Diff of the two buildlogs: -- --- b1/build.log 2024-06-03 22:08:15.125156796 +0000 +++ b2/build.log 2024-06-03 22:10:16.476001958 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Jun 3 10:04:08 -12 2024 -I: pbuilder-time-stamp: 1717452248 +I: Current time: Mon Jul 7 18:31:16 +14 2025 +I: pbuilder-time-stamp: 1751862676 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -29,52 +29,84 @@ dpkg-source: info: applying shared_and_static.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2247815/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/201323/tmp/hooks/D01_modify_environment starting +debug: Running on ionos5-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 Jul 7 04:31 /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/201323/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/201323/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=20 ' - 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=42 ' + 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='dc9a0a5fe9814b7d9b9f5f22a3243848' - 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='2247815' - PS1='# ' - PS2='> ' + INVOCATION_ID=fc2a94e58c6d431da9d6853e1ea9fa8e + 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=201323 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.GjGweqZk/pbuilderrc_0EX6 --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.GjGweqZk/b1 --logfile b1/build.log spoa_4.1.4-1.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://46.16.76.132:3128' + 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.GjGweqZk/pbuilderrc_aut4 --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.GjGweqZk/b2 --logfile b2/build.log spoa_4.1.4-1.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://213.165.73.152:3128 I: uname -a - Linux ionos1-amd64 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.7.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.7.12-1~bpo12+1 (2024-05-06) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Jun 3 07:43 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2247815/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Jul 6 14:05 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/201323/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -189,7 +221,7 @@ Get: 61 http://deb.debian.org/debian unstable/main amd64 libcpu-features-dev amd64 0.9.0-1+b1 [22.0 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 libgtest-dev amd64 1.14.0-1+b1 [250 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libsimde-dev all 0.8.2-1 [465 kB] -Fetched 38.2 MB in 1s (26.9 MB/s) +Fetched 38.2 MB in 0s (96.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:amd64. (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 ... 19705 files and directories currently installed.) @@ -456,7 +488,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/spoa-4.1.4/ && 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 > ../spoa_4.1.4-1_source.changes +I: user script /srv/workspace/pbuilder/201323/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/201323/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/spoa-4.1.4/ && 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 > ../spoa_4.1.4-1_source.changes dpkg-buildpackage: info: source package spoa dpkg-buildpackage: info: source version 4.1.4-1 dpkg-buildpackage: info: source distribution unstable @@ -481,7 +517,7 @@ -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done --- Configuring done (1.1s) +-- Configuring done (1.5s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -617,47 +653,47 @@ [----------] 19 tests from SpoaTest [ RUN ] SpoaTest.Clear -[ OK ] SpoaTest.Clear (147 ms) +[ OK ] SpoaTest.Clear (85 ms) [ RUN ] SpoaTest.Local -[ OK ] SpoaTest.Local (80 ms) +[ OK ] SpoaTest.Local (45 ms) [ RUN ] SpoaTest.LocalAffine -[ OK ] SpoaTest.LocalAffine (116 ms) +[ OK ] SpoaTest.LocalAffine (58 ms) [ RUN ] SpoaTest.LocalConvex -[ OK ] SpoaTest.LocalConvex (168 ms) +[ OK ] SpoaTest.LocalConvex (73 ms) [ RUN ] SpoaTest.LocalWithQualities -[ OK ] SpoaTest.LocalWithQualities (79 ms) +[ OK ] SpoaTest.LocalWithQualities (44 ms) [ RUN ] SpoaTest.LocalAffineWithQualities -[ OK ] SpoaTest.LocalAffineWithQualities (117 ms) +[ OK ] SpoaTest.LocalAffineWithQualities (58 ms) [ RUN ] SpoaTest.LocalConvexWithQualities -[ OK ] SpoaTest.LocalConvexWithQualities (160 ms) +[ OK ] SpoaTest.LocalConvexWithQualities (72 ms) [ RUN ] SpoaTest.Global -[ OK ] SpoaTest.Global (73 ms) +[ OK ] SpoaTest.Global (43 ms) [ RUN ] SpoaTest.GlobalAffine -[ OK ] SpoaTest.GlobalAffine (110 ms) +[ OK ] SpoaTest.GlobalAffine (56 ms) [ RUN ] SpoaTest.GlobalConvex -[ OK ] SpoaTest.GlobalConvex (151 ms) +[ OK ] SpoaTest.GlobalConvex (69 ms) [ RUN ] SpoaTest.GlobalWithQualities -[ OK ] SpoaTest.GlobalWithQualities (74 ms) +[ OK ] SpoaTest.GlobalWithQualities (43 ms) [ RUN ] SpoaTest.GlobalAffineWithQualities -[ OK ] SpoaTest.GlobalAffineWithQualities (111 ms) +[ OK ] SpoaTest.GlobalAffineWithQualities (56 ms) [ RUN ] SpoaTest.GlobalConvexWithQualities -[ OK ] SpoaTest.GlobalConvexWithQualities (152 ms) +[ OK ] SpoaTest.GlobalConvexWithQualities (70 ms) [ RUN ] SpoaTest.SemiGlobal -[ OK ] SpoaTest.SemiGlobal (72 ms) +[ OK ] SpoaTest.SemiGlobal (43 ms) [ RUN ] SpoaTest.SemiGlobalAffine -[ OK ] SpoaTest.SemiGlobalAffine (110 ms) +[ OK ] SpoaTest.SemiGlobalAffine (56 ms) [ RUN ] SpoaTest.SemiGlobalConvex -[ OK ] SpoaTest.SemiGlobalConvex (150 ms) +[ OK ] SpoaTest.SemiGlobalConvex (69 ms) [ RUN ] SpoaTest.SemiGlobalWithQualities -[ OK ] SpoaTest.SemiGlobalWithQualities (72 ms) +[ OK ] SpoaTest.SemiGlobalWithQualities (43 ms) [ RUN ] SpoaTest.SemiGlobalAffineWithQualities -[ OK ] SpoaTest.SemiGlobalAffineWithQualities (109 ms) +[ OK ] SpoaTest.SemiGlobalAffineWithQualities (56 ms) [ RUN ] SpoaTest.SemiGlobalConvexWithQualities -[ OK ] SpoaTest.SemiGlobalConvexWithQualities (160 ms) -[----------] 19 tests from SpoaTest (2225 ms total) +[ OK ] SpoaTest.SemiGlobalConvexWithQualities (70 ms) +[----------] 19 tests from SpoaTest (1119 ms total) [----------] Global test environment tear-down -[==========] 22 tests from 2 test suites ran. (2226 ms total) +[==========] 22 tests from 2 test suites ran. (1120 ms total) [ PASSED ] 22 tests. `find . -name spoa | grep bin` test/data/sample.fastq.gz >Consensus LN:i:495 @@ -681,10 +717,10 @@ -- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/lib/x86_64-linux-gnu/libspoa.so -- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/lib/x86_64-linux-gnu/libspoa_static.a -- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/include/spoa +-- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/include/spoa/alignment_engine.hpp +-- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/include/spoa/graph.hpp -- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/include/spoa/version.hpp -- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/include/spoa/spoa.hpp --- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/include/spoa/graph.hpp --- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/include/spoa/alignment_engine.hpp -- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/spoa/spoaTargets.cmake -- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/spoa/spoaTargets-release.cmake -- Installing: /build/reproducible-path/spoa-4.1.4/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/spoa/spoaConfig.cmake @@ -732,7 +768,7 @@ dh_makeshlibs -a -O--no-parallel dpkg-gensymbols: warning: debian/libspoa7.0.0/DEBIAN/symbols doesn't match completely debian/libspoa7.0.0.symbols.amd64 --- debian/libspoa7.0.0.symbols.amd64 (libspoa7.0.0_4.1.4-1_amd64) -+++ dpkg-gensymbolsgK466S 2024-06-03 22:08:04.717122875 +0000 ++++ dpkg-gensymbolsNTjdEQ 2025-07-07 04:33:11.854351894 +0000 @@ -28,8 +28,8 @@ GetXCR0Eax@Base 4.0.7 StackLineReader_Initialize@Base 4.0.7 @@ -814,11 +850,11 @@ dpkg-gencontrol: warning: Depends field of package libspoa-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel -dpkg-deb: building package 'spoa-dbgsym' in '../spoa-dbgsym_4.1.4-1_amd64.deb'. -dpkg-deb: building package 'libspoa-dev' in '../libspoa-dev_4.1.4-1_amd64.deb'. dpkg-deb: building package 'spoa' in '../spoa_4.1.4-1_amd64.deb'. +dpkg-deb: building package 'spoa-dbgsym' in '../spoa-dbgsym_4.1.4-1_amd64.deb'. dpkg-deb: building package 'libspoa7.0.0' in '../libspoa7.0.0_4.1.4-1_amd64.deb'. dpkg-deb: building package 'libspoa7.0.0-dbgsym' in '../libspoa7.0.0-dbgsym_4.1.4-1_amd64.deb'. +dpkg-deb: building package 'libspoa-dev' in '../libspoa-dev_4.1.4-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../spoa_4.1.4-1_amd64.buildinfo dpkg-genchanges --build=binary -O../spoa_4.1.4-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -826,12 +862,14 @@ 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/201323/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/201323/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/2247815 and its subdirectories -I: Current time: Mon Jun 3 10:08:14 -12 2024 -I: pbuilder-time-stamp: 1717452494 +I: removing directory /srv/workspace/pbuilder/201323 and its subdirectories +I: Current time: Mon Jul 7 18:33:15 +14 2025 +I: pbuilder-time-stamp: 1751862795