Diff of the two buildlogs: -- --- b1/build.log 2025-03-09 08:29:34.020838887 +0000 +++ b2/build.log 2025-03-09 08:31:39.099202229 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Mar 8 20:27:56 -12 2025 -I: pbuilder-time-stamp: 1741508876 +I: Current time: Sun Apr 12 04:52:52 +14 2026 +I: pbuilder-time-stamp: 1775919172 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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/180532/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3054609/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-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 Apr 11 14:53 /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/3054609/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3054609/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='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='ea9577c3bdd449f884e0dee3fb178092' - 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='180532' - PS1='# ' - PS2='> ' + INVOCATION_ID=cf75e3e69f9a40299149f5851e401cfd + 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=3054609 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.vJ0rMfBM/pbuilderrc_dKme --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.vJ0rMfBM/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.vJ0rMfBM/pbuilderrc_vc8N --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.vJ0rMfBM/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 codethink04-arm64 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/180532/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3054609/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -847,8 +879,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Sun Mar 9 08:28:27 UTC 2025. -Universal Time is now: Sun Mar 9 08:28:27 UTC 2025. +Local time is now: Sat Apr 11 14:53:23 UTC 2026. +Universal Time is now: Sat Apr 11 14:53:23 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up golang-github-cespare-xxhash-dev (2.3.0-1) ... @@ -977,7 +1009,11 @@ 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/3054609/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3054609/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 @@ -996,33 +1032,33 @@ 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/godebugs internal/unsafeheader -internal/msan -internal/goexperiment +internal/goos internal/goarch -internal/coverage/rtcov -internal/godebugs +internal/byteorder internal/profilerecord +internal/goexperiment +internal/msan +internal/coverage/rtcov internal/asan -internal/byteorder +internal/cpu cmp -internal/goos internal/itoa math/bits unicode/utf8 -internal/cpu -sync/atomic -internal/abi -internal/runtime/math internal/runtime/syscall +internal/abi +sync/atomic unicode -log/internal internal/chacha8rand +internal/runtime/math +log/internal internal/nettrace crypto/internal/fips140/alias crypto/internal/fips140deps/byteorder -image/color crypto/internal/fips140/subtle +image/color internal/goversion internal/platform internal/syslist @@ -1031,27 +1067,27 @@ crypto/internal/boring/sig encoding unicode/utf16 -image/color/palette github.com/dsnet/compress/bzip2/internal/sais github.com/dsnet/compress/internal +image/color/palette github.com/elliotwutingfeng/asciiset +github.com/klauspost/compress/internal/le +github.com/ulikunitz/xz/internal/hash internal/bytealg internal/runtime/atomic internal/runtime/sys crypto/internal/fips140deps/cpu -github.com/klauspost/compress/internal/le -github.com/ulikunitz/xz/internal/hash container/list vendor/golang.org/x/crypto/cryptobyte/asn1 vendor/golang.org/x/crypto/internal/alias github.com/VividCortex/ewma github.com/rivo/uniseg -internal/stringslite 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 @@ -1065,250 +1101,250 @@ errors sort internal/bisect +internal/testlog internal/singleflight unique -internal/testlog runtime/cgo io internal/oserror +vendor/golang.org/x/net/dns/dnsmessage +strconv path math/rand/v2 -strconv -vendor/golang.org/x/net/dns/dnsmessage gonum.org/v1/plot/palette -syscall -reflect -strings internal/godebug -hash bytes +hash +strings +crypto/internal/randutil +syscall internal/saferio container/heap -crypto/internal/randutil +reflect net/netip crypto +crypto/internal/fips140deps/godebug hash/crc32 hash/adler32 -hash/crc64 -crypto/internal/fips140deps/godebug math/rand +hash/crc64 +vendor/golang.org/x/text/transform +github.com/twotwotwo/sorts github.com/biogo/biogo/feat -regexp/syntax -go/build/constraint +bufio crypto/internal/impl +regexp/syntax crypto/internal/fips140 -bufio +go/build/constraint html +crypto/internal/fips140/sha3 github.com/dsnet/compress/internal/errors -vendor/golang.org/x/text/transform crypto/internal/fips140/sha256 -crypto/internal/fips140/sha3 crypto/internal/fips140/sha512 crypto/tls/internal/fips140tls net/http/internal/ascii -crypto/sha3 -github.com/twotwotwo/sorts +github.com/twotwotwo/sorts/sortutil +github.com/shenwei356/bio/util github.com/shenwei356/util/randutil -github.com/dsnet/compress +crypto/sha3 image -crypto/internal/fips140hash -time -internal/syscall/unix -internal/syscall/execenv +github.com/dsnet/compress crypto/internal/fips140/hmac -github.com/twotwotwo/sorts/sortutil -github.com/shenwei356/bio/util -regexp +crypto/internal/fips140hash crypto/internal/fips140/check crypto/internal/fips140/aes crypto/internal/fips140/nistec/fiat -crypto/internal/fips140/hkdf crypto/internal/fips140/edwards25519/field crypto/internal/fips140/bigmod +crypto/internal/fips140/hkdf crypto/internal/fips140/tls12 +regexp crypto/internal/fips140/tls13 image/internal/imageutil -crypto/internal/fips140/edwards25519 -image/jpeg +time +internal/syscall/unix +internal/syscall/execenv image/draw +image/jpeg +crypto/internal/fips140/edwards25519 +golang.org/x/image/draw github.com/shenwei356/natsort github.com/acarl005/stripansi -golang.org/x/image/draw +crypto/internal/fips140/nistec +context io/fs internal/poll -context internal/filepathlite -os -crypto/internal/fips140/nistec internal/fmtsort encoding/binary -golang.org/x/sys/unix +os +golang.org/x/image/ccitt encoding/base64 -github.com/cespare/xxhash github.com/klauspost/compress/internal/snapref -golang.org/x/image/ccitt +github.com/cespare/xxhash vendor/golang.org/x/crypto/internal/poly1305 index/suffixarray +golang.org/x/sys/unix encoding/pem +github.com/shenwei356/bwt fmt -path/filepath crypto/internal/sysrand -internal/lazyregexp +path/filepath io/ioutil github.com/mattn/go-runewidth +internal/lazyregexp os/signal +net crypto/internal/entropy -github.com/shenwei356/bwt crypto/internal/fips140/drbg -os/exec crypto/internal/fips140only -crypto/internal/fips140/aes/gcm +crypto/internal/fips140/ecdsa crypto/internal/fips140/ed25519 -crypto/internal/fips140/rsa +crypto/internal/fips140/aes/gcm +os/exec crypto/internal/fips140/mlkem crypto/internal/fips140/ecdh -crypto/internal/fips140/ecdsa +crypto/internal/fips140/rsa crypto/md5 crypto/rc4 -net +crypto/cipher internal/goroot github.com/mitchellh/go-homedir -crypto/cipher -github.com/biogo/biogo/alphabet log -encoding/hex -text/tabwriter -go/token -net/url +github.com/biogo/biogo/alphabet compress/flate +net/url golang.org/x/image/math/fixed -go/doc/comment +go/token internal/buildcfg +go/doc/comment +text/tabwriter +encoding/hex +github.com/golang/freetype/raster +golang.org/x/image/font golang.org/x/image/tiff/lzw +golang.org/x/image/font/basicfont crypto/internal/boring encoding/gob encoding/json -github.com/golang/freetype/raster -golang.org/x/image/font -github.com/biogo/biogo/seq -go/scanner crypto/sha1 +encoding/xml +compress/lzw compress/gzip -golang.org/x/image/font/basicfont -github.com/biogo/biogo/io/seqio -github.com/biogo/biogo/seq/linear -github.com/biogo/biogo/align -github.com/biogo/biogo/io/seqio/fasta +go/scanner +github.com/golang/freetype/truetype +github.com/biogo/biogo/seq compress/zlib +image/gif +image/png github.com/biogo/hts/bgzf -go/ast gonum.org/v1/plot/vg/fonts -encoding/xml -github.com/shenwei356/seqkit/benchmark -github.com/golang/freetype/truetype -image/png +github.com/biogo/biogo/io/seqio +github.com/biogo/biogo/seq/linear +github.com/biogo/biogo/io/seqio/fasta +github.com/biogo/biogo/align +github.com/mattn/go-isatty github.com/biogo/hts/bgzf/index +golang.org/x/term +github.com/shenwei356/seqkit/benchmark +github.com/mattn/go-colorable github.com/biogo/hts/internal -github.com/biogo/hts/sam +go/ast +golang.org/x/crypto/ssh/terminal golang.org/x/image/tiff -compress/lzw runtime/debug github.com/fogleman/gg +github.com/biogo/hts/sam math/big -image/gif github.com/dsnet/compress/internal/prefix -github.com/iafan/cwalk -github.com/mattn/go-isatty -golang.org/x/term -go/doc -github.com/mattn/go-colorable -go/parser github.com/fsnotify/fsnotify/internal -github.com/ajstarks/svgo -github.com/biogo/hts/bam +github.com/iafan/cwalk github.com/klauspost/compress/fse -github.com/dsnet/compress/bzip2 -golang.org/x/crypto/ssh/terminal github.com/klauspost/compress/flate -github.com/fsnotify/fsnotify -github.com/jung-kurt/gofpdf github.com/logrusorgru/aurora github.com/pkg/errors +github.com/fsnotify/fsnotify +github.com/biogo/hts/bam +github.com/dsnet/compress/bzip2 crypto/sha256 +github.com/jung-kurt/gofpdf +github.com/ajstarks/svgo github.com/ulikunitz/xz/internal/xlog +github.com/ulikunitz/xz/lzma crypto/aes crypto/des +go/doc +go/parser github.com/klauspost/compress/huff0 crypto/ecdh crypto/sha512 crypto/hmac -github.com/ulikunitz/xz/lzma vendor/golang.org/x/crypto/chacha20 vendor/golang.org/x/text/unicode/bidi vendor/golang.org/x/text/unicode/norm vendor/golang.org/x/net/http2/hpack -go/build -mime vendor/golang.org/x/crypto/chacha20poly1305 -mime/quotedprintable -net/http/internal -os/user -github.com/shenwei356/util/byteutil -github.com/edsrzf/mmap-go -vendor/golang.org/x/text/secure/bidirule -github.com/shenwei356/bio/seq -github.com/shenwei356/bio/seqio/fai +mime github.com/cznic/sortutil github.com/dustin/go-humanize crypto/rand -github.com/klauspost/pgzip -github.com/klauspost/compress/zstd github.com/ulikunitz/xz crypto/elliptic +github.com/klauspost/compress/zstd crypto/internal/boring/bbig encoding/asn1 crypto/ed25519 -gonum.org/v1/plot/vg crypto/internal/hpke +github.com/klauspost/pgzip crypto/rsa +go/build crypto/dsa +vendor/golang.org/x/text/secure/bidirule +mime/quotedprintable +net/http/internal +os/user +github.com/shenwei356/util/byteutil vendor/golang.org/x/net/idna +github.com/edsrzf/mmap-go github.com/shenwei356/bwt/fmi -gonum.org/v1/plot/vg/vgeps -gonum.org/v1/plot/vg/vgimg -gonum.org/v1/plot/vg/vgsvg -gonum.org/v1/plot/tools/bezier github.com/shenwei356/stable github.com/shenwei356/util/pathutil +github.com/shenwei356/bio/seq github.com/shenwei356/util/stringutil gopkg.in/yaml.v2 -encoding/csv +github.com/shenwei356/bio/seqio/fai vendor/golang.org/x/crypto/cryptobyte crypto/x509/pkix +encoding/csv flag text/template/parse github.com/vbauerster/mpb/cwriter github.com/vbauerster/mpb/decor crypto/ecdsa +gonum.org/v1/plot/vg github.com/vbauerster/mpb +gonum.org/v1/plot/vg/vgeps +gonum.org/v1/plot/vg/vgimg +gonum.org/v1/plot/vg/vgsvg +gonum.org/v1/plot/tools/bezier text/template +github.com/smallfish/simpleyaml gonum.org/v1/plot/vg/vgpdf gonum.org/v1/plot/vg/draw -github.com/smallfish/simpleyaml -gonum.org/v1/plot -gonum.org/v1/plot/plotter log/syslog net/textproto vendor/golang.org/x/net/http/httpproxy +gonum.org/v1/plot crypto/x509 github.com/spf13/pflag github.com/op/go-logging vendor/golang.org/x/net/http/httpguts mime/multipart -gonum.org/v1/plot/plotutil -github.com/bsipos/thist +gonum.org/v1/plot/plotter github.com/spf13/cobra +gonum.org/v1/plot/plotutil crypto/tls +github.com/bsipos/thist net/http/httptrace net/http github.com/shenwei356/xopen @@ -1358,8 +1394,8 @@ 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: 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: 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 dh_md5sums -O--buildsystem=golang -O--builddirectory=build dh_builddeb -O--buildsystem=golang -O--builddirectory=build @@ -1373,12 +1409,14 @@ 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/3054609/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3054609/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/180532 and its subdirectories -I: Current time: Sat Mar 8 20:29:33 -12 2025 -I: pbuilder-time-stamp: 1741508973 +I: removing directory /srv/workspace/pbuilder/3054609 and its subdirectories +I: Current time: Sun Apr 12 04:54:34 +14 2026 +I: pbuilder-time-stamp: 1775919274