Diff of the two buildlogs: -- --- b1/build.log 2025-10-29 13:21:58.099263893 +0000 +++ b2/build.log 2025-10-29 13:24:58.015400621 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Dec 1 07:43:14 -12 2026 -I: pbuilder-time-stamp: 1796154194 +I: Current time: Thu Oct 30 03:22:13 +14 2025 +I: pbuilder-time-stamp: 1761744133 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -26,53 +26,85 @@ dpkg-source: info: applying use-new-mpb.patch I: using fakeroot in build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2324094/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2324036/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 Oct 29 13:22 /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/2324036/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2324036/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]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.3.3(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='forky' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='7c3743c0ec3f4008a31debabf2c9b8cc' - 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='2324094' - PS1='# ' - PS2='> ' + INVOCATION_ID=5358e1d19df9448db885f4fbbdfd748c + 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=2324036 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.dGrBotDB/pbuilderrc_pie3 --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.dGrBotDB/b1 --logfile b1/build.log seqkit_2.10.1+ds-1.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' - 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.dGrBotDB/pbuilderrc_rgUR --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.dGrBotDB/b2 --logfile b2/build.log seqkit_2.10.1+ds-1.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' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2324094/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2324036/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -332,7 +364,7 @@ Get: 158 http://deb.debian.org/debian forky/main arm64 libhts3t64 arm64 1.22.1+ds2-1 [434 kB] Get: 159 http://deb.debian.org/debian forky/main arm64 libncurses6 arm64 6.5+20250216-2 [96.1 kB] Get: 160 http://deb.debian.org/debian forky/main arm64 samtools arm64 1.22.1-1 [666 kB] -Fetched 125 MB in 1s (109 MB/s) +Fetched 125 MB in 1s (170 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 ... 20004 files and directories currently installed.) @@ -860,8 +892,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Tue Dec 1 19:43:46 UTC 2026. -Universal Time is now: Tue Dec 1 19:43:46 UTC 2026. +Local time is now: Wed Oct 29 13:22:54 UTC 2025. +Universal Time is now: Wed Oct 29 13:22:54 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up golang-github-cespare-xxhash-dev (2.3.0-1) ... @@ -999,7 +1031,11 @@ Solving dependencies... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/reproducible-path/seqkit-2.10.1+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_2.10.1+ds-1_source.changes +I: user script /srv/workspace/pbuilder/2324036/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/2324036/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/seqkit-2.10.1+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_2.10.1+ds-1_source.changes dpkg-buildpackage: info: source package seqkit dpkg-buildpackage: info: source version 2.10.1+ds-1 dpkg-buildpackage: info: source distribution unstable @@ -1018,47 +1054,47 @@ dh_auto_configure -O--buildsystem=golang -O--builddirectory=build 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/unsafeheader -internal/goarch -internal/godebugs -internal/goexperiment internal/profilerecord +internal/unsafeheader internal/asan +internal/goexperiment +internal/coverage/rtcov +internal/byteorder internal/goos +internal/godebugs +internal/goarch +internal/msan +internal/runtime/syscall internal/cpu +internal/itoa cmp -internal/abi -internal/runtime/syscall -internal/msan -internal/coverage/rtcov internal/runtime/math -internal/itoa +internal/abi math/bits unicode/utf8 sync/atomic unicode log/internal -internal/chacha8rand internal/nettrace crypto/internal/fips140/alias -crypto/internal/fips140deps/byteorder image/color internal/goversion +internal/chacha8rand +crypto/internal/fips140deps/byteorder internal/platform -internal/syslist crypto/internal/fips140/subtle +internal/syslist +golang.org/x/image/math/f64 +crypto/internal/boring/sig +encoding +unicode/utf16 +github.com/dsnet/compress/bzip2/internal/sais math internal/bytealg internal/runtime/atomic internal/runtime/sys crypto/internal/fips140deps/cpu -golang.org/x/image/math/f64 -crypto/internal/boring/sig -encoding -unicode/utf16 image/color/palette -github.com/dsnet/compress/bzip2/internal/sais github.com/dsnet/compress/internal github.com/elliotwutingfeng/asciiset github.com/klauspost/compress/internal/le @@ -1066,81 +1102,81 @@ container/list vendor/golang.org/x/crypto/cryptobyte/asn1 vendor/golang.org/x/crypto/internal/alias -internal/runtime/exithook github.com/rivo/uniseg -internal/stringslite github.com/VividCortex/ewma +internal/runtime/exithook +internal/stringslite internal/race github.com/klauspost/compress -github.com/vbauerster/mpb/internal github.com/shenwei356/util/math +github.com/vbauerster/mpb/internal internal/sync internal/runtime/maps runtime iter -weak -crypto/subtle sync internal/reflectlite +weak +crypto/subtle slices maps -sort -internal/testlog -errors +internal/bisect internal/singleflight unique -internal/bisect +internal/testlog +sort +errors runtime/cgo +io strconv internal/oserror -io path vendor/golang.org/x/net/dns/dnsmessage gonum.org/v1/plot/palette math/rand/v2 syscall internal/godebug -container/heap +crypto/internal/fips140deps/godebug +crypto/internal/randutil bytes -net/netip -reflect strings -crypto/internal/randutil -crypto/internal/fips140deps/godebug -math/rand -internal/saferio hash -crypto hash/crc32 +internal/saferio +container/heap +reflect +net/netip +math/rand +crypto hash/adler32 hash/crc64 -github.com/shenwei356/util/randutil -github.com/twotwotwo/sorts vendor/golang.org/x/text/transform +github.com/twotwotwo/sorts +github.com/shenwei356/util/randutil github.com/biogo/biogo/feat bufio -crypto/internal/impl +regexp/syntax crypto/internal/fips140 +crypto/internal/impl go/build/constraint -regexp/syntax html -github.com/dsnet/compress/internal/errors -net/http/internal/ascii crypto/internal/fips140/sha256 crypto/internal/fips140/sha3 crypto/internal/fips140/sha512 +github.com/dsnet/compress/internal/errors time internal/syscall/unix internal/syscall/execenv crypto/tls/internal/fips140tls -github.com/twotwotwo/sorts/sortutil -github.com/shenwei356/bio/util image github.com/dsnet/compress -crypto/internal/fips140/hmac +net/http/internal/ascii +github.com/twotwotwo/sorts/sortutil crypto/sha3 -crypto/internal/fips140/check +github.com/shenwei356/bio/util +crypto/internal/fips140/hmac crypto/internal/fips140hash +crypto/internal/fips140/check crypto/internal/fips140/aes crypto/internal/fips140/nistec/fiat crypto/internal/fips140/edwards25519/field @@ -1148,46 +1184,46 @@ crypto/internal/fips140/hkdf crypto/internal/fips140/tls12 crypto/internal/fips140/tls13 -regexp -image/internal/imageutil crypto/internal/fips140/edwards25519 +image/internal/imageutil +regexp image/draw image/jpeg +golang.org/x/image/draw github.com/shenwei356/natsort github.com/acarl005/stripansi -golang.org/x/image/draw -context -internal/poll io/fs +internal/poll +context internal/filepathlite crypto/internal/fips140/nistec os internal/fmtsort encoding/binary encoding/base64 -golang.org/x/image/ccitt github.com/cespare/xxhash +github.com/klauspost/compress/internal/snapref +index/suffixarray golang.org/x/sys/unix vendor/golang.org/x/crypto/internal/poly1305 -index/suffixarray -github.com/klauspost/compress/internal/snapref +golang.org/x/image/ccitt encoding/pem +github.com/shenwei356/bwt fmt -internal/lazyregexp path/filepath -io/ioutil +net crypto/internal/sysrand +internal/lazyregexp +io/ioutil github.com/mattn/go-runewidth os/signal -net crypto/internal/entropy crypto/internal/fips140/drbg -github.com/shenwei356/bwt crypto/internal/fips140only +crypto/internal/fips140/ecdh crypto/internal/fips140/aes/gcm crypto/internal/fips140/ecdsa crypto/internal/fips140/ed25519 -crypto/internal/fips140/ecdh crypto/internal/fips140/mlkem crypto/internal/fips140/rsa os/exec @@ -1196,69 +1232,69 @@ crypto/cipher github.com/mitchellh/go-homedir internal/goroot +github.com/biogo/biogo/alphabet log encoding/hex text/tabwriter -github.com/biogo/biogo/alphabet compress/flate net/url golang.org/x/image/math/fixed -go/token go/doc/comment +go/token internal/buildcfg golang.org/x/image/tiff/lzw crypto/internal/boring -encoding/gob github.com/golang/freetype/raster golang.org/x/image/font +encoding/gob crypto/sha1 golang.org/x/image/font/basicfont -github.com/biogo/biogo/seq encoding/json -encoding/xml go/scanner +github.com/biogo/biogo/seq +encoding/xml compress/lzw +github.com/golang/freetype/truetype runtime/debug +image/gif github.com/biogo/biogo/io/seqio github.com/biogo/biogo/seq/linear github.com/biogo/biogo/align -github.com/biogo/biogo/io/seqio/fasta compress/gzip -github.com/golang/freetype/truetype -compress/zlib -go/ast +github.com/biogo/biogo/io/seqio/fasta github.com/biogo/hts/bgzf +go/ast github.com/shenwei356/seqkit/benchmark -image/png gonum.org/v1/plot/vg/fonts +compress/zlib +image/png github.com/biogo/hts/bgzf/index -github.com/biogo/hts/internal golang.org/x/image/tiff -image/gif +github.com/biogo/hts/internal math/big github.com/biogo/hts/sam -github.com/fogleman/gg github.com/dsnet/compress/internal/prefix github.com/iafan/cwalk +github.com/fogleman/gg github.com/klauspost/compress/fse -github.com/klauspost/compress/flate -github.com/dsnet/compress/bzip2 +github.com/mattn/go-isatty +golang.org/x/term +github.com/mattn/go-colorable github.com/ajstarks/svgo -github.com/klauspost/compress/huff0 -github.com/logrusorgru/aurora -github.com/pkg/errors +github.com/fsnotify/fsnotify/internal go/doc go/parser +golang.org/x/crypto/ssh/terminal +github.com/dsnet/compress/bzip2 +github.com/klauspost/compress/huff0 +github.com/klauspost/compress/flate +github.com/logrusorgru/aurora +github.com/fsnotify/fsnotify github.com/biogo/hts/bam -github.com/mattn/go-isatty -golang.org/x/term -github.com/fsnotify/fsnotify/internal github.com/jung-kurt/gofpdf -github.com/mattn/go-colorable -github.com/fsnotify/fsnotify +github.com/pkg/errors crypto/sha256 github.com/ulikunitz/xz/internal/xlog -golang.org/x/crypto/ssh/terminal crypto/aes crypto/des crypto/ecdh @@ -1271,61 +1307,61 @@ vendor/golang.org/x/net/http2/hpack vendor/golang.org/x/crypto/chacha20poly1305 mime -go/build mime/quotedprintable net/http/internal +os/user github.com/cznic/sortutil github.com/dustin/go-humanize crypto/rand github.com/klauspost/pgzip -crypto/elliptic github.com/klauspost/compress/zstd +crypto/elliptic +go/build crypto/internal/boring/bbig encoding/asn1 crypto/ed25519 crypto/internal/hpke +github.com/ulikunitz/xz crypto/rsa crypto/dsa vendor/golang.org/x/text/secure/bidirule -os/user github.com/shenwei356/util/byteutil -github.com/ulikunitz/xz github.com/edsrzf/mmap-go github.com/shenwei356/bwt/fmi -github.com/shenwei356/stable -github.com/shenwei356/util/pathutil +vendor/golang.org/x/net/idna github.com/shenwei356/bio/seq -github.com/shenwei356/bio/seqio/fai vendor/golang.org/x/crypto/cryptobyte crypto/x509/pkix -vendor/golang.org/x/net/idna +github.com/shenwei356/stable +github.com/shenwei356/bio/seqio/fai +github.com/shenwei356/util/pathutil github.com/araddon/dateparse gopkg.in/yaml.v2 encoding/csv -gonum.org/v1/plot/vg +crypto/ecdsa flag text/template/parse +gonum.org/v1/plot/vg github.com/vbauerster/mpb/cwriter +github.com/vbauerster/mpb/decor gonum.org/v1/plot/vg/vgeps gonum.org/v1/plot/vg/vgimg gonum.org/v1/plot/vg/vgsvg gonum.org/v1/plot/tools/bezier -crypto/ecdsa -github.com/vbauerster/mpb/decor github.com/shenwei356/util/stringutil -text/template github.com/vbauerster/mpb +text/template gonum.org/v1/plot/vg/vgpdf -github.com/smallfish/simpleyaml gonum.org/v1/plot/vg/draw gonum.org/v1/plot +github.com/smallfish/simpleyaml +gonum.org/v1/plot/plotter log/syslog -crypto/x509 net/textproto +crypto/x509 vendor/golang.org/x/net/http/httpproxy github.com/spf13/pflag github.com/op/go-logging -gonum.org/v1/plot/plotter mime/multipart vendor/golang.org/x/net/http/httpguts gonum.org/v1/plot/plotutil @@ -1396,12 +1432,14 @@ 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/2324036/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2324036/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/2324094 and its subdirectories -I: Current time: Tue Dec 1 07:44:57 -12 2026 -I: pbuilder-time-stamp: 1796154297 +I: removing directory /srv/workspace/pbuilder/2324036 and its subdirectories +I: Current time: Thu Oct 30 03:24:57 +14 2025 +I: pbuilder-time-stamp: 1761744297