Diff of the two buildlogs: -- --- b1/build.log 2024-11-21 15:02:07.664715337 +0000 +++ b2/build.log 2024-11-21 15:05:18.000155207 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Nov 21 03:00:21 -12 2024 -I: pbuilder-time-stamp: 1732201221 +I: Current time: Fri Nov 22 05:03:25 +14 2024 +I: pbuilder-time-stamp: 1732201405 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/525639/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3483526/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +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 Nov 21 15:03 /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/3483526/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3483526/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='arm64' - DEBIAN_FRONTEND='noninteractive' + 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]="aarch64-unknown-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=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='e5fe026527394e759410c7b6d45dca16' - 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='525639' - PS1='# ' - PS2='> ' + INVOCATION_ID=af1cce479cd9472e8e1ba1861d90f6cd + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=3483526 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.VPNKCeVW/pbuilderrc_sdsW --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.VPNKCeVW/b1 --logfile b1/build.log pinfish_0.1.0+ds-4.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + 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.VPNKCeVW/pbuilderrc_84FO --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.VPNKCeVW/b2 --logfile b2/build.log pinfish_0.1.0+ds-4.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink02-arm64 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/525639/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/3483526/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -200,7 +232,7 @@ Get: 74 http://deb.debian.org/debian trixie/main arm64 libhts3t64 arm64 1.20+ds-2 [420 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 libncurses6 arm64 6.5-2+b1 [96.1 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 samtools arm64 1.20-3+b1 [629 kB] -Fetched 75.3 MB in 0s (166 MB/s) +Fetched 75.3 MB in 0s (200 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 ... 20087 files and directories currently installed.) @@ -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/3483526/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3483526/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 @@ -544,25 +580,25 @@ 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/unsafeheader internal/byteorder +internal/goarch internal/godebugs internal/coverage/rtcov -internal/race internal/profilerecord -internal/goarch internal/goos -internal/goexperiment internal/cpu sync/atomic -unicode +internal/goexperiment +internal/abi internal/runtime/syscall +runtime/internal/math +internal/chacha8rand +internal/race +unicode unicode/utf8 encoding -runtime/internal/math -internal/abi runtime/internal/sys cmp internal/itoa -internal/chacha8rand math/bits internal/asan internal/msan @@ -572,15 +608,15 @@ unicode/utf16 internal/nettrace log/internal -math -internal/runtime/atomic internal/bytealg +internal/runtime/atomic +math internal/stringslite internal/runtime/exithook runtime -internal/reflectlite iter internal/weak +internal/reflectlite sync slices internal/bisect @@ -590,60 +626,60 @@ errors sort internal/oserror -vendor/golang.org/x/net/dns/dnsmessage -math/rand/v2 path -internal/godebug io strconv -bytes +internal/godebug +math/rand/v2 +vendor/golang.org/x/net/dns/dnsmessage container/heap -crypto/internal/randutil +syscall +bytes +strings hash -internal/concurrent +crypto/internal/randutil math/rand -strings -syscall -unique hash/crc32 -reflect crypto -net/netip +reflect +internal/concurrent +unique crypto/md5 crypto/cipher +net/netip bufio github.com/biogo/biogo/feat +crypto/internal/boring github.com/biogo/biogo/feat/gene github.com/biogo/biogo/io/featio -crypto/internal/boring crypto/sha1 internal/syscall/execenv -internal/syscall/unix time -io/fs +internal/syscall/unix context +io/fs internal/poll internal/fmtsort encoding/binary internal/filepathlite -encoding/base64 os +encoding/base64 io/ioutil -path/filepath fmt +path/filepath net os/exec flag github.com/biogo/biogo/alphabet -encoding/csv encoding/hex database/sql/driver log -text/tabwriter -net/url -compress/flate encoding/json +encoding/csv +compress/flate +text/tabwriter math/big +net/url github.com/biogo/biogo/seq github.com/biogo/biogo/feat/genome github.com/biogo/biogo/io/seqio @@ -651,9 +687,9 @@ compress/gzip github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq -github.com/biogo/hts/bgzf -runtime/pprof github.com/biogo/biogo/io/featio/gff +runtime/pprof +github.com/biogo/hts/bgzf github.com/biogo/hts/bgzf/index github.com/biogo/hts/internal github.com/biogo/hts/sam @@ -662,8 +698,8 @@ 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 +github.com/nanoporetech/pinfish/cluster_gff debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/pinfish-0.1.0+ds' dh_auto_test @@ -705,8 +741,8 @@ 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 @@ -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/3483526/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3483526/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/525639 and its subdirectories -I: Current time: Thu Nov 21 03:02:06 -12 2024 -I: pbuilder-time-stamp: 1732201326 +I: removing directory /srv/workspace/pbuilder/3483526 and its subdirectories +I: Current time: Fri Nov 22 05:05:17 +14 2024 +I: pbuilder-time-stamp: 1732201517