Diff of the two buildlogs: -- --- b1/build.log 2025-01-10 13:12:50.850852959 +0000 +++ b2/build.log 2025-01-10 13:15:07.768609330 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Feb 12 07:32:13 -12 2026 -I: pbuilder-time-stamp: 1770924733 +I: Current time: Sat Jan 11 03:13:08 +14 2025 +I: pbuilder-time-stamp: 1736514788 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -26,52 +26,84 @@ dpkg-source: info: applying use-new-mpb.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2269419/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3030523/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 Jan 10 13:13 /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/3030523/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3030523/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]="37" [3]="1" [4]="release" [5]="aarch64-unknown-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=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='5f6c8a15e3ff48bab08fa2ffb0e06666' - 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='2269419' - PS1='# ' - PS2='> ' + INVOCATION_ID=eb0d2f654d24437fb2a54ffed7a2a5a9 + 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=3030523 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.2PxQIe8w/pbuilderrc_lGWE --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.2PxQIe8w/b1 --logfile b1/build.log seqkit_2.9.0+ds-1.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.2PxQIe8w/pbuilderrc_JG2p --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.2PxQIe8w/b2 --logfile b2/build.log seqkit_2.9.0+ds-1.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 codethink01-arm64 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2269419/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3030523/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -326,7 +358,7 @@ Get: 153 http://deb.debian.org/debian unstable/main arm64 libhts3t64 arm64 1.20+ds-2 [420 kB] Get: 154 http://deb.debian.org/debian unstable/main arm64 libncurses6 arm64 6.5-2+b1 [96.1 kB] Get: 155 http://deb.debian.org/debian unstable/main arm64 samtools arm64 1.20-3+b1 [629 kB] -Fetched 126 MB in 1s (87.7 MB/s) +Fetched 126 MB in 1s (211 MB/s) Preconfiguring packages ... Selecting previously unselected package tzdata. (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 ... 19963 files and directories currently installed.) @@ -837,8 +869,8 @@ Setting up tzdata (2024b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Thu Feb 12 19:33:25 UTC 2026. -Universal Time is now: Thu Feb 12 19:33:25 UTC 2026. +Local time is now: Fri Jan 10 13:13:41 UTC 2025. +Universal Time is now: Fri Jan 10 13:13:41 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up golang-github-cespare-xxhash-dev (2.3.0-1) ... @@ -967,7 +999,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/seqkit-2.9.0+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 > ../seqkit_2.9.0+ds-1_source.changes +I: user script /srv/workspace/pbuilder/3030523/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3030523/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/seqkit-2.9.0+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 > ../seqkit_2.9.0+ds-1_source.changes dpkg-buildpackage: info: source package seqkit dpkg-buildpackage: info: source version 2.9.0+ds-1 dpkg-buildpackage: info: source distribution unstable @@ -987,46 +1023,46 @@ dh_auto_build -O--buildsystem=golang -O--builddirectory=build cd build && go install -trimpath -v -p 12 github.com/shenwei356/seqkit/benchmark github.com/shenwei356/seqkit/seqkit github.com/shenwei356/seqkit/seqkit/cmd internal/byteorder +internal/coverage/rtcov internal/goarch -internal/goos -internal/goexperiment +internal/itoa internal/godebugs internal/profilerecord -internal/unsafeheader -internal/coverage/rtcov +internal/goexperiment +internal/goos cmp -internal/itoa -runtime/internal/math +internal/unsafeheader +internal/cpu +internal/runtime/syscall internal/race +runtime/internal/math +internal/abi math/bits -internal/cpu +runtime/internal/sys unicode/utf8 sync/atomic -runtime/internal/sys -internal/runtime/syscall unicode internal/asan -internal/chacha8rand internal/msan +internal/chacha8rand log/internal -internal/abi internal/nettrace image/color -math internal/goversion +math internal/platform golang.org/x/image/math/f64 crypto/internal/alias crypto/subtle -encoding crypto/internal/boring/sig +encoding unicode/utf16 -image/color/palette +internal/bytealg +internal/runtime/atomic github.com/dsnet/compress/bzip2/internal/sais github.com/dsnet/compress/internal +image/color/palette github.com/elliotwutingfeng/asciiset -internal/bytealg -internal/runtime/atomic github.com/ulikunitz/xz/internal/hash container/list vendor/golang.org/x/crypto/cryptobyte/asn1 @@ -1041,234 +1077,234 @@ github.com/vbauerster/mpb/internal internal/reflectlite iter -sync internal/weak -slices +sync maps +slices internal/bisect internal/testlog internal/singleflight runtime/cgo errors sort -internal/godebug -strconv -io internal/oserror +io +strconv path -syscall +strings crypto/internal/edwards25519/field +crypto/internal/nistec/fiat math/rand/v2 -math/rand gonum.org/v1/plot/palette -strings -crypto/internal/nistec/fiat -bytes vendor/golang.org/x/net/dns/dnsmessage -hash -container/heap +internal/godebug +bytes +syscall reflect -crypto internal/concurrent -hash/adler32 -hash/crc32 -unique -crypto/rc4 +hash internal/saferio -crypto/md5 +container/heap +crypto/rc4 crypto/cipher -crypto/internal/randutil -hash/crc64 -crypto/internal/edwards25519 -vendor/golang.org/x/text/transform -github.com/twotwotwo/sorts -github.com/shenwei356/util/randutil -crypto/internal/boring github.com/biogo/biogo/feat bufio -net/netip +unique regexp/syntax +crypto +hash/crc32 +crypto/md5 go/build/constraint -crypto/sha1 +hash/adler32 +crypto/internal/boring +net/netip +math/rand html github.com/dsnet/compress/internal/errors +crypto/internal/randutil +crypto/sha1 +image crypto/sha256 +github.com/dsnet/compress +hash/crc64 crypto/aes crypto/des crypto/sha512 +crypto/internal/edwards25519 crypto/hmac -net/http/internal/ascii +vendor/golang.org/x/text/transform vendor/golang.org/x/crypto/hkdf -image -github.com/dsnet/compress -github.com/twotwotwo/sorts/sortutil -github.com/shenwei356/bio/util -image/internal/imageutil regexp -image/draw -image/jpeg +net/http/internal/ascii +github.com/twotwotwo/sorts +github.com/shenwei356/util/randutil +image/internal/imageutil time internal/syscall/execenv internal/syscall/unix +image/jpeg +image/draw +github.com/twotwotwo/sorts/sortutil +github.com/shenwei356/bio/util golang.org/x/image/draw github.com/shenwei356/natsort github.com/acarl005/stripansi +context io/fs internal/poll -context -internal/fmtsort -encoding/binary internal/filepathlite embed +internal/fmtsort +encoding/binary crypto/internal/nistec +os +encoding/base64 golang.org/x/image/ccitt +github.com/cespare/xxhash +github.com/klauspost/compress/internal/snapref vendor/golang.org/x/crypto/chacha20 golang.org/x/sys/unix -github.com/klauspost/compress/internal/snapref -encoding/base64 -index/suffixarray -github.com/cespare/xxhash vendor/golang.org/x/crypto/internal/poly1305 -os +index/suffixarray encoding/pem vendor/golang.org/x/crypto/chacha20poly1305 -github.com/shenwei356/bwt crypto/ecdh +github.com/shenwei356/bwt fmt -internal/lazyregexp -net +github.com/mattn/go-runewidth io/ioutil +path/filepath +internal/lazyregexp vendor/golang.org/x/sys/cpu -github.com/mattn/go-runewidth os/signal -path/filepath +net vendor/golang.org/x/crypto/sha3 os/exec +internal/goroot +github.com/mitchellh/go-homedir github.com/biogo/biogo/alphabet log -encoding/hex text/tabwriter +encoding/hex compress/flate -net/url -golang.org/x/image/math/fixed go/token -go/doc/comment +net/url internal/buildcfg -internal/goroot +go/doc/comment +golang.org/x/image/math/fixed golang.org/x/image/tiff/lzw encoding/gob -encoding/json github.com/golang/freetype/raster golang.org/x/image/font go/scanner +encoding/json +github.com/biogo/biogo/seq encoding/xml golang.org/x/image/font/basicfont -github.com/biogo/biogo/seq +compress/gzip +compress/zlib +github.com/golang/freetype/truetype compress/lzw +go/ast github.com/biogo/biogo/io/seqio github.com/biogo/biogo/seq/linear github.com/biogo/biogo/align -compress/gzip -github.com/biogo/biogo/io/seqio/fasta -go/ast -github.com/golang/freetype/truetype -compress/zlib github.com/biogo/hts/bgzf -github.com/mattn/go-isatty -github.com/shenwei356/seqkit/benchmark +github.com/biogo/biogo/io/seqio/fasta gonum.org/v1/plot/vg/fonts -golang.org/x/term -github.com/mattn/go-colorable image/png +github.com/shenwei356/seqkit/benchmark github.com/biogo/hts/bgzf/index +github.com/mattn/go-isatty github.com/biogo/hts/internal -golang.org/x/crypto/ssh/terminal +github.com/mattn/go-colorable +golang.org/x/term golang.org/x/image/tiff -github.com/biogo/hts/sam image/gif +github.com/fogleman/gg +github.com/biogo/hts/sam runtime/debug -github.com/ajstarks/svgo -math/big github.com/dsnet/compress/internal/prefix +math/big +go/doc +go/internal/typeparams +golang.org/x/crypto/ssh/terminal +github.com/jung-kurt/gofpdf +github.com/ajstarks/svgo github.com/fsnotify/fsnotify/internal github.com/iafan/cwalk +go/parser github.com/klauspost/compress/fse -github.com/fogleman/gg +github.com/fsnotify/fsnotify github.com/klauspost/compress/flate github.com/logrusorgru/aurora -github.com/fsnotify/fsnotify -github.com/mitchellh/go-homedir -github.com/jung-kurt/gofpdf -go/doc -go/internal/typeparams -go/parser -github.com/klauspost/compress/huff0 +github.com/pkg/errors github.com/dsnet/compress/bzip2 github.com/biogo/hts/bam -github.com/pkg/errors github.com/ulikunitz/xz/internal/xlog -github.com/ulikunitz/xz/lzma vendor/golang.org/x/text/unicode/bidi vendor/golang.org/x/text/unicode/norm +github.com/klauspost/compress/huff0 vendor/golang.org/x/net/http2/hpack +github.com/ulikunitz/xz/lzma mime mime/quotedprintable +go/build net/http/internal +vendor/golang.org/x/text/secure/bidirule os/user github.com/shenwei356/util/byteutil -go/build github.com/edsrzf/mmap-go github.com/shenwei356/bwt/fmi -vendor/golang.org/x/text/secure/bidirule -github.com/shenwei356/bio/seq github.com/shenwei356/util/pathutil -github.com/shenwei356/util/stringutil +github.com/shenwei356/bio/seq github.com/ulikunitz/xz -gopkg.in/yaml.v2 +github.com/shenwei356/util/stringutil github.com/shenwei356/bio/seqio/fai -encoding/csv +gopkg.in/yaml.v2 github.com/cznic/sortutil github.com/dustin/go-humanize crypto/rand crypto/elliptic +github.com/klauspost/pgzip crypto/internal/bigmod crypto/internal/boring/bbig encoding/asn1 -github.com/klauspost/pgzip crypto/dsa github.com/klauspost/compress/zstd +gonum.org/v1/plot/vg crypto/ed25519 crypto/internal/hpke crypto/internal/mlkem768 -crypto/rsa vendor/golang.org/x/net/idna -gonum.org/v1/plot/vg github.com/shenwei356/stable -flag -text/template/parse -github.com/vbauerster/mpb/cwriter +crypto/rsa +encoding/csv gonum.org/v1/plot/vg/vgeps gonum.org/v1/plot/vg/vgimg gonum.org/v1/plot/vg/vgsvg gonum.org/v1/plot/tools/bezier +flag +text/template/parse +github.com/vbauerster/mpb/cwriter +github.com/vbauerster/mpb/decor vendor/golang.org/x/crypto/cryptobyte crypto/x509/pkix -github.com/vbauerster/mpb/decor crypto/ecdsa github.com/vbauerster/mpb text/template -github.com/smallfish/simpleyaml gonum.org/v1/plot/vg/vgpdf +github.com/smallfish/simpleyaml gonum.org/v1/plot/vg/draw gonum.org/v1/plot gonum.org/v1/plot/plotter log/syslog -crypto/x509 -net/textproto vendor/golang.org/x/net/http/httpproxy +net/textproto +crypto/x509 github.com/spf13/pflag -github.com/op/go-logging gonum.org/v1/plot/plotutil +github.com/op/go-logging vendor/golang.org/x/net/http/httpguts mime/multipart github.com/bsipos/thist @@ -1324,14 +1360,14 @@ dh_installdeb -O--buildsystem=golang -O--builddirectory=build dh_golang -O--buildsystem=golang -O--builddirectory=build dh_gencontrol -O--buildsystem=golang -O--builddirectory=build -dpkg-gencontrol: warning: package seqkit: substitution variable ${misc:Static-Built-Using} unused, but is defined dpkg-gencontrol: warning: Depends field of package seqkit-examples: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package seqkit: substitution variable ${misc:Static-Built-Using} unused, but is defined +dpkg-gencontrol: warning: package seqkit: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -O--buildsystem=golang -O--builddirectory=build dh_builddeb -O--buildsystem=golang -O--builddirectory=build -dpkg-deb: building package 'seqkit-examples' in '../seqkit-examples_2.9.0+ds-1_all.deb'. dpkg-deb: building package 'seqkit' in '../seqkit_2.9.0+ds-1_arm64.deb'. dpkg-deb: building package 'seqkit-dbgsym' in '../seqkit-dbgsym_2.9.0+ds-1_arm64.deb'. +dpkg-deb: building package 'seqkit-examples' in '../seqkit-examples_2.9.0+ds-1_all.deb'. dpkg-genbuildinfo --build=binary -O../seqkit_2.9.0+ds-1_arm64.buildinfo dpkg-genchanges --build=binary -O../seqkit_2.9.0+ds-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1339,12 +1375,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3030523/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3030523/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/2269419 and its subdirectories -I: Current time: Thu Feb 12 07:35:49 -12 2026 -I: pbuilder-time-stamp: 1770924949 +I: removing directory /srv/workspace/pbuilder/3030523 and its subdirectories +I: Current time: Sat Jan 11 03:15:06 +14 2025 +I: pbuilder-time-stamp: 1736514906