Diff of the two buildlogs: -- --- b1/build.log 2024-10-24 13:40:27.263518440 +0000 +++ b2/build.log 2024-10-24 13:46:33.250453117 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Nov 26 08:00:19 -12 2025 -I: pbuilder-time-stamp: 1764187219 +I: Current time: Fri Oct 25 03:40:35 +14 2024 +I: pbuilder-time-stamp: 1729777235 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -31,52 +31,84 @@ 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/1824527/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1162601/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 Oct 24 13:41 /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/1162601/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1162601/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]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + 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=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='72d9021eb0d343b39966750aad65a124' - 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='1824527' - PS1='# ' - PS2='> ' + INVOCATION_ID=9c677785d2e64dbf8108e1bec7bf77b3 + 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=1162601 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.eyTxuJtd/pbuilderrc_jLwq --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.eyTxuJtd/b1 --logfile b1/build.log pinfish_0.1.0+ds-4.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.eyTxuJtd/pbuilderrc_Etar --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.eyTxuJtd/b2 --logfile b2/build.log pinfish_0.1.0+ds-4.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 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-26-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.112-1 (2024-09-30) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1824527/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1162601/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -89,7 +121,7 @@ Depends: debhelper-compat (= 13), dh-golang, golang-any, golang-github-biogo-biogo-dev, golang-github-biogo-hts-dev, golang-github-google-uuid-dev, samtools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. -(Reading database ... 19945 files and directories currently installed.) +(Reading database ... 21880 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: @@ -200,10 +232,10 @@ Get: 74 http://deb.debian.org/debian trixie/main amd64 libhts3t64 amd64 1.20+ds-1 [452 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 libncurses6 amd64 6.5-2 [104 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 samtools amd64 1.20-3 [653 kB] -Fetched 79.4 MB in 12s (6555 kB/s) +Fetched 79.4 MB in 5s (16.3 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 ... 19945 files and directories currently installed.) +(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 ... 21880 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. @@ -519,7 +551,11 @@ 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/1162601/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/1162601/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 @@ -541,133 +577,133 @@ 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 42 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/nettrace -encoding -internal/godebugs -internal/race -internal/coverage/rtcov + cd _build && go install -trimpath -v -p 20 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/unsafeheader -internal/msan -cmp -log/internal -internal/profilerecord +internal/byteorder +math/bits +internal/goexperiment internal/itoa -crypto/internal/boring/sig +internal/profilerecord +internal/godebugs +internal/goarch +cmp +encoding +internal/race +internal/cpu +unicode/utf8 +internal/runtime/syscall +unicode internal/goos +internal/runtime/atomic internal/asan +internal/msan +sync/atomic +internal/coverage/rtcov crypto/internal/alias -internal/cpu -math/bits -internal/goarch crypto/subtle -unicode/utf8 +crypto/internal/boring/sig unicode/utf16 -internal/runtime/atomic -internal/byteorder -internal/runtime/syscall -sync/atomic -internal/goexperiment -unicode +internal/nettrace +log/internal +internal/chacha8rand +internal/abi runtime/internal/math runtime/internal/sys -internal/abi -internal/chacha8rand internal/bytealg math internal/runtime/exithook internal/stringslite runtime -iter -internal/weak internal/reflectlite +internal/weak +iter sync slices -internal/singleflight internal/bisect internal/testlog -runtime/cgo +internal/singleflight errors sort -internal/oserror -io -strconv +runtime/cgo path +vendor/golang.org/x/net/dns/dnsmessage +internal/oserror internal/godebug +io math/rand/v2 -vendor/golang.org/x/net/dns/dnsmessage +strconv +bytes container/heap -syscall hash -bytes -strings crypto/internal/randutil +internal/concurrent math/rand +strings +reflect +syscall +crypto hash/crc32 -internal/concurrent -unique crypto/cipher -crypto -net/netip -reflect +unique bufio github.com/biogo/biogo/feat crypto/md5 -github.com/biogo/biogo/io/featio -github.com/biogo/biogo/feat/gene crypto/internal/boring +net/netip +github.com/biogo/biogo/feat/gene +github.com/biogo/biogo/io/featio crypto/sha1 internal/syscall/execenv internal/syscall/unix time +internal/fmtsort +encoding/binary context io/fs internal/poll +encoding/base64 internal/filepathlite os -internal/fmtsort -encoding/binary -encoding/base64 io/ioutil -fmt path/filepath +fmt os/exec -net -encoding/hex -net/url +flag github.com/biogo/biogo/alphabet +encoding/csv +encoding/hex +log text/tabwriter database/sql/driver -encoding/csv +net/url encoding/json -log -flag -compress/flate math/big +compress/flate github.com/biogo/biogo/seq +compress/gzip github.com/biogo/biogo/feat/genome github.com/biogo/biogo/seq/linear github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq -compress/gzip -github.com/biogo/biogo/io/featio/gff github.com/biogo/hts/bgzf runtime/pprof +github.com/biogo/biogo/io/featio/gff github.com/biogo/hts/bgzf/index github.com/biogo/hts/internal github.com/biogo/hts/sam crypto/rand +net 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 42 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 20 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] @@ -705,13 +741,13 @@ dh_installdeb -O--builddirectory=_build -O--buildsystem=golang dh_golang -O--builddirectory=_build -O--buildsystem=golang dh_gencontrol -O--builddirectory=_build -O--buildsystem=golang -dpkg-gencontrol: warning: Depends field of package pinfish-examples: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package pinfish: substitution variable ${misc:Static-Built-Using} unused, but is defined +dpkg-gencontrol: warning: Depends field of package pinfish-examples: substitution variable ${shlibs:Depends} used, but is not defined 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-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-deb: building package 'pinfish-dbgsym' in '../pinfish-dbgsym_0.1.0+ds-4_amd64.deb'. dpkg-deb: building package 'pinfish-examples' in '../pinfish-examples_0.1.0+ds-4_all.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 @@ -720,12 +756,14 @@ 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/1162601/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1162601/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/1824527 and its subdirectories -I: Current time: Wed Nov 26 08:03:26 -12 2025 -I: pbuilder-time-stamp: 1764187406 +I: removing directory /srv/workspace/pbuilder/1162601 and its subdirectories +I: Current time: Fri Oct 25 03:46:32 +14 2024 +I: pbuilder-time-stamp: 1729777592