Diff of the two buildlogs: -- --- b1/build.log 2024-09-04 22:36:40.701029857 +0000 +++ b2/build.log 2024-09-04 22:54:07.512643029 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Sep 4 10:25:28 -12 2024 -I: pbuilder-time-stamp: 1725488728 +I: Current time: Thu Sep 5 12:37:23 +14 2024 +I: pbuilder-time-stamp: 1725489443 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -35,52 +35,84 @@ dpkg-source: info: applying gcc-14.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/24113/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3921/tmp/hooks/D01_modify_environment starting +debug: Running on virt32a. +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 Sep 4 22:38 /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/3921/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3921/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='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='armhf' + 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]="32" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='b448d06e05854e6d82474c3802dc8097' - 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='24113' - PS1='# ' - PS2='> ' + INVOCATION_ID=95abcf6efa044a7b85d6d953179e6156 + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + 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=3921 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.PJmtwOTo/pbuilderrc_mWQV --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.PJmtwOTo/b1 --logfile b1/build.log velvet_1.2.10+dfsg1-9.dsc' - SUDO_GID='110' - SUDO_UID='103' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + 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.PJmtwOTo/pbuilderrc_G8Dq --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.PJmtwOTo/b2 --logfile b2/build.log velvet_1.2.10+dfsg1-9.dsc' + SUDO_GID=113 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux virt64z 6.1.0-25-arm64 #1 SMP Debian 6.1.106-3 (2024-08-26) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-25-armmp-lpae #1 SMP Debian 6.1.106-3 (2024-08-26) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/24113/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/3921/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -201,7 +233,7 @@ Get: 77 http://deb.debian.org/debian unstable/main armhf texlive-latex-base all 2024.20240829-2 [1273 kB] Get: 78 http://deb.debian.org/debian unstable/main armhf texlive-latex-recommended all 2024.20240829-2 [8845 kB] Get: 79 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1 [904 kB] -Fetched 72.4 MB in 2s (44.9 MB/s) +Fetched 72.4 MB in 1s (49.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19490 files and directories currently installed.) @@ -551,7 +583,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/velvet-1.2.10+dfsg1/ && 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 > ../velvet_1.2.10+dfsg1-9_source.changes +I: user script /srv/workspace/pbuilder/3921/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3921/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/velvet-1.2.10+dfsg1/ && 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 > ../velvet_1.2.10+dfsg1-9_source.changes dpkg-buildpackage: info: source package velvet dpkg-buildpackage: info: source version 1.2.10+dfsg1-9 dpkg-buildpackage: info: source distribution unstable @@ -4153,43 +4189,43 @@ gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/velvet-1.2.10+dfsg1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O3 -Wl,-z,relro -o velvetg obj/tightString.o obj/graph.o obj/run2.o obj/fibHeap.o obj/fib.o obj/concatenatedGraph.o obj/passageMarker.o obj/graphStats.o obj/correctedGraph.o obj/dfib.o obj/dfibHeap.o obj/recycleBin.o obj/readSet.o obj/binarySequences.o obj/shortReadPairs.o obj/scaffold.o obj/locallyCorrectedGraph.o obj/graphReConstruction.o obj/roadMap.o obj/preGraph.o obj/preGraphConstruction.o obj/concatenatedPreGraph.o obj/readCoherentGraph.o obj/utility.o obj/kmer.o obj/kmerOccurenceTable.o obj/allocArray.o obj/autoOpen.o -lz -lm gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/velvet-1.2.10+dfsg1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O3 -Wl,-z,relro -o velveth obj/tightString.o obj/run.o obj/recycleBin.o obj/splay.o obj/splayTable.o obj/readSet.o obj/binarySequences.o obj/utility.o obj/kmer.o obj/kmerOccurenceTable.o obj/autoOpen.o -lz -lm cd tests && ./run-tests.sh -[Wed Sep 04 22:35:10 2024] Running Velvet Test Suite -[Wed Sep 04 22:35:10 2024] Found ../velveth, ok -[Wed Sep 04 22:35:10 2024] Found ../velvetg, ok -[Wed Sep 04 22:35:10 2024] Found Sequences.31, ok -[Wed Sep 04 22:35:10 2024] Found Roadmaps.31, ok -[Wed Sep 04 22:35:10 2024] Found read1.fq.gz, ok -[Wed Sep 04 22:35:10 2024] Found read2.fq.gz, ok -[Wed Sep 04 22:35:10 2024] Found reads.fq.gz, ok -[Wed Sep 04 22:35:10 2024] Found read1.fa.gz, ok -[Wed Sep 04 22:35:10 2024] Found read2.fa.gz, ok -[Wed Sep 04 22:35:10 2024] Found reads.fa.gz, ok -[Wed Sep 04 22:35:10 2024] making test folder: velvet.test.MPJ5ty -[Wed Sep 04 22:35:10 2024] running test 1 of 5: fasta_eq_fastq_ascii.t -[Wed Sep 04 22:35:13 2024] ok -[Wed Sep 04 22:35:13 2024] ok -[Wed Sep 04 22:35:13 2024] ok -[Wed Sep 04 22:35:13 2024] ok -[Wed Sep 04 22:35:13 2024] passed test 1 -[Wed Sep 04 22:35:13 2024] running test 2 of 5: fasta_eq_fastq_binary.t -[Wed Sep 04 22:35:16 2024] ok -[Wed Sep 04 22:35:16 2024] ok -[Wed Sep 04 22:35:16 2024] passed test 2 -[Wed Sep 04 22:35:16 2024] running test 3 of 5: fmt_auto_mode.t -[Wed Sep 04 22:35:19 2024] ok -[Wed Sep 04 22:35:19 2024] ok -[Wed Sep 04 22:35:19 2024] passed test 3 -[Wed Sep 04 22:35:19 2024] running test 4 of 5: interleaved_eq_separate.t -[Wed Sep 04 22:35:25 2024] ok -[Wed Sep 04 22:35:25 2024] ok -[Wed Sep 04 22:35:25 2024] passed test 4 -[Wed Sep 04 22:35:25 2024] running test 5 of 5: mismatched_separates.t -[Wed Sep 04 22:35:25 2024] ok -[Wed Sep 04 22:35:25 2024] ok -[Wed Sep 04 22:35:25 2024] passed test 5 -[Wed Sep 04 22:35:25 2024] removing test folder: velvet.test.MPJ5ty -[Wed Sep 04 22:35:25 2024] passed all 5 tests -[Wed Sep 04 22:35:25 2024] hooray! +[Wed Sep 04 22:52:17 2024] Running Velvet Test Suite +[Wed Sep 04 22:52:17 2024] Found ../velveth, ok +[Wed Sep 04 22:52:17 2024] Found ../velvetg, ok +[Wed Sep 04 22:52:17 2024] Found Sequences.31, ok +[Wed Sep 04 22:52:17 2024] Found Roadmaps.31, ok +[Wed Sep 04 22:52:17 2024] Found read1.fq.gz, ok +[Wed Sep 04 22:52:18 2024] Found read2.fq.gz, ok +[Wed Sep 04 22:52:18 2024] Found reads.fq.gz, ok +[Wed Sep 04 22:52:18 2024] Found read1.fa.gz, ok +[Wed Sep 04 22:52:18 2024] Found read2.fa.gz, ok +[Wed Sep 04 22:52:18 2024] Found reads.fa.gz, ok +[Wed Sep 04 22:52:18 2024] making test folder: velvet.test.DeEomq +[Wed Sep 04 22:52:18 2024] running test 1 of 5: fasta_eq_fastq_ascii.t +[Wed Sep 04 22:52:21 2024] ok +[Wed Sep 04 22:52:21 2024] ok +[Wed Sep 04 22:52:21 2024] ok +[Wed Sep 04 22:52:21 2024] ok +[Wed Sep 04 22:52:21 2024] passed test 1 +[Wed Sep 04 22:52:21 2024] running test 2 of 5: fasta_eq_fastq_binary.t +[Wed Sep 04 22:52:25 2024] ok +[Wed Sep 04 22:52:25 2024] ok +[Wed Sep 04 22:52:25 2024] passed test 2 +[Wed Sep 04 22:52:25 2024] running test 3 of 5: fmt_auto_mode.t +[Wed Sep 04 22:52:28 2024] ok +[Wed Sep 04 22:52:28 2024] ok +[Wed Sep 04 22:52:28 2024] passed test 3 +[Wed Sep 04 22:52:28 2024] running test 4 of 5: interleaved_eq_separate.t +[Wed Sep 04 22:52:36 2024] ok +[Wed Sep 04 22:52:36 2024] ok +[Wed Sep 04 22:52:36 2024] passed test 4 +[Wed Sep 04 22:52:36 2024] running test 5 of 5: mismatched_separates.t +[Wed Sep 04 22:52:36 2024] ok +[Wed Sep 04 22:52:36 2024] ok +[Wed Sep 04 22:52:36 2024] passed test 5 +[Wed Sep 04 22:52:36 2024] removing test folder: velvet.test.DeEomq +[Wed Sep 04 22:52:36 2024] passed all 5 tests +[Wed Sep 04 22:52:36 2024] hooray! make[1]: Leaving directory '/build/reproducible-path/velvet-1.2.10+dfsg1' create-stamp debian/debhelper-build-stamp dh_testroot -O--no-parallel @@ -4231,11 +4267,11 @@ dh_gencontrol -O--no-parallel dh_md5sums -O--no-parallel dh_builddeb -O--no-parallel -dpkg-deb: building package 'velvet-long' in '../velvet-long_1.2.10+dfsg1-9_armhf.deb'. dpkg-deb: building package 'velvet' in '../velvet_1.2.10+dfsg1-9_armhf.deb'. dpkg-deb: building package 'velvet-example' in '../velvet-example_1.2.10+dfsg1-9_all.deb'. -dpkg-deb: building package 'velvet-long-dbgsym' in '../velvet-long-dbgsym_1.2.10+dfsg1-9_armhf.deb'. +dpkg-deb: building package 'velvet-long' in '../velvet-long_1.2.10+dfsg1-9_armhf.deb'. dpkg-deb: building package 'velvet-dbgsym' in '../velvet-dbgsym_1.2.10+dfsg1-9_armhf.deb'. +dpkg-deb: building package 'velvet-long-dbgsym' in '../velvet-long-dbgsym_1.2.10+dfsg1-9_armhf.deb'. dpkg-deb: building package 'velvet-tests' in '../velvet-tests_1.2.10+dfsg1-9_all.deb'. dpkg-genbuildinfo --build=binary -O../velvet_1.2.10+dfsg1-9_armhf.buildinfo dpkg-genchanges --build=binary -O../velvet_1.2.10+dfsg1-9_armhf.changes @@ -4244,12 +4280,14 @@ 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/3921/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3921/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/24113 and its subdirectories -I: Current time: Wed Sep 4 10:36:36 -12 2024 -I: pbuilder-time-stamp: 1725489396 +I: removing directory /srv/workspace/pbuilder/3921 and its subdirectories +I: Current time: Thu Sep 5 12:54:03 +14 2024 +I: pbuilder-time-stamp: 1725490443