Diff of the two buildlogs: -- --- b1/build.log 2025-09-28 06:08:19.428893154 +0000 +++ b2/build.log 2025-09-28 06:12:20.437171809 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat Oct 31 00:30:32 -12 2026 -I: pbuilder-time-stamp: 1793449832 +I: Current time: Sun Sep 28 20:08:20 +14 2025 +I: pbuilder-time-stamp: 1759039700 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -30,53 +30,85 @@ dpkg-source: info: applying fix-fai.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3574772/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1675346/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-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 Sep 28 06:08 /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/1675346/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1675346/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' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='amd64' + 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]="x86_64-pc-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=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='607c0a87ce1049579e07ed5ae88b458f' - 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='3574772' - PS1='# ' - PS2='> ' + INVOCATION_ID=b2e64569eebf41d099c0a58d2338aaa9 + 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=1675346 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.SRJyhz4Q/pbuilderrc_zc7c --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.SRJyhz4Q/b1 --logfile b1/build.log nim-hts_0.3.25+ds-3.dsc' - SUDO_GID='110' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + 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.SRJyhz4Q/pbuilderrc_Iva6 --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.SRJyhz4Q/b2 --logfile b2/build.log nim-hts_0.3.25+ds-3.dsc' + SUDO_GID=110 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3574772/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1675346/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -220,7 +252,7 @@ Get: 96 http://deb.debian.org/debian forky/main amd64 nim amd64 2.2.4-1 [6003 kB] Get: 97 http://deb.debian.org/debian forky/main amd64 samtools amd64 1.22.1-1 [697 kB] Get: 98 http://deb.debian.org/debian forky/main amd64 tabix amd64 1.22.1+ds2-1 [542 kB] -Fetched 39.5 MB in 0s (103 MB/s) +Fetched 39.5 MB in 25s (1556 kB/s) Preconfiguring packages ... 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 ... 19919 files and directories currently installed.) @@ -627,7 +659,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/nim-hts-0.3.25+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 > ../nim-hts_0.3.25+ds-3_source.changes +I: user script /srv/workspace/pbuilder/1675346/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/1675346/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/nim-hts-0.3.25+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 > ../nim-hts_0.3.25+ds-3_source.changes dpkg-buildpackage: info: source package nim-hts dpkg-buildpackage: info: source version 0.3.25+ds-3 dpkg-buildpackage: info: source distribution unstable @@ -774,32 +810,36 @@ CC: ../../../../usr/lib/nim/lib/pure/strutils.nim CC: ../../../../usr/lib/nim/lib/pure/streams.nim CC: ../../../../usr/lib/nim/lib/pure/times.nim +/usr/lib/nim/lib/system/fatal.nim: In function '_ZN10assertions8sysFatalE8typeDescIN10exceptions15AssertionDefectEE6string': +/usr/lib/nim/lib/system/fatal.nim:53:169: warning: 'noreturn' function does return + 53 | raise (ref exceptn)(msg: message) + | ^ CC: ../../../../usr/lib/nim/lib/pure/hashes.nim CC: ../../../../usr/lib/nim/lib/pure/collections/sets.nim CC: ../../../../usr/lib/nim/lib/std/oserrors.nim CC: ../../../../usr/lib/nim/lib/std/private/oscommon.nim CC: ../../../../usr/lib/nim/lib/std/private/osfiles.nim -/usr/lib/nim/lib/system/fatal.nim: In function '_ZN10assertions8sysFatalE8typeDescIN10exceptions15AssertionDefectEE6string': -/usr/lib/nim/lib/system/fatal.nim:53:169: warning: 'noreturn' function does return - 53 | raise (ref exceptn)(msg: message) - | ^ CC: ../../../../usr/lib/nim/lib/std/envvars.nim CC: ../../../../usr/lib/nim/lib/std/cmdline.nim CC: ../../../../usr/lib/nim/lib/pure/strformat.nim +/usr/lib/nim/lib/std/syncio.nim: In function '_ZN6syncio8raiseEIOE6string': +/usr/lib/nim/lib/std/syncio.nim:157:159: warning: 'noreturn' function does return + 157 | raise newException(IOError, msg) + | ^ CC: ../../../../usr/lib/nim/lib/pure/terminal.nim CC: ../../../../usr/lib/nim/lib/pure/unittest.nim CC: ../src/hts/private/hts_concat.nim CC: ../src/hts/bam/flag.nim CC: flagtest.nim -/usr/lib/nim/lib/std/syncio.nim: In function '_ZN6syncio8raiseEIOE6string': -/usr/lib/nim/lib/std/syncio.nim:157:159: warning: 'noreturn' function does return - 157 | raise newException(IOError, msg) - | ^ CC: ../src/hts/bam.nim +CC: cigartest.nim +CC: htstest.nim /usr/lib/nim/lib/pure/parseutils.nim: In function '_ZN10parseutils22integerOutOfRangeErrorE': /usr/lib/nim/lib/pure/parseutils.nim:429:186: warning: 'noreturn' function does return 429 | raise newException(ValueError, "Parsed integer outside of valid range") | ^ +CC: ../src/hts/vcf.nim +CC: ../src/hts/fai.nim /build/reproducible-path/nim-hts-0.3.25+ds/tests/nimcache/@m..@s..@s..@s..@susr@slib@snim@slib@spure@sstrutils.nim.c:157:9: warning: '_GNU_SOURCE' redefined 157 | #define _GNU_SOURCE | ^~~~~~~~~~~ @@ -807,25 +847,27 @@ /usr/lib/nim/lib/nimbase.h:79:11: note: this is the location of the previous definition 79 | # define _GNU_SOURCE 1 | ^~~~~~~~~~~ -CC: cigartest.nim -CC: htstest.nim -CC: ../src/hts/vcf.nim -CC: ../src/hts/fai.nim CC: ../src/hts/bgzf.nim CC: ../src/hts/csi.nim CC: ../src/hts/bgzf/bgzi.nim -CC: ../src/hts.nim -CC: bgzftest.nim -CC: faitest.nim -CC: auxtest.nim -CC: bamtest.nim -CC: statstests.nim -CC: vcfiso.nim +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bam.nim: In function '_ZN3bam10set_fieldsE3refIN3bam19BamcolonObjectType_EE7varargsIN3bam8SamFieldEE': +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bam.nim:437:85: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] + 437 | stderr.write_line("couldn't set opts") + | ^ /usr/lib/nim/lib/pure/unittest.nim: In function '_ZN8unittest9testEndedE3refIN8unittest36JUnitOutputFormattercolonObjectType_EEN8unittest10TestResultE': +/usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' + 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, + | ^ /usr/lib/nim/lib/pure/unittest.nim:366:107: warning: passing argument 2 of '_ZN7streams9writeLineE3refIN7streams9StreamObjEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 366 | formatter.stream.writeLine("") | ^ -CC: ../src/hts/files.nim +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bam.nim: In function '_ZN3bam10set_optionE3refIN3bam19BamcolonObjectType_EEN3bam12FormatOptionE3int': +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bam.nim:443:85: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] + 443 | stderr.write_line("couldn't set opts") + | ^ +/usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' + 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, + | ^ /build/reproducible-path/nim-hts-0.3.25+ds/tests/nimcache/@m..@s..@s..@s..@susr@slib@snim@slib@spure@sunittest.nim.c:420:164: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 420 | N_LIB_PRIVATE N_NIMCALL(void, _ZN7streams9writeLineE3refIN7streams9StreamObjEE7varargsI6stringE)(tyObject_StreamObj__r1XfanY7DoimMbYEDg3nww* s_p0, NimStringDesc** args_p1, NI args_p1Len_0); | ~~~~~~~~~~~~~~~~^~~~~~~ @@ -835,6 +877,7 @@ /build/reproducible-path/nim-hts-0.3.25+ds/tests/nimcache/@m..@s..@s..@s..@susr@slib@snim@slib@spure@sunittest.nim.c:420:164: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 420 | N_LIB_PRIVATE N_NIMCALL(void, _ZN7streams9writeLineE3refIN7streams9StreamObjEE7varargsI6stringE)(tyObject_StreamObj__r1XfanY7DoimMbYEDg3nww* s_p0, NimStringDesc** args_p1, NI args_p1Len_0); | ~~~~~~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/vcf.nim: In function '_ZN3vcf11destroy_vcfE3refIN3vcf19VCFcolonObjectType_EE': /usr/lib/nim/lib/pure/unittest.nim: In function '_ZN8unittest10suiteEndedE3refIN8unittest36JUnitOutputFormattercolonObjectType_EE': /usr/lib/nim/lib/pure/unittest.nim:399:105: warning: passing argument 2 of '_ZN7streams9writeLineE3refIN7streams9StreamObjEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 399 | formatter.stream.writeLine("\t") @@ -842,60 +885,36 @@ /build/reproducible-path/nim-hts-0.3.25+ds/tests/nimcache/@m..@s..@s..@s..@susr@slib@snim@slib@spure@sunittest.nim.c:420:164: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 420 | N_LIB_PRIVATE N_NIMCALL(void, _ZN7streams9writeLineE3refIN7streams9StreamObjEE7varargsI6stringE)(tyObject_StreamObj__r1XfanY7DoimMbYEDg3nww* s_p0, NimStringDesc** args_p1, NI args_p1Len_0); | ~~~~~~~~~~~~~~~~^~~~~~~ -CC: test_files.nim -CC: all.nim -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/vcf.nim: In function '_ZN3vcf11destroy_vcfE3refIN3vcf19VCFcolonObjectType_EE': /build/reproducible-path/nim-hts-0.3.25+ds/src/hts/vcf.nim:205:89: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 205 | stderr.write_line "[hts-nim] underlying error closing vcf file" | ^ /usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, | ^ -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bam.nim: In function '_ZN3bam10set_fieldsE3refIN3bam19BamcolonObjectType_EE7varargsIN3bam8SamFieldEE': -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bam.nim:437:85: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] - 437 | stderr.write_line("couldn't set opts") - | ^ -/usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' - 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, - | ^ -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bam.nim: In function '_ZN3bam10set_optionE3refIN3bam19BamcolonObjectType_EEN3bam12FormatOptionE3int': -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bam.nim:443:85: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] - 443 | stderr.write_line("couldn't set opts") - | ^ +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/csi.nim: In function '_ZN3csi7new_csiE3int3int3int4bool3int3int': +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/csi.nim:40:84: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] + 40 | stderr.write_line("[hts-nim] error creating index in new_csi") + | ^ /usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, | ^ -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim: In function '_ZN4bgzi5closeE3refIN4bgzi20BGZIcolonObjectType_EE': /build/reproducible-path/nim-hts-0.3.25+ds/tests/htstest.nim: In function 'atmhtstestdotnim_Init000': -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim:99:84: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] - 99 | stderr.write_line("[hts-nim] error writing CSI meta") - | ^ /build/reproducible-path/nim-hts-0.3.25+ds/tests/htstest.nim:42:204: warning: passing argument 2 of '_ZN3bam10set_fieldsE3refIN3bam19BamcolonObjectType_EE7varargsIN3bam8SamFieldEE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 42 | check b.set_fields(SamField.SAM_POS, SamField.SAM_RNEXT) == 0 | ^ -/usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' - 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, - | ^ -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim:102:85: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] - 102 | stderr.write_line("[hts-nim] error closing bgzf") - | ^ -/usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' - 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, - | ^ /build/reproducible-path/nim-hts-0.3.25+ds/tests/nimcache/@mhtstest.nim.c:537:210: note: expected 'tyEnum_SamField__X2cR6BONOoTFDvxhQumPEg *' {aka 'int *'} but argument is of type 'const tyEnum_SamField__X2cR6BONOoTFDvxhQumPEg *' {aka 'const int *'} 537 | N_LIB_PRIVATE N_NIMCALL(NI, _ZN3bam10set_fieldsE3refIN3bam19BamcolonObjectType_EE7varargsIN3bam8SamFieldEE)(tyObject_BamcolonObjectType___zLgK6uZ6NMEpK8cH5JbCUw* b_p0, tyEnum_SamField__X2cR6BONOoTFDvxhQumPEg* fields_p1, NI fields_p1Len_0); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/csi.nim: In function '_ZN3csi7new_csiE3int3int3int4bool3int3int': -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/csi.nim:40:84: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] - 40 | stderr.write_line("[hts-nim] error creating index in new_csi") - | ^ +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim: In function '_ZN4bgzi5closeE3refIN4bgzi20BGZIcolonObjectType_EE': +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim:99:84: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] + 99 | stderr.write_line("[hts-nim] error writing CSI meta") + | ^ /usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, | ^ -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim: In function '_ZN4bgzi14write_intervalE3refIN4bgzi20BGZIcolonObjectType_EE6string6string3int3int': -/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim:92:84: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] - 92 | stderr.write_line("[hts-nim] error adding to csi index") - | ^ +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim:102:85: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] + 102 | stderr.write_line("[hts-nim] error closing bgzf") + | ^ /usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, | ^ @@ -911,6 +930,32 @@ /usr/lib/nim/lib/system/fatal.nim:53:167: warning: 'noreturn' function does return 53 | raise (ref exceptn)(msg: message) | ^ +/usr/lib/nim/lib/system/fatal.nim: In function '_ZN6system8sysFatalE8typeDescIN10exceptions14OverflowDefectEE6string': +/usr/lib/nim/lib/system/fatal.nim:53:131: warning: 'noreturn' function does return + 53 | raise (ref exceptn)(msg: message) + | ^ +/usr/lib/nim/lib/system/fatal.nim: In function '_ZN6system8sysFatalE8typeDescIN10exceptions22ObjectAssignmentDefectEE6string': +/usr/lib/nim/lib/system/fatal.nim:53:176: warning: 'noreturn' function does return + 53 | raise (ref exceptn)(msg: message) + | ^ +/usr/lib/nim/lib/system/fatal.nim: In function '_ZN6system8sysFatalE8typeDescIN10exceptions15NilAccessDefectEE6string': +/usr/lib/nim/lib/system/fatal.nim:53:169: warning: 'noreturn' function does return + 53 | raise (ref exceptn)(msg: message) + | ^ +/usr/lib/nim/lib/system/fatal.nim: In function '_ZN6system8sysFatalE8typeDescIN10exceptions22ObjectConversionDefectEE6string': +/usr/lib/nim/lib/system/fatal.nim:53:139: warning: 'noreturn' function does return + 53 | raise (ref exceptn)(msg: message) + | ^ +CC: ../src/hts.nim +CC: bgzftest.nim +CC: faitest.nim +CC: auxtest.nim +CC: bamtest.nim +CC: statstests.nim +CC: vcfiso.nim +CC: ../src/hts/files.nim +CC: test_files.nim +CC: all.nim /build/reproducible-path/nim-hts-0.3.25+ds/src/hts/vcf.nim: In function 'atmvcfisodotnim_Init000': /build/reproducible-path/nim-hts-0.3.25+ds/src/hts/vcf.nim:687:201: warning: passing argument 1 of '_ZN6system8containsE9openArrayI6stringE6string' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 687 | if region in ["-3", "*"]: @@ -918,10 +963,6 @@ /usr/lib/nim/lib/system.nim:1765:91: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 1765 | proc contains*[T](a: openArray[T], item: T): bool {.inline.}= | ^ -/usr/lib/nim/lib/system/fatal.nim: In function '_ZN6system8sysFatalE8typeDescIN10exceptions14OverflowDefectEE6string': -/usr/lib/nim/lib/system/fatal.nim:53:131: warning: 'noreturn' function does return - 53 | raise (ref exceptn)(msg: message) - | ^ /build/reproducible-path/nim-hts-0.3.25+ds/src/hts/vcf.nim:712:132: warning: passing argument 2 of 'nsuSplitCharSet' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] 712 | tid = bcf_hdr_name2id(v.header.hdr, region.split({':'}, maxsplit=1)[0].cstring) | ^ @@ -940,21 +981,16 @@ /usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, | ^ -/usr/lib/nim/lib/system/fatal.nim: In function '_ZN6system8sysFatalE8typeDescIN10exceptions22ObjectAssignmentDefectEE6string': -/usr/lib/nim/lib/system/fatal.nim:53:176: warning: 'noreturn' function does return - 53 | raise (ref exceptn)(msg: message) - | ^ -/usr/lib/nim/lib/system/fatal.nim: In function '_ZN6system8sysFatalE8typeDescIN10exceptions15NilAccessDefectEE6string': -/usr/lib/nim/lib/system/fatal.nim:53:169: warning: 'noreturn' function does return - 53 | raise (ref exceptn)(msg: message) - | ^ -/usr/lib/nim/lib/system/fatal.nim: In function '_ZN6system8sysFatalE8typeDescIN10exceptions22ObjectConversionDefectEE6string': -/usr/lib/nim/lib/system/fatal.nim:53:139: warning: 'noreturn' function does return - 53 | raise (ref exceptn)(msg: message) - | ^ +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim: In function '_ZN4bgzi14write_intervalE3refIN4bgzi20BGZIcolonObjectType_EE6string6string3int3int': +/build/reproducible-path/nim-hts-0.3.25+ds/src/hts/bgzf/bgzi.nim:92:84: warning: passing argument 2 of '_ZN6syncio9writeLineE3ptrIN6syncio5CFileEE7varargsI6stringE' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] + 92 | stderr.write_line("[hts-nim] error adding to csi index") + | ^ +/usr/lib/nim/lib/std/syncio.nim:618:112: note: expected 'NimStringDesc **' but argument is of type 'NimStringDesc * const*' + 618 | proc writeLine*[Ty](f: File, x: varargs[Ty, `$`]) {.inline, + | ^ Hint: [Link] Hint: mm: refc; threads: on; opt: none (DEBUG BUILD, `-d:release` generates faster code) -66492 lines; 2.586s; 113.133MiB peakmem; proj: tests/all; out: /build/reproducible-path/nim-hts-0.3.25+ds/tests/all [SuccessX] +66492 lines; 3.669s; 113.133MiB peakmem; proj: tests/all; out: /build/reproducible-path/nim-hts-0.3.25+ds/tests/all [SuccessX] Hint: /build/reproducible-path/nim-hts-0.3.25+ds/tests/all [Exec] [Suite] flag test-suite @@ -1051,8 +1087,8 @@ dh_fixperms find debian/nim-hts-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/nim-hts-examples ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s - find debian/nim-hts-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/nim-hts-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/nim-hts-examples/usr/share/doc -type f -a -true -a ! -regex 'debian/nim-hts-examples/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/nim-hts-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/nim-hts-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/nim-hts-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/nim-hts-examples/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/nim-hts-dev -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 @@ -1062,16 +1098,16 @@ install -m0755 -d debian/nim-hts-dev/DEBIAN install -m0755 -d debian/nim-hts-examples/DEBIAN dh_gencontrol - install -m0755 -d debian/nim-hts-examples/DEBIAN - echo misc:Depends= >> debian/nim-hts-examples.substvars - echo misc:Pre-Depends= >> debian/nim-hts-examples.substvars - dpkg-gencontrol -pnim-hts-examples -ldebian/changelog -Tdebian/nim-hts-examples.substvars -cdebian/control -Pdebian/nim-hts-examples install -m0755 -d debian/nim-hts-dev/DEBIAN echo misc:Depends= >> debian/nim-hts-dev.substvars echo misc:Pre-Depends= >> debian/nim-hts-dev.substvars dpkg-gencontrol -pnim-hts-dev -ldebian/changelog -Tdebian/nim-hts-dev.substvars -cdebian/control -Pdebian/nim-hts-dev - chmod 0644 -- debian/nim-hts-dev/DEBIAN/control + install -m0755 -d debian/nim-hts-examples/DEBIAN + echo misc:Depends= >> debian/nim-hts-examples.substvars + echo misc:Pre-Depends= >> debian/nim-hts-examples.substvars + dpkg-gencontrol -pnim-hts-examples -ldebian/changelog -Tdebian/nim-hts-examples.substvars -cdebian/control -Pdebian/nim-hts-examples chmod 0644 -- debian/nim-hts-examples/DEBIAN/control + chmod 0644 -- debian/nim-hts-dev/DEBIAN/control dh_md5sums install -m0755 -d debian/nim-hts-dev/DEBIAN install -m0755 -d debian/nim-hts-examples/DEBIAN @@ -1091,12 +1127,14 @@ 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/1675346/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1675346/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/3574772 and its subdirectories -I: Current time: Sat Oct 31 00:31:18 -12 2026 -I: pbuilder-time-stamp: 1793449878 +I: removing directory /srv/workspace/pbuilder/1675346 and its subdirectories +I: Current time: Sun Sep 28 20:12:20 +14 2025 +I: pbuilder-time-stamp: 1759039940