobserver-auth=7,8 all -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +cd objects/seqedit/ && /usr/bin/make -w -j5 --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/seqedit' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' +make[5]: warning: -j5 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/seqedit' +make[5]: warning: -j5 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/seqedit TMPL=seqedit -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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 -gdwarf-3 -O2 -fPIC taxon1__.o tmake[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 @@ -22609,8 +22582,70 @@ /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[5]: warning: -j6 forced in submake: resetting jobserver mode. make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' +cd objects/seqsplit/ && /usr/bin/make -w -j5 --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/seqsplit' +make[4]: warning: -j5 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]: warning: -j5 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/seqsplit' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +axon1___.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' +cd objects/submit/ && /usr/bin/make -w -j5 --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/submit' +make[4]: warning: -j5 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: -j5 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/submit' +make[5]: warning: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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 -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/id1/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=id1 UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' +make[5]: warning: -j5 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/id1' +make[5]: warning: -j5 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/id1 TMPL=id1 -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/seqsplit/ID2S_Bioseq_Ids_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/seqsplit/seqsplit___.cpp:2: @@ -22625,6 +22660,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 +/bin/rm -f libtaxon3.so .libtaxon3.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libtaxon3.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 -gdwarf-3 -O2 -fPIC taxon3__.o taxon3___.o taxon3.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 libtaxon3.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libtaxon3.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libtaxon3.so +/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' +cd objects/blast/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --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/submit/Contact_info_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/submit/submit___.cpp:2: @@ -22639,6 +22695,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: warning: -j5 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/id1/Entry_complexities_.cpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objects/id1/id1___.cpp:2: @@ -22653,37 +22710,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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 -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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 -/bin/rm -f libid1.so .libid1.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libid1.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 -gdwarf-3 -O2 -fPIC id1__.o 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 -lseqset -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 libid1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libid1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid1.so -/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' +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ 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 @@ -22694,17 +22734,17 @@ /bin/ln -f .submit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.submit.dep make[5]: 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/submit' -cd objtools/readers/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xobjread UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/readers/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xobjread UNIX_PROJ="" sources= configurables=configurables.null make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -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/readers TMPL=xobjread -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/readers TMPL=xobjread -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/readers/format_guess_ex.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] @@ -22815,28 +22855,17 @@ /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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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_message.cpp -o reader_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 -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_listener.cpp -o reader_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/reader_message_handler.cpp -o reader_message_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 -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/read_util.cpp -o read_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/format_guess_ex.cpp -o format_guess_ex.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/seqid_validate.cpp -o seqid_validate.o -/usr/bin/g++ -smake[5]: Entering 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/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 +/bin/rm -f libid1.so .libid1.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libid1.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 -gdwarf-3 -O2 -fPIC id1__.o 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 -lseqset -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 libid1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libid1.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libid1.so +/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/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 @@ -22846,20 +22875,14 @@ /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++/src/objtools/readers/seqid_validate.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/seqid_validate.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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_message.cpp -o reader_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 -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/reader_listener.cpp -o reader_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/reader_message_handler.cpp -o reader_message_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 -Wno-unused-local-typedefs /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/read_util.cpp -o read_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/format_guess_ex.cpp -o format_guess_ex.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/seqid_validate.cpp -o seqid_validate.o +/usr/bin/g++ -sIn 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; | ^~~~~~~~ @@ -22882,28 +22905,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp:33: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/agp_read.hpp:61:6: note: declared here - 61 | void AgpRead(CNcbiIstream& is, - | ^~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp: In function 'void ncbi::AgpRead(CNcbiIstream&, std::vector >&, EAgpRead_IdRule, bool, std::vector >*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp:74:12: warning: 'void ncbi::AgpRead(CNcbiIstream&, std::vector >&, EAgpRead_IdRule, bool, std::vector >*)' is deprecated [-Wdeprecated-declarations] - 74 | AgpRead(is, bioseqs, component_id_rule, set_gap_data, component_types); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 @@ -22914,58 +22915,63 @@ /bin/ln -f .seqsplit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqsplit.dep 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 -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=objmgr UNIX_PROJ="" sources= configurables=configurables.null -cd objects/id2/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. +cd objmgr/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=objmgr 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: -j6 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: -j6 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/id2' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd objects/id2/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -make[5]: warning: -j6 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]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -/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/id2 TMPL=id2 -w -j6 --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 TMPL=objmgr -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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) { - | ~~~~~^~~~~~~~~~~ -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; - | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: warning: -j5 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 -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 TMPL=objmgr -w -j5 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' +make[5]: warning: -j5 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 -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/id2 TMPL=id2 -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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++/src/objtools/readers/seqid_validate.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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objtools/readers/seqid_validate.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/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); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/agp_read.hpp:61:6: note: declared here + 61 | void AgpRead(CNcbiIstream& is, + | ^~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp: In function 'void ncbi::AgpRead(CNcbiIstream&, std::vector >&, EAgpRead_IdRule, bool, std::vector >*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/agp_read.cpp:74:12: warning: 'void ncbi::AgpRead(CNcbiIstream&, std::vector >&, EAgpRead_IdRule, bool, std::vector >*)' is deprecated [-Wdeprecated-declarations] + 74 | AgpRead(is, bioseqs, component_id_rule, set_gap_data, component_types); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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, + | ^~~~~~~ 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: @@ -22980,26 +22986,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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){ - | ^ +/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) { + | ~~~~~^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -23033,10 +23023,46 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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 -fsIn 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -23069,30 +23095,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -23122,46 +23124,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/alnread.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/alnread.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/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){ + | ^ In file included from /build/reproducible-path/ncbi-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] @@ -23182,19 +23164,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_setters.cpp -o seq_table_setters.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_info.cpp -o seq_table_info.o @@ -23204,29 +23173,21 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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: + 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++/include/corelib/ncbistd.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/aln_error_reporter.hpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -DIn 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++/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, @@ -23234,26 +23195,7 @@ 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/annot_collector.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/snp_annot_info.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -23263,40 +23205,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 '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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +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; | ^~~~~~~~ @@ -23306,8 +23216,7 @@ 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/seq_loc_cvt.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_loc_cvt.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -23323,112 +23232,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsClustal(TSample&, ncbi::objects::CPeekAheadStream&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:137:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] - 137 | if (lineCount < sample.size()) { - | ~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsFastaGap(const TSample&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:176:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] - 176 | for ( ; i < sample.size(); ++i) { - | ~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:181:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] - 181 | if (i < sample.size()) { - | ~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsSequin(const TSample&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:234:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] - 234 | for (int index=0; index < tokens.size(); ++index) { - | ~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsMultAlign(const TSample&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:258:23: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] - 258 | if (sample.size() < lineIndex + 4) { - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/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: '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++/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.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.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/alnread.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_selector.cpp:34: +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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/readers/aln_reader.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:33: -/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_reader.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 'unsigned int'} [-Wsign-compare] - 92 | for (auto i=0; i < mSequences.size(); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~ -/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 'unsigned int'} [-Wsign-compare] - 233 | if (index >= mSeqIds.size()) { - | ~~~~~~^~~~~~~~~~~~~~~~~ -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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 'unsigned int' [-Wsign-compare] - 409 | for (int i=0; i< numDeflines; ++i) { - | ~^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp: In member function 'bool ncbi::CAlnReader::x_IsGap(TNumrow, ncbi::TSeqPos, const std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:461:13: warning: comparison of integer expressions of different signedness: 'ncbi::CAlnReader::TNumrow' {aka 'int'} and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] - 461 | if (row > m_MiddleSections.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp: In member function 'void ncbi::CAlnReader::x_AssignDensegIds(TFastaFlags, ncbi::objects::CDense_seg&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:507:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] - 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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -23442,91 +23274,6 @@ /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 -j6 --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: -j6 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: -j6 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: -j6 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: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: 'unsigned int' and 'int' [-Wsign-compare] - 121 | if (currentDataSize != expectedDataSize) { - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -_MT -D_REENTRANT -D_THREAD_SAFE -I/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+-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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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 @@ -23537,78 +23284,73 @@ /bin/ln -f libxnetblast.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxnetblast.so /bin/ln -f .xnetblast.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xnetblast.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/id2' +cd objtools/pubseq_gateway/client/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. 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 -j6 --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 -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blast_unit_test_util UNIX_PROJ="" sources= configurables=configurables.null +cd objects/blast/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xnetblastcli 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: -j6 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqalign_util UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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/algo/blast/unit_tests/api' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd app/blast/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j5 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: -j5 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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' -make[5]: warning: -j6 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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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++/BUILD/build/objtools/pubseq_gateway/client' make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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/objects/blast TMPL=xnetblastcli -w -j5 --jobserver-auth=7,8 all +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j5 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/unit_tests/api TMPL=blast_unit_test_util -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api TMPL=seqalign_util -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/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 -j6 --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: -j6 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/app/blast TMPL=blast_app_util -w -j6 --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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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++/src/objtools/readers/aln_scanner_clustal.cpp:34: + 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/corelib/ncbistr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_errors.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: '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/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: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j5 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/algo/blast/unit_tests/api TMPL=seqalign_util -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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; | ^~~~~~~~ @@ -23618,7 +23360,8 @@ 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_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -23745,6 +23488,14 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/blast_test_util.cpp:61: @@ -23856,6 +23607,235 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -DIn 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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/algo/blast/unit_tests/api/blast_test_util.hpp:41: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/test_objmgr.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/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++/src/algo/blast/unit_tests/api/test_objmgr.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 '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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/blast_test_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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqalign_cmp.cpp -o seqalign_cmp.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/unit_tests/api/seqalign_set_convert.cpp -o seqalign_set_convert.o +/bin/rm -f libseqalign_util.a .libseqalign_util.a.stamp +ar cr libseqalign_util.a seqalign_cmp.o seqalign_set_convert.o +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqalign_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/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' +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 -j5 --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/app/blast' +make[4]: warning: -j5 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: -j5 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: -j5 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/app/blast TMPL=blast_app_util -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsClustal(TSample&, ncbi::objects::CPeekAheadStream&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:137:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] + 137 | if (lineCount < sample.size()) { + | ~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsFastaGap(const TSample&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:176:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] + 176 | for ( ; i < sample.size(); ++i) { + | ~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:181:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] + 181 | if (i < sample.size()) { + | ~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsSequin(const TSample&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:234:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] + 234 | for (int index=0; index < tokens.size(); ++index) { + | ~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp: In member function 'bool ncbi::objects::CAlnFormatGuesser::xSampleIsMultAlign(const TSample&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_formatguess.cpp:258:23: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] + 258 | if (sample.size() < lineIndex + 4) { + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/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: '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++/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/objtools/readers/aln_reader.cpp:33: +/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_reader.hpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -23990,79 +23970,81 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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: + 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; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/src/objtools/readers/aln_scanner_phylip.cpp:33: +/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 'unsigned int' [-Wsign-compare] + 409 | for (int i=0; i< numDeflines; ++i) { + | ~^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp: In member function 'bool ncbi::CAlnReader::x_IsGap(TNumrow, ncbi::TSeqPos, const std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:461:13: warning: comparison of integer expressions of different signedness: 'ncbi::CAlnReader::TNumrow' {aka 'int'} and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] + 461 | if (row > m_MiddleSections.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp: In member function 'void ncbi::CAlnReader::x_AssignDensegIds(TFastaFlags, ncbi::objects::CDense_seg&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_reader.cpp:507:15: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] + 507 | if (i < m_DeflineInfo.size() && !m_DeflineInfo[i].mData.empty()) { + | ~~^~~~~~~~~~~~~~~~~~~~~~ +/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 'unsigned int'} [-Wsign-compare] + 92 | for (auto i=0; i < mSequences.size(); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~ +/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 'unsigned int'} [-Wsign-compare] + 233 | if (index >= mSeqIds.size()) { + | ~~~~~~^~~~~~~~~~~~~~~~~ +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/algo/blast/unit_tests/api/blast_test_util.cpp:57: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 '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 '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/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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/app/blast/blast_app_util.hpp:40: +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -24075,81 +24057,87 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-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/unit_tests/api/blast_test_util.hpp:41: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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 -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 -j5 --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: -j5 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: -j5 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[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' +make[5]: warning: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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++/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++/src/objtools/readers/aln_scanner_sequin.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 'unsigned int'} [-Wsign-compare] - 73 | if (lineInBlock != mSeqIds.size()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:156:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] - 156 | if (lineInBlock >= mSeqIds.size()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:186:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} [-Wsign-compare] - 186 | for (auto i = 0; i < seqData.size(); ++i) { - | ~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp: In static member function 'static bool ncbi::objects::CAlnScannerSequin::xExtractSequinSequenceData(const std::string&, std::string&, std::string&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:259:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] - 259 | for (auto curBlock = 3; curBlock < tokens.size() - 1; ++curBlock) { - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:264:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] - 264 | for (auto curBlock = 1; curBlock < tokens.size(); ++curBlock) { - | ~~~~~~~~~^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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/test_objmgr.cpp:34: +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; | ^~~~~~~~ @@ -24157,10 +24145,9 @@ 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/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++/src/algo/blast/unit_tests/api/test_objmgr.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/impl/annot_collector.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -24176,72 +24163,133 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqalign_cmp.cpp -o seqalign_cmp.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/unit_tests/api/seqalign_set_convert.cpp -o seqalign_set_convert.o -/bin/rm -f libseqalign_util.a .libseqalign_util.a.stamp -ar cr libseqalign_util.a seqalign_cmp.o seqalign_set_convert.o -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libseqalign_util.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/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' -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++/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; - | ^~~~~~~~ +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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: '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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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/blast_test_util.cpp:41: + 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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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_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_multalign.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_clustal.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/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: 'unsigned int' and 'int' [-Wsign-compare] + 296 | if (currentLineLength != blockLineLength) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +_MT -D_REENTRANT -D_THREAD_SAFE -I/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+-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; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 '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 'unsigned int'} [-Wsign-compare] - 135 | if (!inFirstBlock && lineInBlock == expectedNumSequences) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 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: @@ -24282,13 +24330,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/src/app/blast/blast_app_util.cpp:44: +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; | ^~~~~~~~ @@ -24301,27 +24343,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j6 --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: -j6 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: -j6 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[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[5]: warning: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/objmgr/annot_ci.cpp:34: @@ -24350,40 +24378,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/algo/blast/unit_tests/api/blast_test_util.cpp:57: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +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/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; | ^~~~~~~~ @@ -24394,44 +24408,154 @@ 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ -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/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: +/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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 'unsigned int'} [-Wsign-compare] + 73 | if (lineInBlock != mSeqIds.size()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:156:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] + 156 | if (lineInBlock >= mSeqIds.size()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:186:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} [-Wsign-compare] + 186 | for (auto i = 0; i < seqData.size(); ++i) { + | ~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp: In static member function 'static bool ncbi::objects::CAlnScannerSequin::xExtractSequinSequenceData(const std::string&, std::string&, std::string&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:259:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] + 259 | for (auto curBlock = 3; curBlock < tokens.size() - 1; ++curBlock) { + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/aln_scanner_sequin.cpp:264:42: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] + 264 | for (auto curBlock = 1; curBlock < tokens.size(); ++curBlock) { + | ~~~~~~~~~^~~~~~~~~~~~~~~ +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++/src/objtools/readers/aln_scanner_phylip.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/tse_info.cpp:35: +/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 '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 'unsigned int'} [-Wsign-compare] + 210 | if (mSequenceCount != mSeqIds.size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/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) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ +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 -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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 '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 'unsigned int'} [-Wsign-compare] + 135 | if (!inFirstBlock && lineInBlock == expectedNumSequences) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +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; | ^~~~~~~~ @@ -24443,12 +24567,28 @@ 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++/src/objmgr/seq_entry_info.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -24565,28 +24705,36 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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; - | ^~~~~~~~ +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_reader_utils.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/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++/src/objtools/readers/fasta_reader_utils.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -24700,41 +24848,9 @@ /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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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/data_loader.hpp:38, +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: + 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; | ^~~~~~~~ @@ -24745,24 +24861,27 @@ 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_reader_utils.cpp:38: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:60: /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++/src/objtools/readers/fasta_reader_utils.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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/ncbiutil.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:45, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ -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++/src/objtools/readers/gff_reader.cpp:472:18: warning: 'CGFFReader' is deprecated [-Wdeprecated-declarations] + 472 | CRef + | ^~~~~~~ +/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 + | ^~~~~~~~~~ +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; | ^~~~~~~~ @@ -24773,34 +24892,20 @@ 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/gff_reader.cpp:60: -/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/ncbiutil.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/gff_reader.hpp:45, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:35: +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/gff_reader.cpp:472:18: warning: 'CGFFReader' is deprecated [-Wdeprecated-declarations] - 472 | CRef - | ^~~~~~~ -/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 - | ^~~~~~~~~~ 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] @@ -24911,74 +25016,19 @@ /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 -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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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++/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/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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/priority.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/microarray_reader.cpp -o microarray_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/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/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++/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; @@ -24995,18 +25045,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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] @@ -25015,31 +25053,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-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: @@ -25061,20 +25074,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/prefetch_impl.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/prefetch_impl.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/impl/prefetch_impl.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -25092,6 +25091,63 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' +/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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/microarray_reader.cpp -o microarray_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/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/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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/impl/prefetch_impl.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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+ds/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++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-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: @@ -25101,10 +25157,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 && - | ^~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -25124,10 +25176,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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] @@ -25136,38 +25184,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' -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/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, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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, @@ -25204,6 +25224,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: @@ -25233,6 +25269,22 @@ 65 | 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/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, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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.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; @@ -25248,22 +25300,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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] @@ -25290,17 +25326,10 @@ | ^~~~~~~~ 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++/src/objmgr/scope_impl.cpp:41: + 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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25316,69 +25345,90 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; | ^~~~~~~~ @@ -25397,34 +25447,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/scope_impl.cpp:58: +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/scope_impl.hpp:47, +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; @@ -25440,22 +25470,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_map.cpp:38: + 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++/src/objmgr/seq_map.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25471,41 +25506,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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++/src/objmgr/seq_map.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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25541,31 +25569,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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++/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; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -25585,38 +25621,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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+-2.1/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 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 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 unsigned int' [-Wsign-compare] - 1008 | for (auto i=0; i::size_type' {aka '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 '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 'unsigned int'} [-Wsign-compare] - 156 | if (mBlockCount != mBlockStartsT.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/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_annot_ci.hpp:38, @@ -25646,14 +25650,29 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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/annot_types_ci.hpp:36, +/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 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 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 unsigned int' [-Wsign-compare] + 1008 | for (auto i=0; i class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -25681,7 +25700,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +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/seq_feat_handle.hpp:43, from /build/reproducible-path/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: @@ -25735,21 +25761,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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': -/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: 'unsigned int' and 'int' [-Wsign-compare] - 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 92 | mColName + mColScore != -6); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~ -/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 'unsigned int'} and 'int' [-Wsign-compare] - 484 | if (blockSizes.size() != blockCount) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ -/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 '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/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] @@ -25770,6 +25781,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 '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 '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 'unsigned int'} [-Wsign-compare] + 156 | if (mBlockCount != mBlockStartsT.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/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_handle.cpp:36: @@ -25835,14 +25856,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_handle.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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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] @@ -25859,6 +25872,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_handle.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: /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] @@ -25915,32 +25936,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -25957,19 +25952,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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.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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -25990,14 +25972,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: '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/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] @@ -26034,13 +26008,90 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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': +/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: 'unsigned int' and 'int' [-Wsign-compare] + 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 92 | mColName + mColScore != -6); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~ +/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 'unsigned int'} and 'int' [-Wsign-compare] + 484 | if (blockSizes.size() != blockCount) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ +/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 '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++/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: '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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/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_custom.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_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': +/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: '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] @@ -26053,7 +26104,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/bed_autosql_standard.cpp:41: +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++/src/objtools/readers/bed_autosql_standard.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: 'unsigned int' and 'int' [-Wsign-compare] 91 | return (mColChrom + mColSeqStart + mColSeqStop + mColStrand + @@ -26097,27 +26154,6 @@ /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 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/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: -/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_custom.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_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': -/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: '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/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] @@ -26161,7 +26197,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbiapp.hpp:43, +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/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/ucscregion_reader.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()) @@ -26271,21 +26314,21 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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 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 -Wno/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 > >&)': +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 unsigned int' [-Wsign-compare] 877 | for (int i=0; i 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/object_manager.cpp:41: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ 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; @@ -26365,6 +26371,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/object_manager.cpp:41: +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] @@ -26401,22 +26415,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -26445,10 +26443,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +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/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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; | ^~~~~~~~ @@ -26456,22 +26477,31 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/readers/mod_reader.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/feature_mod_apply.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++/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; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-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/feature_mod_apply.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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26507,33 +26537,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/object_manager.cpp -o object_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/seq_vector.cpp -o seq_vector.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_vector_ci.cpp -o seq_vector_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/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-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; - | ^~~~~~~~ +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_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/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/feature_mod_apply.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++/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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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/readers/feature_mod_apply.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26561,21 +26597,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -26605,14 +26626,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_type_index.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] @@ -26640,6 +26653,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] @@ -26656,13 +26684,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -26697,6 +26718,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -26755,7 +26791,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:34: +blast+-2.12.0+ds/c++/BUILD/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++/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; | ^~~~~~~~ @@ -26781,14 +26824,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/src/objmgr/annot_collector.cpp:43: +openmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -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/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; | ^~~~~~~~ @@ -26804,33 +26846,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -openmp -specs=/usr/share/dpkg/no-pie-link.specs -Wl,-z,relro -Wl,-z,now -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/annot_collector.cpp:53: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/annot_collector.cpp:56: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -26857,34 +26872,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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] - 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_feat_handle.hpp:36: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:53: /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; | ^~~~~~~~ @@ -26898,7 +26886,7 @@ 65 | 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_feat_handle.cpp:40: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/annot_collector.cpp:56: /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; | ^~~~~~~~ @@ -26906,8 +26894,7 @@ 65 | 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: + 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] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -26917,8 +26904,7 @@ 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/seq_graph_handle.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/seq_graph_handle.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -26934,8 +26920,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_feat_handle.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; | ^~~~~~~~ @@ -26980,6 +26979,43 @@ | ^~~~~~~~ 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++/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/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; @@ -27051,6 +27087,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] @@ -27087,9 +27148,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/tse_assigner.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; +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/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, @@ -27097,9 +27165,46 @@ from /build/reproducible-path/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/objmgr/impl/scope_impl.hpp:43: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27131,31 +27236,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; @@ -27163,48 +27252,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/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++/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -27217,46 +27278,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27294,22 +27328,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/bioseq_set_edit_commands.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_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_set_edit_commands.hpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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] @@ -27326,21 +27344,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; +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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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_set_edit_commands.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/bioseq_set_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_set_edit_commands.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27485,80 +27521,62 @@ /bin/ln -f .xobjmgr.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjmgr.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' 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 -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqdb UNIX_PROJ="" sources= configurables=configurables.null -cd objmgr/util/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=util UNIX_PROJ="" sources= configurables=configurables.null -cd algo/dustmask/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgodustmask UNIX_PROJ="" sources= configurables=configurables.null -cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/blast/seqdb_reader/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqdb UNIX_PROJ="" sources= configurables=configurables.null +cd objmgr/util/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=util UNIX_PROJ="" sources= configurables=configurables.null +cd algo/dustmask/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgodustmask UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/data_loaders/genbank/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader UNIX_PROJ="" sources= configurables=configurables.null +cd algo/segmask/ && /usr/bin/make -w -j5 --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/blast/seqdb_reader' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd algo/segmask/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgosegmask UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd objmgr/split/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=id2_split UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' +make[4]: warning: -j5 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' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' -make[4]: warning: -j6 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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 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/objmgr/split' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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]: 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]: 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. 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]: 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/algo/dustmask' 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/split' -make[5]: warning: -j6 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: -j6 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]: warning: -j5 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: -j5 forced in submake: resetting jobserver mode. 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/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/algo/dustmask TMPL=xalgodustmask -w -j5 --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_reader TMPL=seqdb -w -j5 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -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 -j6 --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 -j5 --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 -j5 --jobserver-auth=7,8 all make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' -make[5]: warning: -j6 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 -j6 --jobserver-auth=7,8 all +make[5]: warning: -j5 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 -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 -j6 --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 -j6 --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 -j6 --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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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/dpkIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/weight.cpp:36: +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/segmask TMPL=xalgosegmask -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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; | ^~~~~~~~ @@ -27570,27 +27588,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/src/objtools/data_loaders/genbank/reader_snp.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; +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/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_snp.cpp:32: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27598,50 +27605,43 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbatlas.cpp:269:16: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=] 269 | catch(std::bad_alloc) { | ^~~~~~~~~ -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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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/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/algo/dustmask/symdust.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp: In function 'void ncbi::SeqDB_ReadBinaryGiList(const std::string&, std::vector&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp:830:26: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] - 830 | if (((endp - beginp) < 2U) - | ~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp: In function 'void ncbi::SeqDB_ReadMemoryPigList(const char*, const char*, std::vector&, bool*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp:1021:32: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] - 1021 | if (((bendp - bbeginp) < 2U) - | ~~~~~~~~~~~~~~~~~~^~~~ -/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) - | ~~~~~~~~~~~^~~~~~~~~~~~~ -/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/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; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27676,16 +27676,10 @@ | ^~~~~~~~ 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/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++/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27701,80 +27695,60 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:214:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 214 | std::auto_ptr< CSymDustMasker::TMaskList > + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/serial/objistr.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:33: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp: In member function 'std::auto_ptr > > ncbi::CSymDustMasker::operator()(const sequence_type&, size_type, size_type)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:218:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 218 | std::auto_ptr< TMaskList > res( new TMaskList ); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/iterator.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/seqtitle.cpp:34: +/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 > + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/dustmask/symdust.cpp: In member function 'void ncbi::CSymDustMasker::GetMaskedLocs(ncbi::objects::CSeq_id&, const sequence_type&, std::vector >&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:299:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 299 | std::auto_ptr< TMaskList > res = (*this)( seq ); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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: + 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; | ^~~~~~~~ @@ -27784,43 +27758,52 @@ from /build/reproducible-path/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/writer.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/processors.cpp:34: +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; + | ^~~~~~~~ +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; | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/rwstream.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp: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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; | ^~~~~~~~ @@ -27830,16 +27813,7 @@ 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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/reader.hpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27852,40 +27826,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:214:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 214 | std::auto_ptr< CSymDustMasker::TMaskList > - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp: In member function 'std::auto_ptr > > ncbi::CSymDustMasker::operator()(const sequence_type&, size_type, size_type)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:218:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 218 | std::auto_ptr< TMaskList > res( new TMaskList ); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 > - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp: In member function 'void ncbi::CSymDustMasker::GetMaskedLocs(ncbi::objects::CSeq_id&, const sequence_type&, std::vector >&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/dustmask/symdust.cpp:299:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 299 | std::auto_ptr< TMaskList > res = (*this)( seq ); - | ^~~~~~~~ +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; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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: @@ -27895,44 +27843,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 ); - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/data_loaders/genbank/impl/dispatcher.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-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++/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; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -27957,29 +27897,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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/processors.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/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/rwstream.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/processors.cpp:32: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -27992,34 +27937,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -28035,26 +27961,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -28073,50 +27979,47 @@ | ^~~~~~~~ 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: + 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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-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; +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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, @@ -28127,27 +28030,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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) { + | ^~~~~~~~~~~~~~~~~~~~ /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, | ^~~~~~~~ @@ -28187,38 +28073,49 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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/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, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/include/objmgr/split/blob_splitter_impl.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/util/sequence.cpp: In function 'ncbi::CRef ncbi::objects::sequence::SourceToProduct(const ncbi::objects::CSeq_feat&, const ncbi::objects::CSeq_loc&, TS2PFlags, ncbi::objects::CScope*, int*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:703:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 703 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CRef ncbi::objects::sequence::ProductToSource(const ncbi::objects::CSeq_feat&, const ncbi::objects::CSeq_loc&, TP2SFlags, ncbi::objects::CScope*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:746:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 746 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:751:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] + 751 | } catch (CObjmgrUtilException) { + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'void ncbi::objects::sequence::GetOverlappingFeatures(const ncbi::objects::CSeq_loc&, ncbi::objects::CSeqFeatData_Base::E_Choice, ncbi::objects::CSeqFeatData::ESubtype, EOverlapType, TFeatScores&, ncbi::objects::CScope&, TBestFeatOpts, CGetOverlappingFeaturesPlugin*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:969:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 969 | auto_ptr feat_it_ptr; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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[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 -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++/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, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28229,24 +28126,18 @@ /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 -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/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 -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 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/bin/g++ -std=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CConstRef ncbi::objects::sequence::GetBestCdsForMrna(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, TBestFeatOpts, CGetOverlappingFeaturesPlugin*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:1771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1771 | auto_ptr cds_plugin( | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:89: +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' +cd objmgr/split/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +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, | ^~~~~~~~ @@ -28259,6 +28150,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' +make[5]: warning: -j5 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/objmgr/split' +make[5]: warning: -j5 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++/BUILD/build/Makefile.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split TMPL=id2_split -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 '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] 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/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 @@ -28266,7 +28185,16 @@ /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 /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/processors.cpp: In static member function 'static ncbi::CObjectIStream* ncbi::objects::CProcessor_ID2::x_OpenDataStream(const ncbi::objects::CID2_Reply_Data&)': +/usr/bin/g++ -std=gnu++14 -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/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 -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/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())); | ^~~~~~~~ @@ -28305,25 +28233,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CRef ncbi::objects::sequence::SourceToProduct(const ncbi::objects::CSeq_feat&, const ncbi::objects::CSeq_loc&, TS2PFlags, ncbi::objects::CScope*, int*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:703:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 703 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CRef ncbi::objects::sequence::ProductToSource(const ncbi::objects::CSeq_feat&, const ncbi::objects::CSeq_loc&, TP2SFlags, ncbi::objects::CScope*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:746:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 746 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:751:18: warning: catching polymorphic type 'class ncbi::objects::CObjmgrUtilException' by value [-Wcatch-value=] - 751 | } catch (CObjmgrUtilException) { - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'void ncbi::objects::sequence::GetOverlappingFeatures(const ncbi::objects::CSeq_loc&, ncbi::objects::CSeqFeatData_Base::E_Choice, ncbi::objects::CSeqFeatData::ESubtype, EOverlapType, TFeatScores&, ncbi::objects::CScope&, TBestFeatOpts, CGetOverlappingFeaturesPlugin*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:969:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 969 | auto_ptr feat_it_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:86: +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, | ^~~~~~~~ @@ -28336,120 +28246,193 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ +/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 'unsigned int' [-Wsign-compare] + 3599 | for (int i = 0; i < sizeof (mixedTags); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp: In member function 'void ncbi::objects::CWordPairIndexer::PopulateWordPairIndex(std::string)': +/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 'unsigned int'} [-Wsign-compare] + 3676 | for (int i = 0; i < str.length(); i++) { + | ~~^~~~~~~~~~~~~~ +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/dpk/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp: In function 'void ncbi::SeqDB_ReadBinaryGiList(const std::string&, std::vector&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp:830:26: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] + 830 | if (((endp - beginp) < 2U) + | ~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp: In function 'void ncbi::SeqDB_ReadMemoryPigList(const char*, const char*, std::vector&, bool*)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbcommon.cpp:1021:32: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] + 1021 | if (((bendp - bbeginp) < 2U) + | ~~~~~~~~~~~~~~~~~~^~~~ +/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++/src/objtools/data_loaders/genbank/reader_snp.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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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_snp.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp: In function 'ncbi::CConstRef ncbi::objects::sequence::GetBestCdsForMrna(const ncbi::objects::CSeq_feat&, ncbi::objects::CScope&, TBestFeatOpts, CGetOverlappingFeaturesPlugin*)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/sequence.cpp:1771:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1771 | auto_ptr cds_plugin( +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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_impl.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 'unsigned int' [-Wsign-compare] - 3599 | for (int i = 0; i < sizeof (mixedTags); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/indexer.cpp: In member function 'void ncbi::objects::CWordPairIndexer::PopulateWordPairIndex(std::string)': -/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 'unsigned int'} [-Wsign-compare] - 3676 | for (int i = 0; i < str.length(); i++) { - | ~~^~~~~~~~~~~~~~ -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 -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 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 '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] -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, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 'unsigned int'} [-Wsign-compare] - 2146 | if (offset > 0 && offset < m_MainTitle.length()) { - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/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_SetTitleFromProtein(const ncbi::objects::CBioseq_Handle&)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2350:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} [-Wsign-compare] - 2350 | if (offset > 0 && offset < m_MainTitle.length()) { - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In function 'size_t s_TitleEndsInOrganism(std::string&, ncbi::CTempString)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2986:17: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] - 2986 | if (pos == idx + 2) { - | ~~~~^~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'std::string ncbi::objects::sequence::CDeflineGenerator::GenerateDefline(const ncbi::objects::CBioseq_Handle&, TUserFlags)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:3966:23: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] - 3966 | for (int i = 0; i < sizeof (s_tpaPrefixList) / sizeof (const char*); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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_FILE/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)': +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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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) { | ^~~~~~~~~~~~~~~~ -/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; - | ~~~~~~~~~^~~~ -/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; - | ^~~~~~~ -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++/include/objmgr/impl/tse_loadlock.hpp: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/scope.hpp:51, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/split/blob_splitter_maker.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/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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_maker.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] @@ -28490,7 +28473,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +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_FILEIn 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, @@ -28511,6 +28501,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ~~~~~~~~~^~~~ 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: @@ -28520,6 +28517,55 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~ +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, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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 'unsigned int'} [-Wsign-compare] + 2146 | if (offset > 0 && offset < m_MainTitle.length()) { + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/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_SetTitleFromProtein(const ncbi::objects::CBioseq_Handle&)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2350:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} [-Wsign-compare] + 2350 | if (offset > 0 && offset < m_MainTitle.length()) { + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In function 'size_t s_TitleEndsInOrganism(std::string&, ncbi::CTempString)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:2986:17: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare] + 2986 | if (pos == idx + 2) { + | ~~~~^~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp: In member function 'std::string ncbi::objects::sequence::CDeflineGenerator::GenerateDefline(const ncbi::objects::CBioseq_Handle&, TUserFlags)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/create_defline.cpp:3966:23: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] + 3966 | for (int i = 0; i < sizeof (s_tpaPrefixList) / sizeof (const char*); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -28553,22 +28599,6 @@ 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; @@ -28582,6 +28612,48 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/seqref.cpp -o seqref.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 -o blob_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/data_loaders/genbank/request_result.cpp -o request_result.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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_id1_base.cpp -o reader_id1_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/objtools/data_loaders/genbank/reader_id2_base.cpp -o reader_id2_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/objtools/data_loaders/genbank/reader_service.cpp -o reader_service.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reprg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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 /usr/include/c++/13/algorithm:60, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:180: +In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Up = ncbi::objects::feature::CFeatTree::CFeatInfo*; bool _IsMove = false]', + inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = ncbi::objects::feature::CFeatTree::CFeatInfo**; _OI = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, + inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = ncbi::objects::feature::CFeatTree::CFeatInfo**; _OI = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, + inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = __gnu_cxx::__normal_iterator >; _OI = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_algobase.h:540:31, + inlined from '_OI std::copy(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator >; _OI = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_algobase.h:633:7, + inlined from 'static _ForwardIterator std::__uninitialized_copy::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_uninitialized.h:147:27, + inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, + inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::objects::feature::CFeatTree::CFeatInfo**; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*]' at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, + inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/vector.tcc:814:38, + inlined from 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1486:19, + inlined from 'void ncbi::objects::feature::CFeatTree::x_AssignGenes()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:2911:25: +/usr/include/c++/13/bits/stl_algobase.h:437:30: warning: 'void* __builtin_memmove(void*, const void*, unsigned int)' writing between 5 and 2147483644 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=] + 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/i386-linux-gnu/c++/13/bits/c++allocator.h:33, + from /usr/include/c++/13/bits/allocator.h:46, + from /usr/include/c++/13/string:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:216: +In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*]', + inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, + inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, + inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, + inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/vector.tcc:805:40, + inlined from 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1486:19, + inlined from 'void ncbi::objects::feature::CFeatTree::x_AssignGenes()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:2911:25: +/usr/include/c++/13/bits/new_allocator.h:151:55: note: at offset [-2147483648, -1] into destination object of size [4, 2147483644] allocated by 'operator new' + 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); + | ^ 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, @@ -28603,13 +28675,37 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/seqref.cpp -o seqref.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 -o blob_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/data_loaders/genbank/request_result.cpp -o request_result.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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_id1_base.cpp -o reader_id1_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/objtools/data_loaders/genbank/reader_id2_base.cpp -o reader_id2_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/objtools/data_loaders/genbank/reader_service.cpp -o reader_service.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reprIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/data_loader.hpp:38, +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] @@ -28618,6 +28714,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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); + | ^~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -28643,13 +28743,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/util/indexer.hpp: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/objmgr/util/seq_loc_util.cpp:51: @@ -28705,10 +28799,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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); - | ^~~~~~~~~~~ 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, @@ -28731,60 +28821,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /usr/include/c++/13/algorithm:60, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:180: -In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Up = ncbi::objects::feature::CFeatTree::CFeatInfo*; bool _IsMove = false]', - inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = false; _II = ncbi::objects::feature::CFeatTree::CFeatInfo**; _OI = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, - inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = false; _II = ncbi::objects::feature::CFeatTree::CFeatInfo**; _OI = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, - inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = false; _II = __gnu_cxx::__normal_iterator >; _OI = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_algobase.h:540:31, - inlined from '_OI std::copy(_II, _II, _OI) [with _II = __gnu_cxx::__normal_iterator >; _OI = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_algobase.h:633:7, - inlined from 'static _ForwardIterator std::__uninitialized_copy::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_uninitialized.h:147:27, - inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::objects::feature::CFeatTree::CFeatInfo**]' at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, - inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ncbi::objects::feature::CFeatTree::CFeatInfo**; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*]' at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, - inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/vector.tcc:814:38, - inlined from 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1486:19, - inlined from 'void ncbi::objects::feature::CFeatTree::x_AssignGenes()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:2911:25: -/usr/include/c++/13/bits/stl_algobase.h:437:30: warning: 'void* __builtin_memmove(void*, const void*, unsigned int)' writing between 5 and 2147483644 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=] - 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/i386-linux-gnu/c++/13/bits/c++allocator.h:33, - from /usr/include/c++/13/bits/allocator.h:46, - from /usr/include/c++/13/string:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:216: -In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*]', - inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*]' at /usr/include/c++/13/bits/alloc_traits.h:482:28, - inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:381:33, - inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:378:7, - inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/vector.tcc:805:40, - inlined from 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = ncbi::objects::feature::CFeatTree::CFeatInfo*; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1486:19, - inlined from 'void ncbi::objects::feature::CFeatTree::x_AssignGenes()' at /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature.cpp:2911:25: -/usr/include/c++/13/bits/new_allocator.h:151:55: note: at offset [-2147483648, -1] into destination object of size [4, 2147483644] allocated by 'operator new' - 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); - | ^ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -28833,14 +28869,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' /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 ); @@ -28854,10 +28882,17 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/seqdbblob.cpp -o seqdbblob.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/seqdbcol.cpp -o seqdbcol.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/seqdbgimask.cpp -o seqdbgimask.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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_LARGIn 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/bioseqgaps_ci.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 -Wformat -Werror=format-security -fPIC -DNCBI_MODULE=BLASTDB -DNDEBUG -D_LARG /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 -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/seq_feat_handle.hpp:43, + from /build/reproducible-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; | ^~~~~~~~ @@ -28865,7 +28900,7 @@ 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++/src/objmgr/util/objutil.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28881,30 +28916,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +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/bioseqgaps_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; | ^~~~~~~~ @@ -28912,7 +28927,7 @@ 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/objmgr/util/objutil.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28948,9 +28963,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 unsigned int'} [-Wsign-compare] + 1752 | for (int possible_str_idx = 0; possible_str_idx < num_possible_tag_starts; ++possible_str_idx) { + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/util/feature_edit.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++/include/objmgr/seq_vector.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbobj.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; | ^~~~~~~~ @@ -28958,7 +28988,10 @@ 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/objmgr/util/feature_edit.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/blast/seqdb_reader/seqdbcommon.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/seqdbobj.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -28974,11 +29007,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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) + | ^~~~~~~~~~~~~~~~~~ _OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/obj_sniff.cpp -o obj_sniff.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/seq_loc_util.cpp -o seq_loc_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/objmgr/util/seq_align_util.cpp -o seq_align_util.o @@ -28986,13 +29029,9 @@ /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/objmgr/util/bioseqgaps_ci.cpp -o bioseqgaps_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/util/objutil.cpp -o objutil.o /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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_edit.cpp -o feature_edit.o -/usr/bin/g++ -std=gnu++14 -c -/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) - | ^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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_reader/seqdbobj.cpp:35: +/usr/bin/g++ -std=gnu++14 -c -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+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/util/feature_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; | ^~~~~~~~ @@ -29000,10 +29039,7 @@ 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++/src/objtools/blast/seqdb_reader/seqdbobj.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/feature_edit.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29046,6 +29082,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -29061,6 +29119,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -29073,10 +29144,44 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +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 -j5 --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: -j5 forced in submake: resetting jobserver mode. +cd objtools/data_loaders/genbank/id1/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xreader_id1 UNIX_PROJ="" sources= configurables=configurables.null +cd objtools/data_loaders/genbank/id2/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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/id1' +make[5]: warning: -j5 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: -j5 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' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' +make[5]: warning: -j5 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: -j5 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: -j5 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 -j5 --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 -j5 --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/id2 TMPL=ncbi_xreader_id2 -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/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; | ^~~~~~~~ @@ -29124,45 +29229,6 @@ | ^~~~~~~~ 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/src/objmgr/util/autodef_mod_combo.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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] @@ -29188,30 +29254,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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; - | ^~~~~ -/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) { - | ^~~~~~~~~~ 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 @@ -29222,204 +29286,264 @@ /bin/ln -f libseqdb.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libseqdb.so /bin/ln -f .seqdb.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.seqdb.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ 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 -j6 --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 -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=writedb UNIX_PROJ="" sources= configurables=configurables.null -cd objtools/blast/services/unit_test/ && /usr/bin/make -w -j6 --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/seqdb_writer' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=ncbi_xloader_blastdb 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: -j6 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/unit_test' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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/blast/seqdb_writer' -make[5]: warning: -j6 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/blast/services/unit_test' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: 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 -j6 --jobserver-auth=7,8 all 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/services/unit_test' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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]: warning: -j5 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.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 -j6 --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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/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/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] - 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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/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 -j5 --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/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/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/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; + | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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.hpp:38: + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/data_loaders/blastdb/bdbloader.cpp:34: + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/objtools/data_loaders/blastdb/bdbloader.hpp:38: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objmgr/util/autodef_mod_combo.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/objmgr/util/autodef.hpp: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/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++/src/objmgr/util/autodef_mod_combo.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29435,6 +29559,47 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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.hpp:38: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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.hpp:38: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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; + | ^~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/autodef_source_group.cpp:37: @@ -29452,14 +29617,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/rIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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_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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/src/objmgr/util/autodef_feature_clause.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; | ^~~~~~~~ @@ -29467,11 +29640,7 @@ 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_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++/include/objmgr/util/autodef.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29487,24 +29656,70 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -eproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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, + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 +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 -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/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.a /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xreader_id2.a +/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 +/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 +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/seqdb_writer/ && /usr/bin/make -w -j5 --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: -j5 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[5]: warning: -j5 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/blast/seqdb_writer' +make[5]: warning: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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 -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' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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_files.cpp:34: + 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; | ^~~~~~~~ @@ -29512,12 +29727,11 @@ 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_volume.hpp:41: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29556,6 +29770,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/blast/services/unit_test/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=blast_services_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; | ^~~~~~~~ @@ -29568,26 +29784,157 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' +make[4]: warning: -j5 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/unit_test' +make[5]: warning: -j5 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/services/unit_test' +make[5]: warning: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 -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/blastdb/ && /usr/bin/make -w -j5 --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: -j5 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]: warning: -j5 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: -j5 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' +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/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] + 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()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +/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 -j5 --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++/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_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; | ^~~~~~~~ @@ -29595,11 +29942,12 @@ 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_gimask.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29615,31 +29963,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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 -j6 --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 -j6 --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: -j6 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/cache' -make[4]: warning: -j6 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: -j6 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' +/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]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 -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' -/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 -j6 --jobserver-auth=7,8 all +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 -j5 --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: -j5 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/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: + 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; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, @@ -29648,7 +30005,7 @@ 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_volume.hpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/writedb.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29664,48 +30021,234 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j6 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/id1' -make[5]: warning: -j6 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]: warning: -j6 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/id1 TMPL=ncbi_xreader_id1 -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -29740,68 +30283,65 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; +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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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_gIn 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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, @@ -29812,39 +30352,48 @@ 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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/genbank/gbloader.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: + 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; | ^~~~~~~~ @@ -29857,79 +30406,116 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 +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 +/usr/bin/g++ -std=gnu++14 -shared -o libxobjutil.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 -gdwarf-3 -O2 -fPIC weight.o sequence.o feature.o indexer.o seqtitle.o create_defline.o obj_sniff.o seq_loc_util.o seq_align_util.o seq_trimmer.o bioseqgaps_ci.o objutil.o feature_edit.o autodef.o autodef_feature_clause_base.o autodef_source_desc.o autodef_available_modifier.o autodef_mod_combo.o autodef_source_group.o autodef_feature_clause.o autodef_options.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 -lseqset -lseq -lpub -lbiblio -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 libxobjutil.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/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' +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 -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqmasks_io 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: -j5 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: -j5 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/seqmasks_io' +make[5]: warning: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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_gimask.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -29964,35 +30550,70 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -imask.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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_convert.cpp -o writedb_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 -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_general.cpp -o writedb_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 -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_column.cpp -o writedb_column.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/mask_info_registry.cpp -o mask_info_registry.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/taxid_set.cpp -o taxid_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=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/build_db.cpp -o build_db.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefmake[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 -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/data_loaders/genbank/id2/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -30027,26 +30648,72 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -/usr/bin/g++ -std=gnu++14 -shared -o libxobjutil.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 -gdwarf-3 -O2 -fPIC weight.o sequence.o feature.o indexer.o seqtitle.o create_defline.o obj_sniff.o seq_loc_util.o seq_align_util.o seq_trimmer.o bioseqgaps_ci.o objutil.o feature_edit.o autodef.o autodef_feature_clause_base.o autodef_source_desc.o autodef_available_modifier.o autodef_mod_combo.o autodef_source_group.o autodef_feature_clause.o autodef_options.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 -lseqset -lseq -lpub -lbiblio -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 libxobjutil.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/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' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -cd objtools/data_loaders/blastdb/ && /usr/bin/make -w -j6 --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: -j6 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]: warning: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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_bdb_reader.cpp -o mask_bdb_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/seqmasks_io/mask_fasta_reader.cpp -o mask_fasta_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/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=.imask.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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_convert.cpp -o writedb_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 -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_general.cpp -o writedb_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 -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_column.cpp -o writedb_column.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/mask_info_registry.cpp -o mask_info_registry.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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/taxid_set.cpp -o taxid_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=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/build_db.cpp -o build_db.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefIn 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, @@ -30065,7 +30732,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j6 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' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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 -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' +cd algo/blast/dbindex/ && /usr/bin/make -w -j5 --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/algo/blast/dbindex' +make[4]: warning: -j5 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: -j5 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; @@ -30073,15 +30754,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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) - | ^~~~~~~~~~~ +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/algo/blast/dbindex' +make[5]: warning: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blast/seqdb_writer/build_db.cpp:45: @@ -30103,37 +30781,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp: In constructor 'ncbi::CFastaBioseqSource::CFastaBioseqSource(ncbi::CNcbiIstream&, bool, bool, bool)': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_writer/build_db.cpp:709:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] 709 | int iflags = CFastaReader::fAllSeqIds | @@ -30159,22 +30806,6 @@ /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) | ^~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ 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 -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 @@ -30182,187 +30813,122 @@ /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/edit/ && /usr/bin/make -w -j6 --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/edit' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -make[5]: warning: -j6 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/edit' -make[5]: warning: -j6 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/objtools/edit TMPL=edit -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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_rmt.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/data_loaders/blastdb/bdbloader_rmt.cpp:34: +cd objtools/alnmgr/ && /usr/bin/make -w -j5 --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/objtools/alnmgr' +make[4]: warning: -j5 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: -j5 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/alnmgr' +make[5]: warning: -j5 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/alnmgr TMPL=alnmgr -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/dbindex_factory.cpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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/blast/gene_info_reader/demo/ && /usr/bin/make -w -j6 --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/blast/gene_info_reader/demo' -make[4]: warning: -j6 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: -j6 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/gene_info_reader/demo' -make[5]: warning: -j6 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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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()) - | ^ -/build/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/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; + -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 +/bin/rm -f libseqmasks_io.so .libseqmasks_io.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libseqmasks_io.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 -gdwarf-3 -O2 -fPIC mask_cmdline_args.o mask_bdb_reader.o mask_fasta_reader.o mask_writer.o mask_writer_fasta.o mask_writer_int.o mask_writer_tab.o mask_writer_seqloc.o mask_writer_blastdb_maskinfo.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 -lxobjutil -lxobjmgr -lblastdb -lseqset -lseq -lxser -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 libseqmasks_io.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/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' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' +cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastdb_format 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: -j5 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: -j5 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' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' +make[5]: warning: -j5 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.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format TMPL=blastdb_format -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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/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/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/readers/fasta.hpp:36: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp:52:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 52 | 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/algo/blast/dbindex/sequence_istream_fasta.cpp:52:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] + 52 | 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.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30378,33 +30944,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -/bin/rm -f libncbi_xreader_cache.so .libncbi_xreader_cache.so.stamp -ar cr libncbi_xreader_cache.a reader_cache.o writer_cache.o -/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 -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/blast/seqdb_reader/demo/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j6 --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: -j6 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: -j6 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: -j6 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' -/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 -j6 --jobserver-auth=7,8 all +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/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_converters.hpp:46, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.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; | ^~~~~~~~ @@ -30412,7 +30972,10 @@ 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/field_handler.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/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_converters.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30428,51 +30991,86 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp: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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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/objtools/alnmgr/aln_builders.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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); +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-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++/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; | ^~~~~~~~ @@ -30480,7 +31078,10 @@ 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/promote.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30496,10 +31097,54 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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 -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_xreader_id2 -lncbi_xreaIn 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: + 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/seq_writer.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; | ^~~~~~~~ @@ -30507,7 +31152,12 @@ 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/gene_utils.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_writer.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30523,8 +31173,46 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/apply_object.cpp:39: +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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -30532,7 +31220,45 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30548,6 +31274,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +der -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 +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_genbank.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libncbi_xloader_genbank.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_genbank.so +/bin/ln -f .ncbi_xloader_genbank.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_genbank.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/edit/ && /usr/bin/make -w -j5 --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/edit' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' +make[5]: warning: -j5 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/edit' +make[5]: warning: -j5 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/objtools/edit TMPL=edit -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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: @@ -30559,8 +31305,35 @@ | ^~~~~~~~ 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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=/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -30581,8 +31354,7 @@ | ^~~~~~~~ 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; | ^~~~~~~~ @@ -30613,6 +31385,233 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 { + | ^~~~~~~~~~~~~~~~~~~ +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 -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 objtools/simple/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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/simple' +make[5]: warning: -j5 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 -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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/field_handler.cpp:32: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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 '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/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/alnmapprint.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -30629,6 +31628,88 @@ 940 | static void TranslateCdregion(string& prot, | ^~~~~~~~~~~~~~~~~ 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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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 algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 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/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] @@ -30654,29 +31735,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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/blast/seqdb_reader/test/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j6 --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/test' -make[4]: warning: -j6 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/test' -make[5]: warning: -j6 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: -j6 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.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test TMPL=seqdb_perf -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp: In member function 'ncbi::objects::CAlnMap::TSegTypeFlags ncbi::objects::CAlnMap::x_SetRawSegType(TNumrow, TNumseg) const': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:152:45: warning: 'l_anchor_index' may be used uninitialized [-Wmaybe-uninitialized] + 152 | anchor_start = m_Starts[anchor_index]; + | ^ 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: + 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()) | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:129:19: note: 'l_anchor_index' was declared here + 129 | TNumseg l_anchor_index, r_anchor_index, anchor_index; + | ^~~~~~~~~~~~~~ /build/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__ | ^~~~~~~~ @@ -30782,6 +31865,45 @@ /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/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] + 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/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/objtools/simple/simple_om.hpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -30792,14 +31914,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/promote.cpp -o promote.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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=fo/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] +/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++/13/bits/unique_ptr.h:65:28: note: declared here @@ -30850,90 +31965,12 @@ /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 && | ~~~~~~~~~~^~~~~~~~~~~ -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 -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/seqmasks_io/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=seqmasks_io 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: -j6 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: -j6 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/seqmasks_io' -make[5]: warning: -j6 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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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 '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 'int'} and 'std::vector::size_type' {aka '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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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' -cd algo/blast/dbindex/ && /usr/bin/make -w -j6 --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/algo/blast/dbindex' -make[4]: warning: -j6 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: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[5]: warning: -j6 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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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_bdb_reader.cpp -o mask_bdb_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/seqmasks_io/mask_fasta_reader.cpp -o mask_fasta_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/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/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++/src/objtools/edit/seqid_guesser.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/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; | ^~~~~~~~ @@ -30942,9 +31979,9 @@ 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/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30960,10 +31997,48 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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)) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/promote.cpp -o promote.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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: + 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; | ^~~~~~~~ @@ -30971,7 +32046,10 @@ 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/string_constraint.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/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -30987,64 +32065,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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, - | ^~~~ -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 -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/alnmgr/ && /usr/bin/make -w -j6 --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/objtools/alnmgr' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -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 -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 objtools/data_loaders/genbank/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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/alnmgr' -make[5]: warning: -j6 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/data_loaders/genbank' -make[5]: warning: -j6 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: -j6 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 -j6 --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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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/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++/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; | ^~~~~~~~ @@ -31053,9 +32080,9 @@ 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/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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31071,23 +32098,68 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' +cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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' +/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) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/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 -j5 --jobserver-auth=7,8 all +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 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' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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 -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 app/dustmasker/ && /usr/bin/make -w -j5 --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: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/app/dustmasker' +make[5]: warning: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/data_loaders/genbank/gbloader.cpp:66: + 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()) | ^ @@ -31197,7 +32269,8 @@ 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/objtools/data_loaders/genbank/gbnative.cpp:64: + 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/dust_mask_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()) | ^ @@ -31306,10 +32379,125 @@ /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++/src/objtools/seqmasks_io/mask_writer_fasta.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/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] + 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()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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++/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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -31317,10 +32505,7 @@ 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/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++/src/objtools/edit/apply_object.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31336,61 +32521,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/src/objtools/seqmasks_io/mask_writer.cpp:38: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31406,80 +32548,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31495,75 +32581,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/dbindex/sequence_istream_fasta.cpp:52:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 52 | 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/algo/blast/dbindex/sequence_istream_fasta.cpp:52:32: warning: 'ncbi::objects::CFastaReader::fAllSeqIds' is deprecated: This flag is no longer used in CFastaReader. [-Wdeprecated-declarations] - 52 | 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/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 -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[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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -cd objtools/blast/blastdb_format/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastdb_format 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: -j6 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++/src/algo/blast/dbindex/dbindex_factory.cpp:41: + 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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31579,18 +32610,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[5]: warning: -j6 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' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[5]: warning: -j6 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.lib.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format TMPL=blastdb_format -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/text_desc_field.hpp:35, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/text_desc_field.cpp:41: + 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; | ^~~~~~~~ @@ -31598,7 +32621,10 @@ 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/text_desc_field.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31614,13 +32640,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/src/algo/blast/dbindex/dbindex.cpp:42: + 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/alnsegments.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.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/alnmgr/alnsegments.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31638,7 +32687,9 @@ | ^~~~~~~~ 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++/src/objtools/alnmgr/aln_generators.cpp:47: + 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; | ^~~~~~~~ @@ -31646,10 +32697,11 @@ 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/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31665,33 +32717,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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-paIn 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/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/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; | ^~~~~~~~ @@ -31699,7 +32729,11 @@ 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/objtools/alnmgr/aln_builders.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31715,99 +32749,55 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_converters.hpp:46, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/aln_converters.cpp:51: +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; | ^~~~~~~~ @@ -31815,10 +32805,12 @@ 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/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_converters.cpp: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31834,105 +32826,60 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~ -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++/src/objtools/alnmgr/alnmerger.cpp: In member function 'void ncbi::objects::CAlnMixMerger::x_Merge()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:691:40: warning: 'second_row_fits' may be used uninitialized [-Wmaybe-uninitialized] + 691 | second_row_fits != eIgnoreMatch) { + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:155:20: note: 'second_row_fits' was declared here + 155 | TSecondRowFits second_row_fits; + | ^~~~~~~~~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +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, + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/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; | ^~~~~~~~ @@ -31940,7 +32887,10 @@ 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/gb_block_field.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -31956,94 +32906,99 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; +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/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 ); | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/app/dustmasker/dust_mask_app.cpp: At global scope: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:221:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 221 | std::auto_ptr< CSymDustMasker::TMaskList > + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/app/dustmasker/dust_mask_app.cpp: In function 'std::auto_ptr > > ncbi::GetDustMasks_SkipNs(objects::CSeqVector&, Uint4, Uint4, Uint4)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:230:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 230 | std::auto_ptr< CSymDustMasker::TMaskList > rv(new CSymDustMasker::TMaskList); + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 '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/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/seq_writer.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++/src/app/dustmasker/dust_mask_app.cpp:239:22: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 239 | std::auto_ptr< CSymDustMasker::TMaskList > s_mask = duster(seq, seq_start, itr->first -1); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:254:22: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 254 | std::auto_ptr< CSymDustMasker::TMaskList > s_mask = duster(seq, seq_start, seq.size() -1); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp: In member function 'virtual int ncbi::CDustMaskApplication::Run()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:282:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 282 | auto_ptr writer(x_GetWriter()); | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:301:18: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 301 | std::auto_ptr< duster_type::TMaskList > res = GetDustMasks_SkipNs(data, level, window, linker); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/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++/src/objtools/edit/struc_comm_field.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/src/objtools/blast/blastdb_format/blastdb_dataextract.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++/include/objtools/alnmgr/aln_explorer.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnvec_iterator.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.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/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++/src/objtools/alnmgr/alnvec_iterator.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32059,12 +33014,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -32072,12 +33025,7 @@ 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/text_desc_field.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32095,47 +33043,17 @@ | ^~~~~~~~ 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/edit/link_cds_mrna.cpp:45: + 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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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/RNA_ref_.hpp:43, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/RNA_ref.hpp:44, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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-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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32150,7 +33068,8 @@ 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/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/alnmapprint.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; | ^~~~~~~~ @@ -32164,19 +33083,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/alnmap.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -32189,157 +33096,144 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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 -/bin/rm -f libseqmasks_io.so .libseqmasks_io.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libseqmasks_io.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 -gdwarf-3 -O2 -fPIC mask_cmdline_args.o mask_bdb_reader.o mask_fasta_reader.o mask_writer.o mask_writer_fasta.o mask_writer_int.o mask_writer_tab.o mask_writer_seqloc.o mask_writer_blastdb_maskinfo.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 -lxobjutil -lxobjmgr -lblastdb -lseqset -lseq -lxser -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 libseqmasks_io.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/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' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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: -j6 forced in submake: resetting jobserver mode. +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-pamake[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 -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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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()); +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' +cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastdb_format/unit_test/seq_writer_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__ + | ^~~~~~~~ +/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/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/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/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/alnmgr/alnmap.cpp: In member function 'ncbi::objects::CAlnMap::TSegTypeFlags ncbi::objects::CAlnMap::x_SetRawSegType(TNumrow, TNumseg) const': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:152:45: warning: 'l_anchor_index' may be used uninitialized [-Wmaybe-uninitialized] - 152 | anchor_start = m_Starts[anchor_index]; - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmap.cpp:129:19: note: 'l_anchor_index' was declared here - 129 | TNumseg l_anchor_index, r_anchor_index, anchor_index; - | ^~~~~~~~~~~~~~ -/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 { - | ^~~~~~~~~~~~~~~~~~~ +/build/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++/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_formatter_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()) | ^ @@ -32448,37 +33342,17 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, +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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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: + 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; | ^~~~~~~~ @@ -32486,7 +33360,7 @@ 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/loc_edit.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/gb_block_field.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32505,9 +33379,10 @@ 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/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/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; | ^~~~~~~~ @@ -32516,9 +33391,9 @@ 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++/include/objtools/alnmgr/alnseq.hpp:37: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32534,60 +33409,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/src/objtools/edit/loc_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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/util/seq_loc_util.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.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; | ^~~~~~~~ @@ -32595,7 +33427,10 @@ 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/mail_report.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/seqfeat/RNA_ref_.hpp:43, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objects/seqfeat/RNA_ref.hpp:44, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/link_cds_mrna.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32611,74 +33446,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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.c/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' -/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, - | ^~~~~~~~ -cd algo/blast/unit_tests/seqdb_reader/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=seqdb_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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: -j6 forced in submake: resetting jobserver mode. -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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' -make[5]: warning: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -/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) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' +cd objtools/blast/gene_info_reader/demo/ && /usr/bin/make -w -j5 --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/blast/gene_info_reader/demo' +make[4]: warning: -j5 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: -j5 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/gene_info_reader/demo' +make[5]: warning: -j5 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' +/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) { + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/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 -j5 --jobserver-auth=7,8 all +/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]: warning: -j5 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/seqdb_reader/seqdb_unit_test.cpp:51: + 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()) | ^ @@ -32787,28 +33576,10 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.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; | ^~~~~~~~ @@ -32816,10 +33587,7 @@ 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/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/objtools/alnmgr/sparse_aln.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32835,12 +33603,63 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/gene_info_reader/demo/gene_info_reader_app.cpp: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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/feattable_edit.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_aln.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_ci.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_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/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/objtools/alnmgr/sparse_ci.hpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32856,19 +33675,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32884,11 +33746,65 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/src/objtools/edit/feattable_edit.cpp:47: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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 '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/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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_formatter.hpp:37: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, | ^~~~~~~~ @@ -32901,13 +33817,44 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 { + | ^~~~~~~~~~~~~~~~~~~ +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 -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/blast/seqdb_reader/demo/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j5 --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: -j5 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/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/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; | ^~~~~~~~ @@ -32915,10 +33862,7 @@ 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/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++/src/objtools/edit/loc_edit.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32934,13 +33878,212 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' +make[5]: warning: -j5 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' +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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' +make[5]: warning: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +/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), + | ^~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:124:9: note: in definition of macro 'BOOST_CHECK_THROW_IMPL_EX' + 124 | S; \ + | ^ +/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro 'BOOST_CHECK_THROW_IMPL' + 120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE ) + | ^~~~~~~~~~~~~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestInvalidFormatSpecifiers_Empty::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:122:57: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 122 | #define NcbiEmptyString NCBI_NS_NCBI::CNcbiEmptyString::Get() + | ^~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:124:9: note: in definition of macro 'BOOST_CHECK_THROW_IMPL_EX' + 124 | S; \ + | ^ +/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro 'BOOST_CHECK_THROW_IMPL' + 120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE ) + | ^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:123:19: note: in expansion of macro 'NcbiEmptyString' + 123 | #define kEmptyStr NcbiEmptyString + | ^~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:61:41: note: in expansion of macro 'kEmptyStr' + 61 | BOOST_REQUIRE_THROW(CSeqFormatter f(kEmptyStr, db, std::cout), + | ^~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestInvalidFormatSpecifiers_InvalidAlgoId::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:68:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 68 | 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 { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:70:40: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 70 | BOOST_REQUIRE_THROW(CSeqFormatter f("%m", db, std::cout, config), + | ^ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:124:9: note: in definition of macro 'BOOST_CHECK_THROW_IMPL_EX' + 124 | S; \ + | ^ +/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro 'BOOST_CHECK_THROW_IMPL' + 120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE ) + | ^~~~~~~~~~~~~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestValidFormatSpecifiers::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:77:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 77 | 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 { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:93:24: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 93 | CSeqFormatter f(*itr, db, std::cout, config); + | ^ +/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 + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:97:20: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 97 | CSeqFormatter f("%m", db, std::cout, config); + | ^ +/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 + | ^~~~~~~~~~~~~ +/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::TestRequestGiOidLength::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:108:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 108 | CSeqFormatter f(format_spec, db, out); + | ^~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestRequestSeqId::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:150:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 150 | CSeqFormatter f(format_spec, db, out); + | ^~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestRequestSeqIdLong::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:194:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 194 | CSeqFormatter f(format_spec, db, out); + | ^~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestRequestAccessionPIGTaxidTitle::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:227:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 227 | CSeqFormatter f(format_spec, db, out); + | ^~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestRequestGiGivenPIG::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:258:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 258 | CSeqFormatter f(format_spec, db, out); + | ^~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestRequestSequenceDataLength::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:283:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 283 | CSeqFormatter f(format_spec, db, out); + | ^~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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::TestMaskedFasta::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:313:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 313 | 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 { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:318:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 318 | CSeqFormatter f(format_spec, db, out, config); + | ^~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/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::TestMaskedSequenceData::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:357:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] + 357 | 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 { + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:360:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] + 360 | CSeqFormatter f(format_spec, db, out, config); + | ^~~~~~~~~~~ +/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 + | ^~~~~~~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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/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; | ^~~~~~~~ @@ -32948,10 +34091,7 @@ 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++/include/objtools/alnmgr/alnmap.hpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/mail_report.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -32967,18 +34107,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/alnsegments.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnsegments.cpp:35: + 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; | ^~~~~~~~ @@ -32986,9 +34118,7 @@ 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/alnsegments.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alntext.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -33004,22 +34134,23 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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/loc_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/seq_feat_handle.hpp:43, from /build/reproducible-path/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/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; | ^~~~~~~~ @@ -33027,10 +34158,10 @@ 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -33046,30 +34177,126 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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:1811:68, + 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(1) 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 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:1811:68, + 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(1) int*)((char*)&ext + offsetof(ncbi::CAlignRangeCollExtender > >,ncbi::CAlignRangeCollExtender > >::m_ToOpen))' 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++/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/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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -33085,6 +34312,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ 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 @@ -33092,53 +34332,53 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/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 -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/seqdb_writer/unit_test/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ +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 -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' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +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_reader/test/ && NCBI_BUT_EXPENDABLE=' (but expendable)' /usr/bin/make -w -j5 --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/test' +make[4]: warning: -j5 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/test' +make[5]: warning: -j5 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: -j5 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.app.tmpl srcdir=/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/seqdb_reader/test TMPL=seqdb_perf -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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: + 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()) | ^ @@ -33247,69 +34487,186 @@ /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' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 -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_xreader_id2 -lncbi_xrea/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp: In member function 'void ncbi::objects::CAlnMixMerger::x_Merge()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:691:40: warning: 'second_row_fits' may be used uninitialized [-Wmaybe-uninitialized] - 691 | second_row_fits != eIgnoreMatch) { - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnmerger.cpp:155:20: note: 'second_row_fits' was declared here - 155 | TSecondRowFits second_row_fits; - | ^~~~~~~~~~~~~~~ -der -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 -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libncbi_xloader_genbank.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libncbi_xloader_genbank.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libncbi_xloader_genbank.so -/bin/ln -f .ncbi_xloader_genbank.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.ncbi_xloader_genbank.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/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=writedb_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/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 -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' +cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j5 --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: -j6 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/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; - | ^~~~~~~~ +make[4]: warning: -j5 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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()) + | ^ +/build/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/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 'int'} and 'std::vector::size_type' {aka '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/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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_container.cpp -o aln_container.o +/bin/rm -f libxalnmgr.so .libxalnmgr.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxalnmgr.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 -gdwarf-3 -O2 -fPIC aln_builders.o aln_converters.o aln_generators.o aln_seqid.o aln_serial.o alndiag.o alnmap.o alnmapprint.o alnmatch.o alnmerger.o alnmix.o alnpos_ci.o alnsegments.o alnseq.o alnvec.o alnvec_iterator.o alnvecprint.o pairwise_aln.o sparse_aln.o sparse_ci.o alntext.o score_builder_base.o aln_container.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 -lxobjutil -lxobjmgr -lseqset -lseq -lxser -ltables -lxncbi -lm -lpthread +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalnmgr.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxalnmgr.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalnmgr.so +/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' +cd objtools/blast/seqdb_writer/unit_test/ && /usr/bin/make -w -j5 --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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_writer/unit_test TMPL=writedb_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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: /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] @@ -33533,39 +34890,6 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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: @@ -33592,67 +34916,91 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/alnvec_iterator.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/alnvec_iterator.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++/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++/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 '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++/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++/src/objtools/alnmgr/alnvec_iterator.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 'unsigned int'} [-Wsign-compare] - 259 | for (int j = i + 1; j < spans.size(); j++) - | ~~^~~~~~~~~~~~~~ -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 -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' -cd algo/winmask/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xalgowinmask UNIX_PROJ="" sources= configurables=configurables.null +/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) + | ^~~~~~~~~~~~~~ +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 -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 algo/winmask/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. 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/algo/winmask' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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, - | ^~~~ +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_score.hpp:38, @@ -33751,8 +35099,8 @@ 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_mean.hpp:38, + 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()) | ^ @@ -33938,18 +35286,11 @@ /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()) | ^~~~~~~~~~~~~~~~~~~~~~~ -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/algo/winmask/seq_masker_version.hpp:33, +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_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()) | ^ @@ -34040,60 +35381,13 @@ /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()) | ^~~~~~~~~~~~~~~~~~~~~~~ -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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/seq_feat_handle.hpp:43, from /build/reproducible-path/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: + 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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34109,45 +35403,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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) { - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ -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 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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_glob.cpp -o seq_masker_score_mean_glob.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/dpkIn 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34273,30 +35540,49 @@ /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/alnmgr/sparse_aln.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_aln.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; +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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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/sparse_aln.hpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34330,13 +35616,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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/objmgr/seq_vector.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_window.hpp:37, @@ -34370,14 +35650,17 @@ 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_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; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34393,9 +35676,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34403,17 +35687,14 @@ from /build/reproducible-path/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/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/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++/include/algo/winmask/seq_masker_istat.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34429,6 +35710,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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); @@ -34448,50 +35735,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34503,61 +35762,17 @@ | ^~~~~~~~ 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/objtools/alnmgr/sparse_aln.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objtools/alnmgr/sparse_ci.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/alnmgr/sparse_ci.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/external_annots.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/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/objtools/alnmgr/sparse_ci.hpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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/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; | ^~~~~~~~ @@ -34565,7 +35780,7 @@ 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/gap_trim.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/feature_propagate.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -34581,23 +35796,47 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 'unsigned int'} [-Wsign-compare] - 702 | if (translate && aln_range.GetLength() >= trim_from + trim_to) { - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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' +cd objtools/align_format/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=align_format 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: -j5 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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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_glob.cpp -o seq_masker_score_mean_glob.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/align_format' +make[5]: warning: -j5 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/objtools/align_format' +make[5]: warning: -j5 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 -j5 --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/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++/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; | ^~~~~~~~ @@ -34623,17 +35862,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_ascii.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_factory.cpp:36: +make[5]: warning: -j5 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/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()) | ^ @@ -34724,71 +35957,47 @@ /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/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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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/alnmgr/alntext.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/seq_masker_ostat.cpp:35: +/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/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++/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()) | ^ @@ -34879,34 +36088,47 @@ /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_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 -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' -cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j6 --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: -j6 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/makeindex' -make[5]: warning: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +/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/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/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()) - | ^ -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_ascii.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_ascii.cpp:37: + 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: /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()) | ^ @@ -35015,6 +36237,31 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/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++/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()) + | ^ /build/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__ | ^~~~~~~~ @@ -35102,36 +36349,69 @@ /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++/src/objtools/edit/external_annots.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; +/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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_REEIn 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: +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_ascii.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_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()) | ^ @@ -35222,38 +36502,9 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_ascii.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_ascii.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()) | ^ @@ -35344,10 +36595,26 @@ /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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/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; | ^~~~~~~~ @@ -35355,7 +36622,7 @@ 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/feature_propagate.cpp:32: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/edit/seq_edit.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -35371,22 +36638,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -35394,7 +36678,9 @@ 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/text_object_description.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/winmask/seq_masker_window.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -35410,36 +36696,43 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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: + 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; | ^~~~~~~~ @@ -35447,8 +36740,10 @@ 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/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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -35466,11 +36761,70 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -35478,10 +36832,8 @@ 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/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -35497,12 +36849,56 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; | ^~~~~~~~ @@ -35511,7 +36907,7 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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++/src/algo/winmask/seq_masker_window_pattern_ambig.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -35527,19 +36923,107 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_ascii.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_factory.cpp:36: + 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_ascii.hpp:41, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_ascii.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()) | ^ @@ -35630,22 +37114,48 @@ /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, - | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_REEIn 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()) | ^ @@ -35736,128 +37246,53 @@ /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++/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; +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++/src/objtools/edit/seq_edit.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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) + | ^~~~~~~~~~~~~~~~~~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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:1811:68, - 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(1) 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 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:1811:68, - 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(1) int*)((char*)&ext + offsetof(ncbi::CAlignRangeCollExtender > >,ncbi::CAlignRangeCollExtender > >::m_ToOpen))' 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/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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/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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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()) | ^ @@ -35948,26 +37383,10 @@ /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()) | ^~~~~~~~~~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_bin.cpp:37: + 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()) | ^ @@ -36058,32 +37477,77 @@ /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/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 ); +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/src/objtools/align_format/showdefline.cpp: In member function 'ncbi::align_format::CShowBlastDefline::SScoreInfo* ncbi::align_format::CShowBlastDefline::x_GetScoreInfo(const ncbi::objects::CSeq_align&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1465:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1465 | auto_ptr score_info(new SScoreInfo); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp: In member function 'ncbi::align_format::CShowBlastDefline::SScoreInfo* ncbi::align_format::CShowBlastDefline::x_GetScoreInfoForTable(const ncbi::objects::CSeq_align_set&, int)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1489:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1489 | auto_ptr score_info(new SScoreInfo); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1491:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1491 | auto_ptr seqSetInfo( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(aln)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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) - | ^~~~~~~~~~~~~~~~~~~~~~~~ /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, | ^~~~~~~~ @@ -36096,11 +37560,107 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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::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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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){ + | ^ +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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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 '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 'unsigned int'} [-Wsign-compare] + 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, 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_ascii.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_ostat_opt_ascii.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_bin.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_bin.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()) | ^ @@ -36202,6 +37762,39 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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_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++/13/bits/unique_ptr.h:65:28: note: declared here @@ -36219,6 +37812,106 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -36226,9 +37919,10 @@ 65 | 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_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++/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()) | ^ @@ -36356,11 +38050,17 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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: +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/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: /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()) | ^ @@ -36452,9 +38152,10 @@ 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_istat_obinary.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/seq_masker_istat_obinary.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++/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()) | ^ @@ -36547,8 +38248,8 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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_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_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()) | ^ @@ -36639,35 +38340,10 @@ /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()) | ^~~~~~~~~~~~~~~~~~~~~~~ -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 -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' -cd objtools/simple/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -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-comake[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -make[5]: warning: -j6 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/simple' -make[5]: warning: -j6 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 -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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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_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_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()) | ^ @@ -36758,43 +38434,16 @@ /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/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_oascii.hpp:37: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, +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++/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: + 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()) | ^ @@ -36885,6 +38534,28 @@ /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()) | ^~~~~~~~~~~~~~~~~~~~~~~ +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 +/bin/rm -f libxobjedit.so .libxobjedit.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libxobjedit.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 -gdwarf-3 -O2 -fPIC gene_utils.o seq_entry_edit.o promote.o autodef_with_tax.o field_handler.o apply_object.o string_constraint.o seqid_guesser.o dblink_field.o struc_comm_field.o text_desc_field.o gb_block_field.o link_cds_mrna.o cds_fix.o loc_edit.o mail_report.o feattable_edit.o gaps_edit.o source_edit.o rna_edit.o remote_updater.o parse_text_options.o publication_edit.o gap_trim.o external_annots.o feature_propagate.o text_object_description.o seq_edit.o pub_fix.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 -lxobjutil -ltaxon3 -lvalid -lmlacli -lxlogging -leutils -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 libxobjedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libxobjedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjedit.so +/bin/ln -f .xobjedit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjedit.dep +make[5]: 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/edit' +cd algo/blast/dbindex/makeindex/ && /usr/bin/make -w -j5 --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: -j5 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/makeindex' +make[5]: warning: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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, @@ -36896,68 +38567,10 @@ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 /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 -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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_container.cpp -o aln_container.o -/bin/rm -f libxalnmgr.so .libxalnmgr.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxalnmgr.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 -gdwarf-3 -O2 -fPIC aln_builders.o aln_converters.o aln_generators.o aln_seqid.o aln_serial.o alndiag.o alnmap.o alnmapprint.o alnmatch.o alnmerger.o alnmix.o alnpos_ci.o alnsegments.o alnseq.o alnvec.o alnvec_iterator.o alnvecprint.o pairwise_aln.o sparse_aln.o sparse_ci.o alntext.o score_builder_base.o aln_container.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 -lxobjutil -lxobjmgr -lseqset -lseq -lxser -ltables -lxncbi -lm -lpthread -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f libxalnmgr.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxalnmgr.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxalnmgr.so -/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' -cd app/dustmasker/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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/app/dustmasker' -make[5]: warning: -j6 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 -j6 --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/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/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/algo/winmask/seq_masker_istat_oascii.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j6 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; | ^~~~~~~~ @@ -36971,29 +38584,8 @@ 65 | 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/dustmasker/dust_mask_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_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/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()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -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: + 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()) | ^ @@ -37102,6 +38694,27 @@ /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/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++/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()) | ^ @@ -37198,31 +38811,37 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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] - 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/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; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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/objtools/simple/simple_om.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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-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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37230,18 +38849,14 @@ from /build/reproducible-path/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/algo/winmask/win_mask_counts_converter.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:42: + 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/algo/winmask/seq_masker_util.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/winmask/seq_masker_istat_obinary.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37257,34 +38872,66 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37300,12 +38947,42 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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/algo/winmask/win_mask_counts_converter.hpp:39, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.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/algo/winmask/seq_masker_util.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_counts_converter.cpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37321,9 +38998,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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()) | ^ @@ -37414,31 +39109,25 @@ /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()) | ^~~~~~~~~~~~~~~~~~~~~~~ -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 -/bin/rm -f libxobjedit.so .libxobjedit.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libxobjedit.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 -gdwarf-3 -O2 -fPIC gene_utils.o seq_entry_edit.o promote.o autodef_with_tax.o field_handler.o apply_object.o string_constraint.o seqid_guesser.o dblink_field.o struc_comm_field.o text_desc_field.o gb_block_field.o link_cds_mrna.o cds_fix.o loc_edit.o mail_report.o feattable_edit.o gaps_edit.o source_edit.o rna_edit.o remote_updater.o parse_text_options.o publication_edit.o gap_trim.o external_annots.o feature_propagate.o text_object_description.o seq_edit.o pub_fix.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 -lxobjutil -ltaxon3 -lvalid -lmlacli -lxlogging -leutils -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 libxobjedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libxobjedit.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libxobjedit.so -/bin/ln -f .xobjedit.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xobjedit.dep -make[5]: 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/edit' -cd objtools/blast/blastdb_format/unit_test/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_dup_table.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; | ^~~~~~~~ @@ -37458,8 +39147,9 @@ 65 | 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/blastdb_format/unit_test/seq_writer_unit_test.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/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()) | ^ @@ -37568,9 +39258,82 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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/blastdb_format/unit_test/seq_formatter_unit_test.cpp:39: +/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/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: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] + 188 | auto_ptr< CNcbiIstream > m_InputFile; // input file + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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()) | ^ @@ -37661,29 +39424,62 @@ /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_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/src/algo/winmask/win_mask_config.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; | ^~~~~~~~ @@ -37691,11 +39487,7 @@ 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/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/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37711,11 +39503,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/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++/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; | ^~~~~~~~ @@ -37723,11 +39543,69 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37743,7 +39621,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, | ^~~~~~~~ @@ -37756,8 +39633,32 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 | ^~~~~~~~ @@ -37770,27 +39671,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -37799,7 +39713,7 @@ 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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/winmask/win_mask_config.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; | ^~~~~~~~ @@ -37818,78 +39732,377 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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++/src/app/dustmasker/dust_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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -cd objtools/align_format/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=align_format 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: -j6 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: -j6 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/objtools/align_format' -make[5]: warning: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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 +/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/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++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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 -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' +cd objtools/cleanup/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cleanup UNIX_PROJ="" sources= configurables=configurables.null +make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +/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/cleanup TMPL=cleanup -w -j5 --jobserver-auth=7,8 all +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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++/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/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/algo/winmask/win_mask_config.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++/src/objtools/cleanup/gene_qual_normalization.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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 -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_maskerIn 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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +_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 -j5 --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: -j5 forced in submake: resetting jobserver mode. +cd app/winmasker/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --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: -j5 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: -j5 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]: warning: -j5 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/winmasker TMPL=winmasker -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objtools/align_format/tabular.cpp:39: + 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()) | ^ @@ -37998,28 +40211,9 @@ /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++/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++/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()) | ^ @@ -38128,33 +40322,23 @@ /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/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++/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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()) | ^ @@ -38245,56 +40429,10 @@ /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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -/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()); - | ^ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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__ - | ^~~~~~~~ -/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++/src/objtools/align_format/showdefline.cpp:55: +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_app.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()) | ^ @@ -38385,6 +40523,8 @@ /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/app/winmasker/win_mask_app.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:63: /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()); | ^ @@ -38403,25 +40543,6 @@ /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: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/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, | ^~~~~~~~ @@ -38434,58 +40555,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +/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 'unsigned int'} [-Wsign-compare] + 2889 | if (abs((long int)this_start - (long int)prev_end) < min_len) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/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 'unsigned int' [-Wsign-compare] + 4167 | idx < sizeof(transformations)/sizeof(transformations[0]); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/autogenerated_cleanup.cpp -o autogenerated_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/objtools/cleanup/autogenerated_extended_cleanup.cpp -o autogenerated_extended_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/objtools/cleanup/cleanup.cpp -o 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/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-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/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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: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) - | ^~~~~~~~~~ -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/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/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/dustmask/symdust.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38501,178 +40597,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 ); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp: At global scope: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:221:6: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 221 | std::auto_ptr< CSymDustMasker::TMaskList > - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp: In function 'std::auto_ptr > > ncbi::GetDustMasks_SkipNs(objects::CSeqVector&, Uint4, Uint4, Uint4)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:230:10: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 230 | std::auto_ptr< CSymDustMasker::TMaskList > rv(new CSymDustMasker::TMaskList); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:239:22: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 239 | std::auto_ptr< CSymDustMasker::TMaskList > s_mask = duster(seq, seq_start, itr->first -1); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:254:22: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 254 | std::auto_ptr< CSymDustMasker::TMaskList > s_mask = duster(seq, seq_start, seq.size() -1); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp: In member function 'virtual int ncbi::CDustMaskApplication::Run()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:282:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 282 | auto_ptr writer(x_GetWriter()); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/dustmasker/dust_mask_app.cpp:301:18: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 301 | std::auto_ptr< duster_type::TMaskList > res = GetDustMasks_SkipNs(data, level, window, linker); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/algo/winmask/win_mask_config.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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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/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++/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; | ^~~~~~~~ @@ -38680,45 +40608,18 @@ 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; - | ^~~~~~~~ + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -38726,12 +40627,7 @@ 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++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38747,56 +40643,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/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, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -38811,8 +40657,9 @@ | ^~~~~~~~ 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/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/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; | ^~~~~~~~ @@ -38820,31 +40667,10 @@ 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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; - | ^~~~~~~~ + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38862,11 +40688,9 @@ | ^~~~~~~~ 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/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/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; | ^~~~~~~~ @@ -38874,22 +40698,17 @@ 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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38901,22 +40720,22 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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: + 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; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objtools/align_format/align_format_util.hpp:31: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -38932,510 +40751,68 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 { - | ^~~~~~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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), - | ^~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:124:9: note: in definition of macro 'BOOST_CHECK_THROW_IMPL_EX' - 124 | S; \ - | ^ -/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro 'BOOST_CHECK_THROW_IMPL' - 120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE ) - | ^~~~~~~~~~~~~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestInvalidFormatSpecifiers_Empty::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:122:57: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 122 | #define NcbiEmptyString NCBI_NS_NCBI::CNcbiEmptyString::Get() - | ^~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:124:9: note: in definition of macro 'BOOST_CHECK_THROW_IMPL_EX' - 124 | S; \ - | ^ -/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro 'BOOST_CHECK_THROW_IMPL' - 120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE ) - | ^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:123:19: note: in expansion of macro 'NcbiEmptyString' - 123 | #define kEmptyStr NcbiEmptyString - | ^~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:61:41: note: in expansion of macro 'kEmptyStr' - 61 | BOOST_REQUIRE_THROW(CSeqFormatter f(kEmptyStr, db, std::cout), - | ^~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestInvalidFormatSpecifiers_InvalidAlgoId::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:68:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 68 | 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 { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:70:40: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 70 | BOOST_REQUIRE_THROW(CSeqFormatter f("%m", db, std::cout, config), - | ^ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:124:9: note: in definition of macro 'BOOST_CHECK_THROW_IMPL_EX' - 124 | S; \ - | ^ -/usr/include/boost/test/tools/old/interface.hpp:120:45: note: in expansion of macro 'BOOST_CHECK_THROW_IMPL' - 120 | #define BOOST_REQUIRE_THROW( S, E ) BOOST_CHECK_THROW_IMPL( S, E, true, "", REQUIRE ) - | ^~~~~~~~~~~~~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestValidFormatSpecifiers::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:77:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 77 | 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 { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:93:24: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 93 | CSeqFormatter f(*itr, db, std::cout, config); - | ^ -/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 - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:97:20: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 97 | CSeqFormatter f("%m", db, std::cout, config); - | ^ -/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 - | ^~~~~~~~~~~~~ -/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::TestRequestGiOidLength::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:108:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 108 | CSeqFormatter f(format_spec, db, out); - | ^~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestRequestSeqId::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:150:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 150 | CSeqFormatter f(format_spec, db, out); - | ^~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestRequestSeqIdLong::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:194:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 194 | CSeqFormatter f(format_spec, db, out); - | ^~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestRequestAccessionPIGTaxidTitle::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:227:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 227 | CSeqFormatter f(format_spec, db, out); - | ^~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestRequestGiGivenPIG::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:258:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 258 | CSeqFormatter f(format_spec, db, out); - | ^~~~~~~~~~~ -/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/objtools/align_format/showalign.hpp:51, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showalign.cpp:35: +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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::TestRequestSequenceDataLength::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:283:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 283 | CSeqFormatter f(format_spec, db, out); - | ^~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestMaskedFasta::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:313:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 313 | 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 { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:318:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 318 | CSeqFormatter f(format_spec, db, out, config); - | ^~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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::TestMaskedSequenceData::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:357:25: warning: 'CSeqFormatterConfig' is deprecated [-Wdeprecated-declarations] - 357 | 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 { - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/blast/blastdb_format/unit_test/seq_writer_unit_test.cpp:360:21: warning: 'CSeqFormatter' is deprecated [-Wdeprecated-declarations] - 360 | CSeqFormatter f(format_spec, db, out, config); - | ^~~~~~~~~~~ -/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 - | ^~~~~~~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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' -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -cd objtools/cleanup/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=cleanup UNIX_PROJ="" sources= configurables=configurables.null -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: warning: -j6 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -/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/cleanup TMPL=cleanup -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -39451,131 +40828,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp: In member function 'ncbi::align_format::CShowBlastDefline::SScoreInfo* ncbi::align_format::CShowBlastDefline::x_GetScoreInfo(const ncbi::objects::CSeq_align&, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1465:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1465 | auto_ptr score_info(new SScoreInfo); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp: In member function 'ncbi::align_format::CShowBlastDefline::SScoreInfo* ncbi::align_format::CShowBlastDefline::x_GetScoreInfoForTable(const ncbi::objects::CSeq_align_set&, int)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1489:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1489 | auto_ptr score_info(new SScoreInfo); - | ^~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/align_format/showdefline.cpp:1491:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1491 | auto_ptr seqSetInfo( CAlignFormatUtil::GetSeqAlignSetCalcParamsFromASN(aln)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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) { - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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 '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 'unsigned int'} [-Wsign-compare] - 4450 | for (int i = actual_first_pos, j = 0; i < domain_string.size() - 1 && j < domain_name.size(); i ++, j ++){ - | ~~^~~~~~~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +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; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -39583,6 +40851,15 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_manager.hpp:277:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 277 | auto_ptr m_PluginManager; | ^~~~~~~~ + -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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 +/bin/rm -f libalign_format.so .libalign_format.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libalign_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 -gdwarf-3 -O2 -fPIC format_flags.o align_format_util.o showdefline.o showalign.o tabular.o vectorscreen.o seqalignfilter.o taxFormat.o aln_printer.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 -lxalnmgr -lncbi_xloader_genbank -lseqdb -lblast_services -lxobjread -lxobjutil -lxobjmgr -lxnetblast -lblastdb -lgene_info -ltaxon1 -lseqset -lseq -lgeneral -lxser -lxcgi -lxhtml -ltables -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 libalign_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libalign_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libalign_format.so +/bin/ln -f .align_format.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.align_format.dep +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, @@ -39591,97 +40868,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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 -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/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objtools/align_format' +cd objtools/align_format/unit_test/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=align_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/align_format/unit_test' +make[4]: warning: -j5 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' +make[5]: warning: -j5 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' +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' +make[5]: warning: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/src/objtools/align_format/taxFormat.cpp:51: + 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/tabularinof_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()) | ^ @@ -39790,118 +41005,43 @@ /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/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -_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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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; - | ^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/api/blast_setup_cxx.cpp:36: + 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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -40010,62 +41150,18 @@ /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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 '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 '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 '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 'unsigned int'} [-Wsign-compare] - 387 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetOss().size()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/cleanup/cleanup_pub.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40081,49 +41177,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 'unsigned int'} [-Wsign-compare] - 2889 | if (abs((long int)this_start - (long int)prev_end) < min_len) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/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 'unsigned int' [-Wsign-compare] - 4167 | idx < sizeof(transformations)/sizeof(transformations[0]); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -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 -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' -cd app/winmasker/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[5]: warning: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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.hpp:41, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:54: +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: /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()) | ^ @@ -40214,8 +41270,6 @@ /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++/src/app/winmasker/win_mask_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/win_mask_app.cpp:63: /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()); | ^ @@ -40235,8 +41289,10 @@ 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/winmasker/win_mask_app.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/winmasker/main.cpp:34: + 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()) | ^ @@ -40345,48 +41401,27 @@ /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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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/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/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()) | ^ @@ -40477,29 +41512,37 @@ /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/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/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/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40509,32 +41552,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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; | ^~~~~~~~ @@ -40542,10 +41563,7 @@ 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++/src/objtools/cleanup/cleanup_author.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40561,116 +41579,104 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/autogenerated_cleanup.cpp -o autogenerated_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/objtools/cleanup/autogenerated_extended_cleanup.cpp -o autogenerated_extended_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/objtools/cleanup/cleanup.cpp -o 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/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-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++/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++/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 '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 '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 '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 'unsigned int'} [-Wsign-compare] + 387 | if (!field.IsSetNum() || field.GetNum() != field.GetData().GetOss().size()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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 -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' +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++/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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/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/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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 -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/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; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/src/objtools/align_format/unit_test/blast_test_util.hpp:41: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -40678,10 +41684,10 @@ 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40697,72 +41703,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-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; - | ^~~~~~~~ + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40778,124 +41734,50 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, - 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 ); - | ^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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_author.cpp:33: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 ); - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -40908,34 +41790,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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++/src/objtools/cleanup/cleanup_pub.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40953,8 +41813,9 @@ | ^~~~~~~~ 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/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++/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; | ^~~~~~~~ @@ -40962,7 +41823,7 @@ 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/capitalization_string.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_seqalign.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -40978,37 +41839,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 '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 '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 'unsigned int'} [-Wsign-compare] - 977 | if (rslt[0] != start) - | ~~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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: + 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41024,57 +41860,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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); - | ^~~~~~~~~~~~~~~ -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++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41099,47 +41898,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -41162,122 +41920,75 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' -/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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 '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 'unsigned int'} [-Wsign-compare] - 5863 | if( first_pos > last_pos ) { - | ~~~~~~~~~~^~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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++/src/algo/blast/api/blast_prot_options.cpp:35: + 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/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41293,227 +42004,159 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; +/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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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 '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 'unsigned int'} [-Wsign-compare] + 5863 | if( first_pos > last_pos ) { + | ~~~~~~~~~~^~~~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; +/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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/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; | ^~~~~~~~ @@ -41521,10 +42164,7 @@ 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++/src/objtools/cleanup/capitalization_string.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41540,107 +42180,72 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 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 -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/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; +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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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: +/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 '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 '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 'unsigned int'} [-Wsign-compare] + 977 | if (rslt[0] != start) + | ~~~~~~~~^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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:99:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 99 | auto_ptr + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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:101:13: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 101 | auto_ptr | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -41648,8 +42253,10 @@ 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/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; | ^~~~~~~~ @@ -41657,9 +42264,10 @@ 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++/src/algo/blast/api/remote_blast.cpp:35: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41675,12 +42283,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_seqdb.hpp:39, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/seqinfosrc_seqdb.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++/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; | ^~~~~~~~ @@ -41689,47 +42294,32 @@ from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -41737,7 +42327,10 @@ 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/util/sequence.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -41753,27 +42346,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -/bin/rm -f libalign_format.so .libalign_format.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libalign_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 -gdwarf-3 -O2 -fPIC format_flags.o align_format_util.o showdefline.o showalign.o tabular.o vectorscreen.o seqalignfilter.o taxFormat.o aln_printer.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 -lxalnmgr -lncbi_xloader_genbank -lseqdb -lblast_services -lxobjread -lxobjutil -lxobjmgr -lxnetblast -lblastdb -lgene_info -ltaxon1 -lseqset -lseq -lgeneral -lxser -lxcgi -lxhtml -ltables -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 libalign_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libalign_format.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libalign_format.so -/bin/ln -f .align_format.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.align_format.dep -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 -j6 --jobserver-auth=5,6 APP_PROJ=align_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/align_format/unit_test' -make[4]: warning: -j6 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' -make[5]: warning: -j6 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' -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' -make[5]: warning: -j6 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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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' /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 @@ -41782,249 +42354,6 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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/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] - 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/tabularinof_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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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()) @@ -42134,365 +42463,13 @@ /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, - 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: -/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++/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()) - | ^ -/build/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/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/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/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: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/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/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; | ^~~~~~~~ @@ -42500,9 +42477,10 @@ 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/algo/blast/api/blast_seqinfosrc.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42518,56 +42496,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ --D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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++/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_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; | ^~~~~~~~ @@ -42575,10 +42518,10 @@ 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/aln_printer_unit_test.cpp:35: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42596,12 +42539,7 @@ | ^~~~~~~~ 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/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++/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; | ^~~~~~~~ @@ -42612,7 +42550,7 @@ 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42628,22 +42566,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42668,37 +42609,70 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: + 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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42714,20 +42688,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/align_format/unit_test/blast_test_util.cpp:46: + 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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42743,19 +42723,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, +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 In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42773,32 +42765,27 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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/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/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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; - | ^~~~~~~~/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -42811,66 +42798,75 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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/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; | ^~~~~~~~ @@ -42878,19 +42874,13 @@ 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/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/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -42900,86 +42890,129 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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 -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' +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, | ^~~~~~~~ @@ -42992,99 +43025,108 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +-D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -I/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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/seqsrc_seqdb.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -43120,9 +43162,8 @@ | ^~~~~~~~ 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/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/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; | ^~~~~~~~ @@ -43130,8 +43171,8 @@ 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_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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43149,8 +43190,9 @@ | ^~~~~~~~ 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/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/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; | ^~~~~~~~ @@ -43158,8 +43200,8 @@ 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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43288,10 +43330,10 @@ 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_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: + 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43299,8 +43341,7 @@ 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/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/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43321,8 +43362,8 @@ 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/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/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; | ^~~~~~~~ @@ -43346,25 +43387,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' -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, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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/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/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; | ^~~~~~~~ @@ -43372,7 +43401,8 @@ 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43388,7 +43418,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +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++/include/algo/blast/api/blast_options.hpp:40, @@ -43514,29 +43550,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -43568,7 +43581,37 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 && + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +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 -gdwarf-3 -O2 -fPIC autogenerated_cleanup.o autogenerated_extended_cleanup.o cleanup.o cleanup_utils.o gene_qual_normalization.o cleanup_user_object.o cleanup_authoIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -43602,6 +43645,23 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +r.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 -lregexp -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi +/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 -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. 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 @@ -43645,6 +43705,173 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/accession_item.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/date_item.cpp:33: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/api/dust_filter.hpp:39, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/dust_filter.cpp:36: @@ -43674,23 +43901,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 ); - | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/dust_filter.cpp:39: + 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; | ^~~~~~~~ @@ -43703,19 +43969,60 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/seq_feat_handle.hpp:43, from /build/reproducible-path/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/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; | ^~~~~~~~ @@ -43723,7 +44030,9 @@ 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_aux.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43739,12 +44048,28 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/api/search_strategy.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++/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; | ^~~~~~~~ @@ -43752,9 +44077,7 @@ 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/search_strategy.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43770,12 +44093,44 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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/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++/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; | ^~~~~~~~ @@ -43827,31 +44182,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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; | ^~~~~~~~ @@ -43859,7 +44192,7 @@ 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/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/dbsource_item.cpp:32: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43875,32 +44208,38 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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//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/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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//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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/api/uniform_search.cpp:34: +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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -43908,8 +44247,7 @@ 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/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++/src/objtools/format/defline_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43925,38 +44263,68 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -gdwarf-3 -O2 -fPIC autogenerated_cleanup.o autogenerated_extended_cleanup.o cleanup.o cleanup_utils.o gene_qual_normalization.o cleanup_user_object.o cleanup_authoIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/local_search.cpp:46: +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: + 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/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -43972,28 +44340,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -r.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 -lregexp -lxobjmgr -lgenome_collection -lseqedit -lseqsplit -lsubmit -lseqset -lseq -lseqcode -lsequtil -lpub -lmedline -lbiblio -lgeneral -lxser -lxutil -lxncbi -/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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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++/src/algo/blast/api/blast_results.cpp:36: + 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; | ^~~~~~~~ @@ -44001,7 +44352,7 @@ 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/blast_aux.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genome_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44019,11 +44370,7 @@ | ^~~~~~~~ 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/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++/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; | ^~~~~~~~ @@ -44031,11 +44378,7 @@ 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++/src/objtools/format/feature_item.cpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44051,60 +44394,99 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/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 '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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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++/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++/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_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44120,10 +44502,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; | ^~~~~~~~ @@ -44131,7 +44512,7 @@ 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++/src/objtools/format/ctrl_items.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44147,19 +44528,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/src/objtools/format/contig_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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44175,9 +44568,23 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44185,7 +44592,11 @@ 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/dbsource_item.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44203,8 +44614,9 @@ | ^~~~~~~~ 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/objmgr/seq_vector.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/basecount_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/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; | ^~~~~~~~ @@ -44212,7 +44624,7 @@ 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/basecount_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44228,11 +44640,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -44241,7 +44663,7 @@ 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++/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; | ^~~~~~~~ @@ -44249,7 +44671,7 @@ 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++/src/objtools/format/keywords_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44265,14 +44687,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -44282,20 +44705,9 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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/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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; | ^~~~~~~~ @@ -44308,44 +44720,69 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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) { + | ^~~~~~~~~~ +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++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/dbsource_item.cpp:56: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44353,7 +44790,7 @@ 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/comment_item.cpp:36: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44369,57 +44806,64 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ +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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/primary_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/objmgr_query_data.cpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44435,46 +44879,104 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ -/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++/src/objtools/format/reference_item.cpp:35: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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) ) { + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /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, | ^~~~~~~~ @@ -44487,18 +44989,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/bioseq_extract_data_priv.cpp:38: + 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; | ^~~~~~~~ @@ -44525,24 +45033,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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(); - | ^~~~~~~ -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, +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -44574,9 +45065,8 @@ 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_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: + 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; | ^~~~~~~~ @@ -44584,7 +45074,10 @@ 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_seqinfosrc_aux.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44604,7 +45097,7 @@ 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: + 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; | ^~~~~~~~ @@ -44612,7 +45105,7 @@ 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/genome_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/segment_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44628,16 +45121,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ @@ -44645,7 +45134,7 @@ 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/defline_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_seqinfosrc_aux.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44669,6 +45158,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -44690,7 +45206,106 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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/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: @@ -44784,34 +45399,57 @@ /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, - | ^~~~~~~~ +/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 '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/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++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44819,7 +45457,7 @@ 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/ctrl_items.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/effsearchspace_calc.hpp:36: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44836,8 +45474,10 @@ 65 | 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/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; | ^~~~~~~~ @@ -44845,7 +45485,7 @@ 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/feature_item.cpp:44: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/version_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -44861,52 +45501,72 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: + 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -44914,14 +45574,10 @@ 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++/src/objtools/format/tsa_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 'unsigned int'} [-Wsign-compare] - 2115 | if ( idx > 0 && idx < ArraySize(s_TrnaList) ) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -44934,64 +45590,73 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -44999,10 +45664,7 @@ 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++/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/algo/blast/api/sseqloc.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45018,23 +45680,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -45047,9 +45700,7 @@ | ^~~~~~~~ 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/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/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; | ^~~~~~~~ @@ -45057,7 +45708,10 @@ 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/sseqloc.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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45073,31 +45727,66 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45211,38 +45900,48 @@ /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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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+-2.12NDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/inc -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/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; | ^~~~~~~~ @@ -45261,31 +45960,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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) { - | ^~~~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/seq_feat_handle.hpp:43, from /build/reproducible-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: + 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -45293,7 +45979,10 @@ 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/primary_item.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++/src/algo/blast/api/rpsblast_local.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45311,7 +46000,9 @@ | ^~~~~~~~ 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++/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/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; | ^~~~~~~~ @@ -45319,7 +46010,7 @@ 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/locus_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/seedtop.hpp:42: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45335,20 +46026,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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/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; | ^~~~~~~~ @@ -45356,10 +46038,9 @@ 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/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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45375,97 +46056,71 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-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/genbank_gather.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; | ^~~~~~~~ @@ -45473,7 +46128,10 @@ 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/segment_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45489,23 +46147,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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; | ^~~~~~~~ @@ -45513,7 +46167,7 @@ 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/seedtop.hpp:42: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/gather_items.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45529,18 +46183,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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: + 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; | ^~~~~~~~ @@ -45548,9 +46205,7 @@ 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/blast/api/cdd_pssm_input.hpp:37: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/context.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45566,33 +46221,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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; + 515 | auto_ptr class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 277 | auto_ptr m_PluginManager; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +CAnnotMappingCollector> 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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45608,8 +46260,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; | ^~~~~~~~ @@ -45628,15 +46294,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -45647,61 +46318,47 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/sequence_item.cpp:43: +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; | ^~~~~~~~ @@ -45714,6 +46371,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +/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/corelib/ncbiapp.hpp:43, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/blast_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] @@ -45827,43 +46488,10 @@ 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/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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/psiblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/api/deltablast.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/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; | ^~~~~~~~ @@ -45871,7 +46499,10 @@ 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/algo/blast/api/magicblast.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45888,16 +46519,8 @@ 65 | 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/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/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/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; | ^~~~~~~~ @@ -45905,21 +46528,7 @@ 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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/format/source_item.cpp:33: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/format/flat_file_generator.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45935,19 +46544,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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; | ^~~~~~~~ @@ -45956,9 +46559,9 @@ 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/algo/blast/api/magicblast.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -45975,35 +46578,15 @@ 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, | ^~~~~~~~ @@ -46016,14 +46599,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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++/src/objtools/format/source_item.cpp:47: +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; | ^~~~~~~~ @@ -46036,14 +46613,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 '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/scope.hpp:51, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/api/blast_aux.hpp:47, @@ -46076,63 +46645,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +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; | ^~~~~~~~ @@ -46140,7 +46662,7 @@ 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/tsa_item.cpp:33: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/item_formatter.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46156,34 +46678,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -46242,38 +46763,12 @@ 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/seq_feat_handle.hpp:43, - from /build/reproducible-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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/format/qualifiers.cpp:52: + 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -46281,7 +46776,7 @@ 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/qualifiers.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/embl_formatter.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46297,29 +46792,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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; | ^~~~~~~~ @@ -46332,9 +46806,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/qualifiers.cpp:56: + 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; | ^~~~~~~~ @@ -46353,90 +46833,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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(); - | ^~~~~ -.0+ds/c++/BUILD/inc -I/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 -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_options.o pssm_eIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-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: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +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; | ^~~~~~~~ @@ -46444,7 +46844,7 @@ 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/gather_items.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/genbank_formatter.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46462,55 +46862,7 @@ | ^~~~~~~~ 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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; | ^~~~~~~~ @@ -46529,8 +46881,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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; | ^~~~~~~~ @@ -46543,48 +46896,59 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -ngine.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 +.0+ds/c++/BUILD/inc -I/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 -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_options.o pssm_e/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) { + | ^~~~~~~~~~~~~~~~~~~ +/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 ) + | ^~~~~~~~~~~~~~~~~ +-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 -DNDEBngine.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' -cd algo/blast/blastinput/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastinput UNIX_PROJ="" sources= configurables=configurables.null -cd algo/blast/proteinkmer/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=proteinkmer UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/blastinput/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=blastinput UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/proteinkmer/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -make[4]: warning: -j6 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]: warning: -j6 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[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/blastinput' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/proteinkmer TMPL=proteinkmer -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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]: warning: -j5 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' -/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 -j6 --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/blastinput TMPL=blastinput -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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] @@ -46695,6 +47059,9 @@ /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/proteinkmer/blastkmerutils.cpp:447: warning: ignoring '#pragma ivdep ' [-Wunknown-pragmas] + 447 | #pragma ivdep + | /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 | @@ -46704,13 +47071,25 @@ /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 | -/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/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: +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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/proteinkmer/blastkmer.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; | ^~~~~~~~ @@ -46718,7 +47097,10 @@ 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/genbank_gather.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/util/sequtil/sequtil_convert.hpp:34, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46734,7 +47116,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/mhfile.cpp:35: +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; | ^~~~~~~~ @@ -46742,10 +47125,39 @@ 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/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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46756,22 +47168,18 @@ 65 | 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: + 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; | ^~~~~~~~ -/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 '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/corelib/ncbistl.hpp:221, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, from /build/reproducible-path/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/origin_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46787,65 +47195,42 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/object_manager.hpp:45: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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) - | ^~~~~~~~~~~ -/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; - | ^~~~~~~~ + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/annot_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-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmer.cpp -o blastkmer.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmerindex.cpp -o blastkmerindex.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmeroptions.cpp -o blastkmeroptions.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmerresults.cpp -o blastkmerresults.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmerutils.cpp -o blastkmerutils.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/mhfile.cpp -o mhfile.o -/uIn 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/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: + 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; | ^~~~~~~~ @@ -46853,10 +47238,8 @@ 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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46872,51 +47255,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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) - | ~~~~~~~~~^~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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.cpp -o blast_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/blastinput/blast_fasta_input.cpp -o blast_fasta_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/blastinput/blast_scope_src.cpp -o blast_scope_src.o -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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 '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/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; | ^~~~~~~~ @@ -46924,7 +47291,10 @@ 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/flat_file_generator.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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46940,10 +47310,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; | ^~~~~~~~ @@ -46951,8 +47329,7 @@ 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/algo/blast/blastinput/blast_fasta_input.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/objtools/format/ftable_gather.cpp:34: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -46977,13 +47354,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; | ^~~~~~~~ @@ -46991,9 +47374,7 @@ 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/proteinkmer/blastkmerindex.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -47009,6 +47390,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: @@ -47030,14 +47432,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -47070,6 +47472,88 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmer.cpp -o blastkmer.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmerindex.cpp -o blastkmerindex.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmeroptions.cpp -o blastkmeroptions.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmerresults.cpp -o blastkmerresults.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/blastkmerutils.cpp -o blastkmerutils.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/ncbi-blast+-2.12.0+ds=. -specs=/usr/share/dpkg/no-pie-compile.specs -fstack-protector-strong -Wformat -Werror=format-security -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/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/mhfile.cpp -o mhfile.o +/u/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -47082,66 +47566,102 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; | ^~~~~~~~ @@ -47149,7 +47669,7 @@ 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/api/sseqloc.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -47165,14 +47685,61 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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] @@ -47283,32 +47850,32 @@ /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++/src/algo/blast/proteinkmer/blastkmer.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/util/sequtil/sequtil_convert.hpp:34, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/proteinkmer/blastkmer.cpp:34: +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -47333,186 +47900,60 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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.cpp -o blast_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/blastinput/blast_fasta_input.cpp -o blast_fasta_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/blastinput/blast_scope_src.cpp -o blast_scope_src.o +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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 -WnIn 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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/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; | ^~~~~~~~ @@ -47520,7 +47961,7 @@ 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/gbseq_formatter.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -47536,10 +47977,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -47547,7 +47989,7 @@ 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++/src/objtools/format/alignment_item.cpp:33: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -47563,50 +48005,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -47626,7 +48052,8 @@ 65 | 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: + 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; | ^~~~~~~~ @@ -47639,31 +48066,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -47686,63 +48088,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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_formatter.cpp:34: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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] @@ -47751,42 +48096,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -47799,21 +48108,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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++/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; | ^~~~~~~~ @@ -47868,14 +48170,7 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ --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 -DNDEBIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:46: +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; | ^~~~~~~~ @@ -47894,15 +48189,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -47927,12 +48222,11 @@ | ^~~~~~~~ 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/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: + 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; | ^~~~~~~~ @@ -47940,7 +48234,10 @@ 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -47956,43 +48253,68 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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 ) - | ^~~~~~~~~~~~~~~~~ -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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/tblastn_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/tblastn_args.cpp:35: +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 515 | auto_ptr m_MappingCollector; | ^~~~~~~~ @@ -48000,7 +48322,10 @@ 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48016,14 +48341,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; | ^~~~~~~~ @@ -48047,27 +48397,23 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -48097,13 +48443,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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 -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 +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 /usr/bin/g++ -std=gnu++14 -shared -o libproteinkmer.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 -gdwarf-3 -O2 -fPIC blastkmer.o blastkmerindex.o blastkmeroptions.o blastkmerresults.o blastkmerutils.o mhfile.o pearson.o kblastapi.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 -lxblast -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 -llmdb -lpthread -lm -lpthread @@ -48112,161 +48466,39 @@ /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' 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 -j6 --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 -j6 --jobserver-auth=5,6 APP_PROJ=proteinkmer_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/igblast/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=igblast 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: -j6 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=aalookup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=aascan_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/blast/proteinkmer/unit_test/ && /usr/bin/make -w -j5 --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/proteinkmer/unit_test' -make[4]: warning: -j6 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: -j5 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[5]: warning: -j6 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' -make[5]: warning: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: 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: -j6 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/proteinkmer/unit_test TMPL=proteinkmer_unit_test -w -j6 --jobserver-auth=7,8 all +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' +make[5]: warning: -j5 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' +/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 -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/algo/blast/igblast TMPL=igblast -w -j6 --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/igblast TMPL=igblast -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=aascan_unit_test -w -j6 --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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 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/aascan_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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/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] @@ -48489,10 +48721,13 @@ 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/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++/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; | ^~~~~~~~ @@ -48500,7 +48735,7 @@ 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++/include/algo/blast/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48516,21 +48751,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48546,10 +48773,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -48557,7 +48788,7 @@ 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48573,76 +48804,115 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: + 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; | ^~~~~~~~ @@ -48650,7 +48920,9 @@ 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48666,27 +48938,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/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; | ^~~~~~~~ @@ -48710,57 +48969,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/object_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -48791,22 +48999,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48825,114 +49035,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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-In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-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++/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/algo/blast/blastinput/blast_args.hpp:38: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -48942,8 +49100,8 @@ 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/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++/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; | ^~~~~~~~ @@ -48989,28 +49147,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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: + 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; | ^~~~~~~~ @@ -49034,28 +49182,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; @@ -49066,15 +49192,6 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49084,20 +49201,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -49109,31 +49227,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -49156,39 +49261,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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; - | ^~~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /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)); @@ -49196,42 +49268,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ @@ -49239,8 +49279,9 @@ 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/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49256,42 +49297,29 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; | ^~~~~~~~ @@ -49304,47 +49332,26 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/deltablast_args.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/blastinput/deltablast_args.cpp:34: + 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; | ^~~~~~~~ @@ -49368,65 +49375,69 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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_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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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/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; | ^~~~~~~~ @@ -49451,20 +49462,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; | ^~~~~~~~ @@ -49488,25 +49493,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; @@ -49532,24 +49518,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/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; + | ^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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/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; | ^~~~~~~~ @@ -49573,16 +49553,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j6 --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: -j6 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; @@ -49590,12 +49560,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -j6 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: -j6 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/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; | ^~~~~~~~ @@ -49608,17 +49572,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=blastdiag_unit_test -w -j6 --jobserver-auth=7,8 all /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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j6 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=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 -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 -j5 --jobserver-auth=5,6 APP_PROJ=aascan_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: -j5 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: -j5 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: -j5 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=aascan_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastdiag_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/aascan_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()) | ^ @@ -49727,21 +49707,14 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ @@ -49749,10 +49722,7 @@ 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/blastinput/blast_args.hpp:38: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49768,10 +49738,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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; | ^~~~~~~~ @@ -49779,7 +49753,7 @@ 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -49795,99 +49769,90 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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/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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=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 -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' -/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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 -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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -j6 --jobserver-auth=5,6 APP_PROJ=blastengine_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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 -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=blastengine_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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=blastdiag_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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()) | ^ @@ -49996,68 +49961,195 @@ /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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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) + | ^~~~~~~~~~~ +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 -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 -j5 --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: -j5 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: -j5 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++/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; + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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) ); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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: +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' +make[5]: warning: -j5 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=blastengine_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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: +/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/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; | ^~~~~~~~ @@ -50065,9 +50157,7 @@ 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/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/util/sequence.hpp:37: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -50083,98 +50173,81 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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 -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' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j5 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/expr.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' -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 -/bin/rm -f libblastinput.so .libblastinput.so.stamp -/usr/bin/g++ -std=gnu++14 -shared -o libblastinput.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 -gdwarf-3 -O2 -fPIC blast_input.o blast_fasta_input.o blast_scope_src.o blast_args.o cmdline_flags.o blast_input_aux.o blastp_args.o blastn_args.o rmblastn_args.o blastx_args.o tblastn_args.o tblastx_args.o psiblast_args.o rpsblast_args.o rpstblastn_args.o igblastn_args.o igblastp_args.o deltablast_args.o magicblast_args.o kblastp_args.o blast_asn1_input.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 -lxblast -lalign_format -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lseqdb -lxobjread -lxobjread -lvariation -lsubmit -lxlogging -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 -lxutil -lncbi_xloader_genbank -lncbi_xreader_id2 -lncbi_xreader -lscoremat -lseqset -lseq -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 libblastinput.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib -/bin/ln -f libblastinput.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastinput.so -/bin/ln -f .blastinput.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastinput.dep -make[5]: 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/unit_tests/api' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=blastfilter_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: -j6 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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 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: -j6 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=blastfilter_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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++/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=blastextend_unit_test -w -j5 --jobserver-auth=7,8 all +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 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/blastfilter_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_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()) | ^ @@ -50283,6 +50356,53 @@ /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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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 -j5 --jobserver-auth=5,6 APP_PROJ=blastfilter_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: -j5 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: -j5 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: -j5 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++/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++/inclIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -50295,9 +50415,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +ude/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=blastfilter_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastextend_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastfilter_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()) | ^ @@ -50406,9 +50532,30 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ +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 +/bin/rm -f libblastinput.so .libblastinput.so.stamp +/usr/bin/g++ -std=gnu++14 -shared -o libblastinput.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 -gdwarf-3 -O2 -fPIC blast_input.o blast_fasta_input.o blast_scope_src.o blast_args.o cmdline_flags.o blast_input_aux.o blastp_args.o blastn_args.o rmblastn_args.o blastx_args.o tblastn_args.o tblastx_args.o psiblast_args.o rpsblast_args.o rpstblastn_args.o igblastn_args.o igblastp_args.o deltablast_args.o magicblast_args.o kblastp_args.o blast_asn1_input.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 -lxblast -lalign_format -lncbi_xloader_blastdb_rmt -lncbi_xloader_blastdb -lseqdb -lxobjread -lxobjread -lvariation -lsubmit -lxlogging -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 -lxutil -lncbi_xloader_genbank -lncbi_xreader_id2 -lncbi_xreader -lscoremat -lseqset -lseq -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 libblastinput.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib +/bin/ln -f libblastinput.so /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/lib/libblastinput.so +/bin/ln -f .blastinput.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.blastinput.dep +make[5]: 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/blastinput' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastengine_unit_test.cpp:38: + 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; | ^~~~~~~~ @@ -50427,73 +50574,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j6 --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: -j6 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: -j6 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: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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=blasthits_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -50605,24 +50685,6 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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 -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' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=blastoptions_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: -j6 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: -j6 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: -j6 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=blastoptions_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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, @@ -50636,6 +50698,73 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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); + | ^~~~~~~~~~~~~~~ +/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( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:348:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 348 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:461:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 461 | auto_ptr ssl( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=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 -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 -j5 --jobserver-auth=5,6 APP_PROJ=blastoptions_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: -j5 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: -j5 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: -j5 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=blastoptions_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastoptions_unit_test.cpp:35: @@ -50747,7 +50876,7 @@ /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/algo/blast/unit_tests/api/blastextend_unit_test.cpp:37: +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; | ^~~~~~~~ @@ -50760,19 +50889,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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/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, @@ -50783,15 +50906,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -50827,70 +50941,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::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( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:348:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 348 | auto_ptr ssl( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastextend_unit_test.cpp:461:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 461 | auto_ptr ssl( +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -50908,13 +50961,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ 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/blastfilter_unit_test.cpp:58: /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] @@ -50929,6 +50975,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/blastoptions_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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( @@ -51107,35 +51182,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/blastoptions_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 */ @@ -51327,27 +51373,32 @@ /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; | ^~~~~~~~~~~~~~~ -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 -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[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 -j6 --jobserver-auth=5,6 APP_PROJ=blastsetup_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=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 -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 -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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 -j5 --jobserver-auth=5,6 APP_PROJ=gapinfo_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/blastsetup_unit_test.cpp:35: @@ -51459,24 +51510,16 @@ /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/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 -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 -j6 --jobserver-auth=5,6 APP_PROJ=gapinfo_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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=gapinfo_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=gapinfo_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/gapinfo_unit_test.cpp:34: @@ -51604,24 +51647,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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, @@ -51644,6 +51669,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/gencode_singleton_unit_test.cpp:39: @@ -51792,6 +51835,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp -o 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 -gdwarf-3 -O2 -fPIE -pie 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 blasthits_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/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 -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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::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)); @@ -51979,58 +52040,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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::GetMixedFrameQueryOnOneStrand::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:1362:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 1362 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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] - 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_besthit_unit_test.cpp:37: @@ -52142,156 +52151,79 @@ /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/blastsetup_unit_test.cpp: In member function 'void BlastSetup::GetMixedFrameQueryOnOneStrand::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blastsetup_unit_test.cpp:1362:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 1362 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blasthits_unit_test.cpp -o 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 -gdwarf-3 -O2 -fPIE -pie 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 blasthits_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blasthits_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/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=hspfilter_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_besthit_unit_test.cpp -o hspfilter_besthit_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 -gdwarf-3 -O2 -fPIE -pie hspfilter_besthit_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_besthit_unit_test +/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[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 -j6 --jobserver-auth=5,6 APP_PROJ=hspfilter_culling_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 -j6 --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 -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=hspstream_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/hspstream_unit_test.cpp:37: + 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()) | ^ @@ -52400,27 +52332,9 @@ /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' -/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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_besthit_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/hspfilter_besthit_unit_test.cpp -o hspfilter_besthit_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 -gdwarf-3 -O2 -fPIE -pie hspfilter_besthit_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_besthit_unit_test -/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[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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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()) | ^ @@ -52530,26 +52444,26 @@ 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=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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 -j6 --jobserver-auth=5,6 APP_PROJ=msa2pssm_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=linkhsp_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/msa2pssm_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()) | ^ @@ -52658,6 +52572,69 @@ /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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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 @@ -52665,20 +52642,20 @@ /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 -j6 --jobserver-auth=5,6 APP_PROJ=ntlookup_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=ntlookup_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=msa2pssm_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/ntlookup_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()) | ^ @@ -52787,109 +52764,6 @@ /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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -52903,27 +52777,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::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( @@ -52957,33 +52810,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp: In member function 'void NtlookupTestFixture::SetUpQuery(Uint4)': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:99:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 99 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc( - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 @@ -52992,20 +52818,47 @@ /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 -j6 --jobserver-auth=5,6 APP_PROJ=ntscan_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=ntlookup_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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=ntscan_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=ntlookup_unit_test -w -j5 --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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 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/ntscan_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_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()) | ^ @@ -53114,27 +52967,34 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 -j6 --jobserver-auth=5,6 APP_PROJ=optionshandle_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=ntscan_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/optionshandle_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntscan_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()) | ^ @@ -53243,7 +53103,7 @@ /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/algo/blast/unit_tests/api/ntscan_unit_test.cpp:37: +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; | ^~~~~~~~ @@ -53256,9 +53116,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=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 -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 -j5 --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: -j5 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: -j5 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: -j5 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++/src/algo/blast/unit_tests/api/ntscan_unit_test.cpp:38: + 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; | ^~~~~~~~ @@ -53277,27 +53153,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j6 --jobserver-auth=5,6 APP_PROJ=phiblast_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: -j6 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: -j6 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: -j6 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=phiblast_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=optionshandle_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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()) | ^ @@ -53407,39 +53267,70 @@ 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=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 -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 -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/linkhsp_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=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 -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' -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: +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 -j5 --jobserver-auth=5,6 APP_PROJ=phiblast_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: -j5 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/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, | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -j6 --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: -j6 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: -j5 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: -j5 forced in submake: resetting jobserver mode. /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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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' +/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 -j5 --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=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 -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 +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f linkhsp_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/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[5]: warning: -j5 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 -j5 --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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=prelimsearch_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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()) | ^ @@ -53548,71 +53439,9 @@ /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/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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=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 -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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()) | ^ @@ -53721,23 +53550,121 @@ /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 -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 -j6 --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: -j6 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: -j6 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: -j6 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=psiblast_iteration_unit_test -w -j6 --jobserver-auth=7,8 all +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp: In member function 'void NtlookupTestFixture::SetUpQuery(Uint4)': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/ntlookup_unit_test.cpp:99:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 99 | auto_ptr ssl(CTestObjMgr::Instance().CreateSSeqLoc( + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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 includ/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +ed from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -53766,10 +53693,58 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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::BuildCStd_seg_blastn::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:173:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 173 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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::BuildCStd_seg_tblastx::test_method()': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 210 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=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 -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 -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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()) | ^ @@ -53878,67 +53853,16 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/psibl2seq.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psibl2seq_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -j5 --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: -j5 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=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 -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 @@ -53946,51 +53870,28 @@ /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 -j6 --jobserver-auth=5,6 APP_PROJ=pssmcreate_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: -j5 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' +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=pssmcreate_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: -j5 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: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[4]: warning: -j5 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_iteration_unit_test -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::BuildCStd_seg_blastn::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:173:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 173 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::BuildCStd_seg_tblastx::test_method()': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/prelimsearch_unit_test.cpp:210:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 210 | auto_ptr q_ssl(CTestObjMgr::Instance().CreateSSeqLoc(q_id, kRange, kStrand)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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=pssmcreate_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/pssmcreate_unit_test.cpp:34: + 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()) | ^ @@ -54321,64 +54222,9 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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()) | ^ @@ -54487,112 +54333,149 @@ /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.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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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/unit_tests/api/psibl2seq_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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::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)); - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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::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 - | ^~~~~~~~ +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/pssm_test_util.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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)); - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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( - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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)); +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 -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 -j5 --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: -j5 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/pssmcreate_unit_test.cpp:64: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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( +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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)); +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +make[5]: warning: -j5 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/pssm_test_util.cpp:37: + 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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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()) | ^ @@ -54701,31 +54584,29 @@ /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/pssmcreate_unit_test.cpp:64: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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:514:9: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 514 | auto_ptr in + | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -54754,6 +54635,39 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -54922,55 +54836,26 @@ 65 | 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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 -j6 --jobserver-auth=5,6 APP_PROJ=queryinfo_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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=querydata_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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()) | ^ @@ -55109,20 +54994,20 @@ /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[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 -j6 --jobserver-auth=5,6 APP_PROJ=remote_blast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=remote_blast_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=queryinfo_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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()) | ^ @@ -55231,44 +55116,31 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; +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 -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 -j5 --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: -j5 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: -j5 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: -j5 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=remote_blast_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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++/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, @@ -55279,16 +55151,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -55301,14 +55163,134 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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: +/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -55320,17 +55302,17 @@ /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 -j6 --jobserver-auth=5,6 APP_PROJ=rmblast_blasthits_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=rmblast_blasthits_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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: @@ -55442,27 +55424,43 @@ /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/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: +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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)); - | ^~~~~~~~ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:523:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 523 | auto_ptr m_AnnotLocsSet; | ^~~~~~~~ @@ -55475,6 +55473,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -55538,23 +55552,83 @@ 65 | 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=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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 -j6 --jobserver-auth=5,6 APP_PROJ=rmblast_traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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/../../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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=rmblast_traceback_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /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; | ^~~~~~~~ @@ -55734,55 +55808,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 -j6 --jobserver-auth=5,6 APP_PROJ=rps_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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/rmblast_traceback_unit_test.cpp:38: @@ -55804,6 +55839,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/rps_unit_test.cpp:34: @@ -55928,19 +55971,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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[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 -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 @@ -55948,34 +55984,42 @@ /bin/ln -f querydata_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/querydata_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 -j6 --jobserver-auth=5,6 APP_PROJ=scoreblk_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 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: -j6 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]: warning: -j5 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 -j5 --jobserver-auth=5,6 APP_PROJ=search_strategy_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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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: -j5 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=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 -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]: warning: -j5 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 -j6 --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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --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=search_strategy_unit_test -w -j5 --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=scoreblk_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: @@ -56087,7 +56131,6 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -make[5]: warning: -j6 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/search_strategy_unit_test.cpp:34: @@ -56199,143 +56242,72 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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 -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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:124:55: 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/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/unit_tests/api/rps_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/algo/blast/unit_tests/api/rps_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/corelib/expr.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/test_boost.hpp:44: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -56391,6 +56363,101 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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 @@ -56398,48 +56465,20 @@ /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 -j6 --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 -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: warning: -j6 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=seqinfosrc_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/mockseqsrc2_unit_test.cpp:35: + 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()) | ^ @@ -56548,6 +56587,68 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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 +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rps_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rps_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rps_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 -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: @@ -56661,7 +56762,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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/mockseqsrc1_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc2_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()) | ^ @@ -56770,345 +56871,9 @@ /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/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/seqsrc_mock.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/util/random_gen.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:35: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rps_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rps_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rps_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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/setupfactory_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/mockseqsrc1_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()) | ^ @@ -57218,26 +56983,26 @@ 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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=split_query_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=setupfactory_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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()) | ^ @@ -57346,27 +57111,55 @@ /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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=stat_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=split_query_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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=split_query_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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()) | ^ @@ -57507,7 +57300,7 @@ 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++/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.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; | ^~~~~~~~ @@ -57515,8 +57308,9 @@ 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/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/util/random_gen.hpp:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.hpp:38, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/seqsrc_mock.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -57532,19 +57326,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=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 -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 -lvariation -lsubmit -lxIn 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; +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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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()); @@ -57578,27 +57387,83 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --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 -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=stat_unit_test -w -j5 --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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 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()) | ^ @@ -57707,25 +57572,34 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -logging -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 +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp -o search_strategy_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 -gdwarf-3 -O2 -fPIE -pie search_strategy_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 search_strategy_unit_test +/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' 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 -j6 --jobserver-auth=5,6 APP_PROJ=traceback_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=subj_ranges_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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()) | ^ @@ -57834,27 +57708,64 @@ /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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=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 -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=tracebacksearch_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=tracebacksearch_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=traceback_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/tracebacksearch_unit_test.cpp:34: + 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()) | ^ @@ -57964,26 +57875,26 @@ 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=search_strategy_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/search_strategy_unit_test.cpp -o search_strategy_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 -gdwarf-3 -O2 -fPIE -pie search_strategy_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 search_strategy_unit_test -/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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=uniform_search_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=tracebacksearch_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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=uniform_search_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=tracebacksearch_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/uniform_search_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/tracebacksearch_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()) | ^ @@ -58105,14 +58016,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=version_reference_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++/src/algo/blast/unit_tests/api/traceback_unit_test.cpp:38: @@ -58122,8 +58025,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -j6 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; | ^~~~~~~~ @@ -58137,9 +58038,11 @@ 65 | 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: -j6 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, +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 -lvariation -lsubmit -lxIn file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -58170,14 +58073,55 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +logging -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' +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, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -j5 --jobserver-auth=5,6 APP_PROJ=uniform_search_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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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: -j5 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 -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 -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 +/bin/ln -f subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/subj_ranges_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=uniform_search_unit_test -w -j5 --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 -j5 --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: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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: -j5 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 -j5 --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/version_reference_unit_test.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/uniform_search_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()) | ^ @@ -58286,80 +58230,7 @@ /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++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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/uniform_search_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 '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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /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( @@ -58438,6 +58309,178 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/version_reference_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()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 '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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/unit_tests/api/uniform_search_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] @@ -58470,23 +58513,41 @@ 65 | 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=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 -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 -/bin/ln -f subj_ranges_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/subj_ranges_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=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 -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' -cd app/blastdb/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=convert2blastmask LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd app/blastdb/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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=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 -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[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/blastdb TMPL=convert2blastmask -w -j5 --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/segmasker/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=segmasker 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/segmasker' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +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/app/segmasker' +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' +/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/segmasker TMPL=segmasker -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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] @@ -58597,52 +58658,6 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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 -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' -cd app/segmasker/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=segmasker 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/segmasker' -make[4]: warning: -j6 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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/app/segmasker' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -/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/segmasker TMPL=segmasker -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/../blast/blast_app_util.hpp:37, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/segmasker/segmasker.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] @@ -58753,79 +58768,36 @@ /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/seq_feat_handle.hpp:43, - from /build/reproducible-path/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/blastdb/../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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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=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 -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 -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' -cd algo/blast/format/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ="" LIB_PROJ=xblastformat UNIX_PROJ="" sources= configurables=configurables.null -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +cd algo/blast/format/ && /usr/bin/make -w -j5 --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' -make[4]: warning: -j6 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[4]: warning: -j5 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]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/algo/blast/format' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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' -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/format TMPL=xblastformat -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/format TMPL=xblastformat -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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=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 -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 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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/blastxml_format.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()) | ^ @@ -59084,18 +59056,11 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/blastxml_format.cpp:45: + 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()) | ^ @@ -59222,94 +59187,6 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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()); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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()); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -59343,13 +59220,6 @@ /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) | ^~~~~~~~~~ -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 -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' 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; @@ -59357,54 +59227,42 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=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 -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' -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++/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/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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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:37, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/convert2blastmask.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59420,26 +59278,31 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objmgr/object_manager.hpp:45: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59473,15 +59336,12 @@ from /build/reproducible-path/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: + 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/blastdb/../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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59500,8 +59360,8 @@ 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/format/data4xml2format.hpp:40, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.cpp:36: + 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; | ^~~~~~~~ @@ -59512,13 +59372,22 @@ 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/data4xml2format.cpp:34: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xmlformat.cpp:35: /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -59529,6 +59398,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -59538,6 +59410,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -59550,63 +59438,56 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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/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; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; | ^~~~~~~~ @@ -59638,8 +59519,7 @@ 65 | 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: /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; | ^~~~~~~~ @@ -59664,13 +59544,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=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 -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 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -59685,34 +59565,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -59727,17 +59593,29 @@ /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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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; | ^~~~~~~~ @@ -59762,34 +59640,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -59814,6 +59667,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -59847,36 +59706,58 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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] - 140 | m_Options->GetFilterString(); /* 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/uniform_search.hpp:42, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:42: -/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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()); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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()); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; @@ -59884,6 +59765,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -59897,36 +59791,52 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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 -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' +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/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; | ^~~~~~~~ @@ -59981,13 +59891,44 @@ /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 | ^~~~ -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 -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' +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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] @@ -60014,6 +59955,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' /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; | ^~~~~~~~ @@ -60061,13 +60009,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' 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: @@ -60087,6 +60028,34 @@ /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 { | ^~~~~~~~~~~~~ +/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]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2501:55: required from 'bool rapidjson::GenericDocument::EndObject(rapidjson::SizeType) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; rapidjson::SizeType = unsigned int]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1721:40: required from 'rapidjson::GenericReader::IterativeParsingState rapidjson::GenericReader::Transit(IterativeParsingState, Token, IterativeParsingState, InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1817:58: required from 'rapidjson::ParseResult rapidjson::GenericReader::IterativeParse(InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:473:46: required from 'rapidjson::ParseResult rapidjson::GenericReader::Parse(InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2284:57: required from 'rapidjson::GenericDocument& rapidjson::GenericDocument::ParseStream(InputStream&) [with unsigned int parseFlags = 8; SourceEncoding = rapidjson::UTF8<>; InputStream = rapidjson::GenericStringStream >; Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2351:55: required from 'rapidjson::GenericDocument& rapidjson::GenericDocument::Parse(const typename SourceEncoding::Ch*) [with unsigned int parseFlags = 8; SourceEncoding = rapidjson::UTF8<>; Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; typename SourceEncoding::Ch = char]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/jsonwrapp11.hpp:2294:75: required from here +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2024:24: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'rapidjson::GenericValue >::Member' {aka 'struct rapidjson::GenericMember, rapidjson::MemoryPoolAllocator<> >'} with no trivial copy-assignment; use copy-assignment instead [-Wclass-memaccess] + 2024 | std::memcpy(m, members, count * sizeof(Member)); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:88:8: note: 'rapidjson::GenericValue >::Member' {aka 'struct rapidjson::GenericMember, rapidjson::MemoryPoolAllocator<> >'} declared here + 88 | struct GenericMember { + | ^~~~~~~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h: In instantiation of 'void rapidjson::GenericValue::SetArrayRaw(rapidjson::GenericValue*, rapidjson::SizeType, Allocator&) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; rapidjson::SizeType = unsigned int]': +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2509:54: required from 'bool rapidjson::GenericDocument::EndArray(rapidjson::SizeType) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; rapidjson::SizeType = unsigned int]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1751:39: required from 'rapidjson::GenericReader::IterativeParsingState rapidjson::GenericReader::Transit(IterativeParsingState, Token, IterativeParsingState, InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1817:58: required from 'rapidjson::ParseResult rapidjson::GenericReader::IterativeParse(InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:473:46: required from 'rapidjson::ParseResult rapidjson::GenericReader::Parse(InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2284:57: required from 'rapidjson::GenericDocument& rapidjson::GenericDocument::ParseStream(InputStream&) [with unsigned int parseFlags = 8; SourceEncoding = rapidjson::UTF8<>; InputStream = rapidjson::GenericStringStream >; Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2351:55: required from 'rapidjson::GenericDocument& rapidjson::GenericDocument::Parse(const typename SourceEncoding::Ch*) [with unsigned int parseFlags = 8; SourceEncoding = rapidjson::UTF8<>; Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; typename SourceEncoding::Ch = char]' +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/jsonwrapp11.hpp:2294:75: required from here +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2009:24: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'class rapidjson::GenericValue >' with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] + 2009 | std::memcpy(e, values, count * sizeof(GenericValue)); + | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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 { + | ^~~~~~~~~~~~ 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 @@ -60094,7 +60063,14 @@ /usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/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, +/usr/bin/g++ -std=gnu++1make[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 -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' +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, @@ -60226,34 +60202,94 @@ /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/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]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2501:55: required from 'bool rapidjson::GenericDocument::EndObject(rapidjson::SizeType) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; rapidjson::SizeType = unsigned int]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1721:40: required from 'rapidjson::GenericReader::IterativeParsingState rapidjson::GenericReader::Transit(IterativeParsingState, Token, IterativeParsingState, InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1817:58: required from 'rapidjson::ParseResult rapidjson::GenericReader::IterativeParse(InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:473:46: required from 'rapidjson::ParseResult rapidjson::GenericReader::Parse(InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2284:57: required from 'rapidjson::GenericDocument& rapidjson::GenericDocument::ParseStream(InputStream&) [with unsigned int parseFlags = 8; SourceEncoding = rapidjson::UTF8<>; InputStream = rapidjson::GenericStringStream >; Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2351:55: required from 'rapidjson::GenericDocument& rapidjson::GenericDocument::Parse(const typename SourceEncoding::Ch*) [with unsigned int parseFlags = 8; SourceEncoding = rapidjson::UTF8<>; Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; typename SourceEncoding::Ch = char]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/jsonwrapp11.hpp:2294:75: required from here -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2024:24: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'rapidjson::GenericValue >::Member' {aka 'struct rapidjson::GenericMember, rapidjson::MemoryPoolAllocator<> >'} with no trivial copy-assignment; use copy-assignment instead [-Wclass-memaccess] - 2024 | std::memcpy(m, members, count * sizeof(Member)); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:88:8: note: 'rapidjson::GenericValue >::Member' {aka 'struct rapidjson::GenericMember, rapidjson::MemoryPoolAllocator<> >'} declared here - 88 | struct GenericMember { - | ^~~~~~~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h: In instantiation of 'void rapidjson::GenericValue::SetArrayRaw(rapidjson::GenericValue*, rapidjson::SizeType, Allocator&) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; rapidjson::SizeType = unsigned int]': -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2509:54: required from 'bool rapidjson::GenericDocument::EndArray(rapidjson::SizeType) [with Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; rapidjson::SizeType = unsigned int]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1751:39: required from 'rapidjson::GenericReader::IterativeParsingState rapidjson::GenericReader::Transit(IterativeParsingState, Token, IterativeParsingState, InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:1817:58: required from 'rapidjson::ParseResult rapidjson::GenericReader::IterativeParse(InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/reader.h:473:46: required from 'rapidjson::ParseResult rapidjson::GenericReader::Parse(InputStream&, Handler&) [with unsigned int parseFlags = 8; InputStream = rapidjson::GenericStringStream >; Handler = rapidjson::GenericDocument >; SourceEncoding = rapidjson::UTF8<>; TargetEncoding = rapidjson::UTF8<>; StackAllocator = rapidjson::CrtAllocator]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2284:57: required from 'rapidjson::GenericDocument& rapidjson::GenericDocument::ParseStream(InputStream&) [with unsigned int parseFlags = 8; SourceEncoding = rapidjson::UTF8<>; InputStream = rapidjson::GenericStringStream >; Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2351:55: required from 'rapidjson::GenericDocument& rapidjson::GenericDocument::Parse(const typename SourceEncoding::Ch*) [with unsigned int parseFlags = 8; SourceEncoding = rapidjson::UTF8<>; Encoding = rapidjson::UTF8<>; Allocator = rapidjson::MemoryPoolAllocator<>; StackAllocator = rapidjson::CrtAllocator; typename SourceEncoding::Ch = char]' -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/jsonwrapp11.hpp:2294:75: required from here -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/misc/jsonwrapp/rapidjson11/document.h:2009:24: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'class rapidjson::GenericValue >' with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] - 2009 | std::memcpy(e, values, count * sizeof(GenericValue)); - | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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 file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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/data4xml2format.hpp:40, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/format/data4xml2format.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/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/data4xml2format.cpp:34: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/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] + 140 | m_Options->GetFilterString(); /* 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/uniform_search.hpp:42, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/format/data4xml2format.hpp:42: +/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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -60285,6 +60321,188 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -60418,152 +60636,14 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -60582,26 +60662,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -60625,30 +60685,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -60760,159 +60796,67 @@ /bin/ln -f .xblastformat.dep /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/.xblastformat.dep make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' 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 -j6 --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 -j6 --jobserver-auth=5,6 APP_PROJ=bl2seq_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd algo/blast/blastinput/unit_test/ && /usr/bin/make -w -j5 --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 -j5 --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 -j5 --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/blastinput/unit_test' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --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: -j6 forced in submake: resetting jobserver mode. -cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j6 --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 -j6 --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 -j6 --jobserver-auth=5,6 APP_PROJ=psiblast_unit_test LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/unit_test' +make[5]: warning: -j5 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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[5]: warning: -j6 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: -j5 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/unit_test' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/blastinput/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/blastinput/unit_test' -make[5]: warning: -j6 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' -/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 -j6 --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: -j6 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: -j6 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: -j5 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/blastinput/unit_test TMPL=blastinput_unit_test -w -j5 --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 -j5 --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=blast_unit_test -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=delta_unit_test -w -j6 --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=bl2seq_unit_test -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=blast_unit_test -w -j6 --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=bl2seq_unit_test -w -j6 --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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=magicblast_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=magicblast_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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/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()) | ^ -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: -/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()) - | ^~~~~~~~~~~~~~~~~~~~~~~ -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: -/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__ | ^~~~~~~~ @@ -61018,6 +60962,12 @@ /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/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__ | ^~~~~~~~ @@ -61042,48 +60992,12 @@ /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 mac/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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -ro '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()) | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -61161,7 +61075,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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/magicblast_unit_test.cpp:32: + 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()) | ^ @@ -61272,7 +61186,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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/bl2seq_unit_test.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_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()) | ^ @@ -61383,7 +61297,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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/blast_unit_test.cpp:39: + 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()) | ^ @@ -61618,20 +61532,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -61659,44 +61559,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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/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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/psiblast.hpp:36, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_unit_test.cpp:39: + 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; | ^~~~~~~~ @@ -61723,9 +61614,11 @@ | ^~~~~~~~ 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/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++/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; | ^~~~~~~~ @@ -61752,56 +61645,6 @@ | ^~~~~~~~ In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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=blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_unit_test.cpp -o 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 -gdwarf-3 -O2 -fPIE -pie 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 -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 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blast_unit_test -/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' -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 -j6 --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: -j6 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: -j6 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: -j6 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=redoalignment_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.hpp:515:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -61822,125 +61665,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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()) - | ^ -/build/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/api/bl2seq_unit_test.cpp:49: @@ -61982,31 +61706,51 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=blast_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/blast_unit_test.cpp -o 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 -gdwarf-3 -O2 -fPIE -pie 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 -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 -lmbedtls -lmbedx509 -lmbedcrypto -lz -lz -lbz2 -llmdb -lpthread -lm -lpthread -o blast_unit_test +/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' +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 -j5 --jobserver-auth=5,6 APP_PROJ=psiblast_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: -j5 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, @@ -62019,6 +61763,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -j5 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: -j5 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=psiblast_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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, @@ -62182,19 +61934,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::testInterruptBlastSetup::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:998:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 998 | auto_ptr sl(CTestObjMgr::Instance().CreateSSeqLoc(id)); @@ -62327,20 +62066,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::MegablastGreedyTracebackSelfHits::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1844:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1844 | auto_ptr ql( @@ -62354,12 +62079,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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::Blastx2Seqs_QueryPlusStrand::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:1878:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1878 | auto_ptr query( @@ -62433,6 +62152,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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( @@ -62447,6 +62178,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_Db::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2052:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 2052 | auto_ptr query( @@ -62534,6 +62278,117 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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/bl2seq_unit_test.cpp: In member function 'void bl2seq::NucleotideBlastChangeQuery::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2238:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 2238 | auto_ptr query( @@ -62638,6 +62493,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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( @@ -62664,6 +62533,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_SubjMinusStrand::test_method()': /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/bl2seq_unit_test.cpp:2756:5: warning: 'template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 2756 | auto_ptr query( @@ -62897,19 +62772,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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()); @@ -62982,10 +62844,20 @@ | ^~~~~~~~ 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/psiblast.hpp:36, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/algo/blast/unit_tests/api/psiblast_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/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -63001,47 +62873,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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)); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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)); +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -63053,23 +62888,20 @@ /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' 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/blast_format/ && /usr/bin/make -w -j6 --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/blast_format' -make[4]: warning: -j6 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]: warning: -j6 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/algo/blast/unit_tests/blast_format' -make[5]: warning: -j6 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' -/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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +cd algo/blast/unit_tests/api/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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=redoalignment_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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/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()) | ^ @@ -63178,27 +63010,27 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -/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 -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 algo/blast/unit_tests/blast_format/ && /usr/bin/make -w -j5 --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/blast_format' +make[4]: warning: -j5 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]: warning: -j5 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/algo/blast/unit_tests/blast_format' +make[5]: warning: -j5 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' +/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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blast_format/blastfmtutil_unit_test.cpp:51: + 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()) | ^ @@ -63309,7 +63141,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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/vecscreen_run_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()) | ^ @@ -63420,13 +63252,7 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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()) - | ^ -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: + 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()) | ^ @@ -63535,6 +63361,12 @@ /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/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__ | ^~~~~~~~ @@ -63640,27 +63472,12 @@ /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 -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 -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 algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=bdbloader_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/blastdb' -make[4]: warning: -j6 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]: warning: -j6 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/blastdb' -make[5]: warning: -j6 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/blastdb TMPL=bdbloader_unit_test -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/blastdb/bdbloader_unit_test.cpp:47: + 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()) | ^ @@ -63769,22 +63586,24 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +/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/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; @@ -63801,23 +63620,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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/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: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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; | ^~~~~~~~ @@ -63829,27 +63645,13 @@ 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/blastdb/bdbloader_unit_test.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/objtools/data_loaders/blastdb/bdbloader.hpp:38: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: + 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; | ^~~~~~~~ @@ -63900,9 +63702,41 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; | ^~~~~~~~ @@ -63921,9 +63755,22 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; | ^~~~~~~~ @@ -63942,9 +63789,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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)); + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; | ^~~~~~~~ @@ -63963,36 +63817,52 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -64002,38 +63872,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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)); +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: + 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; | ^~~~~~~~ @@ -64064,14 +63932,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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, | ^~~~~~~~ @@ -64084,23 +63971,33 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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)); +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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; | ^~~~~~~~ @@ -64125,57 +64022,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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)); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -64186,42 +64088,208 @@ /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 -j6 --jobserver-auth=5,6 APP_PROJ=blast_formatter 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: -j6 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: -j6 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: -j6 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=blast_formatter -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=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 -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' -/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; +cd algo/blast/unit_tests/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=bdbloader_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/blastdb' +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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' +make[5]: warning: -j5 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/blastdb' +make[5]: warning: -j5 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/blastdb TMPL=bdbloader_unit_test -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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: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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/blastdb/bdbloader_unit_test.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/objtools/data_loaders/blastdb/bdbloader.hpp:38: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, | ^~~~~~~~ -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 -j6 --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]: warning: -j6 forced in submake: resetting jobserver mode. /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -64231,6 +64299,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +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-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 -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[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 -j5 --jobserver-auth=5,6 APP_PROJ=blast_formatter 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: -j5 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: -j5 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: -j5 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=blast_formatter -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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] @@ -64341,14 +64433,44 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ +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()); + | ^~~~~~~~~~~~~~~~~~~~~~~ +pie-link.specs -Wl,-z,relro -Wl,-z,now -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 -j5 --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]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=blast_report -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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] @@ -64462,7 +64584,7 @@ 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/blast_formatter.cpp:41: + 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()); | ^ @@ -64481,18 +64603,270 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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' +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 -j5 --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/app/blast' +make[4]: warning: -j5 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: -j5 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: -j5 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=blastn -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastn_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()) + | ^ +/build/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/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()) + | ^ +/build/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/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: + 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/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()); | ^ @@ -64511,6 +64885,156 @@ /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/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; + | ^~~~~~~~ +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/app/blast/blast_report.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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -64529,38 +65053,47 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/app/blast/blast_report.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++/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_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; | ^~~~~~~~ @@ -64579,14 +65112,6 @@ /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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -64596,6 +65121,75 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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, @@ -64620,69 +65214,89 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/app/blast/blastn_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -64720,26 +65334,23 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -64752,33 +65363,53 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -64789,77 +65420,94 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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); +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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); +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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' -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 -j6 --jobserver-auth=5,6 APP_PROJ=blastn LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +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 -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 -lregexp -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[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blast/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=blastn -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=blastp -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastn_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()) | ^ @@ -64969,7 +65617,7 @@ 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++/src/app/blast/blastn_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()) | ^ @@ -65081,7 +65729,7 @@ 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/blastn_app.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastp_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()); | ^ @@ -65103,7 +65751,7 @@ 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/blastn_node.cpp:40: + 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()); | ^ @@ -65122,65 +65770,26 @@ /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/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-pie-link.specs -Wl,-z,relro -Wl,-z,now -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 -j6 --jobserver-auth=5,6 APP_PROJ=blastp LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +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 -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 -lregexp -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' +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 -j5 --jobserver-auth=5,6 APP_PROJ=blastx 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=blastp -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/blast TMPL=blastx -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastp_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_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()) | ^ @@ -65289,8 +65898,30 @@ /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/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()); + | ^ +/build/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/blastp_node.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_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()) | ^ @@ -65399,67 +66030,16 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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: -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ +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 -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' 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_node.cpp:40: + 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()); | ^ @@ -65478,285 +66058,20 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastn_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -lregexp -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' -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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 -j6 --jobserver-auth=5,6 APP_PROJ=blastx LIB_PROJ="" 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/api' +cd app/blast/ && /usr/bin/make -w -j5 --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' -make[4]: warning: -j6 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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=blastx -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/blastx_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()) - | ^ -/build/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/blast TMPL=deltablast -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/blastx_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.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()) | ^ @@ -65865,31 +66180,10 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/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/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/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()); | ^ @@ -65908,36 +66202,6 @@ /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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objmgr/seq_feat_handle.hpp:43, from /build/reproducible-path/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, @@ -65949,15 +66213,6 @@ /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -66017,191 +66272,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -66209,7 +66279,7 @@ 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/blastx_node.cpp:36: + 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; | ^~~~~~~~ @@ -66237,6 +66307,32 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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=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 -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 -lregexp -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 -j5 --jobserver-auth=5,6 APP_PROJ=psiblast 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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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, @@ -66244,7 +66340,7 @@ 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/blastx_app.cpp:36: + 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; | ^~~~~~~~ @@ -66272,86 +66368,18 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_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 -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 -lregexp -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' -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 -j6 --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' -make[4]: warning: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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++/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/deltablast_app.cpp:36: + 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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -66460,54 +66488,44 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_node.cpp:37: +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; - | ^~~~~~~~ +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_collector.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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/deltablast_app.cpp:45: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/psiblast_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()); | ^ @@ -66526,24 +66544,77 @@ /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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_node.cpp:38: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -66558,30 +66629,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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); - | ^~~~~~~~~ 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, @@ -66593,6 +66640,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -66631,6 +66734,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/blastx_args.hpp:37, from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/blastx_app.cpp:39: @@ -66640,9 +66749,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -66664,9 +66774,20 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -66704,13 +66825,35 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -66723,6 +66866,57 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -66735,8 +66929,15 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; | ^~~~~~~~ @@ -66761,18 +66962,82 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/deltablast.hpp:38, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/deltablast_app.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++/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++/src/app/blast/deltablast_app.cpp: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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -66800,6 +67065,42 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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); + | ^~~~~~~~~ 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, @@ -66824,23 +67125,54 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -66853,8 +67185,8 @@ 65 | 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: + 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; | ^~~~~~~~ @@ -66879,6 +67211,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: @@ -66937,27 +67276,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=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 -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 -lregexp -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 -j6 --jobserver-auth=5,6 APP_PROJ=psiblast 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' +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 +/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 -gdwarf-3 -O2 -fPIE -pie blastinput_unit_test.o blast_scope_src_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 -lentrez2cli -lentrez2 -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 blastinput_unit_test +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastinput_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastinput_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastinput_unit_test +make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' +cd app/blast/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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=rpsblast -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/psiblast_app.cpp:35: + 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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -67066,47 +67405,6 @@ /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/psiblast_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/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 -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 -lregexp -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' -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/rpsblast_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] @@ -67217,120 +67515,10 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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] - 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/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/rpsblast_app.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_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()); | ^ @@ -67352,7 +67540,7 @@ 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/rpsblast_node.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_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()); | ^ @@ -67374,8 +67562,11 @@ 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/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: + 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; | ^~~~~~~~ @@ -67403,54 +67594,25 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -lregexp -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' +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 -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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, @@ -67486,34 +67648,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -/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 -gdwarf-3 -O2 -fPIE -pie blastx_node.o blastx_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 -lregexp -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 blastx -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastx -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/rpstblastn_app.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_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()) | ^ @@ -67623,7 +67759,7 @@ 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++/src/app/blast/rpstblastn_node.cpp:35: + 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()) | ^ @@ -67735,7 +67871,7 @@ 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/rpstblastn_app.cpp:41: + 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()); | ^ @@ -67754,43 +67890,10 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/rpstblastn_node.cpp:41: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpstblastn_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()); | ^ @@ -67809,77 +67912,6 @@ /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/objmgr/seq_feat_handle.hpp:43, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ 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; @@ -67887,111 +67919,32 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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' -cd app/blast/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=seedtop LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +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 +/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 -gdwarf-3 -O2 -fPIE -pie blastx_node.o blastx_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 -lregexp -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 blastx +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastx /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastx +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 -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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 -j5 --jobserver-auth=7,8 all +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ +make[5]: warning: -j5 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/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] @@ -68102,9 +68055,12 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -68131,6 +68087,16 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -68142,18 +68108,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -68163,6 +68117,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -lregexp -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' /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; | ^~~~~~~~ @@ -68175,185 +68135,40 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +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 -j5 --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: -j5 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/rpstblastn_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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]: 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 -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 -lregexp -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' -cd app/blast/ && /usr/bin/make -w -j6 --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: -j6 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/blast TMPL=tblastn -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -68468,6 +68283,33 @@ /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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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] @@ -68578,6 +68420,37 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -68600,6 +68473,33 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -68607,6 +68507,12 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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__ | ^~~~~~~~ @@ -68622,6 +68528,145 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/rpstblastn_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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; @@ -68638,13 +68683,44 @@ 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: + 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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); + | ^~~~~~~~~ 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, @@ -68655,11 +68731,24 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: + 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; | ^~~~~~~~ @@ -68687,6 +68776,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=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 -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 -lregexp -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/blast/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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/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, @@ -68698,6 +68800,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -j5 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 -j5 --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, @@ -68709,15 +68815,53 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +make[5]: warning: -j5 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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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_app.cpp:39: @@ -68739,12 +68883,152 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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] + 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) + | ^ /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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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__ + | ^~~~~~~~ +/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/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: +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -68763,6 +69047,34 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/tblastx_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/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: @@ -68836,164 +69148,137 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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; | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - /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; + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/algo/blast/blastinput/blast_args.hpp:875:5: warni65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -ng: '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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -69021,6 +69306,23 @@ /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++/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: @@ -69048,12 +69350,45 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; @@ -69061,13 +69396,60 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class std::auto_ptr' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 743 | auto_ptr m_ObjectStream; | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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; | ^~~~~~~~ @@ -69080,49 +69462,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69145,36 +69514,51 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -69184,9 +69568,36 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69202,35 +69613,29 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -69241,13 +69646,6 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -69300,76 +69698,45 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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=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 -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 -lregexp -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 +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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=rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp -o rpsblast_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=rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp -o rpsblast_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 -gdwarf-3 -O2 -fPIE -pie rpsblast_node.o rpsblast_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 -lregexp -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 rpsblast +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rpsblast 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 -j6 --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: -j6 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -j6 forced in submake: resetting jobserver mode. -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' +cd app/blastdb/ && /usr/bin/make -w -j5 --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: -j5 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: -j5 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: -j5 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' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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 -lregexp -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' -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/blast TMPL=tblastx -w -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/blastdb TMPL=blastdb_aliastool -w -j5 --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 -j5 --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: -j5 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j5 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: -j5 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 -j5 --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/tblastx_app.cpp:35: + 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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -69478,55 +69845,9 @@ /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++/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/tblastx_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()); - | ^~~~~~~~~~~~~~~~~~~~~~~ -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=rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_node.cpp -o rpsblast_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=rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blast/rpsblast_app.cpp -o rpsblast_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 -gdwarf-3 -O2 -fPIE -pie rpsblast_node.o rpsblast_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 -lregexp -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 rpsblast -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f rpsblast /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/rpsblast -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 -j6 --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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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_aliastool.cpp:35: + 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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -69635,27 +69956,26 @@ /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/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 -/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 -gdwarf-3 -O2 -fPIE -pie blastinput_unit_test.o blast_scope_src_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 -lentrez2cli -lentrez2 -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 blastinput_unit_test -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastinput_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastinput_unit_test /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastinput_unit_test -make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -make[4]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -cd app/blastdb/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=blastdb_convert LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +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 -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 -lregexp -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' +cd app/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=blastdb_path 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/blastdb TMPL=blastdb_path -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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_convert.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdb_path.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()) | ^ @@ -69766,12 +70086,9 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ 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/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: + 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; | ^~~~~~~~ @@ -69799,6 +70116,14 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -69831,42 +70156,62 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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 -lregexp -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=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 -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 -lregexp -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' -cd app/blastdb/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=blastdb_path LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd app/blastdb/ && /usr/bin/make -w -j5 --jobserver-auth=5,6 APP_PROJ=blastdbcheck 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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -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/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 -j5 --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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j6 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_path.cpp:35: + from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.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()) | ^ @@ -69975,41 +70320,14 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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: + 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; | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -70034,59 +70352,51 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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; +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -70118,8 +70428,11 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -70130,33 +70443,21 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=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 -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 -lregexp -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' -cd app/blastdb/ && /usr/bin/make -w -j6 --jobserver-auth=5,6 APP_PROJ=blastdbcheck LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null -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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[4]: warning: -j6 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: -j6 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: -j6 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 -j6 --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/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/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; | ^~~~~~~~ @@ -70181,13 +70482,49 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -make[5]: warning: -j6 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -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 -lregexp -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' +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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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 -j5 --jobserver-auth=5,6 APP_PROJ=blastdbcmd 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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all /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); @@ -70195,15 +70532,16 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: -j5 forced in submake: resetting jobserver mode. +/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); | ^~~~~~~~ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/blastdbcheck.cpp:34: + 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] 142 | const SBuildInfo& build_info = NCBI_SBUILDINFO_DEFAULT()) | ^ @@ -70312,45 +70650,6 @@ /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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; @@ -70398,82 +70697,9 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -/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); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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_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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -70501,13 +70727,6 @@ /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; | ^~~~~~~~ -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 -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 -lregexp -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' /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -70517,135 +70736,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -j6 --jobserver-auth=5,6 APP_PROJ=blastdbcmd 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: -j6 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: -j6 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: -j6 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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] - 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/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] @@ -70655,46 +70745,6 @@ 65 | 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: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/app/blastdb/blastdbcheck.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; @@ -70753,13 +70803,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; @@ -70767,21 +70810,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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); - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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, @@ -70814,40 +70842,27 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, + 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j6 --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: -j6 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: -j6 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: -j6 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=blastdbcp -w -j6 --jobserver-auth=7,8 all -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 -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[5]: warning: -j6 forced in submake: resetting jobserver mode. -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 -j6 --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: -j6 forced in submake: resetting jobserver mode. +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -70861,13 +70876,55 @@ 65 | 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: -j6 forced in submake: resetting jobserver mode. +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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 -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' +cd app/blastdb/ && /usr/bin/make -w -j5 --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: -j5 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/blastdb TMPL=blastdbcp -w -j5 --jobserver-auth=7,8 all +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/blastdbcmd.cpp:47: +/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +make[5]: warning: -j5 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/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] @@ -70978,36 +71035,78 @@ /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, - | ^~~~~~~~ +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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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 -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 -j6 --jobserver-auth=5,6 APP_PROJ=makeprofiledb LIB_PROJ="" UNIX_PROJ="" sources= configurables=configurables.null +cd app/blastdb/ && /usr/bin/make -w -j5 --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: -j6 forced in submake: resetting jobserver mode. +make[4]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 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 -j6 --jobserver-auth=7,8 all -make[5]: warning: -j6 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/blastdb TMPL=makeblastdb -w -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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/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] @@ -71118,22 +71217,60 @@ /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()); | ^~~~~~~~~~~~~~~~~~~~~~~ -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/blastdbcmd.cpp:47: -/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; +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 -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' +In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/seq_feat_handle.hpp:43, + from /build/reproducible-path/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: +/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/objmgr/impl/annot_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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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: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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +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 -j5 --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: -j5 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: -j5 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: -j5 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 -j5 --jobserver-auth=7,8 all +make[5]: warning: -j5 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -71248,63 +71385,9 @@ /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/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: -/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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 -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 -lregexp -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' -/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); +/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; @@ -71312,8 +71395,8 @@ 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.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; | ^~~~~~~~ @@ -71323,9 +71406,9 @@ 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/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/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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ @@ -71355,14 +71438,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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/blast/seqdb_writer/build_db.hpp:45: @@ -71384,51 +71459,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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/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; - | ^~~~~~~~ -In file included from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistl.hpp:221, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbi_limits.hpp:61, - from /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/include/corelib/ncbistr.hpp:38, - from /build/reproducible-path/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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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: @@ -71438,6 +71474,19 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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, @@ -71478,19 +71527,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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] @@ -71558,6 +71594,13 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | 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/makeprofiledb.cpp:63: @@ -71579,13 +71622,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | 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; | ^~~~~~~~ @@ -71646,13 +71682,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | 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=blastdbcheck /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp -o blastdbcheck.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 -gdwarf-3 -O2 -fPIE -pie blastdbcheck.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 blastdbcheck -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdbcheck /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdbcheck /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcheck -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/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()) @@ -71679,10 +71708,10 @@ 1382 | if (m_NumOfVols == m_VolNames.size()) { | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ 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 -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 -/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin -/bin/ln -f blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcp +/usr/bin/g++ -std=gnu++14 -c -Wall -Wno-format-y2k -pthread -fopenmp -g -O2 -ffile-prefix-map=/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=blastdbcheck /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/src/app/blastdb/blastdbcheck.cpp -o blastdbcheck.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 -gdwarf-3 -O2 -fPIE -pie blastdbcheck.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 blastdbcheck +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdbcheck /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdbcheck /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcheck 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' @@ -71693,6 +71722,13 @@ 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=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 -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 +/bin/bash /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/scripts/common/impl/if_diff.sh /bin/ln -f blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin +/bin/ln -f blastdbcp /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/bin/blastdbcp +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 -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 @@ -71718,84 +71754,84 @@ debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds' dh_auto_test - cd c\+\+ && /usr/bin/make -j6 check "TESTSUITEFLAGS=-j6 --verbose" VERBOSE=1 + cd c\+\+ && /usr/bin/make -j5 check "TESTSUITEFLAGS=-j5 --verbose" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++' if test -s ""; then \ - cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build && /usr/bin/make -w -j6 --jobserver-auth=3,4 check_p RUN_CHECK=Y; \ + cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build && /usr/bin/make -w -j5 --jobserver-auth=3,4 check_p RUN_CHECK=Y; \ else \ - cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build && /usr/bin/make -w -j6 --jobserver-auth=3,4 check_r RUN_CHECK=Y; \ + cd /build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build && /usr/bin/make -w -j5 --jobserver-auth=3,4 check_r RUN_CHECK=Y; \ fi make[3]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[3]: warning: -j6 forced in submake: resetting jobserver mode. +make[3]: warning: -j5 forced in submake: resetting jobserver mode. ====================================================================== make[4]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[4]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C corelib -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +make[4]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C corelib -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/corelib' -/usr/bin/make -C util -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C util -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C regexp -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C regexp -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' SKIP -- util/regexp/test_pcre make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/regexp' -/usr/bin/make -C xregexp -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C xregexp -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/xregexp' -/usr/bin/make -C compress -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C compress -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C bzip2 -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C bzip2 -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. NOTE: Skipping project bzip2 due to unmet requirements: LocalBZ2 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' -/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/bzip2 TMPL=bzip2 -w -j6 --jobserver-auth=15,16 mark-as-disabled -make[9]: warning: -j6 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/util/compress/bzip2 TMPL=bzip2 -w -j5 --jobserver-auth=15,16 mark-as-disabled +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/bzip2' -/usr/bin/make -C zlib -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C zlib -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. NOTE: Skipping project zlib due to unmet requirements: LocalZ make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' -/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/zlib TMPL=zlib -w -j6 --jobserver-auth=15,16 mark-as-disabled -make[9]: warning: -j6 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/util/compress/zlib TMPL=zlib -w -j5 --jobserver-auth=15,16 mark-as-disabled +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/zlib' -/usr/bin/make -C api -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C api -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress/api' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/compress' @@ -71803,20 +71839,20 @@ Warning: non-existent sub-project "diff" /bin/echo 'Warning: non-existent sub-project "image"' Warning: non-existent sub-project "image" -/usr/bin/make -C tables -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C tables -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/tables' -/usr/bin/make -C sequtil -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C sequtil -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/sequtil' -/usr/bin/make -C bitset -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C bitset -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" /bin/echo 'Warning: non-existent sub-project "demo"' @@ -71824,31 +71860,31 @@ make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/bitset' /bin/echo 'Warning: non-existent sub-project "qparse"' Warning: non-existent sub-project "qparse" -/usr/bin/make -C lmdb -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C lmdb -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. NOTE: Skipping project lmdb due to unmet requirements: LocalLMDB make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: *** No rule to make target '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/status/LocalLMDB.enabled', needed by 'requirements'. Stop. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' NOTE: skipping project "lmdb" due to unmet requirements make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdb' -/usr/bin/make -C lmdbxx -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C lmdbxx -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdbxx' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdbxx' SKIP -- util/lmdbxx/lmdbxx_sample make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util/lmdbxx' @@ -71856,18 +71892,18 @@ Warning: non-existent sub-project "test" /bin/echo 'Warning: non-existent sub-project "demo"' Warning: non-existent sub-project "demo" -/usr/bin/make -C profile -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C profile -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/util' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: 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' -/usr/bin/make -C connect -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C connect -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C services -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C services -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect/services' @@ -71878,67 +71914,67 @@ /bin/echo 'Warning: non-existent sub-project "daemons"' Warning: non-existent sub-project "daemons" make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/connect' -/usr/bin/make -C cgi -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C cgi -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/cgi' -/usr/bin/make -C html -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C html -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" /bin/echo 'Warning: non-existent sub-project "demo"' Warning: non-existent sub-project "demo" make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/html' -/usr/bin/make -C build-system -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C build-system -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C helpers -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C helpers -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/helpers' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/helpers' SKIP -- build-system/helpers/run_with_lock make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/helpers' -/usr/bin/make -C project_tree_builder -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C project_tree_builder -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder' SKIP -- build-system/project_tree_builder/project_tree_builder -/usr/bin/make -C msbuild -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C msbuild -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. NOTE: Skipping project msbuild due to unmet requirements: MSWin make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' -/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/build-system/project_tree_builder/msbuild TMPL=msbuild_dataobj -w -j6 --jobserver-auth=15,16 mark-as-disabled -make[9]: warning: -j6 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/build-system/project_tree_builder/msbuild TMPL=msbuild_dataobj -w -j5 --jobserver-auth=15,16 mark-as-disabled +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder/msbuild' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system/project_tree_builder' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/build-system' -/usr/bin/make -C serial -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C serial -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C datatool -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C datatool -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' TEST -- serial/datatool/datatool make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/datatool' @@ -71946,18 +71982,18 @@ Warning: non-existent sub-project "test" /bin/echo 'Warning: non-existent sub-project "soap"' Warning: non-existent sub-project "soap" -/usr/bin/make -C grpc_integration -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C grpc_integration -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial/grpc_integration' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/serial' -/usr/bin/make -C db -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C db -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C sqlite -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C sqlite -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/db' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/db/sqlite' /bin/echo 'Warning: non-existent sub-project "bdb"' @@ -71965,357 +72001,357 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/db' /bin/echo 'Warning: non-existent sub-project "dbapi"' Warning: non-existent sub-project "dbapi" -/usr/bin/make -C objects -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C objects -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C general -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C general -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/general' -/usr/bin/make -C biblio -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C biblio -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biblio' -/usr/bin/make -C medline -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C medline -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medline' -/usr/bin/make -C pub -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C pub -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pub' -/usr/bin/make -C seqcode -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C seqcode -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqcode' -/usr/bin/make -C seq -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C seq -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seq' -/usr/bin/make -C seqset -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C seqset -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqset' -/usr/bin/make -C submit -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C submit -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/submit' -/usr/bin/make -C seqedit -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C seqedit -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqedit' -/usr/bin/make -C seqsplit -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C seqsplit -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqsplit' -/usr/bin/make -C id1 -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C id1 -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id1' -/usr/bin/make -C id2 -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C id2 -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/id2' -/usr/bin/make -C entrez2 -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C entrez2 -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "demo"' Warning: non-existent sub-project "demo" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrez2' -/usr/bin/make -C pubmed -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C pubmed -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pubmed' -/usr/bin/make -C medlars -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C medlars -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/medlars' -/usr/bin/make -C mla -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C mla -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mla' -/usr/bin/make -C proj -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C proj -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/proj' -/usr/bin/make -C scoremat -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C scoremat -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/scoremat' -/usr/bin/make -C blast -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C blast -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blast' -/usr/bin/make -C blastdb -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C blastdb -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastdb' -/usr/bin/make -C blastxml -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C blastxml -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml' -/usr/bin/make -C blastxml2 -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C blastxml2 -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/blastxml2' -/usr/bin/make -C mmdb -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C mmdb -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mmdb' -/usr/bin/make -C cn3d -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C cn3d -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/cn3d' -/usr/bin/make -C cdd -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C cdd -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/cdd' -/usr/bin/make -C ncbimime -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C ncbimime -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/ncbimime' -/usr/bin/make -C pcsubstance -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C pcsubstance -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pcsubstance' -/usr/bin/make -C pcassay -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C pcassay -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/pcassay' -/usr/bin/make -C gbseq -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C gbseq -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbseq' -/usr/bin/make -C insdseq -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C insdseq -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/insdseq' -/usr/bin/make -C tinyseq -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C tinyseq -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/tinyseq' -/usr/bin/make -C biotree -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C biotree -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/biotree' -/usr/bin/make -C entrezgene -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C entrezgene -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/entrezgene' -/usr/bin/make -C omssa -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C omssa -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/omssa' -/usr/bin/make -C remap -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C remap -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/remap' -/usr/bin/make -C seqtest -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C seqtest -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/seqtest' -/usr/bin/make -C taxon1 -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C taxon1 -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon1' -/usr/bin/make -C taxon3 -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C taxon3 -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/taxon3' -/usr/bin/make -C gbproj -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C gbproj -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/gbproj' -/usr/bin/make -C trackmgr -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C trackmgr -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/trackmgr' -/usr/bin/make -C valerr -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C valerr -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valerr' -/usr/bin/make -C valid -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C valid -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/valid' -/usr/bin/make -C access -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C access -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/access' -/usr/bin/make -C docsum -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C docsum -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/docsum' -/usr/bin/make -C featdef -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C featdef -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/featdef' -/usr/bin/make -C genomecoll -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C genomecoll -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C gc_cli -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C gc_cli -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll/gc_cli' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll/gc_cli' SKIP -- objects/genomecoll/gc_cli/gc_cli (unmet build REQUIRES) make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll/gc_cli' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genomecoll' -/usr/bin/make -C homologene -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C homologene -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/homologene' -/usr/bin/make -C mim -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C mim -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/mim' -/usr/bin/make -C objprt -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C objprt -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/objprt' -/usr/bin/make -C variation -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C variation -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation' -/usr/bin/make -C macro -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C macro -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/macro' -/usr/bin/make -C genesbyloc -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C genesbyloc -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/genesbyloc' -/usr/bin/make -C coords -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C coords -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/coords' -/usr/bin/make -C varrep -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C varrep -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/varrep' -/usr/bin/make -C variation_libs -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C variation_libs -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C dbsnp -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C dbsnp -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation_libs' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C search_by_rsid -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C search_by_rsid -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation_libs/dbsnp' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Nothing to be done for 'check_add_r'. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation_libs/dbsnp/search_by_rsid' -/usr/bin/make -C tooltip_service -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C tooltip_service -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation_libs/dbsnp' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Nothing to be done for 'check_add_r'. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation_libs/dbsnp/tooltip_service' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation_libs/dbsnp' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/variation_libs' -/usr/bin/make -C dbsnp -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C dbsnp -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C primary_track -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C primary_track -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/dbsnp' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/dbsnp/primary_track' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects/dbsnp' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objects' -/usr/bin/make -C objmgr -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C objmgr -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" -/usr/bin/make -C util -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C util -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/util' -/usr/bin/make -C split -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C split -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr/split' make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objmgr' -/usr/bin/make -C objtools -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C objtools -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C logging -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C logging -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/logging' /bin/echo 'Warning: non-existent sub-project "unit_test_util"' Warning: non-existent sub-project "unit_test_util" -/usr/bin/make -C readers -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C readers -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "app"' Warning: non-existent sub-project "app" /bin/echo 'Warning: non-existent sub-project "test"' @@ -72323,87 +72359,87 @@ /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/readers' -/usr/bin/make -C blast -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C blast -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C seqdb_reader -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C seqdb_reader -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C demo -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C demo -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' SKIP -- objtools/blast/seqdb_reader/demo/seqdb_demo make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/demo' -/usr/bin/make -C test -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C test -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' TEST -- objtools/blast/seqdb_reader/test/seqdb_perf make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader/test' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_reader' -/usr/bin/make -C seqdb_writer -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C seqdb_writer -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C unit_test -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C unit_test -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' TEST -- objtools/blast/seqdb_writer/unit_test/writedb_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' TEST -- objtools/blast/seqdb_writer/unit_test/writedb_lmdb_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer/unit_test' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/seqdb_writer' -/usr/bin/make -C gene_info_reader -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C gene_info_reader -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C demo -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C demo -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' SKIP -- objtools/blast/gene_info_reader/demo/gene_info_reader make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/demo' -/usr/bin/make -C unit_test -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C unit_test -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' TEST -- objtools/blast/gene_info_reader/unit_test/gene_info_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader/unit_test' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/gene_info_reader' /bin/echo 'Warning: non-existent sub-project "gene_info_writer"' Warning: non-existent sub-project "gene_info_writer" -/usr/bin/make -C services -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C services -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C unit_test -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C unit_test -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' SKIP -- objtools/blast/services/unit_test/blast_services_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services/unit_test' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/services' -/usr/bin/make -C blastdb_format -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C blastdb_format -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C unit_test -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C unit_test -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' TEST -- objtools/blast/blastdb_format/unit_test/blastdb_format_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast/blastdb_format/unit_test' @@ -72411,21 +72447,21 @@ make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/blast' /bin/echo 'Warning: non-existent sub-project "lds2"' Warning: non-existent sub-project "lds2" -/usr/bin/make -C pubseq_gateway -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C pubseq_gateway -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "diag"' Warning: non-existent sub-project "diag" /bin/echo 'Warning: non-existent sub-project "cassandra"' Warning: non-existent sub-project "cassandra" -/usr/bin/make -C client -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C client -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C test -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C test -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client/test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client/test' SKIP -- objtools/pubseq_gateway/client/test/test_psg_client_impl (unmet build REQUIRES) make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway/client/test' @@ -72435,34 +72471,34 @@ /bin/echo 'Warning: non-existent sub-project "cache"' Warning: non-existent sub-project "cache" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/pubseq_gateway' -/usr/bin/make -C data_loaders -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C data_loaders -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C genbank -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C genbank -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C cache -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C cache -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Nothing to be done for 'check_add_r'. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/cache' /bin/echo 'Warning: non-existent sub-project "pubseq"' Warning: non-existent sub-project "pubseq" -/usr/bin/make -C id2 -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C id2 -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Nothing to be done for 'check_add_r'. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id2' -/usr/bin/make -C id1 -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C id1 -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Nothing to be done for 'check_add_r'. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/id1' /bin/echo 'Warning: non-existent sub-project "pubseq2"' Warning: non-existent sub-project "pubseq2" -/usr/bin/make -C gicache -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C gicache -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Nothing to be done for 'check_add_r'. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank/gicache' /bin/echo 'Warning: non-existent sub-project "test"' @@ -72470,9 +72506,9 @@ make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/genbank' /bin/echo 'Warning: non-existent sub-project "lds2"' Warning: non-existent sub-project "lds2" -/usr/bin/make -C blastdb -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C blastdb -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders/blastdb' @@ -72483,14 +72519,14 @@ /bin/echo 'Warning: non-existent sub-project "cdd"' Warning: non-existent sub-project "cdd" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/data_loaders' -/usr/bin/make -C simple -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C simple -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/simple' -/usr/bin/make -C alnmgr -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C alnmgr -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "demo"' Warning: non-existent sub-project "demo" /bin/echo 'Warning: non-existent sub-project "unit_test"' @@ -72502,77 +72538,77 @@ Warning: non-existent sub-project "test" /bin/echo 'Warning: non-existent sub-project "manip"' Warning: non-existent sub-project "manip" -/usr/bin/make -C eutils -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C eutils -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C egquery -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C egquery -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/egquery' -/usr/bin/make -C elink -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C elink -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/elink' -/usr/bin/make -C epost -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C epost -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/epost' -/usr/bin/make -C esearch -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C esearch -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esearch' -/usr/bin/make -C espell -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C espell -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/espell' -/usr/bin/make -C esummary -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C esummary -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/esummary' /bin/echo 'Warning: non-existent sub-project "linkout"' Warning: non-existent sub-project "linkout" -/usr/bin/make -C einfo -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C einfo -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/einfo' -/usr/bin/make -C uilist -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C uilist -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/uilist' -/usr/bin/make -C ehistory -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C ehistory -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/ehistory' -/usr/bin/make -C api -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C api -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils/api' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/eutils' -/usr/bin/make -C edit -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C edit -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/edit' -/usr/bin/make -C cleanup -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C cleanup -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "test"' Warning: non-existent sub-project "test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/cleanup' -/usr/bin/make -C format -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C format -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/format' /bin/echo 'Warning: non-existent sub-project "validator"' @@ -72581,20 +72617,20 @@ Warning: non-existent sub-project "asniotest" /bin/echo 'Warning: non-existent sub-project "align"' Warning: non-existent sub-project "align" -/usr/bin/make -C seqmasks_io -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C seqmasks_io -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "unit_test"' Warning: non-existent sub-project "unit_test" make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/seqmasks_io' -/usr/bin/make -C align_format -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C align_format -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C unit_test -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C unit_test -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' TEST -- objtools/align_format/unit_test/align_format_unit_test make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/objtools/align_format/unit_test' @@ -72616,78 +72652,78 @@ Warning: non-existent sub-project "ctools" /bin/echo 'Warning: non-existent sub-project "sra"' Warning: non-existent sub-project "sra" -/usr/bin/make -C algo -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C algo -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C dustmask -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C dustmask -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/dustmask' -/usr/bin/make -C winmask -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C winmask -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/winmask' /bin/echo 'Warning: non-existent sub-project "sequence"' Warning: non-existent sub-project "sequence" -/usr/bin/make -C blast -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C blast -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C composition_adjustment -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C composition_adjustment -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/composition_adjustment' -/usr/bin/make -C core -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C core -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/core' -/usr/bin/make -C dbindex -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C dbindex -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C makeindex -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C makeindex -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' SKIP -- algo/blast/dbindex/makeindex/makeindex make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex/makeindex' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/dbindex' /bin/echo 'Warning: non-existent sub-project "dbindex_search"' Warning: non-existent sub-project "dbindex_search" -/usr/bin/make -C api -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C api -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/api' -/usr/bin/make -C proteinkmer -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C proteinkmer -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C unit_test -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C unit_test -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' TEST -- algo/blast/proteinkmer/unit_test/proteinkmer_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer/unit_test' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/proteinkmer' -/usr/bin/make -C format -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C format -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/format' -/usr/bin/make -C blastinput -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C blastinput -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C unit_test -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C unit_test -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' TEST -- algo/blast/blastinput/unit_test/blastinput_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput/unit_test' @@ -72696,249 +72732,249 @@ make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/blastinput' /bin/echo 'Warning: non-existent sub-project "blast_sra_input"' Warning: non-existent sub-project "blast_sra_input" -/usr/bin/make -C igblast -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C igblast -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'check_add_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/igblast' /bin/echo 'Warning: non-existent sub-project "gumbel_params"' Warning: non-existent sub-project "gumbel_params" -/usr/bin/make -C unit_tests -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +/usr/bin/make -C unit_tests -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C blast_format -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +make[7]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C blast_format -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' TEST -- algo/blast/unit_tests/blast_format/blast_format_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blast_format' -/usr/bin/make -C blastdb -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C blastdb -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' TEST -- algo/blast/unit_tests/blastdb/bdbloader_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/blastdb' -/usr/bin/make -C seqdb_reader -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C seqdb_reader -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' TEST -- algo/blast/unit_tests/seqdb_reader/seqdb_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' TEST -- algo/blast/unit_tests/seqdb_reader/seqdb_lmdb_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/seqdb_reader' -/usr/bin/make -C api -w -j6 --jobserver-auth=13,14 check_add_r || exit 5 +/usr/bin/make -C api -w -j5 --jobserver-auth=13,14 check_add_r || exit 5 make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/blast_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/aalookup_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/seqsrc_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/delta_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/ntlookup_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/seqinfosrc_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/setupfactory_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/search_strategy_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/redoalignment_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/queryinfo_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/querydata_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/pssmenginefreqratios_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/blastsetup_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/blastextend_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/blastdiag_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/pssmcreate_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/psiblast_iteration_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/hspfilter_besthit_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/hspfilter_culling_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/optionshandle_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/msa2pssm_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/tracebacksearch_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/traceback_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/psibl2seq_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/psiblast_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/prelimsearch_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/phiblast_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/split_query_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/scoreblk_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/hspstream_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/rps_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/gapinfo_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/blasthits_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/linkhsp_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/blastengine_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/subj_ranges_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/version_reference_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/ntscan_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/aascan_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/remote_blast_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/uniform_search_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/blastfilter_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/blastoptions_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/gencode_singleton_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/bl2seq_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/stat_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/magicblast_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/rmblast_blasthits_unit_test make[9]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' -make[9]: warning: -j6 forced in submake: resetting jobserver mode. +make[9]: warning: -j5 forced in submake: resetting jobserver mode. make[9]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' TEST -- algo/blast/unit_tests/api/rmblast_traceback_unit_test make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests/api' make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast/unit_tests' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/blast' -/usr/bin/make -C segmask -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C segmask -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo/segmask' /bin/echo 'Warning: non-existent sub-project "align"' @@ -72964,21 +73000,21 @@ /bin/echo 'Warning: non-existent sub-project "id_mapper"' Warning: non-existent sub-project "id_mapper" make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/algo' -/usr/bin/make -C misc -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C misc -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C third_party -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +make[5]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C third_party -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[6]: Nothing to be done for 'check_add_r'. make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/third_party' -/usr/bin/make -C third_party_static -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C third_party_static -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. NOTE: Skipping project third_party_static due to unmet requirements: -DLL make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/third_party_static' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Nothing to be done for 'mark-as-disabled_r'. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/third_party_static' make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/third_party_static' @@ -73000,18 +73036,18 @@ Warning: non-existent sub-project "hgvs" /bin/echo 'Warning: non-existent sub-project "netstorage"' Warning: non-existent sub-project "netstorage" -/usr/bin/make -C jsonwrapp -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C jsonwrapp -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. -/usr/bin/make -C test -w -j6 --jobserver-auth=11,12 check_add_r || exit 5 +make[6]: warning: -j5 forced in submake: resetting jobserver mode. +/usr/bin/make -C test -w -j5 --jobserver-auth=11,12 check_add_r || exit 5 make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/test' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/test' TEST -- misc/jsonwrapp/test/test_jsonwrapp make[8]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/test' -make[8]: warning: -j6 forced in submake: resetting jobserver mode. +make[8]: warning: -j5 forced in submake: resetting jobserver mode. make[8]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/test' TEST -- misc/jsonwrapp/test/test_jsonwrapp10 make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc/jsonwrapp/test' @@ -73031,9 +73067,9 @@ make[5]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/misc' /bin/echo 'Warning: non-existent sub-project "gui"' Warning: non-existent sub-project "gui" -/usr/bin/make -C app -w -j6 --jobserver-auth=7,8 check_add_r || exit 5 +/usr/bin/make -C app -w -j5 --jobserver-auth=7,8 check_add_r || exit 5 make[5]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build' -make[5]: warning: -j6 forced in submake: resetting jobserver mode. +make[5]: warning: -j5 forced in submake: resetting jobserver mode. /bin/echo 'Warning: non-existent sub-project "asn2asn"' Warning: non-existent sub-project "asn2asn" /bin/echo 'Warning: non-existent sub-project "asn2fasta"' @@ -73048,55 +73084,55 @@ Warning: non-existent sub-project "asn_cleanup" /bin/echo 'Warning: non-existent sub-project "id1_fetch"' Warning: non-existent sub-project "id1_fetch" -/usr/bin/make -C blast -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C blast -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/blastp make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/blastn make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/blastx make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/tblastn make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/tblastx make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/psiblast make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/rpsblast make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/rpstblastn make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/blast_formatter make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/blast_report make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/deltablast make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' SKIP -- app/blast/seedtop make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blast' @@ -73116,67 +73152,67 @@ Warning: non-existent sub-project "netstorage" /bin/echo 'Warning: non-existent sub-project "igblast"' Warning: non-existent sub-project "igblast" -/usr/bin/make -C winmasker -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C winmasker -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' SKIP -- app/winmasker/winmasker make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/winmasker' -/usr/bin/make -C dustmasker -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C dustmasker -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' SKIP -- app/dustmasker/dustmasker make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/dustmasker' -/usr/bin/make -C segmasker -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C segmasker -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' SKIP -- app/segmasker/segmasker make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/segmasker' -/usr/bin/make -C blastdb -w -j6 --jobserver-auth=9,10 check_add_r || exit 5 +/usr/bin/make -C blastdb -w -j5 --jobserver-auth=9,10 check_add_r || exit 5 make[6]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app' -make[6]: warning: -j6 forced in submake: resetting jobserver mode. +make[6]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/blastdbcmd make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/makeblastdb make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/blastdb_aliastool make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/blastdbcheck make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/convert2blastmask make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/blastdbcp make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/makeprofiledb make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/blastdb_convert make[7]: Entering directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' -make[7]: warning: -j6 forced in submake: resetting jobserver mode. +make[7]: warning: -j5 forced in submake: resetting jobserver mode. make[7]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' SKIP -- app/blastdb/blastdb_path make[6]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++/BUILD/build/app/blastdb' @@ -73337,12 +73373,12 @@ Testing, please wait... -OK -- [serial/datatool] datatool.sh (real 0.22, user 0.16, sys 0.05) +OK -- [serial/datatool] datatool.sh (real 0.32, user 0.24, sys 0.06) SKP -- [serial/datatool] datatool_xml.sh -OK -- [objtools/blast/gene_info_reader/unit_test] gene_info_unit_test (real 0.02, user 0.01, sys 0.01) -OK -- [algo/blast/proteinkmer/unit_test] proteinkmer_unit_test (real 7.68, user 3.07, sys 1.79) -OK -- [algo/blast/unit_tests/api] blastdiag_unit_test (real 0.01, user 0.01, sys 0.00) -TO -- [algo/blast/unit_tests/api] aascan_unit_test (real 200.11, user 0.10, sys 0.05) +OK -- [objtools/blast/gene_info_reader/unit_test] gene_info_unit_test (real 0.04, user 0.02, sys 0.01) +OK -- [algo/blast/proteinkmer/unit_test] proteinkmer_unit_test (real 7.41, user 3.71, sys 1.44) +OK -- [algo/blast/unit_tests/api] blastdiag_unit_test (real 0.02, user 0.01, sys 0.00) +TO -- [algo/blast/unit_tests/api] aascan_unit_test (real 200.19, user 0.15, sys 0.05) ABS -- [misc/jsonwrapp/test] test_jsonwrapp ABS -- [misc/jsonwrapp/test] test_jsonwrapp10 @@ -73358,120 +73394,120 @@ make[2]: Leaving directory '/build/reproducible-path/ncbi-blast+-2.12.0+ds/c++' c++/BUILD/build/check.sh concat_err cat c++/BUILD/build/check.sh.out_err -TO -- [algo/blast/unit_tests/api] aascan_unit_test (real 200.11, user 0.10, sys 0.05) +TO -- [algo/blast/unit_tests/api] aascan_unit_test (real 200.19, user 0.15, sys 0.05) ====================================================================== aascan_unit_test ====================================================================== -24857/000/0000/PB 52BC611985FDE911 0001/0001 2025-06-28T00:22:41.597273 infom08-i386 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 -24857/000/0000/PB 52BC611985FDE911 0002/0002 2025-06-28T00:22:41.597456 infom08-i386 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=Sep++5+2023+02:40:42&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Sep++5+2023+02:40:42&ncbi_app_version=2.12.0 +03654/000/0000/PB AF280E46652C99C1 0001/0001 2024-05-26T19:33:16.397372 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 +03654/000/0000/PB AF280E46652C99C1 0002/0002 2024-05-26T19:33:16.397610 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=Sep++5+2023+02:40:42&ncbi_app_package_name=blast&ncbi_app_package_version=2.12.0&ncbi_app_package_date=Sep++5+2023+02:40:42&ncbi_app_version=2.12.0 Running 4 test cases... -24857/000/0001/RB 52BC611985FDE911 0003/0003 2025-06-28T00:22:41.599877 infom08-i386 UNK_CLIENT UNK_SESSION aascan_unit_test request-start test_name=ScanOffsetTest&ncbi_app_version=2.12.0 -24857/000/0001/R 52BC611985FDE911 0004/0004 2025-06-28T00:22:41.600332 infom08-i386 UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_phid=52BC611985FDE9110000000000010001 -24857/000/0001/R 52BC611985FDE911 0005/0005 2025-06-28T00:22:41.600353 infom08-i386 UNK_CLIENT UNK_SESSION aascan_unit_test extra issued_subhit=1 -24857/000/0001/R 52BC611985FDE911 0006/0006 2025-06-28T00:22:41.604207 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=2 -24857/000/0001/R 52BC611985FDE911 0007/0007 2025-06-28T00:22:41.604744 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#1000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0008/0008 2025-06-28T00:22:41.604764 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0009/0009 2025-06-28T00:22:41.604778 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0010/0010 2025-06-28T00:22:41.604789 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0011/0011 2025-06-28T00:22:41.604800 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0012/0012 2025-06-28T00:22:41.604940 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=3 -24857/000/0001/R 52BC611985FDE911 0013/0013 2025-06-28T00:22:41.605154 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=4 -24857/000/0001/R 52BC611985FDE911 0014/0014 2025-06-28T00:22:41.605234 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#2000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0015/0015 2025-06-28T00:22:41.605246 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0016/0016 2025-06-28T00:22:41.605265 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0017/0017 2025-06-28T00:22:41.605275 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0018/0018 2025-06-28T00:22:41.605284 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0019/0019 2025-06-28T00:22:41.605330 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=5 -24857/000/0001/R 52BC611985FDE911 0020/0020 2025-06-28T00:22:42.605824 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=6 -24857/000/0001/R 52BC611985FDE911 0021/0021 2025-06-28T00:22:42.606005 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#3000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0022/0022 2025-06-28T00:22:42.606022 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0023/0023 2025-06-28T00:22:42.606048 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0024/0024 2025-06-28T00:22:42.606060 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0025/0025 2025-06-28T00:22:42.606071 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0026/0026 2025-06-28T00:22:42.606182 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=7 -24857/000/0001/R 52BC611985FDE911 0027/0027 2025-06-28T00:22:45.106648 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=8 -24857/000/0001/R 52BC611985FDE911 0028/0028 2025-06-28T00:22:45.106833 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#4000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0029/0029 2025-06-28T00:22:45.106849 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0030/0030 2025-06-28T00:22:45.106863 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0031/0031 2025-06-28T00:22:45.106886 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0032/0032 2025-06-28T00:22:45.106897 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0033/0033 2025-06-28T00:22:45.107006 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=9 -24857/000/0001/R 52BC611985FDE911 0034/0034 2025-06-28T00:22:49.857502 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=10 -24857/000/0001/R 52BC611985FDE911 0035/0035 2025-06-28T00:22:49.857687 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#5000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0036/0036 2025-06-28T00:22:49.857703 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0037/0037 2025-06-28T00:22:49.857716 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0038/0038 2025-06-28T00:22:49.857728 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0039/0039 2025-06-28T00:22:49.857738 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0040/0040 2025-06-28T00:22:49.857948 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=11 -24857/000/0001/R 52BC611985FDE911 0041/0041 2025-06-28T00:22:57.983438 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=12 -24857/000/0001/R 52BC611985FDE911 0042/0042 2025-06-28T00:22:57.983651 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#6000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0043/0043 2025-06-28T00:22:57.983671 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0044/0044 2025-06-28T00:22:57.983685 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0045/0045 2025-06-28T00:22:57.983716 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0046/0046 2025-06-28T00:22:57.983727 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0047/0047 2025-06-28T00:22:57.983849 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=13 -24857/000/0001/R 52BC611985FDE911 0048/0048 2025-06-28T00:23:11.171889 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=14 -24857/000/0001/R 52BC611985FDE911 0049/0049 2025-06-28T00:23:11.172069 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#7000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0050/0050 2025-06-28T00:23:11.172085 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0051/0051 2025-06-28T00:23:11.172098 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0052/0052 2025-06-28T00:23:11.172110 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0053/0053 2025-06-28T00:23:11.172121 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0054/0054 2025-06-28T00:23:11.172246 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=15 -24857/000/0001/R 52BC611985FDE911 0055/0055 2025-06-28T00:23:31.953992 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=16 -24857/000/0001/R 52BC611985FDE911 0056/0056 2025-06-28T00:23:31.954181 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#8000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0057/0057 2025-06-28T00:23:31.954200 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0058/0058 2025-06-28T00:23:31.954215 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0059/0059 2025-06-28T00:23:31.954228 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0060/0060 2025-06-28T00:23:31.954251 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0061/0061 2025-06-28T00:23:31.954378 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=17 -24857/000/0001/R 52BC611985FDE911 0062/0062 2025-06-28T00:24:01.954814 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=18 -24857/000/0001/R 52BC611985FDE911 0063/0063 2025-06-28T00:24:01.954995 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#9000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0064/0064 2025-06-28T00:24:01.955011 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0065/0065 2025-06-28T00:24:01.955025 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0066/0066 2025-06-28T00:24:01.955036 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0067/0067 2025-06-28T00:24:01.955047 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/R 52BC611985FDE911 0068/0068 2025-06-28T00:24:01.955170 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=19 -24857/000/0001/R 52BC611985FDE911 0069/0069 2025-06-28T00:24:31.955636 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test extra issued_subhit=20 -24857/000/0001/R 52BC611985FDE911 0070/0070 2025-06-28T00:24:31.955832 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#10000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0001/R 52BC611985FDE911 0071/0071 2025-06-28T00:24:31.955850 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0001/R 52BC611985FDE911 0072/0072 2025-06-28T00:24:31.955865 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0001/R 52BC611985FDE911 0073/0073 2025-06-28T00:24:31.955878 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0001/R 52BC611985FDE911 0074/0074 2025-06-28T00:24:31.955891 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0001/RE 52BC611985FDE911 0075/0075 2025-06-28T00:24:31.956165 infom08-i386 UNK_CLIENT 52BC611985FDE911_0001SID aascan_unit_test request-stop 500 110.356287987 0 0 +03654/000/0001/RB AF280E46652C99C1 0003/0003 2024-05-26T19:33:16.399555 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test request-start test_name=ScanOffsetTest&ncbi_app_version=2.12.0 +03654/000/0001/R AF280E46652C99C1 0004/0004 2024-05-26T19:33:16.403008 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_phid=AF280E46652C99C10000000000010001 +03654/000/0001/R AF280E46652C99C1 0005/0005 2024-05-26T19:33:16.403048 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra issued_subhit=1 +03654/000/0001/R AF280E46652C99C1 0006/0006 2024-05-26T19:33:16.405353 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=2 +03654/000/0001/R AF280E46652C99C1 0007/0007 2024-05-26T19:33:16.408120 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#1000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0008/0008 2024-05-26T19:33:16.408154 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0009/0009 2024-05-26T19:33:16.408175 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0010/0010 2024-05-26T19:33:16.408191 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0011/0011 2024-05-26T19:33:16.408205 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0012/0012 2024-05-26T19:33:16.412276 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=3 +03654/000/0001/R AF280E46652C99C1 0013/0013 2024-05-26T19:33:16.412579 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=4 +03654/000/0001/R AF280E46652C99C1 0014/0014 2024-05-26T19:33:16.412685 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#2000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0015/0015 2024-05-26T19:33:16.412707 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0016/0016 2024-05-26T19:33:16.412737 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0017/0017 2024-05-26T19:33:16.412753 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0018/0018 2024-05-26T19:33:16.412765 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0019/0019 2024-05-26T19:33:16.412839 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=5 +03654/000/0001/R AF280E46652C99C1 0020/0020 2024-05-26T19:33:17.413583 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=6 +03654/000/0001/R AF280E46652C99C1 0021/0021 2024-05-26T19:33:17.413810 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#3000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0022/0022 2024-05-26T19:33:17.413840 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0023/0023 2024-05-26T19:33:17.413860 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0024/0024 2024-05-26T19:33:17.413876 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0025/0025 2024-05-26T19:33:17.413893 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0026/0026 2024-05-26T19:33:17.414051 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=7 +03654/000/0001/R AF280E46652C99C1 0027/0027 2024-05-26T19:33:19.914655 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=8 +03654/000/0001/R AF280E46652C99C1 0028/0028 2024-05-26T19:33:19.914872 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#4000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0029/0029 2024-05-26T19:33:19.914900 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0030/0030 2024-05-26T19:33:19.914936 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0031/0031 2024-05-26T19:33:19.914953 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0032/0032 2024-05-26T19:33:19.914969 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0033/0033 2024-05-26T19:33:19.915109 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=9 +03654/000/0001/R AF280E46652C99C1 0034/0034 2024-05-26T19:33:24.668525 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=10 +03654/000/0001/R AF280E46652C99C1 0035/0035 2024-05-26T19:33:24.668714 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#5000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0036/0036 2024-05-26T19:33:24.668741 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0037/0037 2024-05-26T19:33:24.668760 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0038/0038 2024-05-26T19:33:24.668776 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0039/0039 2024-05-26T19:33:24.668791 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0040/0040 2024-05-26T19:33:24.669072 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=11 +03654/000/0001/R AF280E46652C99C1 0041/0041 2024-05-26T19:33:32.794938 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=12 +03654/000/0001/R AF280E46652C99C1 0042/0042 2024-05-26T19:33:32.795170 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#6000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0043/0043 2024-05-26T19:33:32.795203 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0044/0044 2024-05-26T19:33:32.795243 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0045/0045 2024-05-26T19:33:32.795265 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0046/0046 2024-05-26T19:33:32.795286 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0047/0047 2024-05-26T19:33:32.795465 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=13 +03654/000/0001/R AF280E46652C99C1 0048/0048 2024-05-26T19:33:45.984504 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=14 +03654/000/0001/R AF280E46652C99C1 0049/0049 2024-05-26T19:33:45.984677 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#7000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0050/0050 2024-05-26T19:33:45.984703 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0051/0051 2024-05-26T19:33:45.984722 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0052/0052 2024-05-26T19:33:45.984739 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0053/0053 2024-05-26T19:33:45.984753 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0054/0054 2024-05-26T19:33:45.984923 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=15 +03654/000/0001/R AF280E46652C99C1 0055/0055 2024-05-26T19:34:06.766846 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=16 +03654/000/0001/R AF280E46652C99C1 0056/0056 2024-05-26T19:34:06.767096 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#8000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0057/0057 2024-05-26T19:34:06.767125 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0058/0058 2024-05-26T19:34:06.767161 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0059/0059 2024-05-26T19:34:06.767179 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0060/0060 2024-05-26T19:34:06.767194 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0061/0061 2024-05-26T19:34:06.767370 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=17 +03654/000/0001/R AF280E46652C99C1 0062/0062 2024-05-26T19:34:36.768144 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=18 +03654/000/0001/R AF280E46652C99C1 0063/0063 2024-05-26T19:34:36.768414 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#9000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0064/0064 2024-05-26T19:34:36.768445 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0065/0065 2024-05-26T19:34:36.768466 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0066/0066 2024-05-26T19:34:36.768483 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0067/0067 2024-05-26T19:34:36.768499 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/R AF280E46652C99C1 0068/0068 2024-05-26T19:34:36.768696 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=19 +03654/000/0001/R AF280E46652C99C1 0069/0069 2024-05-26T19:35:06.769257 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test extra issued_subhit=20 +03654/000/0001/R AF280E46652C99C1 0070/0070 2024-05-26T19:35:06.769437 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#10000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0001/R AF280E46652C99C1 0071/0071 2024-05-26T19:35:06.769466 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0001/R AF280E46652C99C1 0072/0072 2024-05-26T19:35:06.769495 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0001/R AF280E46652C99C1 0073/0073 2024-05-26T19:35:06.769511 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0001/R AF280E46652C99C1 0074/0074 2024-05-26T19:35:06.769527 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0001/RE AF280E46652C99C1 0075/0075 2024-05-26T19:35:06.778457 i-capture-the-hostname UNK_CLIENT AF280E46652C99C1_0001SID aascan_unit_test request-stop 500 110.378895045 0 0 unknown location(0): fatal error: in "aascan/ScanOffsetTest": ncbi::objects::CLoaderException: NCBI C++ Exception: Error: CORELIB(CLoaderException::eConnectionFailed) "c++/include/corelib/ncbidiag.hpp", line 254: ncbi::objects::CId2Reader::x_ConnectAtSlot() --- cannot open connection: ID2 Error: CORELIB(CLoaderException::eConnectionFailed) "c++/include/corelib/ncbidiag.hpp", line 1840: ncbi::objects::CId2ReaderBase::x_SendID2Packet() --- failed to send request: NULL ./c++/src/algo/blast/unit_tests/api/aascan_unit_test.cpp(251): last checkpoint: "ScanOffsetTest" fixture entry. -24857/000/0002/RB 52BC611985FDE911 0078/0078 2025-06-28T00:24:31.956724 infom08-i386 UNK_CLIENT UNK_SESSION aascan_unit_test request-start test_name=ScanMaxHitsTest&ncbi_app_version=2.12.0 -24857/000/0002/R 52BC611985FDE911 0079/0079 2025-06-28T00:24:31.956793 infom08-i386 UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_phid=52BC611985FDE9110000000000020002 -24857/000/0002/R 52BC611985FDE911 0080/0080 2025-06-28T00:24:31.956802 infom08-i386 UNK_CLIENT UNK_SESSION aascan_unit_test extra issued_subhit=1 -24857/000/0002/R 52BC611985FDE911 0081/0081 2025-06-28T00:25:01.957259 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test extra issued_subhit=2 -24857/000/0002/R 52BC611985FDE911 0082/0082 2025-06-28T00:25:01.957440 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#11000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0002/R 52BC611985FDE911 0083/0083 2025-06-28T00:25:01.957457 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0002/R 52BC611985FDE911 0084/0084 2025-06-28T00:25:01.957472 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0002/R 52BC611985FDE911 0085/0085 2025-06-28T00:25:01.957485 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0002/R 52BC611985FDE911 0086/0086 2025-06-28T00:25:01.957497 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0002/R 52BC611985FDE911 0087/0087 2025-06-28T00:25:01.957608 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test extra issued_subhit=3 -24857/000/0002/R 52BC611985FDE911 0088/0088 2025-06-28T00:25:31.958056 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test extra issued_subhit=4 -24857/000/0002/R 52BC611985FDE911 0089/0089 2025-06-28T00:25:31.958240 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#12000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") -24857/000/0002/R 52BC611985FDE911 0090/0090 2025-06-28T00:25:31.958259 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown -24857/000/0002/R 52BC611985FDE911 0091/0091 2025-06-28T00:25:31.958286 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=infom08-i386(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown -24857/000/0002/R 52BC611985FDE911 0092/0092 2025-06-28T00:25:31.958298 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found -24857/000/0002/R 52BC611985FDE911 0093/0093 2025-06-28T00:25:31.958309 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown -24857/000/0002/R 52BC611985FDE911 0094/0094 2025-06-28T00:25:31.958414 infom08-i386 UNK_CLIENT 52BC611985FDF1D1_0002SID aascan_unit_test extra issued_subhit=5 +03654/000/0002/RB AF280E46652C99C1 0078/0078 2024-05-26T19:35:06.779956 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test request-start test_name=ScanMaxHitsTest&ncbi_app_version=2.12.0 +03654/000/0002/R AF280E46652C99C1 0079/0079 2024-05-26T19:35:06.780047 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra ncbi_phid=AF280E46652C99C10000000000020002 +03654/000/0002/R AF280E46652C99C1 0080/0080 2024-05-26T19:35:06.780088 i-capture-the-hostname UNK_CLIENT UNK_SESSION aascan_unit_test extra issued_subhit=1 +03654/000/0002/R AF280E46652C99C1 0081/0081 2024-05-26T19:35:36.780598 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test extra issued_subhit=2 +03654/000/0002/R AF280E46652C99C1 0082/0082 2024-05-26T19:35:36.780780 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#11000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0002/R AF280E46652C99C1 0083/0083 2024-05-26T19:35:36.780808 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0002/R AF280E46652C99C1 0084/0084 2024-05-26T19:35:36.780828 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0002/R AF280E46652C99C1 0085/0085 2024-05-26T19:35:36.780889 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0002/R AF280E46652C99C1 0086/0086 2024-05-26T19:35:36.780904 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0002/R AF280E46652C99C1 0087/0087 2024-05-26T19:35:36.781062 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test extra issued_subhit=3 +03654/000/0002/R AF280E46652C99C1 0088/0088 2024-05-26T19:36:06.781610 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test extra issued_subhit=4 +03654/000/0002/R AF280E46652C99C1 0089/0089 2024-05-26T19:36:06.781791 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CONNECT(302.22) "ncbi_priv.h", line 4228: UNK_FUNC --- SSOCK#12000[?]@:443: [SOCK::Connect] Failed SOCK_gethostbyname("www.ncbi.nlm.nih.gov") +03654/000/0002/R AF280E46652C99C1 0090/0090 2024-05-26T19:36:06.781818 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CONNECT(303.7) "ncbi_priv.h", line 2119: UNK_FUNC --- [URL_Connect; https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32] Failed to connect: Unknown +03654/000/0002/R AF280E46652C99C1 0091/0091 2024-05-26T19:36:06.781838 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CONNECT(304.5) "ncbi_priv.h", line 205: UNK_FUNC --- [ID2] Unable to create connection with network dispatcher at "https://www.ncbi.nlm.nih.gov/Service/dispd.cgi?service=ID2&address=i-capture-the-hostname(127.0.1.1)&platform=x86_64-pc-linux-gnux32": Unknown +03654/000/0002/R AF280E46652C99C1 0092/0092 2024-05-26T19:36:06.781855 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CONNECT(308.5) "ncbi_priv.h", line 102: UNK_FUNC --- [ID2] Service not found +03654/000/0002/R AF280E46652C99C1 0093/0093 2024-05-26T19:36:06.781869 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test Error: CORELIB(315.2) "ncbidiag.hpp", line 123: ncbi::CConn_Streambuf::CConn_Streambuf() --- [CConn_Streambuf::CConn_Streambuf()] NULL connector: Unknown +03654/000/0002/R AF280E46652C99C1 0094/0094 2024-05-26T19:36:06.782000 i-capture-the-hostname UNK_CLIENT AF280E46652CA281_0002SID aascan_unit_test extra issued_subhit=5 Maximum execution time of 200 second(s) is exceeded -real 200.11 -user 0.10 +real 200.19 +user 0.15 sys 0.05 -Start time : 06/28/2025 00:22:41 -Stop time : 06/28/2025 00:26:01 -Load averages: 1.16 8.41 9.39 +Start time : 05/26/2024 19:33:16 +Stop time : 05/26/2024 19:36:36 +Load averages: 4.83 9.49 10.31 @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ @@@ EXIT CODE: 143 @@ -73698,9 +73734,9 @@ 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-4_i386.deb'. dpkg-deb: building package 'ncbi-blast+-legacy' in '../ncbi-blast+-legacy_2.12.0+ds-4_all.deb'. dpkg-deb: building package 'ncbi-blast+-dbgsym' in '../ncbi-blast+-dbgsym_2.12.0+ds-4_i386.deb'. -dpkg-deb: building package 'ncbi-blast+' in '../ncbi-blast+_2.12.0+ds-4_i386.deb'. dpkg-genbuildinfo --build=binary -O../ncbi-blast+_2.12.0+ds-4_i386.buildinfo dpkg-genchanges --build=binary -O../ncbi-blast+_2.12.0+ds-4_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -73709,12 +73745,14 @@ 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/8384/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/8384/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/21736 and its subdirectories -I: Current time: Sat Jun 28 00:28:29 -12 2025 -I: pbuilder-time-stamp: 1751113709 +I: removing directory /srv/workspace/pbuilder/8384 and its subdirectories +I: Current time: Sun May 26 19:39:59 +14 2024 +I: pbuilder-time-stamp: 1716701999