Diff of the two buildlogs: -- --- b1/build.log 2025-08-29 11:43:00.491563255 +0000 +++ b2/build.log 2025-08-29 11:46:24.087826799 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Aug 28 23:39:45 -12 2025 -I: pbuilder-time-stamp: 1756467585 +I: Current time: Fri Oct 2 08:06:04 +14 2026 +I: pbuilder-time-stamp: 1790877964 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -27,52 +27,84 @@ dpkg-source: info: applying do-not-overflow-int.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/46930/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/4131613/tmp/hooks/D01_modify_environment starting +debug: Running on infom02-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 Oct 1 18:06 /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/4131613/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/4131613/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=12 ' - DISTRIBUTION='forky' - 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=16 ' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='42637d24213e40e7a36839d171dfa4dd' - 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='46930' - PS1='# ' - PS2='> ' + INVOCATION_ID=f7246939014643efa028ee7dc6d68676 + 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=4131613 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.yhdmhOtp/pbuilderrc_9NDW --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.yhdmhOtp/b1 --logfile b1/build.log pinfish_0.1.0+ds-4.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.yhdmhOtp/pbuilderrc_o4iD --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.yhdmhOtp/b2 --logfile b2/build.log pinfish_0.1.0+ds-4.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom01-amd64 6.12.41+deb13-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/46930/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/4131613/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: 79 http://deb.debian.org/debian forky/main amd64 libhts3t64 amd64 1.21+ds-1 [463 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 libncurses6 amd64 6.5+20250216-2 [105 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 samtools amd64 1.21-1 [667 kB] -Fetched 76.9 MB in 1s (67.4 MB/s) +Fetched 76.9 MB in 2s (47.4 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 ... 19855 files and directories currently installed.) @@ -540,7 +572,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/pinfish-0.1.0+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../pinfish_0.1.0+ds-4_source.changes +I: user script /srv/workspace/pbuilder/4131613/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/4131613/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/pinfish-0.1.0+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../pinfish_0.1.0+ds-4_source.changes dpkg-buildpackage: info: source package pinfish dpkg-buildpackage: info: source version 0.1.0+ds-4 dpkg-buildpackage: info: source distribution unstable @@ -562,108 +598,107 @@ dh_autoreconf -O--builddirectory=_build -O--buildsystem=golang dh_auto_configure -O--builddirectory=_build -O--buildsystem=golang dh_auto_build -O--builddirectory=_build -O--buildsystem=golang - cd _build && go install -trimpath -v -p 12 github.com/nanoporetech/pinfish/cluster_gff github.com/nanoporetech/pinfish/collapse_partials github.com/nanoporetech/pinfish/polish_clusters github.com/nanoporetech/pinfish/spliced_bam2gff -internal/goarch -internal/msan -internal/unsafeheader -internal/byteorder -internal/profilerecord + cd _build && go install -trimpath -v -p 16 github.com/nanoporetech/pinfish/cluster_gff github.com/nanoporetech/pinfish/collapse_partials github.com/nanoporetech/pinfish/polish_clusters github.com/nanoporetech/pinfish/spliced_bam2gff +internal/godebugs internal/coverage/rtcov internal/goos +internal/goarch +internal/byteorder internal/asan -internal/godebugs -internal/cpu -internal/goexperiment +internal/unsafeheader internal/runtime/atomic -internal/runtime/syscall -internal/runtime/math -internal/abi +internal/msan math/bits -internal/runtime/sys -sync/atomic unicode +internal/profilerecord +internal/goexperiment +internal/cpu +sync/atomic +internal/runtime/syscall unicode/utf8 encoding -internal/chacha8rand +internal/runtime/math +internal/abi +internal/runtime/sys cmp internal/itoa crypto/internal/fips140/alias -crypto/internal/fips140deps/byteorder -crypto/internal/boring/sig unicode/utf16 +crypto/internal/boring/sig internal/nettrace -log/internal +internal/chacha8rand +crypto/internal/fips140deps/byteorder crypto/internal/fips140/subtle +log/internal internal/runtime/exithook crypto/internal/fips140deps/cpu internal/bytealg math +internal/stringslite internal/race -internal/runtime/maps internal/sync -internal/stringslite +internal/runtime/maps runtime -internal/reflectlite iter crypto/subtle weak sync +internal/reflectlite maps slices internal/bisect internal/singleflight internal/testlog unique -internal/godebug runtime/cgo -crypto/internal/fips140deps/godebug -math/rand +internal/godebug errors -sort io internal/oserror +crypto/internal/fips140deps/godebug +sort path +strconv vendor/golang.org/x/net/dns/dnsmessage math/rand/v2 -strconv +math/rand syscall -container/heap bytes -crypto/internal/randutil -strings hash +strings hash/crc32 +crypto/internal/randutil +container/heap crypto -reflect net/netip +reflect bufio github.com/biogo/biogo/feat -crypto/internal/impl crypto/internal/fips140 +crypto/internal/impl crypto/internal/fips140/sha3 -crypto/internal/fips140/sha512 crypto/internal/fips140/sha256 +crypto/internal/fips140/sha512 github.com/biogo/biogo/feat/gene github.com/biogo/biogo/io/featio +crypto/internal/fips140/hmac internal/syscall/execenv time internal/syscall/unix -crypto/internal/fips140/hmac crypto/internal/fips140/check crypto/internal/fips140/aes context io/fs internal/poll internal/filepathlite -os internal/fmtsort encoding/binary +os encoding/base64 crypto/internal/sysrand -fmt io/ioutil +fmt path/filepath -net crypto/internal/entropy crypto/internal/fips140/drbg crypto/internal/fips140only @@ -671,23 +706,23 @@ os/exec crypto/md5 crypto/cipher +encoding/hex +database/sql/driver flag +log +text/tabwriter +net/url github.com/biogo/biogo/alphabet encoding/csv -encoding/hex -log encoding/json -database/sql/driver -math/big -text/tabwriter compress/flate +math/big crypto/internal/boring -net/url crypto/sha1 github.com/biogo/biogo/seq compress/gzip -github.com/biogo/biogo/io/seqio github.com/biogo/biogo/feat/genome +github.com/biogo/biogo/io/seqio github.com/biogo/biogo/seq/linear github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq @@ -696,18 +731,19 @@ github.com/biogo/biogo/io/featio/gff github.com/biogo/hts/bgzf/index github.com/biogo/hts/internal -github.com/biogo/hts/sam +net crypto/rand +github.com/biogo/hts/sam github.com/biogo/hts/bam -github.com/nanoporetech/pinfish/spliced_bam2gff github.com/nanoporetech/pinfish/polish_clusters +github.com/nanoporetech/pinfish/spliced_bam2gff github.com/google/uuid github.com/nanoporetech/pinfish/cluster_gff github.com/nanoporetech/pinfish/collapse_partials debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/pinfish-0.1.0+ds' dh_auto_test - cd _build && go test -vet=off -v -p 12 github.com/nanoporetech/pinfish/cluster_gff github.com/nanoporetech/pinfish/collapse_partials github.com/nanoporetech/pinfish/polish_clusters github.com/nanoporetech/pinfish/spliced_bam2gff + cd _build && go test -vet=off -v -p 16 github.com/nanoporetech/pinfish/cluster_gff github.com/nanoporetech/pinfish/collapse_partials github.com/nanoporetech/pinfish/polish_clusters github.com/nanoporetech/pinfish/spliced_bam2gff ? github.com/nanoporetech/pinfish/cluster_gff [no test files] ? github.com/nanoporetech/pinfish/collapse_partials [no test files] ? github.com/nanoporetech/pinfish/polish_clusters [no test files] @@ -748,9 +784,9 @@ dpkg-gencontrol: warning: package pinfish: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -O--builddirectory=_build -O--buildsystem=golang dh_builddeb -O--builddirectory=_build -O--buildsystem=golang -dpkg-deb: building package 'pinfish' in '../pinfish_0.1.0+ds-4_amd64.deb'. dpkg-deb: building package 'pinfish-examples' in '../pinfish-examples_0.1.0+ds-4_all.deb'. dpkg-deb: building package 'pinfish-dbgsym' in '../pinfish-dbgsym_0.1.0+ds-4_amd64.deb'. +dpkg-deb: building package 'pinfish' in '../pinfish_0.1.0+ds-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../pinfish_0.1.0+ds-4_amd64.buildinfo dpkg-genchanges --build=binary -O../pinfish_0.1.0+ds-4_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -758,12 +794,14 @@ 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/4131613/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/4131613/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/46930 and its subdirectories -I: Current time: Thu Aug 28 23:43:00 -12 2025 -I: pbuilder-time-stamp: 1756467780 +I: removing directory /srv/workspace/pbuilder/4131613 and its subdirectories +I: Current time: Fri Oct 2 08:09:23 +14 2026 +I: pbuilder-time-stamp: 1790878163