Diff of the two buildlogs: -- --- b1/build.log 2025-02-07 07:24:33.389291491 +0000 +++ b2/build.log 2025-02-07 07:28:32.242505174 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Feb 6 19:20:27 -12 2025 -I: pbuilder-time-stamp: 1738912827 +I: Current time: Fri Mar 13 03:47:36 +14 2026 +I: pbuilder-time-stamp: 1773323256 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -26,51 +26,83 @@ 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/1778766/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/535802/tmp/hooks/D01_modify_environment starting +debug: Running on infom02-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 Mar 12 13:47 /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/535802/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/535802/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' + 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]="x86_64-pc-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=amd64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='af050741378d40e3bb9145a2ebc83347' - 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='1778766' - PS1='# ' - PS2='> ' + INVOCATION_ID=a455b27320f541079f6e0fd83a7ad6ee + 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=535802 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.MYSF45Qt/pbuilderrc_P19Z --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.MYSF45Qt/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' + 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.MYSF45Qt/pbuilderrc_JjRW --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.MYSF45Qt/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' I: uname -a - Linux infom01-amd64 6.1.0-30-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.124-1 (2025-01-12) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1778766/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/535802/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -325,7 +357,7 @@ Get: 153 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.21+ds-1 [463 kB] Get: 154 http://deb.debian.org/debian unstable/main amd64 libncurses6 amd64 6.5+20250125-2 [105 kB] Get: 155 http://deb.debian.org/debian unstable/main amd64 samtools amd64 1.21-1 [667 kB] -Fetched 130 MB in 5s (25.2 MB/s) +Fetched 130 MB in 2s (79.3 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 ... 19806 files and directories currently installed.) @@ -836,8 +868,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Fri Feb 7 07:23:19 UTC 2025. -Universal Time is now: Fri Feb 7 07:23:19 UTC 2025. +Local time is now: Thu Mar 12 13:49:58 UTC 2026. +Universal Time is now: Thu Mar 12 13:49:58 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up golang-github-cespare-xxhash-dev (2.3.0-1) ... @@ -966,7 +998,11 @@ 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/535802/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/535802/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 @@ -985,25 +1021,25 @@ 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/unsafeheader internal/goarch -internal/godebugs internal/coverage/rtcov -cmp +internal/godebugs internal/profilerecord +internal/unsafeheader +cmp +internal/byteorder internal/goexperiment -internal/runtime/atomic internal/goos -internal/byteorder -internal/cpu +internal/runtime/atomic internal/runtime/syscall -internal/abi -runtime/internal/math +internal/cpu internal/itoa -runtime/internal/sys internal/race math/bits +runtime/internal/math unicode/utf8 +internal/abi +runtime/internal/sys sync/atomic internal/chacha8rand unicode @@ -1011,8 +1047,8 @@ internal/msan log/internal internal/nettrace -internal/goversion image/color +internal/goversion internal/platform golang.org/x/image/math/f64 crypto/internal/alias @@ -1020,8 +1056,8 @@ crypto/internal/boring/sig encoding unicode/utf16 -image/color/palette github.com/dsnet/compress/bzip2/internal/sais +image/color/palette github.com/dsnet/compress/internal github.com/elliotwutingfeng/asciiset github.com/klauspost/compress/internal/cpuinfo @@ -1029,11 +1065,11 @@ 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/runtime/exithook +github.com/VividCortex/ewma internal/bytealg math +internal/runtime/exithook internal/stringslite runtime github.com/klauspost/compress @@ -1046,234 +1082,234 @@ maps slices internal/bisect -internal/testlog internal/singleflight +internal/testlog runtime/cgo internal/godebug errors sort -internal/oserror io +strconv +container/heap +gonum.org/v1/plot/palette math/rand +internal/oserror +math/rand/v2 +crypto/internal/edwards25519/field path vendor/golang.org/x/net/dns/dnsmessage -gonum.org/v1/plot/palette -crypto/internal/edwards25519/field -strconv -math/rand/v2 crypto/internal/nistec/fiat syscall internal/concurrent -strings -bytes +unique hash internal/saferio +bytes +strings crypto/internal/randutil crypto/internal/edwards25519 -unique +github.com/shenwei356/util/randutil +hash/adler32 hash/crc32 -container/heap reflect crypto -hash/adler32 -net/netip crypto/rc4 -crypto/md5 hash/crc64 +net/netip +crypto/md5 +vendor/golang.org/x/text/transform crypto/cipher +github.com/twotwotwo/sorts github.com/biogo/biogo/feat -bufio go/build/constraint +bufio regexp/syntax html +crypto/internal/boring github.com/dsnet/compress/internal/errors -vendor/golang.org/x/text/transform +crypto/des net/http/internal/ascii -github.com/twotwotwo/sorts -crypto/internal/boring image -github.com/dsnet/compress -crypto/des -github.com/shenwei356/util/randutil crypto/sha1 +github.com/dsnet/compress crypto/sha256 crypto/aes +time +internal/syscall/unix +internal/syscall/execenv crypto/sha512 crypto/hmac github.com/twotwotwo/sorts/sortutil -github.com/shenwei356/bio/util -time -internal/syscall/execenv -internal/syscall/unix -regexp vendor/golang.org/x/crypto/hkdf +github.com/shenwei356/bio/util image/internal/imageutil +regexp image/draw image/jpeg -github.com/shenwei356/natsort -github.com/acarl005/stripansi golang.org/x/image/draw -context io/fs +context internal/poll +github.com/acarl005/stripansi +github.com/shenwei356/natsort internal/filepathlite embed -internal/fmtsort -encoding/binary crypto/internal/nistec os +internal/fmtsort +encoding/binary encoding/base64 -golang.org/x/image/ccitt github.com/cespare/xxhash -index/suffixarray github.com/klauspost/compress/internal/snapref -golang.org/x/sys/unix -vendor/golang.org/x/crypto/internal/poly1305 vendor/golang.org/x/crypto/chacha20 +vendor/golang.org/x/crypto/internal/poly1305 +golang.org/x/image/ccitt +index/suffixarray +golang.org/x/sys/unix +crypto/ecdh encoding/pem github.com/shenwei356/bwt internal/lazyregexp -path/filepath io/ioutil -fmt -vendor/golang.org/x/sys/cpu +path/filepath github.com/mattn/go-runewidth -crypto/ecdh +fmt os/signal -os/exec +vendor/golang.org/x/sys/cpu +net vendor/golang.org/x/crypto/chacha20poly1305 vendor/golang.org/x/crypto/sha3 -internal/goroot +os/exec github.com/mitchellh/go-homedir -github.com/biogo/biogo/alphabet +internal/goroot log +github.com/biogo/biogo/alphabet encoding/hex text/tabwriter -compress/flate -golang.org/x/image/math/fixed go/token +golang.org/x/image/math/fixed net/url +compress/flate go/doc/comment internal/buildcfg +github.com/biogo/biogo/seq golang.org/x/image/tiff/lzw encoding/gob -net -encoding/json -encoding/xml go/scanner -compress/lzw +encoding/json github.com/golang/freetype/raster golang.org/x/image/font -github.com/biogo/biogo/seq -compress/gzip -compress/zlib -image/gif -golang.org/x/image/font/basicfont +encoding/xml github.com/biogo/biogo/io/seqio github.com/biogo/biogo/seq/linear github.com/biogo/biogo/align github.com/biogo/biogo/io/seqio/fasta -github.com/golang/freetype/truetype +golang.org/x/image/font/basicfont go/ast -github.com/biogo/hts/bgzf +compress/lzw +github.com/golang/freetype/truetype +runtime/debug +github.com/shenwei356/seqkit/benchmark +compress/gzip +compress/zlib +image/gif image/png -golang.org/x/image/tiff +github.com/biogo/hts/bgzf gonum.org/v1/plot/vg/fonts -github.com/shenwei356/seqkit/benchmark -github.com/ajstarks/svgo -runtime/debug -github.com/biogo/hts/bgzf/index +golang.org/x/image/tiff +github.com/fogleman/gg math/big -github.com/biogo/hts/internal -github.com/jung-kurt/gofpdf +github.com/ajstarks/svgo github.com/dsnet/compress/internal/prefix +github.com/biogo/hts/bgzf/index github.com/iafan/cwalk -github.com/fogleman/gg -github.com/biogo/hts/sam +github.com/biogo/hts/internal github.com/klauspost/compress/fse -go/internal/typeparams go/doc -github.com/klauspost/compress/flate +go/internal/typeparams github.com/mattn/go-isatty golang.org/x/term go/parser -github.com/mattn/go-colorable +github.com/biogo/hts/sam +github.com/dsnet/compress/bzip2 github.com/fsnotify/fsnotify/internal github.com/klauspost/compress/huff0 +github.com/mattn/go-colorable golang.org/x/crypto/ssh/terminal -github.com/dsnet/compress/bzip2 +github.com/klauspost/compress/flate +github.com/jung-kurt/gofpdf github.com/logrusorgru/aurora -github.com/biogo/hts/bam -github.com/pkg/errors github.com/fsnotify/fsnotify +github.com/pkg/errors github.com/ulikunitz/xz/internal/xlog vendor/golang.org/x/text/unicode/bidi vendor/golang.org/x/text/unicode/norm vendor/golang.org/x/net/http2/hpack github.com/ulikunitz/xz/lzma +mime +github.com/biogo/hts/bam +vendor/golang.org/x/text/secure/bidirule github.com/cznic/sortutil github.com/dustin/go-humanize crypto/rand -github.com/klauspost/pgzip -crypto/elliptic go/build +crypto/elliptic crypto/internal/bigmod crypto/internal/boring/bbig encoding/asn1 +github.com/klauspost/compress/zstd crypto/ed25519 crypto/internal/hpke +github.com/klauspost/pgzip crypto/internal/mlkem768 +github.com/ulikunitz/xz crypto/dsa -vendor/golang.org/x/text/secure/bidirule crypto/rsa -github.com/klauspost/compress/zstd -mime mime/quotedprintable -net/http/internal vendor/golang.org/x/net/idna -os/user vendor/golang.org/x/crypto/cryptobyte -github.com/ulikunitz/xz crypto/x509/pkix +net/http/internal +os/user github.com/shenwei356/util/byteutil github.com/edsrzf/mmap-go github.com/shenwei356/bwt/fmi -gonum.org/v1/plot/vg +github.com/shenwei356/bio/seq github.com/shenwei356/stable -github.com/shenwei356/bio/seqio/fai +gonum.org/v1/plot/vg github.com/shenwei356/util/pathutil -github.com/shenwei356/bio/seq -gopkg.in/yaml.v2 -crypto/ecdsa +github.com/shenwei356/bio/seqio/fai github.com/shenwei356/util/stringutil -encoding/csv -flag -text/template/parse +crypto/ecdsa +gopkg.in/yaml.v2 gonum.org/v1/plot/vg/vgeps gonum.org/v1/plot/vg/vgimg -gonum.org/v1/plot/vg/vgpdf gonum.org/v1/plot/vg/vgsvg gonum.org/v1/plot/tools/bezier +encoding/csv +flag +text/template/parse github.com/vbauerster/mpb/cwriter github.com/vbauerster/mpb/decor -gonum.org/v1/plot/vg/draw -gonum.org/v1/plot -text/template github.com/vbauerster/mpb -github.com/smallfish/simpleyaml -gonum.org/v1/plot/plotter -gonum.org/v1/plot/plotutil -github.com/bsipos/thist +text/template +gonum.org/v1/plot/vg/vgpdf +gonum.org/v1/plot/vg/draw log/syslog -vendor/golang.org/x/net/http/httpproxy -net/textproto crypto/x509 +net/textproto +vendor/golang.org/x/net/http/httpproxy github.com/spf13/pflag +github.com/smallfish/simpleyaml github.com/op/go-logging -vendor/golang.org/x/net/http/httpguts mime/multipart -crypto/tls +vendor/golang.org/x/net/http/httpguts +gonum.org/v1/plot +gonum.org/v1/plot/plotter github.com/spf13/cobra +crypto/tls +gonum.org/v1/plot/plotutil +github.com/bsipos/thist net/http/httptrace net/http github.com/shenwei356/xopen @@ -1329,8 +1365,8 @@ 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-dbgsym' in '../seqkit-dbgsym_2.9.0+ds-1_amd64.deb'. dpkg-deb: building package 'seqkit' in '../seqkit_2.9.0+ds-1_amd64.deb'. +dpkg-deb: building package 'seqkit-dbgsym' in '../seqkit-dbgsym_2.9.0+ds-1_amd64.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_amd64.buildinfo dpkg-genchanges --build=binary -O../seqkit_2.9.0+ds-1_amd64.changes @@ -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/535802/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/535802/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/1778766 and its subdirectories -I: Current time: Thu Feb 6 19:24:32 -12 2025 -I: pbuilder-time-stamp: 1738913072 +I: removing directory /srv/workspace/pbuilder/535802 and its subdirectories +I: Current time: Fri Mar 13 03:51:31 +14 2026 +I: pbuilder-time-stamp: 1773323491