Diff of the two buildlogs: -- --- b1/build.log 2024-05-08 19:54:03.638313094 +0000 +++ b2/build.log 2024-05-08 20:07:31.439976983 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Jun 10 14:00:24 -12 2025 -I: pbuilder-time-stamp: 1749607224 +I: Current time: Thu May 9 09:54:06 +14 2024 +I: pbuilder-time-stamp: 1715198046 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying tao-pegtl-3.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1171494/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1975117/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +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 8 19:54 /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/1975117/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1975117/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='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + 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]="x86_64-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=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='a70685bd09df482fbeb85f4e60a006c5' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='1171494' - PS1='# ' - PS2='> ' + INVOCATION_ID=9788acc107044b98a60e3eaf1b8d1800 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-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=1975117 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.sqBFP2XC/pbuilderrc_xJPP --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.sqBFP2XC/b1 --logfile b1/build.log gemmi_0.6.4+ds-1.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.sqBFP2XC/pbuilderrc_YZpe --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.sqBFP2XC/b2 --logfile b2/build.log gemmi_0.6.4+ds-1.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) 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 9 14:05 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1171494/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 7 07:42 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1975117/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -230,7 +262,7 @@ Get: 95 http://deb.debian.org/debian unstable/main amd64 python3-pybind11 all 2.11.1-2 [201 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 python3-pytest all 8.1.2-1 [246 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 tao-pegtl-dev all 3.2.7-1 [69.4 kB] -Fetched 62.0 MB in 1s (49.6 MB/s) +Fetched 62.0 MB in 1s (80.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19699 files and directories currently installed.) @@ -557,8 +589,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Jun 11 02:01:41 UTC 2025. -Universal Time is now: Wed Jun 11 02:01:41 UTC 2025. +Local time is now: Wed May 8 19:55:02 UTC 2024. +Universal Time is now: Wed May 8 19:55:02 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -647,7 +679,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/gemmi-0.6.4+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 > ../gemmi_0.6.4+ds-1_source.changes +I: user script /srv/workspace/pbuilder/1975117/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/1975117/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/gemmi-0.6.4+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 > ../gemmi_0.6.4+ds-1_source.changes dpkg-buildpackage: info: source package gemmi dpkg-buildpackage: info: source version 0.6.4+ds-1 dpkg-buildpackage: info: source distribution unstable @@ -693,8 +729,8 @@ -- Performing Test HAS_FLTO - Success -- Found pybind11: /usr/lib/python3/dist-packages/pybind11/include (found version "2.11.1") -- Found pybind11 2.11.1: /usr/lib/python3/dist-packages/pybind11/include;/usr/include/python3.11 --- Configuring done (4.5s) --- Generating done (0.2s) +-- Configuring done (5.7s) +-- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: @@ -706,86 +742,86 @@ -- Build files have been written to: /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds' dh_auto_build -O--buildsystem=cmake - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/gemmi-0.6.4+ds -B/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/depend -make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/DependInfo.cmake "--color=" make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/depend make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/options.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/build make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/build make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/build make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -[ 0%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/align.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/align.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/align.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/align.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/align.cpp -[ 2%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -[ 4%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/ddl.cpp -[ 4%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/crd.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/assembly.cpp +make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +[ 4%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o +[ 4%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o +[ 6%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/align.cpp.o [ 6%] Building CXX object CMakeFiles/options.dir/prog/options.cpp.o -[ 8%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/options.dir/prog/options.cpp.o -MF CMakeFiles/options.dir/prog/options.cpp.o.d -o CMakeFiles/options.dir/prog/options.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/options.cpp +[ 6%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o +[ 10%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o +[ 10%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o +[ 10%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/eig3.cpp.o +[ 13%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o +[ 13%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/crd.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/calculate.cpp -[ 8%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/eig3.cpp.o -[ 10%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/mmcif.cpp +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/options.dir/prog/options.cpp.o -MF CMakeFiles/options.dir/prog/options.cpp.o.d -o CMakeFiles/options.dir/prog/options.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/options.cpp +[ 13%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/align.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/align.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/align.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/align.cpp /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/crd.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/crd.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/crd.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/crd.cpp -[ 13%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o -[ 13%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/ddl.cpp +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/assembly.cpp /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/eig3.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/eig3.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/eig3.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/eig3.cpp -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/mmcif.cpp +[ 15%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o +[ 17%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/mmread_gz.cpp /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/mtz.cpp -[ 15%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/mtz2cif.cpp -[ 15%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/polyheur.cpp -[ 17%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o [ 17%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/resinfo.cpp.o +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/polyheur.cpp +[ 19%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/read_cif.cpp /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/resinfo.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/resinfo.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/resinfo.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/resinfo.cpp -[ 19%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/riding_h.cpp [ 19%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o -[ 21%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o -[ 23%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/sprintf.cpp -[ 26%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o -[ 26%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o +[ 21%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/to_mmcif.cpp -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/topo.cpp +[ 23%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/to_pdb.cpp +[ 23%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/monlib.cpp -[ 26%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/xds_ascii.cpp +[ 26%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/topo.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/prog/options.cpp:8: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -/build/reproducible-path/gemmi-0.6.4+ds/src/sprintf.cpp:30:86: note: '#pragma message: Using system stb_sprintf.h, not the bundled one. It may not work.' - 30 | # pragma message("Using system stb_sprintf.h, not the bundled one. It may not work.") - | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/xds_ascii.hpp:11, - from /build/reproducible-path/gemmi-0.6.4+ds/src/xds_ascii.cpp:3: +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, + from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz2cif.hpp:14, + from /build/reproducible-path/gemmi-0.6.4+ds/src/mtz2cif.cpp:3: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ +/build/reproducible-path/gemmi-0.6.4+ds/src/sprintf.cpp:30:86: note: '#pragma message: Using system stb_sprintf.h, not the bundled one. It may not work.' + 30 | # pragma message("Using system stb_sprintf.h, not the bundled one. It may not work.") + | ^ In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, from /build/reproducible-path/gemmi-0.6.4+ds/src/mtz.cpp:3: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, - from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz2cif.hpp:14, - from /build/reproducible-path/gemmi-0.6.4+ds/src/mtz2cif.cpp:3: +[ 26%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/xds_ascii.cpp +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/xds_ascii.hpp:11, + from /build/reproducible-path/gemmi-0.6.4+ds/src/xds_ascii.cpp:3: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ @@ -845,134 +881,76 @@ make -f CMakeFiles/gemmi_prog.dir/build.make CMakeFiles/gemmi_prog.dir/depend make -f CMakeFiles/gemmi_py.dir/build.make CMakeFiles/gemmi_py.dir/depend make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_py.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +make -f CMakeFiles/gemmi_prog.dir/build.make CMakeFiles/gemmi_prog.dir/build make[3]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' make -f CMakeFiles/gemmi_py.dir/build.make CMakeFiles/gemmi_py.dir/build make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -make -f CMakeFiles/gemmi_prog.dir/build.make CMakeFiles/gemmi_prog.dir/build make[3]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -[ 30%] Building CXX object CMakeFiles/gemmi_py.dir/python/mol.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/mol.cpp.o -MF CMakeFiles/gemmi_py.dir/python/mol.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/mol.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/mol.cpp -[ 30%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/align.cpp.o -[ 30%] Building CXX object CMakeFiles/gemmi_py.dir/python/gemmi.cpp.o -[ 32%] Building CXX object CMakeFiles/gemmi_py.dir/python/align.cpp.o -[ 34%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o +[ 28%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/align.cpp.o +[ 28%] Building CXX object CMakeFiles/gemmi_py.dir/python/gemmi.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/align.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/align.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/align.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/align.cpp +[ 32%] Building CXX object CMakeFiles/gemmi_py.dir/python/mol.cpp.o +[ 32%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o +[ 32%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o +[ 32%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o /usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/gemmi.cpp.o -MF CMakeFiles/gemmi_py.dir/python/gemmi.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/gemmi.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/gemmi.cpp -[ 34%] Building CXX object CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o -[ 36%] Building CXX object CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/align.cpp.o -MF CMakeFiles/gemmi_py.dir/python/align.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/align.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/align.cpp -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/blobs.cpp -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o -MF CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/ccp4.cpp -[ 36%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o -MF CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/chemcomp.cpp +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/mol.cpp.o -MF CMakeFiles/gemmi_py.dir/python/mol.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/mol.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/mol.cpp /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/cif2mtz.cpp -[ 39%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o -[ 41%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o -[ 43%] Building CXX object CMakeFiles/gemmi_py.dir/python/cif.cpp.o -[ 43%] Building CXX object CMakeFiles/gemmi_py.dir/python/custom.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/contact.cpp -[ 43%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/contents.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/cif.cpp.o -MF CMakeFiles/gemmi_py.dir/python/cif.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/cif.cpp -[ 45%] Building CXX object CMakeFiles/gemmi_py.dir/python/elem.cpp.o -[ 45%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/diff.cpp.o -[ 47%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o -[ 50%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/cif2json.cpp -[ 50%] Building CXX object CMakeFiles/gemmi_py.dir/python/grid.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/custom.cpp.o -MF CMakeFiles/gemmi_py.dir/python/custom.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/custom.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/custom.cpp -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/elem.cpp.o -MF CMakeFiles/gemmi_py.dir/python/elem.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/elem.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/elem.cpp -[ 50%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o +[ 34%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/contents.cpp.o +[ 41%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/main.cpp.o +[ 41%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o +[ 41%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/blobs.cpp +[ 34%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/diff.cpp.o +[ 45%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/contents.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/contents.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/contents.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/contents.cpp -[ 50%] Building CXX object CMakeFiles/gemmi_py.dir/python/meta.cpp.o -[ 52%] Building CXX object CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/grid.cpp.o -MF CMakeFiles/gemmi_py.dir/python/grid.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/grid.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/grid.cpp -[ 54%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -MF CMakeFiles/gemmi_py.dir/python/hkl.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/hkl.cpp +[ 43%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o +[ 47%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o +[ 47%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/h.cpp.o +[ 43%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/convert.cpp -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/meta.cpp.o -MF CMakeFiles/gemmi_py.dir/python/meta.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/meta.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/meta.cpp -[ 56%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/h.cpp.o +[ 47%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/map.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/cif2json.cpp +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/contact.cpp /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/diff.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/diff.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/diff.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/diff.cpp /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/ecalc.cpp -[ 58%] Building CXX object CMakeFiles/gemmi_py.dir/python/monlib.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/fprime.cpp -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -MF CMakeFiles/gemmi_py.dir/python/monlib.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/monlib.cpp +[ 52%] Building CXX object CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o +[ 52%] Building CXX object CMakeFiles/gemmi_py.dir/python/align.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/grep.cpp /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/h.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/h.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/h.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/h.cpp -[ 58%] Building CXX object CMakeFiles/gemmi_py.dir/python/mtz.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/mtz.cpp.o -MF CMakeFiles/gemmi_py.dir/python/mtz.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/mtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/mtz.cpp -[ 60%] Building CXX object CMakeFiles/gemmi_py.dir/python/read.cpp.o -[ 60%] Building CXX object CMakeFiles/gemmi_py.dir/python/scaling.cpp.o -[ 65%] Building CXX object CMakeFiles/gemmi_py.dir/python/search.cpp.o -[ 65%] Building CXX object CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/read.cpp.o -MF CMakeFiles/gemmi_py.dir/python/read.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/read.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/read.cpp -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/scaling.cpp.o -MF CMakeFiles/gemmi_py.dir/python/scaling.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/scaling.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/scaling.cpp -[ 65%] Building CXX object CMakeFiles/gemmi_py.dir/python/sf.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -MF CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/recgrid.cpp -[ 65%] Building CXX object CMakeFiles/gemmi_py.dir/python/topo.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/search.cpp.o -MF CMakeFiles/gemmi_py.dir/python/search.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/search.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/search.cpp -[ 67%] Building CXX object CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/sf.cpp.o -MF CMakeFiles/gemmi_py.dir/python/sf.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/sf.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/sf.cpp -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/topo.cpp.o -MF CMakeFiles/gemmi_py.dir/python/topo.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/topo.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/topo.cpp -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -MF CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/unitcell.cpp -[ 69%] Building CXX object CMakeFiles/gemmi_py.dir/python/sym.cpp.o -[ 71%] Building CXX object CMakeFiles/gemmi_py.dir/python/write.cpp.o -[ 73%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/sym.cpp.o -MF CMakeFiles/gemmi_py.dir/python/sym.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/sym.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/sym.cpp -[ 76%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/main.cpp.o -[ 76%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/map.cpp.o +[ 52%] Building CXX object CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/align.cpp.o -MF CMakeFiles/gemmi_py.dir/python/align.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/align.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/align.cpp +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/json2cif.cpp +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o -MF CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/ccp4.cpp +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o -MF CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/chemcomp.cpp /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/main.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/main.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/main.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/main.cpp -[ 76%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/write.cpp.o -MF CMakeFiles/gemmi_py.dir/python/write.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/write.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/write.cpp -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/map2sf.cpp -[ 78%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o -[ 78%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/map.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/map.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/map.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/map.cpp -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/json2cif.cpp -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mapcoef.cpp -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mask.cpp -[ 80%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o -[ 80%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/merge.cpp -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mondiff.cpp -[ 82%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/monlib_opt.cpp +[ 54%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/map2sf.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/ccp4.hpp:19, from /build/reproducible-path/gemmi-0.6.4+ds/python/ccp4.cpp:3: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, - from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/cif2mtz.hpp:15, - from /build/reproducible-path/gemmi-0.6.4+ds/prog/cif2mtz.cpp:10: -/build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] - 37 | typedef std::unique_ptr fileptr_t; - | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/ccp4.hpp:19, - from /build/reproducible-path/gemmi-0.6.4+ds/prog/mask.cpp:5: -/build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] - 37 | typedef std::unique_ptr fileptr_t; - | ^ In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/ccp4.hpp:19, from /build/reproducible-path/gemmi-0.6.4+ds/prog/map.cpp:6: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, - from /build/reproducible-path/gemmi-0.6.4+ds/python/mtz.cpp:3: -/build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] - 37 | typedef std::unique_ptr fileptr_t; - | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, from /build/reproducible-path/gemmi-0.6.4+ds/prog/ecalc.cpp:5: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ +[ 54%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mapcoef.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/gz.hpp:13, - from /build/reproducible-path/gemmi-0.6.4+ds/prog/merge.cpp:11: + from /build/reproducible-path/gemmi-0.6.4+ds/prog/grep.cpp:6: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ @@ -981,100 +959,158 @@ /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -[ 82%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -Wno-psabi -MD -MT CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mtz.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, - from /build/reproducible-path/gemmi-0.6.4+ds/prog/mapcoef.cpp:11: + from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/cif2mtz.hpp:15, + from /build/reproducible-path/gemmi-0.6.4+ds/prog/cif2mtz.cpp:10: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/pdb.hpp:23, - from /build/reproducible-path/gemmi-0.6.4+ds/python/read.cpp:7: +[ 56%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mask.cpp +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, + from /build/reproducible-path/gemmi-0.6.4+ds/prog/mapcoef.cpp:11: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/gz.hpp:13, - from /build/reproducible-path/gemmi-0.6.4+ds/prog/grep.cpp:6: +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/ccp4.hpp:19, + from /build/reproducible-path/gemmi-0.6.4+ds/prog/mask.cpp:5: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, - from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/cif2mtz.hpp:15, - from /build/reproducible-path/gemmi-0.6.4+ds/python/hkl.cpp:9: +[ 58%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/merge.cpp +[ 58%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mondiff.cpp +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/gz.hpp:13, + from /build/reproducible-path/gemmi-0.6.4+ds/prog/merge.cpp:11: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ +[ 60%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/monlib_opt.cpp +[ 63%] Building CXX object CMakeFiles/gemmi_py.dir/python/cif.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/cif.cpp.o -MF CMakeFiles/gemmi_py.dir/python/cif.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/cif.cpp +[ 63%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -Wno-psabi -MD -MT CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mtz.cpp +[ 65%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mtz2cif.cpp +[ 65%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/prep.cpp +[ 65%] Building CXX object CMakeFiles/gemmi_py.dir/python/custom.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/custom.cpp.o -MF CMakeFiles/gemmi_py.dir/python/custom.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/custom.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/custom.cpp +[ 67%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/reindex.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, from /build/reproducible-path/gemmi-0.6.4+ds/prog/mtz.cpp:8: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -[ 84%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/mtz2cif.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz2cif.hpp:14, from /build/reproducible-path/gemmi-0.6.4+ds/prog/mtz2cif.cpp:8: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -[ 84%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/prep.cpp -[ 86%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/reindex.cpp -[ 86%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/residues.cpp +[ 69%] Building CXX object CMakeFiles/gemmi_py.dir/python/elem.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/elem.cpp.o -MF CMakeFiles/gemmi_py.dir/python/elem.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/elem.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/elem.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, from /build/reproducible-path/gemmi-0.6.4+ds/prog/reindex.cpp:9: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -[ 89%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o +[ 69%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/residues.cpp +[ 71%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/rmsz.cpp -[ 91%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o +[ 73%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/sf2map.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/ccp4.hpp:19, from /build/reproducible-path/gemmi-0.6.4+ds/prog/sf2map.cpp:6: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -[ 91%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o +[ 73%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/sfcalc.cpp -[ 93%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o +[ 76%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/sg.cpp -[ 93%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o +[ 76%] Building CXX object CMakeFiles/gemmi_py.dir/python/grid.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/grid.cpp.o -MF CMakeFiles/gemmi_py.dir/python/grid.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/grid.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/grid.cpp +[ 76%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/tags.cpp -[ 95%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/validate.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/ccp4.hpp:19, from /build/reproducible-path/gemmi-0.6.4+ds/prog/sfcalc.cpp:9: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -[ 95%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o +[ 78%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/validate.cpp +[ 78%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/validate_mon.cpp In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/gz.hpp:13, from /build/reproducible-path/gemmi-0.6.4+ds/prog/tags.cpp:7: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -[ 97%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/gz.hpp:13, + from /build/reproducible-path/gemmi-0.6.4+ds/prog/validate.cpp:5: +/build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] + 37 | typedef std::unique_ptr fileptr_t; + | ^ +[ 80%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/wcn.cpp -[100%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o +[ 82%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/prog/xds2mtz.cpp +[ 84%] Building CXX object CMakeFiles/gemmi_py.dir/python/hkl.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -MF CMakeFiles/gemmi_py.dir/python/hkl.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/hkl.cpp +In file included from /build/reproducible-path/gemmi-0.6.4+ds/prog/wcn.cpp:10: +/build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] + 37 | typedef std::unique_ptr fileptr_t; + | ^ In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/gz.hpp:13, from /build/reproducible-path/gemmi-0.6.4+ds/prog/xds2mtz.cpp:7: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/gz.hpp:13, - from /build/reproducible-path/gemmi-0.6.4+ds/prog/validate.cpp:5: +[ 84%] Building CXX object CMakeFiles/gemmi_py.dir/python/meta.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/meta.cpp.o -MF CMakeFiles/gemmi_py.dir/python/meta.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/meta.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/meta.cpp +[ 86%] Building CXX object CMakeFiles/gemmi_py.dir/python/monlib.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -MF CMakeFiles/gemmi_py.dir/python/monlib.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/monlib.cpp +[ 86%] Building CXX object CMakeFiles/gemmi_py.dir/python/mtz.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/mtz.cpp.o -MF CMakeFiles/gemmi_py.dir/python/mtz.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/mtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/mtz.cpp +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, + from /build/reproducible-path/gemmi-0.6.4+ds/python/mtz.cpp:3: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/prog/wcn.cpp:10: +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, + from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/cif2mtz.hpp:15, + from /build/reproducible-path/gemmi-0.6.4+ds/python/hkl.cpp:9: /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ +[ 89%] Building CXX object CMakeFiles/gemmi_py.dir/python/read.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/read.cpp.o -MF CMakeFiles/gemmi_py.dir/python/read.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/read.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/read.cpp +[ 91%] Building CXX object CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -MF CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/recgrid.cpp +[ 91%] Building CXX object CMakeFiles/gemmi_py.dir/python/scaling.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/scaling.cpp.o -MF CMakeFiles/gemmi_py.dir/python/scaling.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/scaling.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/scaling.cpp +[ 93%] Building CXX object CMakeFiles/gemmi_py.dir/python/search.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/search.cpp.o -MF CMakeFiles/gemmi_py.dir/python/search.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/search.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/search.cpp +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/pdb.hpp:23, + from /build/reproducible-path/gemmi-0.6.4+ds/python/read.cpp:7: +/build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] + 37 | typedef std::unique_ptr fileptr_t; + | ^ +[ 93%] Building CXX object CMakeFiles/gemmi_py.dir/python/sf.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/sf.cpp.o -MF CMakeFiles/gemmi_py.dir/python/sf.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/sf.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/sf.cpp +[ 95%] Building CXX object CMakeFiles/gemmi_py.dir/python/sym.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/sym.cpp.o -MF CMakeFiles/gemmi_py.dir/python/sym.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/sym.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/sym.cpp +[ 95%] Building CXX object CMakeFiles/gemmi_py.dir/python/topo.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/topo.cpp.o -MF CMakeFiles/gemmi_py.dir/python/topo.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/topo.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/topo.cpp +[ 97%] Building CXX object CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -MF CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/unitcell.cpp +[100%] Building CXX object CMakeFiles/gemmi_py.dir/python/write.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/build/reproducible-path/gemmi-0.6.4+ds/include -isystem /usr/include/python3.11 -isystem /usr/lib/python3/dist-packages/pybind11/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/gemmi_py.dir/python/write.cpp.o -MF CMakeFiles/gemmi_py.dir/python/write.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/write.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/python/write.cpp [100%] Linking CXX shared module gemmi.cpython-311-x86_64-linux-gnu.so /usr/bin/cmake -E cmake_link_script CMakeFiles/gemmi_py.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -flto -Wl,-z,relro -shared -o gemmi.cpython-311-x86_64-linux-gnu.so CMakeFiles/gemmi_py.dir/python/mol.cpp.o CMakeFiles/gemmi_py.dir/python/gemmi.cpp.o CMakeFiles/gemmi_py.dir/python/align.cpp.o CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o CMakeFiles/gemmi_py.dir/python/cif.cpp.o CMakeFiles/gemmi_py.dir/python/custom.cpp.o CMakeFiles/gemmi_py.dir/python/elem.cpp.o CMakeFiles/gemmi_py.dir/python/grid.cpp.o CMakeFiles/gemmi_py.dir/python/hkl.cpp.o CMakeFiles/gemmi_py.dir/python/meta.cpp.o CMakeFiles/gemmi_py.dir/python/monlib.cpp.o CMakeFiles/gemmi_py.dir/python/mtz.cpp.o CMakeFiles/gemmi_py.dir/python/read.cpp.o CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o CMakeFiles/gemmi_py.dir/python/scaling.cpp.o CMakeFiles/gemmi_py.dir/python/search.cpp.o CMakeFiles/gemmi_py.dir/python/sf.cpp.o CMakeFiles/gemmi_py.dir/python/sym.cpp.o CMakeFiles/gemmi_py.dir/python/topo.cpp.o CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o CMakeFiles/gemmi_py.dir/python/write.cpp.o CMakeFiles/gemmi_cpp.dir/src/align.cpp.o CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o CMakeFiles/gemmi_cpp.dir/src/crd.cpp.o CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o CMakeFiles/gemmi_cpp.dir/src/eig3.cpp.o CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o CMakeFiles/gemmi_cpp.dir/src/resinfo.cpp.o CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o /usr/lib/x86_64-linux-gnu/libz.so @@ -1098,7 +1134,7 @@ debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds' dh_auto_build -- check - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" check VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" check VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/gemmi-0.6.4+ds -B/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 check @@ -1107,147 +1143,147 @@ /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles 47 make -f CMakeFiles/Makefile2 CMakeFiles/check.dir/all make[4]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +make -f CMakeFiles/doc_example.dir/build.make CMakeFiles/doc_example.dir/depend make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/depend make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/depend +make -f CMakeFiles/doc_example2.dir/build.make CMakeFiles/doc_example2.dir/depend +make -f CMakeFiles/cpptest.dir/build.make CMakeFiles/cpptest.dir/depend +make -f CMakeFiles/hello.dir/build.make CMakeFiles/hello.dir/depend make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/doc_example.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/options.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/cpptest.dir/build.make CMakeFiles/cpptest.dir/depend -make -f CMakeFiles/hello.dir/build.make CMakeFiles/hello.dir/depend make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -make -f CMakeFiles/doc_example.dir/build.make CMakeFiles/doc_example.dir/depend +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/doc_example2.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/hello.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/cpptest.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/doc_example2.dir/build.make CMakeFiles/doc_example2.dir/depend +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/doc_example.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/doc_example2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/cpptest.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/hello.dir/DependInfo.cmake "--color=" Dependencies file "CMakeFiles/gemmi_cpp.dir/src/align.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -Dependencies file "CMakeFiles/options.dir/prog/options.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/options.dir/compiler_depend.internal". +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +make -f CMakeFiles/doc_example.dir/build.make CMakeFiles/doc_example.dir/build Dependencies file "CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/crd.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target options +make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/eig3.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -make -f CMakeFiles/doc_example2.dir/build.make CMakeFiles/doc_example2.dir/build +Dependencies file "CMakeFiles/options.dir/prog/options.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/options.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/build -make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -make -f CMakeFiles/hello.dir/build.make CMakeFiles/hello.dir/build -make[5]: Nothing to be done for 'CMakeFiles/options.dir/build'. +make -f CMakeFiles/cpptest.dir/build.make CMakeFiles/cpptest.dir/build make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +make -f CMakeFiles/doc_example2.dir/build.make CMakeFiles/doc_example2.dir/build make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +make -f CMakeFiles/hello.dir/build.make CMakeFiles/hello.dir/build Dependencies file "CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/resinfo.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target options Dependencies file "CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -make -f CMakeFiles/cpptest.dir/build.make CMakeFiles/cpptest.dir/build Dependencies file "CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -make -f CMakeFiles/doc_example.dir/build.make CMakeFiles/doc_example.dir/build -make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/build make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -[ 0%] Building CXX object CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o +make[5]: Nothing to be done for 'CMakeFiles/options.dir/build'. +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +[ 2%] Building CXX object CMakeFiles/doc_example.dir/docs/code/sym.cpp.o +[ 2%] Building CXX object CMakeFiles/doc_example.dir/docs/code/cell.cpp.o +[ 4%] Building CXX object CMakeFiles/doc_example.dir/docs/code/elem.cpp.o +[ 4%] Building CXX object CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o +[ 6%] Building CXX object CMakeFiles/doc_example.dir/src/resinfo.cpp.o +[ 8%] Building CXX object CMakeFiles/cpptest.dir/src/eig3.cpp.o +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/sym.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/sym.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/sym.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/sym.cpp +[ 8%] Building CXX object CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o +[ 10%] Building CXX object CMakeFiles/cpptest.dir/tests/cif.cpp.o +/usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/cpptest.dir/src/eig3.cpp.o -MF CMakeFiles/cpptest.dir/src/eig3.cpp.o.d -o CMakeFiles/cpptest.dir/src/eig3.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/eig3.cpp +[ 12%] Building CXX object CMakeFiles/cpptest.dir/tests/main.cpp.o +[ 12%] Building CXX object CMakeFiles/hello.dir/examples/hello.cpp.o /usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o -MF CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o.d -o CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/cif_cc.cpp -[ 2%] Building CXX object CMakeFiles/hello.dir/examples/hello.cpp.o -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/hello.dir/examples/hello.cpp.o -MF CMakeFiles/hello.dir/examples/hello.cpp.o.d -o CMakeFiles/hello.dir/examples/hello.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/examples/hello.cpp -[ 4%] Building CXX object CMakeFiles/cpptest.dir/tests/main.cpp.o -[ 4%] Built target options +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/elem.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/elem.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/elem.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/elem.cpp +[ 12%] Building CXX object CMakeFiles/cpptest.dir/src/mtz2cif.cpp.o /usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/cpptest.dir/tests/main.cpp.o -MF CMakeFiles/cpptest.dir/tests/main.cpp.o.d -o CMakeFiles/cpptest.dir/tests/main.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/tests/main.cpp -[ 6%] Building CXX object CMakeFiles/doc_example.dir/docs/code/sym.cpp.o -Consolidate compiler generated dependencies of target gemmi_cpp -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -[ 6%] Building CXX object CMakeFiles/doc_example.dir/docs/code/cell.cpp.o -make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/build -[ 6%] Building CXX object CMakeFiles/cpptest.dir/src/mtz2cif.cpp.o +/usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/cpptest.dir/tests/cif.cpp.o -MF CMakeFiles/cpptest.dir/tests/cif.cpp.o.d -o CMakeFiles/cpptest.dir/tests/cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/tests/cif.cpp +[ 14%] Building CXX object CMakeFiles/cpptest.dir/src/sprintf.cpp.o /usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/cpptest.dir/src/mtz2cif.cpp.o -MF CMakeFiles/cpptest.dir/src/mtz2cif.cpp.o.d -o CMakeFiles/cpptest.dir/src/mtz2cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/mtz2cif.cpp -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/sym.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/sym.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/sym.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/sym.cpp -[ 8%] Building CXX object CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o -[ 10%] Building CXX object CMakeFiles/cpptest.dir/src/sprintf.cpp.o -[ 14%] Building CXX object CMakeFiles/doc_example.dir/src/resinfo.cpp.o -[ 14%] Building CXX object CMakeFiles/cpptest.dir/tests/cif.cpp.o -/usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/cpptest.dir/src/sprintf.cpp.o -MF CMakeFiles/cpptest.dir/src/sprintf.cpp.o.d -o CMakeFiles/cpptest.dir/src/sprintf.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/sprintf.cpp +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/hello.dir/examples/hello.cpp.o -MF CMakeFiles/hello.dir/examples/hello.cpp.o.d -o CMakeFiles/hello.dir/examples/hello.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/examples/hello.cpp /usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/resinfo.cpp -[ 17%] Building CXX object CMakeFiles/cpptest.dir/src/eig3.cpp.o +/usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/cpptest.dir/src/sprintf.cpp.o -MF CMakeFiles/cpptest.dir/src/sprintf.cpp.o.d -o CMakeFiles/cpptest.dir/src/sprintf.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/sprintf.cpp /usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/cell.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/cell.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/cell.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/cell.cpp -/usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/cpptest.dir/src/eig3.cpp.o -MF CMakeFiles/cpptest.dir/src/eig3.cpp.o.d -o CMakeFiles/cpptest.dir/src/eig3.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/eig3.cpp -[ 17%] Building CXX object CMakeFiles/doc_example.dir/docs/code/elem.cpp.o /usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/src/resinfo.cpp.o -MF CMakeFiles/doc_example.dir/src/resinfo.cpp.o.d -o CMakeFiles/doc_example.dir/src/resinfo.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/src/resinfo.cpp -/usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.6.4+ds/third_party -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/cpptest.dir/tests/cif.cpp.o -MF CMakeFiles/cpptest.dir/tests/cif.cpp.o.d -o CMakeFiles/cpptest.dir/tests/cif.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/tests/cif.cpp -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/elem.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/elem.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/elem.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/elem.cpp +[ 17%] Built target options +Consolidate compiler generated dependencies of target gemmi_cpp +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/build make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'CMakeFiles/gemmi_cpp.dir/build'. make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' [ 42%] Built target gemmi_cpp +make -f CMakeFiles/check_conn.dir/build.make CMakeFiles/check_conn.dir/depend +make -f CMakeFiles/gemmi_prog.dir/build.make CMakeFiles/gemmi_prog.dir/depend +make -f CMakeFiles/doc_maybegz.dir/build.make CMakeFiles/doc_maybegz.dir/depend make -f CMakeFiles/doc_newmtz.dir/build.make CMakeFiles/doc_newmtz.dir/depend make -f CMakeFiles/test_disulf.dir/build.make CMakeFiles/test_disulf.dir/depend make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/doc_newmtz.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/check_conn.dir/build.make CMakeFiles/check_conn.dir/depend +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/check_conn.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/test_disulf.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/gemmi_prog.dir/build.make CMakeFiles/gemmi_prog.dir/depend +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/doc_maybegz.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/check_conn.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/doc_maybegz.dir/build.make CMakeFiles/doc_maybegz.dir/depend +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/doc_newmtz.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/doc_maybegz.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/test_disulf.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/align.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make -f CMakeFiles/doc_newmtz.dir/build.make CMakeFiles/doc_newmtz.dir/build +make -f CMakeFiles/test_disulf.dir/build.make CMakeFiles/test_disulf.dir/build Dependencies file "CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -Dependencies file "CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -Dependencies file "CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +Dependencies file "CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". make -f CMakeFiles/check_conn.dir/build.make CMakeFiles/check_conn.dir/build +Dependencies file "CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/contents.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +make -f CMakeFiles/doc_newmtz.dir/build.make CMakeFiles/doc_newmtz.dir/build Dependencies file "CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/diff.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make -f CMakeFiles/doc_maybegz.dir/build.make CMakeFiles/doc_maybegz.dir/build +make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -make -f CMakeFiles/test_disulf.dir/build.make CMakeFiles/test_disulf.dir/build -make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/h.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/main.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/map.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +make -f CMakeFiles/doc_maybegz.dir/build.make CMakeFiles/doc_maybegz.dir/build Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/prep.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +make[5]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". @@ -1258,13 +1294,13 @@ Dependencies file "CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +[ 42%] Building CXX object CMakeFiles/check_conn.dir/examples/check_conn.cpp.o [ 44%] Building CXX object CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -MF CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o.d -o CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/newmtz.cpp -[ 44%] Building CXX object CMakeFiles/check_conn.dir/examples/check_conn.cpp.o -[ 44%] Building CXX object CMakeFiles/doc_maybegz.dir/docs/code/maybegz.cpp.o -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/check_conn.dir/examples/check_conn.cpp.o -MF CMakeFiles/check_conn.dir/examples/check_conn.cpp.o.d -o CMakeFiles/check_conn.dir/examples/check_conn.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/examples/check_conn.cpp [ 46%] Building CXX object CMakeFiles/test_disulf.dir/tests/disulf.cpp.o /usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/test_disulf.dir/tests/disulf.cpp.o -MF CMakeFiles/test_disulf.dir/tests/disulf.cpp.o.d -o CMakeFiles/test_disulf.dir/tests/disulf.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/tests/disulf.cpp +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/check_conn.dir/examples/check_conn.cpp.o -MF CMakeFiles/check_conn.dir/examples/check_conn.cpp.o.d -o CMakeFiles/check_conn.dir/examples/check_conn.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/examples/check_conn.cpp +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -MF CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o.d -o CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/newmtz.cpp +[ 46%] Building CXX object CMakeFiles/doc_maybegz.dir/docs/code/maybegz.cpp.o /usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/doc_maybegz.dir/docs/code/maybegz.cpp.o -MF CMakeFiles/doc_maybegz.dir/docs/code/maybegz.cpp.o.d -o CMakeFiles/doc_maybegz.dir/docs/code/maybegz.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/maybegz.cpp [ 48%] Building CXX object CMakeFiles/doc_maybegz.dir/docs/code/mutate.cpp.o /usr/bin/c++ -I/build/reproducible-path/gemmi-0.6.4+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/doc_maybegz.dir/docs/code/mutate.cpp.o -MF CMakeFiles/doc_maybegz.dir/docs/code/mutate.cpp.o.d -o CMakeFiles/doc_maybegz.dir/docs/code/mutate.cpp.o -c /build/reproducible-path/gemmi-0.6.4+ds/docs/code/mutate.cpp @@ -1297,6 +1333,12 @@ /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ +In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, + from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/merge.hpp:15, + from /build/reproducible-path/gemmi-0.6.4+ds/tests/cif.cpp:6: +/build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] + 37 | typedef std::unique_ptr fileptr_t; + | ^ In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/json.hpp:19, from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mmread.hpp:12, from /build/reproducible-path/gemmi-0.6.4+ds/docs/code/maybegz.cpp:2: @@ -1309,12 +1351,6 @@ /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] 37 | typedef std::unique_ptr fileptr_t; | ^ -In file included from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/mtz.hpp:23, - from /build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/merge.hpp:15, - from /build/reproducible-path/gemmi-0.6.4+ds/tests/cif.cpp:6: -/build/reproducible-path/gemmi-0.6.4+ds/include/gemmi/fileutil.hpp:37:58: warning: ignoring attributes on template argument 'int (*)(FILE*)' [-Wignored-attributes] - 37 | typedef std::unique_ptr fileptr_t; - | ^ [ 93%] Linking CXX executable doc_example /usr/bin/cmake -E cmake_link_script CMakeFiles/doc_example.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/doc_example.dir/docs/code/sym.cpp.o CMakeFiles/doc_example.dir/docs/code/elem.cpp.o CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o CMakeFiles/doc_example.dir/docs/code/cell.cpp.o CMakeFiles/doc_example.dir/src/resinfo.cpp.o -o doc_example @@ -1325,21 +1361,21 @@ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -o doc_newmtz libgemmi_cpp.a /usr/lib/x86_64-linux-gnu/libz.so make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' [ 93%] Built target doc_newmtz -[ 95%] Linking CXX executable check_conn -/usr/bin/cmake -E cmake_link_script CMakeFiles/check_conn.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/check_conn.dir/examples/check_conn.cpp.o -o check_conn libgemmi_cpp.a /usr/lib/x86_64-linux-gnu/libz.so -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -[ 95%] Linking CXX executable hello +[ 93%] Linking CXX executable hello /usr/bin/cmake -E cmake_link_script CMakeFiles/hello.dir/link.txt --verbose=1 -[ 95%] Built target check_conn /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/hello.dir/examples/hello.cpp.o -o hello make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -[ 95%] Built target hello -[ 97%] Linking CXX executable doc_example2 +[ 93%] Built target hello +[ 95%] Linking CXX executable doc_example2 /usr/bin/cmake -E cmake_link_script CMakeFiles/doc_example2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o -o doc_example2 make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' -[ 97%] Built target doc_example2 +[ 95%] Built target doc_example2 +[ 97%] Linking CXX executable check_conn +/usr/bin/cmake -E cmake_link_script CMakeFiles/check_conn.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/check_conn.dir/examples/check_conn.cpp.o -o check_conn libgemmi_cpp.a /usr/lib/x86_64-linux-gnu/libz.so +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' +[ 97%] Built target check_conn [ 97%] Linking CXX executable cpptest /usr/bin/cmake -E cmake_link_script CMakeFiles/cpptest.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.6.4+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/cpptest.dir/tests/main.cpp.o CMakeFiles/cpptest.dir/tests/cif.cpp.o CMakeFiles/cpptest.dir/src/mtz2cif.cpp.o CMakeFiles/cpptest.dir/src/eig3.cpp.o CMakeFiles/cpptest.dir/src/sprintf.cpp.o -o cpptest @@ -1364,7 +1400,7 @@ /usr/bin/ctest -C None Test project /build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu Start 1: cpptest -1/1 Test #1: cpptest .......................... Passed 0.01 sec +1/1 Test #1: cpptest .......................... Passed 0.00 sec 100% tests passed, 0 tests failed out of 1 @@ -1397,13 +1433,13 @@ SKIPPED [1] tests/test_seq.py:146: BioPython not installed. SKIPPED [1] tests/test_seq.py:105: BioPython not installed. SKIPPED [1] tests/test_seq.py:114: BioPython not installed. -171 passed, 17 skipped, 2 deselected in 2.17s +171 passed, 17 skipped, 2 deselected in 2.69s make[1]: Leaving directory '/build/reproducible-path/gemmi-0.6.4+ds' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake dh_auto_install -O--buildsystem=cmake - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/gemmi-0.6.4\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/gemmi-0.6.4\+ds/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/gemmi-0.6.4+ds -B/build/reproducible-path/gemmi-0.6.4+ds/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -1415,110 +1451,110 @@ -- Install configuration: "None" -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/bin/gemmi -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/monlib.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/model.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmread_gz.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/gz.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/blob.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/contact.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/pdb_id.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/bessel.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/pirfasta.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/crd.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/merge.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/span.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/bond_idx.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/chemcomp_xyz.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/seqtools.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/dirwalk.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/scaling.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_chemcomp.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/twin.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fprime.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/ddl.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/dencalc.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmread.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/read_cif.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/riding_h.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/neighbor.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/stats.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/resinfo.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/recgrid.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/addends.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/chemcomp_xyz.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party/sajson.h +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party/pocketfft_hdronly.h +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party/tinydir.h +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party/fast_float.h +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/smcif.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/ecalc.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/floodfill.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/resinfo.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/remarks.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/gz.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/atof.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/utf.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/ccp4.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/chemcomp.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/sprintf.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/pdb.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/eig3.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mtz.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fileutil.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/math.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/it92.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/assembly.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/binner.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_pdb.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/symmetry.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fail.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmread.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/smcif.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_cif.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_json.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmcif_impl.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/bessel.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/asumask.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/select.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/cellred.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/metadata.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/contact.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmcif.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/remarks.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/util.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/neutron92.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/xds_ascii.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/monlib.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/solmask.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmcif_impl.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/input.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/enumstr.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/topo.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/model.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/cif.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/bond_idx.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/json.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/cif2mtz.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/interop.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/topo.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mtz.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/read_cif.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/span.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/input.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/atof.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/dencalc.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/iterator.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/refln.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/riding_h.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/floodfill.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fileutil.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/small.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/numb.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/levmar.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/seqid.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/neutron92.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/elem.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fprime.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/unitcell.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/scaling.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/crd.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_chemcomp.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/asumask.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/enumstr.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/formfact.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/xds_ascii.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/merge.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmdb.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/atox.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/chemcomp.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/ddl.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/calculate.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/seqtools.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mtz2cif.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/pdb_id.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/cifdoc.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/neighbor.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/seqalign.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_mmcif.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/linkhunt.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fstream.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/binner.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/dirwalk.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/select.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/levmar.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/utf.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mtz2cif.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/sprintf.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/sfcalc.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmdb.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/metadata.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/ccp4.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/interop.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/formfact.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/small.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_json.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/align.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/polyheur.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/seqalign.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/calculate.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/read_map.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/numb.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/cellred.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/recgrid.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/version.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/elem.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fourier.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/twin.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/reciproc.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/mmread_gz.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/sfcalc.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/blob.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/pirfasta.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fail.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/modify.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/asudata.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/grid.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/reciproc.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/iterator.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/unitcell.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/symmetry.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_cif.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/qcp.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/eig3.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/pdb.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/util.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/cif2mtz.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/fstream.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/asudata.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/c4322.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/to_mmcif.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/align.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/version.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/it92.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/ecalc.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party/sajson.h --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party/tinydir.h --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party/pocketfft_hdronly.h --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/third_party/fast_float.h --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/assembly.hpp --- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/grid.hpp +-- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/include/gemmi/refln.hpp -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/lib/x86_64-linux-gnu/libgemmi_cpp.a -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/gemmi/gemmi-targets.cmake -- Installing: /build/reproducible-path/gemmi-0.6.4+ds/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/gemmi/gemmi-targets-none.cmake @@ -1567,12 +1603,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1975117/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1975117/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/1171494 and its subdirectories -I: Current time: Tue Jun 10 14:17:02 -12 2025 -I: pbuilder-time-stamp: 1749608222 +I: removing directory /srv/workspace/pbuilder/1975117 and its subdirectories +I: Current time: Thu May 9 10:07:30 +14 2024 +I: pbuilder-time-stamp: 1715198850