Diff of the two buildlogs: -- --- b1/build.log 2025-09-04 17:14:39.567849798 +0000 +++ b2/build.log 2025-09-04 17:17:27.260060364 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Oct 7 11:34:06 -12 2026 -I: pbuilder-time-stamp: 1791416046 +I: Current time: Fri Sep 5 07:14:46 +14 2025 +I: pbuilder-time-stamp: 1757006086 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -30,53 +30,85 @@ dpkg-source: info: applying trim-file-prefix.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1151517/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3131522/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 Sep 4 17:15 /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/3131522/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3131522/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='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='1d43fddf47764893a00fdfe8c58fc6f2' - 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='1151517' - PS1='# ' - PS2='> ' + INVOCATION_ID=fc9f021d61e6474586be78b10985d148 + 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=3131522 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.otHLzmFe/pbuilderrc_2TLG --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.otHLzmFe/b1 --logfile b1/build.log htslib_1.22.1+ds2-1.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.otHLzmFe/pbuilderrc_X5ms --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.otHLzmFe/b2 --logfile b2/build.log htslib_1.22.1+ds2-1.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 6.12.41+deb13-cloud-arm64 #1 SMP Debian 6.12.41-1 (2025-08-12) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.41+deb13-cloud-arm64 #1 SMP Debian 6.12.41-1 (2025-08-12) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1151517/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3131522/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -218,7 +250,7 @@ Get: 90 http://deb.debian.org/debian unstable/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 libhtscodecs-dev arm64 1.6.1-2 [2979 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.8.1-1.1 [344 kB] -Fetched 31.7 MB in 0s (117 MB/s) +Fetched 31.7 MB in 0s (163 MB/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 ... 21046 files and directories currently installed.) @@ -601,7 +633,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/htslib-1.22.1+ds2/ && 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 > ../htslib_1.22.1+ds2-1_source.changes +I: user script /srv/workspace/pbuilder/3131522/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3131522/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/htslib-1.22.1+ds2/ && 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 > ../htslib_1.22.1+ds2-1_source.changes dpkg-buildpackage: info: source package htslib dpkg-buildpackage: info: source version 1.22.1+ds2-1 dpkg-buildpackage: info: source distribution unstable @@ -618,8 +654,8 @@ test/longrefs/*.tmp.* test/ref_cache/*.tmp.* test/tabix/*.tmp.* \ test/bgzf_boundaries/*.tmp.* test/*/FAIL* \ header-exports.txt shlib-exports-so.txt -rm -rf htscodecs/tests/test.out rm -f libhts.so libhts.so.* +rm -rf htscodecs/tests/test.out rm -f *.o *.pico cram/*.o cram/*.pico test/*.o test/*.dSYM config_vars.h version.h rm -f htscodecs/htscodecs/*.o htscodecs/htscodecs/*.pico rm -f hts-object-files @@ -925,36 +961,6 @@ gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/plugins-dlhts test/plugins-dlhts.o -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_time_funcs test/test_time_funcs.o gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -Wl,-z,noexecstack -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -Wl,--no-copy-dt-needed-entries -Wl,-z,nodlopen -o ref_cache/ref-cache ref_cache/cmsg_wrap.o ref_cache/http_parser.o ref_cache/listener.o ref_cache/log_files.o ref_cache/main.o ref_cache/misc.o ref_cache/ping.o ref_cache/poll_wrap_epoll.o ref_cache/poll_wrap_poll.o ref_cache/ref_files.o ref_cache/request_handler.o ref_cache/sendfile_wrap.o ref_cache/server.o ref_cache/transaction.o ref_cache/upstream.o cram/pooled_alloc.o md5.o -lcurl -ar -rc libhts.a kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o sam_mods.o simd.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o plugin.o -ranlib libhts.a -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o annot-tsv annot-tsv.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o bgzip bgzip.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o htsfile htsfile.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o tabix tabix.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/fieldarith test/fieldarith.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/hfile test/hfile.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/pileup test/pileup.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/pileup_mod test/pileup_mod.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/sam test/sam.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_bgzf test/test_bgzf.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_expr test/test_expr.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_faidx test/test_faidx.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_kfunc test/test_kfunc.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_khash test/test_khash.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_kstring test/test_kstring.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_mod test/test_mod.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_nibbles test/test_nibbles.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_realn test/test_realn.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-regidx test/test-regidx.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_str2int test/test_str2int.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_view test/test_view.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_index test/test_index.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-vcf-api test/test-vcf-api.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-vcf-sweep test/test-vcf-sweep.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-bcf-sr test/test-bcf-sr.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-bcf-translate test/test-bcf-translate.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-parse-reg test/test-parse-reg.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread -gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_introspection test/test_introspection.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread gcc -shared -Wl,-soname,libhts.so.3 -Wl,-version-script,htslib.map -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o libhts.so kfunc.pico kstring.pico bcf_sr_sort.pico bgzf.pico errmod.pico faidx.pico header.pico hfile.pico hts.pico hts_expr.pico hts_os.pico md5.pico multipart.pico probaln.pico realn.pico regidx.pico region.pico sam.pico sam_mods.pico simd.pico synced_bcf_reader.pico vcf_sweep.pico tbx.pico textutils.pico thread_pool.pico vcf.pico vcfutils.pico cram/cram_codecs.pico cram/cram_decode.pico cram/cram_encode.pico cram/cram_external.pico cram/cram_index.pico cram/cram_io.pico cram/cram_stats.pico cram/mFILE.pico cram/open_trace_file.pico cram/pooled_alloc.pico cram/string_alloc.pico plugin.pico -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread ln -sf libhts.so libhts.so.3 gcc -shared -Wl,-E -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o hfile_libcurl.so hfile_libcurl.pico libhts.so -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lcurl -lpthread @@ -969,6 +975,7 @@ /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. +/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libcurl.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libhts.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. @@ -979,7 +986,6 @@ /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. -/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libcurl.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libhts.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. @@ -1005,6 +1011,36 @@ /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libcrypto.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. +ar -rc libhts.a kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o sam_mods.o simd.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o plugin.o +ranlib libhts.a +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o annot-tsv annot-tsv.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o bgzip bgzip.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o htsfile htsfile.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o tabix tabix.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/fieldarith test/fieldarith.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/hfile test/hfile.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/pileup test/pileup.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/pileup_mod test/pileup_mod.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/sam test/sam.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_bgzf test/test_bgzf.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_expr test/test_expr.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_faidx test/test_faidx.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_kfunc test/test_kfunc.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_khash test/test_khash.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_kstring test/test_kstring.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_mod test/test_mod.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_nibbles test/test_nibbles.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_realn test/test_realn.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-regidx test/test-regidx.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_str2int test/test_str2int.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_view test/test_view.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_index test/test_index.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-vcf-api test/test-vcf-api.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-vcf-sweep test/test-vcf-sweep.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-bcf-sr test/test-bcf-sr.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-bcf-translate test/test-bcf-translate.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-parse-reg test/test-parse-reg.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread +gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_introspection test/test_introspection.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread gcc -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-bcf_set_variant_type test/test-bcf_set_variant_type.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread make[2]: Leaving directory '/build/reproducible-path/htslib-1.22.1+ds2' make[1]: Leaving directory '/build/reproducible-path/htslib-1.22.1+ds2' @@ -1275,203 +1311,203 @@ bgzip --output 4 threads: .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -b -m 14 -x /tmp/Cu70lLscfE/index.bam.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -b -m 14 -x /tmp/gTdS7yGvDu/index.bam.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.bam .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.bam .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -b -m 0 -x /tmp/Cu70lLscfE/index.bam.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -b -m 0 -x /tmp/gTdS7yGvDu/index.bam.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.bam .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/Cu70lLscfE/index.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/gTdS7yGvDu/index.bam .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 14 -x /tmp/Cu70lLscfE/index.sam.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 14 -x /tmp/gTdS7yGvDu/index.sam.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 0 -x /tmp/Cu70lLscfE/index.sam.gz.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 0 -x /tmp/gTdS7yGvDu/index.sam.gz.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 14 -x /tmp/Cu70lLscfE/index.sam.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index_dos.sam > /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 14 -x /tmp/gTdS7yGvDu/index.sam.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index_dos.sam > /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 0 -x /tmp/Cu70lLscfE/index.sam.gz.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index_dos.sam > /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 0 -x /tmp/gTdS7yGvDu/index.sam.gz.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index_dos.sam > /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -C -x /tmp/Cu70lLscfE/index.cram.crai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.cram + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -C -x /tmp/gTdS7yGvDu/index.cram.crai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.cram .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index /tmp/Cu70lLscfE/index.cram + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index /tmp/gTdS7yGvDu/index.cram .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -b -m 14 -x /tmp/Cu70lLscfE/index.bcf.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/Cu70lLscfE/index.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -b -m 14 -x /tmp/gTdS7yGvDu/index.bcf.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/gTdS7yGvDu/index.bcf .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.bcf .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 14 -x /tmp/Cu70lLscfE/index.vcf.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/Cu70lLscfE/index.vcf.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 14 -x /tmp/gTdS7yGvDu/index.vcf.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/gTdS7yGvDu/index.vcf.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.vcf.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.vcf.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 0 -x /tmp/Cu70lLscfE/index.vcf.gz.tbi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/Cu70lLscfE/index.vcf.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -l 0 -z -m 0 -x /tmp/gTdS7yGvDu/index.vcf.gz.tbi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/gTdS7yGvDu/index.vcf.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -t /tmp/Cu70lLscfE/index.vcf.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -t /tmp/gTdS7yGvDu/index.vcf.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/tabix /tmp/Cu70lLscfE/index.vcf.gz##idx##/tmp/Cu70lLscfE/index.vcf.gz.tbi 1:10000060-10000060 + /build/reproducible-path/htslib-1.22.1+ds2/tabix /tmp/gTdS7yGvDu/index.vcf.gz##idx##/tmp/gTdS7yGvDu/index.vcf.gz.tbi 1:10000060-10000060 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/Cu70lLscfE/index2.bam 1:1000000-1000000 + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/gTdS7yGvDu/index2.bam 1:1000000-1000000 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/Cu70lLscfE/index2.bam 1:2000000-2000000 + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/gTdS7yGvDu/index2.bam 1:2000000-2000000 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/Cu70lLscfE/index2.bam 2:1000000-1000000 + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/gTdS7yGvDu/index2.bam 2:1000000-1000000 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/Cu70lLscfE/index2.bam 2:2000000-2000000 + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/gTdS7yGvDu/index2.bam 2:2000000-2000000 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -b -m 14 -x /tmp/Cu70lLscfE/index.bam.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -b -m 14 -x /tmp/gTdS7yGvDu/index.bam.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.bam .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.bam .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -b -m 0 -x /tmp/Cu70lLscfE/index.bam.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -b -m 0 -x /tmp/gTdS7yGvDu/index.bam.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.bam .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/Cu70lLscfE/index.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/gTdS7yGvDu/index.bam .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 14 -x /tmp/Cu70lLscfE/index.sam.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 14 -x /tmp/gTdS7yGvDu/index.sam.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 0 -x /tmp/Cu70lLscfE/index.sam.gz.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 0 -x /tmp/gTdS7yGvDu/index.sam.gz.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 14 -x /tmp/Cu70lLscfE/index.sam.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index_dos.sam > /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 14 -x /tmp/gTdS7yGvDu/index.sam.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index_dos.sam > /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 0 -x /tmp/Cu70lLscfE/index.sam.gz.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index_dos.sam > /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 0 -x /tmp/gTdS7yGvDu/index.sam.gz.bai /build/reproducible-path/htslib-1.22.1+ds2/test/index_dos.sam > /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/Cu70lLscfE/index.sam.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -b /tmp/gTdS7yGvDu/index.sam.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -C -x /tmp/Cu70lLscfE/index.cram.crai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/Cu70lLscfE/index.cram + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -C -x /tmp/gTdS7yGvDu/index.cram.crai /build/reproducible-path/htslib-1.22.1+ds2/test/index.sam > /tmp/gTdS7yGvDu/index.cram .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index /tmp/Cu70lLscfE/index.cram + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index /tmp/gTdS7yGvDu/index.cram .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -b -m 14 -x /tmp/Cu70lLscfE/index.bcf.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/Cu70lLscfE/index.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -b -m 14 -x /tmp/gTdS7yGvDu/index.bcf.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/gTdS7yGvDu/index.bcf .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.bcf .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 14 -x /tmp/Cu70lLscfE/index.vcf.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/Cu70lLscfE/index.vcf.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 14 -x /tmp/gTdS7yGvDu/index.vcf.gz.csi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/gTdS7yGvDu/index.vcf.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/Cu70lLscfE/index.vcf.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -c /tmp/gTdS7yGvDu/index.vcf.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 0 -x /tmp/Cu70lLscfE/index.vcf.gz.tbi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/Cu70lLscfE/index.vcf.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -@4 -l 0 -z -m 0 -x /tmp/gTdS7yGvDu/index.vcf.gz.tbi /build/reproducible-path/htslib-1.22.1+ds2/test/index.vcf > /tmp/gTdS7yGvDu/index.vcf.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -t /tmp/Cu70lLscfE/index.vcf.gz + /build/reproducible-path/htslib-1.22.1+ds2/test/test_index -t /tmp/gTdS7yGvDu/index.vcf.gz .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/tabix /tmp/Cu70lLscfE/index.vcf.gz##idx##/tmp/Cu70lLscfE/index.vcf.gz.tbi 1:10000060-10000060 + /build/reproducible-path/htslib-1.22.1+ds2/tabix /tmp/gTdS7yGvDu/index.vcf.gz##idx##/tmp/gTdS7yGvDu/index.vcf.gz.tbi 1:10000060-10000060 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/Cu70lLscfE/index2.bam 1:1000000-1000000 + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/gTdS7yGvDu/index2.bam 1:1000000-1000000 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/Cu70lLscfE/index2.bam 1:2000000-2000000 + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/gTdS7yGvDu/index2.bam 1:2000000-2000000 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/Cu70lLscfE/index2.bam 2:1000000-1000000 + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/gTdS7yGvDu/index2.bam 2:1000000-1000000 .. ok test_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/Cu70lLscfE/index2.bam 2:2000000-2000000 + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view /tmp/gTdS7yGvDu/index2.bam 2:2000000-2000000 .. ok test_view testing multi-ref CRAM modes: @@ -2726,7 +2762,7 @@ .. ok test_vcf_api: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-vcf-api /tmp/Cu70lLscfE/test-vcf-api.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-vcf-api /tmp/gTdS7yGvDu/test-vcf-api.bcf .. ok test_bcf2vcf: @@ -2734,7 +2770,7 @@ .. ok test_vcf_sweep: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-vcf-sweep /tmp/Cu70lLscfE/test-vcf-api.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-vcf-sweep /tmp/gTdS7yGvDu/test-vcf-api.bcf .. ok test_vcf_various: @@ -2766,169 +2802,169 @@ .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 74452500 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 74452500 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 34270147 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 34270147 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 11108528 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 11108528 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 42233895 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 42233895 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 8111117 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 8111117 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 85644070 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 85644070 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 49879942 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 49879942 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 47881429 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 47881429 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 69081244 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 69081244 .. ok test-bcf-sr: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/Cu70lLscfE -s 83459376 + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr.pl -t /tmp/gTdS7yGvDu -s 83459376 .. ok test_bcf_sr_no_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr --no-index -p all --args /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.a.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.b.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.c.vcf 2> /tmp/Cu70lLscfE/no_index_1.err + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr --no-index -p all --args /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.a.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.b.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.c.vcf 2> /tmp/gTdS7yGvDu/no_index_1.err .. ok test_bcf_sr_no_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr --no-index -p all --args /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.a.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.hdr_order.vcf > /tmp/Cu70lLscfE/no_index_2.out 2> /tmp/Cu70lLscfE/no_index_2.err (expected fail) + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr --no-index -p all --args /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.a.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.hdr_order.vcf > /tmp/gTdS7yGvDu/no_index_2.out 2> /tmp/gTdS7yGvDu/no_index_2.err (expected fail) .. ok test_bcf_sr_no_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr --no-index -p all --args /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.a.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.rec_order.vcf > /tmp/Cu70lLscfE/no_index_3.out 2> /tmp/Cu70lLscfE/no_index_3.err (expected fail) + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr --no-index -p all --args /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.a.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.rec_order.vcf > /tmp/gTdS7yGvDu/no_index_3.out 2> /tmp/gTdS7yGvDu/no_index_3.err (expected fail) .. ok test_bcf_sr_no_index: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr --no-index -p all --args /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.rec_order.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.a.vcf > /tmp/Cu70lLscfE/no_index_4.out 2> /tmp/Cu70lLscfE/no_index_4.err (expected fail) + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr --no-index -p all --args /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.rec_order.vcf /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/merge.noidx.a.vcf > /tmp/gTdS7yGvDu/no_index_4.out 2> /tmp/gTdS7yGvDu/no_index_4.err (expected fail) .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -b -p /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf -x /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf.csi /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/weird-chr-names.vcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -b -p /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf -x /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf.csi /build/reproducible-path/htslib-1.22.1+ds2/test/bcf-sr/weird-chr-names.vcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_1.out.vcf -r '1' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_1.out.vcf -r '1' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_2.out.vcf -r '1:1-2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_2.out.vcf -r '1:1-2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_3.out.vcf -r '1:1,1:2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_3.out.vcf -r '1:1,1:2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_4.out.vcf -r '1:1-1' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_4.out.vcf -r '1:1-1' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_5.out.vcf -r '{1:1}' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_5.out.vcf -r '{1:1}' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_6.out.vcf -r '{1:1}:1-2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_6.out.vcf -r '{1:1}:1-2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_7.out.vcf -r '{1:1}:1,{1:1}:2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_7.out.vcf -r '{1:1}:1,{1:1}:2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_8.out.vcf -r '{1:1}:1-1' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_8.out.vcf -r '{1:1}:1-1' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_9.out.vcf -r '{1:1-1}' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_9.out.vcf -r '{1:1-1}' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_10.out.vcf -r '{1:1-1}:1-2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_10.out.vcf -r '{1:1-1}:1-2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_11.out.vcf -r '{1:1-1}:1,{1:1-1}:2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_11.out.vcf -r '{1:1-1}:1,{1:1-1}:2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_12.out.vcf -r '{1:1-1}:1-1' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_12.out.vcf -r '{1:1-1}:1-1' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_13.out.vcf -r '{1:1-1}-2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf (expected fail) + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_13.out.vcf -r '{1:1-1}-2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf (expected fail) [E::_regions_init_string] Could not parse the region(s): {1:1-1}-2 Failed to set regions .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_14.out.vcf -t '1' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_14.out.vcf -t '1' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_15.out.vcf -t '1:1-2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_15.out.vcf -t '1:1-2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_16.out.vcf -t '1:1,1:2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_16.out.vcf -t '1:1,1:2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_17.out.vcf -t '1:1-1' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_17.out.vcf -t '1:1-1' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_18.out.vcf -t '{1:1}' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_18.out.vcf -t '{1:1}' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_19.out.vcf -t '{1:1}:1-2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_19.out.vcf -t '{1:1}:1-2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_20.out.vcf -t '{1:1}:1,{1:1}:2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_20.out.vcf -t '{1:1}:1,{1:1}:2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_21.out.vcf -t '{1:1}:1-1' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_21.out.vcf -t '{1:1}:1-1' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_22.out.vcf -t '{1:1-1}' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_22.out.vcf -t '{1:1-1}' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_23.out.vcf -t '{1:1-1}:1-2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_23.out.vcf -t '{1:1-1}:1-2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_24.out.vcf -t '{1:1-1}:1,{1:1-1}:2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_24.out.vcf -t '{1:1-1}:1,{1:1-1}:2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_25.out.vcf -t '{1:1-1}:1-1' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_25.out.vcf -t '{1:1-1}:1-1' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf .. ok test_bcf_sr_range: - /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/Cu70lLscfE/range_test_26.out.vcf -t '{1:1-1}-2' --args /tmp/Cu70lLscfE/weird-chr-names.vcf.bcf (expected fail) + /build/reproducible-path/htslib-1.22.1+ds2/test/test-bcf-sr -O vcf -o /tmp/gTdS7yGvDu/range_test_26.out.vcf -t '{1:1-1}-2' --args /tmp/gTdS7yGvDu/weird-chr-names.vcf.bcf (expected fail) [E::_regions_init_string] Could not parse the region(s): {1:1-1}-2 Failed to set targets .. ok @@ -2940,15 +2976,15 @@ .. ok test_convert_padded_header: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -t ce.fa -C /tmp/Cu70lLscfE/headernul0.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -t ce.fa -C /tmp/gTdS7yGvDu/headernul0.bam .. ok test_convert_padded_header: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -t ce.fa -C /tmp/Cu70lLscfE/headernul1.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -t ce.fa -C /tmp/gTdS7yGvDu/headernul1.bam .. ok test_convert_padded_header: - /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -t ce.fa -C /tmp/Cu70lLscfE/headernul678.bam + /build/reproducible-path/htslib-1.22.1+ds2/test/test_view -t ce.fa -C /tmp/gTdS7yGvDu/headernul678.bam .. ok test_rebgzip: Alternate zlib/deflate library detected @@ -3541,7 +3577,7 @@ failed .. 0 make[2]: Leaving directory '/build/reproducible-path/htslib-1.22.1+ds2' - rm -fr -- /tmp/dh-xdg-rundir-TslUGV6C + rm -fr -- /tmp/dh-xdg-rundir-vKwxWuId make[1]: Leaving directory '/build/reproducible-path/htslib-1.22.1+ds2' rm -f debian/libhts-dev.debhelper.log debian/libhts3t64.debhelper.log debian/tabix.debhelper.log debian/rules override_dh_auto_test-indep @@ -3570,8 +3606,8 @@ if test -n "/usr/lib/aarch64-linux-gnu/htslib"; then mkdir -p -m 755 /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/lib/aarch64-linux-gnu/htslib; fi install -p -m 644 libhts.so /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/lib/aarch64-linux-gnu/libhts.so.1.22.1 sed -e 's#@-includedir@#/usr/include#g;s#@-libdir@#/usr/lib/aarch64-linux-gnu#g;s#@-PACKAGE_VERSION@#1.22.1#g' htslib.pc.tmp > /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/lib/aarch64-linux-gnu/pkgconfig/htslib.pc -ln -sf libhts.so.1.22.1 /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/lib/aarch64-linux-gnu/libhts.so chmod 644 /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/lib/aarch64-linux-gnu/pkgconfig/htslib.pc +ln -sf libhts.so.1.22.1 /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/lib/aarch64-linux-gnu/libhts.so ln -sf libhts.so.1.22.1 /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/lib/aarch64-linux-gnu/libhts.so.3 install -p annot-tsv bgzip htsfile tabix ref_cache/ref-cache /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/bin if test -n "hfile_libcurl.so hfile_gcs.so hfile_s3.so hfile_s3_write.so"; then install -p hfile_libcurl.so hfile_gcs.so hfile_s3.so hfile_s3_write.so /build/reproducible-path/htslib-1.22.1+ds2/debian/tmp/usr/lib/aarch64-linux-gnu/htslib; fi @@ -3644,49 +3680,49 @@ debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/reproducible-path/htslib-1.22.1+ds2' dh_installchangelogs NEWS - install -m0755 -d debian/tabix/usr/share/doc/tabix - install -p -m0644 debian/.debhelper/generated/tabix/dh_installchangelogs.dch.trimmed debian/tabix/usr/share/doc/tabix/changelog.Debian - install -p -m0644 NEWS debian/tabix/usr/share/doc/tabix/changelog + install -m0755 -d debian/libhts-dev/usr/share/doc/libhts-dev + install -p -m0644 debian/.debhelper/generated/libhts-dev/dh_installchangelogs.dch.trimmed debian/libhts-dev/usr/share/doc/libhts-dev/changelog.Debian + install -p -m0644 NEWS debian/libhts-dev/usr/share/doc/libhts-dev/changelog install -m0755 -d debian/libhts3t64/usr/share/doc/libhts3t64 install -p -m0644 debian/.debhelper/generated/libhts3t64/dh_installchangelogs.dch.trimmed debian/libhts3t64/usr/share/doc/libhts3t64/changelog.Debian install -p -m0644 NEWS debian/libhts3t64/usr/share/doc/libhts3t64/changelog install -m0755 -d debian/htslib-test/usr/share/doc/htslib-test install -p -m0644 debian/.debhelper/generated/htslib-test/dh_installchangelogs.dch.trimmed debian/htslib-test/usr/share/doc/htslib-test/changelog.Debian install -p -m0644 NEWS debian/htslib-test/usr/share/doc/htslib-test/changelog - install -m0755 -d debian/libhts-dev/usr/share/doc/libhts-dev - install -p -m0644 debian/.debhelper/generated/libhts-dev/dh_installchangelogs.dch.trimmed debian/libhts-dev/usr/share/doc/libhts-dev/changelog.Debian - install -p -m0644 NEWS debian/libhts-dev/usr/share/doc/libhts-dev/changelog + install -m0755 -d debian/tabix/usr/share/doc/tabix + install -p -m0644 debian/.debhelper/generated/tabix/dh_installchangelogs.dch.trimmed debian/tabix/usr/share/doc/tabix/changelog.Debian + install -p -m0644 NEWS debian/tabix/usr/share/doc/tabix/changelog make[1]: Leaving directory '/build/reproducible-path/htslib-1.22.1+ds2' dh_installman + install -m0755 -d debian/libhts3t64/usr/share/man/man7/ + install -p -m0644 ./htslib-s3-plugin.7 debian/libhts3t64/usr/share/man/man7/htslib-s3-plugin.7 install -m0755 -d debian/tabix/usr/share/man/man1/ install -p -m0644 ./htsfile.1 debian/tabix/usr/share/man/man1/htsfile.1 install -m0755 -d debian/tabix/usr/share/man/man1/ install -p -m0644 ./tabix.1 debian/tabix/usr/share/man/man1/tabix.1 install -m0755 -d debian/tabix/usr/share/man/man1/ install -p -m0644 ./bgzip.1 debian/tabix/usr/share/man/man1/bgzip.1 - install -m0755 -d debian/libhts3t64/usr/share/man/man7/ - install -p -m0644 ./htslib-s3-plugin.7 debian/libhts3t64/usr/share/man/man7/htslib-s3-plugin.7 man-recode --to-code UTF-8 --suffix .dh-new debian/libhts3t64/usr/share/man/man5/faidx.5 - man-recode --to-code UTF-8 --suffix .dh-new debian/tabix/usr/share/man/man1/bgzip.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/libhts3t64/usr/share/man/man5/vcf.5 man-recode --to-code UTF-8 --suffix .dh-new debian/libhts3t64/usr/share/man/man5/sam.5 - man-recode --to-code UTF-8 --suffix .dh-new debian/tabix/usr/share/man/man1/tabix.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/libhts3t64/usr/share/man/man5/vcf.5 + man-recode --to-code UTF-8 --suffix .dh-new debian/libhts3t64/usr/share/man/man7/htslib-s3-plugin.7 + man-recode --to-code UTF-8 --suffix .dh-new debian/tabix/usr/share/man/man1/bgzip.1 man-recode --to-code UTF-8 --suffix .dh-new debian/tabix/usr/share/man/man1/htsfile.1 - mv debian/tabix/usr/share/man/man1/bgzip.1.dh-new debian/tabix/usr/share/man/man1/bgzip.1 - chmod 0644 -- debian/tabix/usr/share/man/man1/bgzip.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/tabix/usr/share/man/man1/tabix.1 mv debian/libhts3t64/usr/share/man/man5/sam.5.dh-new debian/libhts3t64/usr/share/man/man5/sam.5 chmod 0644 -- debian/libhts3t64/usr/share/man/man5/sam.5 - mv debian/tabix/usr/share/man/man1/tabix.1.dh-new debian/tabix/usr/share/man/man1/tabix.1 - chmod 0644 -- debian/tabix/usr/share/man/man1/tabix.1 - mv debian/libhts3t64/usr/share/man/man5/vcf.5.dh-new debian/libhts3t64/usr/share/man/man5/vcf.5 - chmod 0644 -- debian/libhts3t64/usr/share/man/man5/vcf.5 mv debian/libhts3t64/usr/share/man/man5/faidx.5.dh-new debian/libhts3t64/usr/share/man/man5/faidx.5 chmod 0644 -- debian/libhts3t64/usr/share/man/man5/faidx.5 - mv debian/tabix/usr/share/man/man1/htsfile.1.dh-new debian/tabix/usr/share/man/man1/htsfile.1 - chmod 0644 -- debian/tabix/usr/share/man/man1/htsfile.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/libhts3t64/usr/share/man/man7/htslib-s3-plugin.7 + mv debian/libhts3t64/usr/share/man/man5/vcf.5.dh-new debian/libhts3t64/usr/share/man/man5/vcf.5 + chmod 0644 -- debian/libhts3t64/usr/share/man/man5/vcf.5 mv debian/libhts3t64/usr/share/man/man7/htslib-s3-plugin.7.dh-new debian/libhts3t64/usr/share/man/man7/htslib-s3-plugin.7 chmod 0644 -- debian/libhts3t64/usr/share/man/man7/htslib-s3-plugin.7 + mv debian/tabix/usr/share/man/man1/bgzip.1.dh-new debian/tabix/usr/share/man/man1/bgzip.1 + chmod 0644 -- debian/tabix/usr/share/man/man1/bgzip.1 + mv debian/tabix/usr/share/man/man1/htsfile.1.dh-new debian/tabix/usr/share/man/man1/htsfile.1 + chmod 0644 -- debian/tabix/usr/share/man/man1/htsfile.1 + mv debian/tabix/usr/share/man/man1/tabix.1.dh-new debian/tabix/usr/share/man/man1/tabix.1 + chmod 0644 -- debian/tabix/usr/share/man/man1/tabix.1 dh_lintian install -m0755 -d debian/libhts-dev/usr/share/lintian/overrides install -p -m0644 debian/libhts-dev.lintian-overrides debian/libhts-dev/usr/share/lintian/overrides/libhts-dev @@ -3711,13 +3747,13 @@ dh_compress cd debian/libhts3t64 cd debian/libhts-dev - cd debian/tabix cd debian/htslib-test + cd debian/tabix chmod a-x usr/share/doc/libhts3t64/changelog usr/share/doc/libhts3t64/changelog.Debian usr/share/man/man5/faidx.5 usr/share/man/man5/sam.5 usr/share/man/man5/vcf.5 usr/share/man/man7/htslib-s3-plugin.7 - gzip -9nf usr/share/doc/libhts3t64/changelog usr/share/doc/libhts3t64/changelog.Debian usr/share/man/man5/faidx.5 usr/share/man/man5/sam.5 usr/share/man/man5/vcf.5 usr/share/man/man7/htslib-s3-plugin.7 - chmod a-x usr/share/doc/tabix/changelog usr/share/doc/tabix/changelog.Debian usr/share/man/man1/bgzip.1 usr/share/man/man1/htsfile.1 usr/share/man/man1/tabix.1 - chmod a-x usr/share/doc/htslib-test/changelog usr/share/doc/htslib-test/changelog.Debian chmod a-x usr/share/doc/libhts-dev/README.large_positions.md usr/share/doc/libhts-dev/changelog usr/share/doc/libhts-dev/changelog.Debian + chmod a-x usr/share/doc/htslib-test/changelog usr/share/doc/htslib-test/changelog.Debian + chmod a-x usr/share/doc/tabix/changelog usr/share/doc/tabix/changelog.Debian usr/share/man/man1/bgzip.1 usr/share/man/man1/htsfile.1 usr/share/man/man1/tabix.1 + gzip -9nf usr/share/doc/libhts3t64/changelog usr/share/doc/libhts3t64/changelog.Debian usr/share/man/man5/faidx.5 usr/share/man/man5/sam.5 usr/share/man/man5/vcf.5 usr/share/man/man7/htslib-s3-plugin.7 gzip -9nf usr/share/doc/libhts-dev/README.large_positions.md usr/share/doc/libhts-dev/changelog usr/share/doc/libhts-dev/changelog.Debian gzip -9nf usr/share/doc/htslib-test/changelog usr/share/doc/htslib-test/changelog.Debian gzip -9nf usr/share/doc/tabix/changelog usr/share/doc/tabix/changelog.Debian usr/share/man/man1/bgzip.1 usr/share/man/man1/htsfile.1 usr/share/man/man1/tabix.1 @@ -3727,28 +3763,28 @@ cd '/build/reproducible-path/htslib-1.22.1+ds2' dh_fixperms find debian/libhts3t64 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s - find debian/tabix ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s - find debian/htslib-test ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libhts-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s + find debian/htslib-test ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s + find debian/tabix ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libhts3t64/usr/share/doc -type f -a -true -a ! -regex 'debian/libhts3t64/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/htslib-test/usr/share/doc -type f -a -true -a ! -regex 'debian/htslib-test/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libhts3t64/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/tabix/usr/share/doc -type f -a -true -a ! -regex 'debian/tabix/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libhts-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/libhts-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libhts-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 + find debian/htslib-test/usr/share/doc -type f -a -true -a ! -regex 'debian/htslib-test/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libhts3t64/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/tabix/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/libhts3t64/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libhts-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/htslib-test/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/libhts-dev/usr/include debian/libhts-dev/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libhts3t64/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/tabix/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libhts3t64 -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 - find debian/libhts-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 + find debian/libhts-dev/usr/include debian/libhts-dev/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/htslib-test/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libhts3t64/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/tabix -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 - find debian/libhts-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w + find debian/libhts3t64 -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 + find debian/libhts-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 find debian/htslib-test -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 find debian/tabix/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x + find debian/libhts3t64/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w + find debian/libhts-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w rm -f debian/htslib-test.debhelper.log debian/libhts-dev.debhelper.log debian/libhts3t64.debhelper.log debian/tabix.debhelper.log debian/rules execute_after_dh_fixperms make[1]: Entering directory '/build/reproducible-path/htslib-1.22.1+ds2' @@ -3761,10 +3797,10 @@ make[1]: Leaving directory '/build/reproducible-path/htslib-1.22.1+ds2' dh_missing dh_dwz -a - install -m0755 -d debian/tabix/usr/lib/debug/.dwz/aarch64-linux-gnu - dwz -mdebian/tabix/usr/lib/debug/.dwz/aarch64-linux-gnu/tabix.debug -M/usr/lib/debug/.dwz/aarch64-linux-gnu/tabix.debug -- debian/tabix/usr/bin/bgzip debian/tabix/usr/bin/htsfile debian/tabix/usr/bin/tabix install -m0755 -d debian/libhts3t64/usr/lib/debug/.dwz/aarch64-linux-gnu dwz -mdebian/libhts3t64/usr/lib/debug/.dwz/aarch64-linux-gnu/libhts3t64.debug -M/usr/lib/debug/.dwz/aarch64-linux-gnu/libhts3t64.debug -- debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_gcs.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_libcurl.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/libhts.so.1.22.1 + install -m0755 -d debian/tabix/usr/lib/debug/.dwz/aarch64-linux-gnu + dwz -mdebian/tabix/usr/lib/debug/.dwz/aarch64-linux-gnu/tabix.debug -M/usr/lib/debug/.dwz/aarch64-linux-gnu/tabix.debug -- debian/tabix/usr/bin/bgzip debian/tabix/usr/bin/htsfile debian/tabix/usr/bin/tabix dwz: debian/libhts3t64/usr/lib/aarch64-linux-gnu/libhts.so.1.22.1: DWARF compression not beneficial - old size 968148 new size 990916 objcopy --compress-debug-sections debian/libhts3t64/usr/lib/debug/.dwz/aarch64-linux-gnu/libhts3t64.debug chmod 0644 -- debian/libhts3t64/usr/lib/debug/.dwz/aarch64-linux-gnu/libhts3t64.debug @@ -3774,38 +3810,33 @@ make[1]: Entering directory '/build/reproducible-path/htslib-1.22.1+ds2' # This is apparently important for the interpretation by ldc2 in sambamba dh_strip -Xlibhts.a - install -m0755 -d debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/2e - objcopy --only-keep-debug --compress-debug-sections debian/tabix/usr/bin/htsfile debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/2e/acfdf2d74d86c118623f2a3f657c690bfa08ec.debug install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/57 objcopy --only-keep-debug --compress-debug-sections debian/libhts3t64/usr/lib/aarch64-linux-gnu/libhts.so.1.22.1 debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/57/585973d252cb96922c6e0924c7170340428447.debug - chmod 0644 -- debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/2e/acfdf2d74d86c118623f2a3f657c690bfa08ec.debug - strip --remove-section=.comment --remove-section=.note debian/tabix/usr/bin/htsfile - objcopy --add-gnu-debuglink debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/2e/acfdf2d74d86c118623f2a3f657c690bfa08ec.debug debian/tabix/usr/bin/htsfile install -m0755 -d debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/1a objcopy --only-keep-debug --compress-debug-sections debian/tabix/usr/bin/tabix debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/1a/52dd93e70c3834520341d50b0a0b0a614072d4.debug chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/57/585973d252cb96922c6e0924c7170340428447.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libhts3t64/usr/lib/aarch64-linux-gnu/libhts.so.1.22.1 + chmod 0644 -- debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/1a/52dd93e70c3834520341d50b0a0b0a614072d4.debug + strip --remove-section=.comment --remove-section=.note debian/tabix/usr/bin/tabix objcopy --add-gnu-debuglink debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/57/585973d252cb96922c6e0924c7170340428447.debug debian/libhts3t64/usr/lib/aarch64-linux-gnu/libhts.so.1.22.1 + objcopy --add-gnu-debuglink debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/1a/52dd93e70c3834520341d50b0a0b0a614072d4.debug debian/tabix/usr/bin/tabix install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/40 objcopy --only-keep-debug --compress-debug-sections debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3.so debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/40/dfa8a4fa5944efe334c0522c5cc0e6eac8f223.debug chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/40/dfa8a4fa5944efe334c0522c5cc0e6eac8f223.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3.so objcopy --add-gnu-debuglink debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/40/dfa8a4fa5944efe334c0522c5cc0e6eac8f223.debug debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3.so - install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/50 - objcopy --only-keep-debug --compress-debug-sections debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/50/2f12cc1ece9ca664ede8aeffe09a7415ecd0a0.debug - chmod 0644 -- debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/1a/52dd93e70c3834520341d50b0a0b0a614072d4.debug - strip --remove-section=.comment --remove-section=.note debian/tabix/usr/bin/tabix - chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/50/2f12cc1ece9ca664ede8aeffe09a7415ecd0a0.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so - objcopy --add-gnu-debuglink debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/50/2f12cc1ece9ca664ede8aeffe09a7415ecd0a0.debug debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so - objcopy --add-gnu-debuglink debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/1a/52dd93e70c3834520341d50b0a0b0a614072d4.debug debian/tabix/usr/bin/tabix install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/47 objcopy --only-keep-debug --compress-debug-sections debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_libcurl.so debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/47/0f0a900b4ada45f8b63d6b5e5fe7d0bf84569d.debug + install -m0755 -d debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/2e + objcopy --only-keep-debug --compress-debug-sections debian/tabix/usr/bin/htsfile debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/2e/acfdf2d74d86c118623f2a3f657c690bfa08ec.debug chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/47/0f0a900b4ada45f8b63d6b5e5fe7d0bf84569d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_libcurl.so objcopy --add-gnu-debuglink debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/47/0f0a900b4ada45f8b63d6b5e5fe7d0bf84569d.debug debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_libcurl.so - install -m0755 -d debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/df - objcopy --only-keep-debug --compress-debug-sections debian/tabix/usr/bin/bgzip debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/df/229e72ebe4290947697469f6fcd79c4ddcc471.debug + install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/50 + objcopy --only-keep-debug --compress-debug-sections debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/50/2f12cc1ece9ca664ede8aeffe09a7415ecd0a0.debug + chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/50/2f12cc1ece9ca664ede8aeffe09a7415ecd0a0.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so + objcopy --add-gnu-debuglink debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/50/2f12cc1ece9ca664ede8aeffe09a7415ecd0a0.debug debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/c6 objcopy --only-keep-debug --compress-debug-sections debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_gcs.so debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/c6/800bfe7ec6181dc175325c35cf5c44c66a13f9.debug chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/usr/lib/debug/.build-id/c6/800bfe7ec6181dc175325c35cf5c44c66a13f9.debug @@ -3818,6 +3849,11 @@ install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/usr/share/doc ln -s libhts3t64 debian/.debhelper/libhts3t64/dbgsym-root/usr/share/doc/libhts3t64-dbgsym install -m0755 -d debian/.debhelper/libhts3t64 + chmod 0644 -- debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/2e/acfdf2d74d86c118623f2a3f657c690bfa08ec.debug + strip --remove-section=.comment --remove-section=.note debian/tabix/usr/bin/htsfile + objcopy --add-gnu-debuglink debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/2e/acfdf2d74d86c118623f2a3f657c690bfa08ec.debug debian/tabix/usr/bin/htsfile + install -m0755 -d debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/df + objcopy --only-keep-debug --compress-debug-sections debian/tabix/usr/bin/bgzip debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/df/229e72ebe4290947697469f6fcd79c4ddcc471.debug chmod 0644 -- debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/df/229e72ebe4290947697469f6fcd79c4ddcc471.debug strip --remove-section=.comment --remove-section=.note debian/tabix/usr/bin/bgzip objcopy --add-gnu-debuglink debian/.debhelper/tabix/dbgsym-root/usr/lib/debug/.build-id/df/229e72ebe4290947697469f6fcd79c4ddcc471.debug debian/tabix/usr/bin/bgzip @@ -3841,9 +3877,9 @@ rm -f debian/tabix/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/libhts3t64/DEBIAN - dpkg-shlibdeps -Tdebian/libhts3t64.substvars debian/libhts3t64/usr/lib/aarch64-linux-gnu/libhts.so.1.22.1 debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_libcurl.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_gcs.so + dpkg-shlibdeps -Tdebian/libhts3t64.substvars debian/libhts3t64/usr/lib/aarch64-linux-gnu/libhts.so.1.22.1 debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_libcurl.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_s3_write.so debian/libhts3t64/usr/lib/aarch64-linux-gnu/htslib/hfile_gcs.so install -m0755 -d debian/tabix/DEBIAN - dpkg-shlibdeps -Tdebian/tabix.substvars debian/tabix/usr/bin/htsfile debian/tabix/usr/bin/tabix debian/tabix/usr/bin/bgzip + dpkg-shlibdeps -Tdebian/tabix.substvars debian/tabix/usr/bin/tabix debian/tabix/usr/bin/htsfile debian/tabix/usr/bin/bgzip dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect @@ -3859,64 +3895,64 @@ install -m0755 -d debian/htslib-test/DEBIAN install -m0755 -d debian/tabix/DEBIAN dh_gencontrol + install -m0755 -d debian/libhts-dev/DEBIAN + echo misc:Depends= >> debian/libhts-dev.substvars + echo misc:Pre-Depends= >> debian/libhts-dev.substvars + dpkg-gencontrol -plibhts-dev -ldebian/changelog -Tdebian/libhts-dev.substvars -cdebian/control -Pdebian/libhts-dev install -m0755 -d debian/libhts3t64/DEBIAN echo misc:Depends= >> debian/libhts3t64.substvars echo misc:Pre-Depends= >> debian/libhts3t64.substvars install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/DEBIAN dpkg-gencontrol -plibhts3t64 -ldebian/changelog -Tdebian/libhts3t64.substvars -cdebian/control -Pdebian/.debhelper/libhts3t64/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=libhts3t64-dbgsym "-DDepends=libhts3t64 (= \${binary:Version})" "-DDescription=debug symbols for libhts3t64" "-DBuild-Ids=40dfa8a4fa5944efe334c0522c5cc0e6eac8f223 470f0a900b4ada45f8b63d6b5e5fe7d0bf84569d 502f12cc1ece9ca664ede8aeffe09a7415ecd0a0 57585973d252cb96922c6e0924c7170340428447 c6800bfe7ec6181dc175325c35cf5c44c66a13f9" -DSection=debug -UReplaces -UBreaks - install -m0755 -d debian/htslib-test/DEBIAN - echo misc:Depends= >> debian/htslib-test.substvars - echo misc:Pre-Depends= >> debian/htslib-test.substvars - dpkg-gencontrol -phtslib-test -ldebian/changelog -Tdebian/htslib-test.substvars -cdebian/control -Pdebian/htslib-test - install -m0755 -d debian/libhts-dev/DEBIAN - echo misc:Depends= >> debian/libhts-dev.substvars - echo misc:Pre-Depends= >> debian/libhts-dev.substvars - dpkg-gencontrol -plibhts-dev -ldebian/changelog -Tdebian/libhts-dev.substvars -cdebian/control -Pdebian/libhts-dev install -m0755 -d debian/tabix/DEBIAN echo misc:Depends= >> debian/tabix.substvars echo misc:Pre-Depends= >> debian/tabix.substvars install -m0755 -d debian/.debhelper/tabix/dbgsym-root/DEBIAN dpkg-gencontrol -ptabix -ldebian/changelog -Tdebian/tabix.substvars -cdebian/control -Pdebian/.debhelper/tabix/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=tabix-dbgsym "-DDepends=tabix (= \${binary:Version})" "-DDescription=debug symbols for tabix" "-DBuild-Ids=1a52dd93e70c3834520341d50b0a0b0a614072d4 2eacfdf2d74d86c118623f2a3f657c690bfa08ec df229e72ebe4290947697469f6fcd79c4ddcc471" -DSection=debug -UMulti-Arch -UReplaces -UBreaks - chmod 0644 -- debian/htslib-test/DEBIAN/control + install -m0755 -d debian/htslib-test/DEBIAN + echo misc:Depends= >> debian/htslib-test.substvars + echo misc:Pre-Depends= >> debian/htslib-test.substvars + dpkg-gencontrol -phtslib-test -ldebian/changelog -Tdebian/htslib-test.substvars -cdebian/control -Pdebian/htslib-test chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/DEBIAN/control dpkg-gencontrol -plibhts3t64 -ldebian/changelog -Tdebian/libhts3t64.substvars -cdebian/control -Pdebian/libhts3t64 chmod 0644 -- debian/libhts-dev/DEBIAN/control + chmod 0644 -- debian/htslib-test/DEBIAN/control + chmod 0644 -- debian/libhts3t64/DEBIAN/control chmod 0644 -- debian/.debhelper/tabix/dbgsym-root/DEBIAN/control dpkg-gencontrol -ptabix -ldebian/changelog -Tdebian/tabix.substvars -cdebian/control -Pdebian/tabix - chmod 0644 -- debian/libhts3t64/DEBIAN/control chmod 0644 -- debian/tabix/DEBIAN/control dh_md5sums install -m0755 -d debian/libhts3t64/DEBIAN - install -m0755 -d debian/libhts-dev/DEBIAN cd debian/libhts3t64 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums - cd debian/libhts-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums - install -m0755 -d debian/tabix/DEBIAN install -m0755 -d debian/htslib-test/DEBIAN - cd debian/htslib-test >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + install -m0755 -d debian/tabix/DEBIAN + install -m0755 -d debian/libhts-dev/DEBIAN cd debian/tabix >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + cd debian/libhts-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + cd debian/htslib-test >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + chmod 0644 -- debian/tabix/DEBIAN/md5sums + install -m0755 -d debian/.debhelper/tabix/dbgsym-root/DEBIAN chmod 0644 -- debian/libhts3t64/DEBIAN/md5sums install -m0755 -d debian/.debhelper/libhts3t64/dbgsym-root/DEBIAN cd debian/.debhelper/libhts3t64/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums - chmod 0644 -- debian/tabix/DEBIAN/md5sums - install -m0755 -d debian/.debhelper/tabix/dbgsym-root/DEBIAN cd debian/.debhelper/tabix/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums - chmod 0644 -- debian/libhts-dev/DEBIAN/md5sums - chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/DEBIAN/md5sums chmod 0644 -- debian/.debhelper/tabix/dbgsym-root/DEBIAN/md5sums + chmod 0644 -- debian/.debhelper/libhts3t64/dbgsym-root/DEBIAN/md5sums + chmod 0644 -- debian/libhts-dev/DEBIAN/md5sums chmod 0644 -- debian/htslib-test/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/libhts3t64 .. - dpkg-deb --root-owner-group --build debian/htslib-test .. - dpkg-deb --root-owner-group --build debian/.debhelper/libhts3t64/dbgsym-root .. dpkg-deb --root-owner-group --build debian/libhts-dev .. + dpkg-deb --root-owner-group --build debian/.debhelper/libhts3t64/dbgsym-root .. dpkg-deb --root-owner-group --build debian/.debhelper/tabix/dbgsym-root .. - dpkg-deb --root-owner-group --build debian/tabix .. + dpkg-deb --root-owner-group --build debian/htslib-test .. +dpkg-deb: building package 'tabix-dbgsym' in '../tabix-dbgsym_1.22.1+ds2-1_arm64.deb'. dpkg-deb: building package 'libhts3t64-dbgsym' in '../libhts3t64-dbgsym_1.22.1+ds2-1_arm64.deb'. -dpkg-deb: building package 'tabix' in '../tabix_1.22.1+ds2-1_arm64.deb'. dpkg-deb: building package 'libhts-dev' in '../libhts-dev_1.22.1+ds2-1_arm64.deb'. -dpkg-deb: building package 'tabix-dbgsym' in '../tabix-dbgsym_1.22.1+ds2-1_arm64.deb'. -dpkg-deb: building package 'libhts3t64' in '../libhts3t64_1.22.1+ds2-1_arm64.deb'. + dpkg-deb --root-owner-group --build debian/tabix .. dpkg-deb: building package 'htslib-test' in '../htslib-test_1.22.1+ds2-1_all.deb'. +dpkg-deb: building package 'libhts3t64' in '../libhts3t64_1.22.1+ds2-1_arm64.deb'. +dpkg-deb: building package 'tabix' in '../tabix_1.22.1+ds2-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../htslib_1.22.1+ds2-1_arm64.buildinfo dpkg-genchanges --build=binary -O../htslib_1.22.1+ds2-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -3925,12 +3961,14 @@ 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/3131522/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3131522/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/1151517 and its subdirectories -I: Current time: Wed Oct 7 11:37:38 -12 2026 -I: pbuilder-time-stamp: 1791416258 +I: removing directory /srv/workspace/pbuilder/3131522 and its subdirectories +I: Current time: Fri Sep 5 07:17:26 +14 2025 +I: pbuilder-time-stamp: 1757006246