Diff of the two buildlogs: -- --- b1/build.log 2025-02-26 11:47:56.716040555 +0000 +++ b2/build.log 2025-02-26 11:59:32.948688706 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Mar 31 06:08:56 -12 2026 -I: pbuilder-time-stamp: 1774980536 +I: Current time: Thu Feb 27 01:47:59 +14 2025 +I: pbuilder-time-stamp: 1740570479 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying fix-implicit-declaration.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/358983/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2254609/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 Feb 26 11:48 /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/2254609/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2254609/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='trixie' - 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]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(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=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='f4a46e90222f4f01b67384f4711b2334' - 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='358983' - PS1='# ' - PS2='> ' + INVOCATION_ID=d7ee5a471fee40abb189cf10f8561181 + 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=2254609 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.8APi8OqP/pbuilderrc_PFjn --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.8APi8OqP/b1 --logfile b1/build.log rnahybrid_2.1.2-8.dsc' - SUDO_GID='111' - SUDO_UID='106' - 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.8APi8OqP/pbuilderrc_YbtV --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.8APi8OqP/b2 --logfile b2/build.log rnahybrid_2.1.2-8.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 ionos15-amd64 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/358983/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2254609/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -186,7 +218,7 @@ Get: 71 http://deb.debian.org/debian trixie/main amd64 libgd3 amd64 2.3.3-12+b1 [126 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libg20 amd64 0.72-12+b4 [41.6 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libg2-dev amd64 0.72-12+b4 [189 kB] -Fetched 36.5 MB in 0s (78.6 MB/s) +Fetched 36.5 MB in 1s (29.8 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (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 ... 19800 files and directories currently installed.) @@ -494,7 +526,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/rnahybrid-2.1.2/ && 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 > ../rnahybrid_2.1.2-8_source.changes +I: user script /srv/workspace/pbuilder/2254609/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/2254609/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/rnahybrid-2.1.2/ && 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 > ../rnahybrid_2.1.2-8_source.changes dpkg-buildpackage: info: source package rnahybrid dpkg-buildpackage: info: source version 2.1.2-8 dpkg-buildpackage: info: source distribution unstable @@ -576,7 +612,7 @@ config.status: creating config.h config.status: executing depfiles commands dh_auto_build - make -j42 + make -j20 make[1]: Entering directory '/build/reproducible-path/rnahybrid-2.1.2' make all-recursive make[2]: Entering directory '/build/reproducible-path/rnahybrid-2.1.2' @@ -624,7 +660,7 @@ src/RNAcalibrate -d examples/3UTR_worm.freq -k 50 -l 50,30 -q examples/cel-let-7.fasta -cel-let-7 16 1.943110 0.267765 +cel-let-7 15 1.874812 0.282444 src/RNAhybrid -d 1.9,0.28 -t examples/cel-hbl-1.fasta -q examples/cel-let-7.fasta target: F13D11.2.1|F13D11.2.1 length: 1458 @@ -658,7 +694,7 @@ src/RNAcalibrate -f 2,7 -d examples/3UTR_worm.freq -k 50 -l 50,30 -q examples/cel-let-7.fasta -cel-let-7 15 1.050886 0.431094 +cel-let-7 16 0.536830 0.600222 src/RNAhybrid -s 3utr_worm -t examples/cbr-hbl-1.fasta -q examples/cel-let-7.fasta target: ENSCBRT00000006770.1|ENSCBRG00000005546.1 length: 1449 @@ -676,29 +712,29 @@ src/RNAeffective -k 30 -s -t examples/hbl-1.fasta -q examples/cel-let-7.fasta -1.000000 0.603436 -1.100000 0.405329 -1.200000 0.268462 -1.300000 0.289752 -1.400000 0.406846 -1.500000 0.498925 -1.600000 0.749959 -1.700000 1.074085 -1.800000 1.650657 -1.900000 1.886804 -2.000000 2.192939 -Effective number: 1.200000 +1.000000 0.695933 +1.100000 0.521453 +1.200000 0.376464 +1.300000 0.418489 +1.400000 0.360457 +1.500000 0.536294 +1.600000 0.975213 +1.700000 1.071428 +1.800000 1.207221 +1.900000 1.298055 +2.000000 1.660379 +Effective number: 1.400000 make[1]: Leaving directory '/build/reproducible-path/rnahybrid-2.1.2' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/rnahybrid/ - make -j42 install DESTDIR=/build/reproducible-path/rnahybrid-2.1.2/debian/rnahybrid AM_UPDATE_INFO_DIR=no + make -j20 install DESTDIR=/build/reproducible-path/rnahybrid-2.1.2/debian/rnahybrid AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/rnahybrid-2.1.2' Making install in src make[2]: Entering directory '/build/reproducible-path/rnahybrid-2.1.2/src' make[3]: Entering directory '/build/reproducible-path/rnahybrid-2.1.2/src' -make[3]: Nothing to be done for 'install-data-am'. /usr/bin/mkdir -p '/build/reproducible-path/rnahybrid-2.1.2/debian/rnahybrid/usr/bin' +make[3]: Nothing to be done for 'install-data-am'. /usr/bin/install -c RNAhybrid RNAcalibrate RNAeffective '/build/reproducible-path/rnahybrid-2.1.2/debian/rnahybrid/usr/bin' make[3]: Leaving directory '/build/reproducible-path/rnahybrid-2.1.2/src' make[2]: Leaving directory '/build/reproducible-path/rnahybrid-2.1.2/src' @@ -735,8 +771,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'rnahybrid' in '../rnahybrid_2.1.2-8_amd64.deb'. dpkg-deb: building package 'rnahybrid-dbgsym' in '../rnahybrid-dbgsym_2.1.2-8_amd64.deb'. +dpkg-deb: building package 'rnahybrid' in '../rnahybrid_2.1.2-8_amd64.deb'. dpkg-genbuildinfo --build=binary -O../rnahybrid_2.1.2-8_amd64.buildinfo dpkg-genchanges --build=binary -O../rnahybrid_2.1.2-8_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -744,12 +780,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2254609/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2254609/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/358983 and its subdirectories -I: Current time: Tue Mar 31 06:10:55 -12 2026 -I: pbuilder-time-stamp: 1774980655 +I: removing directory /srv/workspace/pbuilder/2254609 and its subdirectories +I: Current time: Thu Feb 27 01:59:32 +14 2025 +I: pbuilder-time-stamp: 1740571172