Diff of the two buildlogs: -- --- b1/build.log 2024-12-08 12:29:08.978103864 +0000 +++ b2/build.log 2024-12-08 12:33:27.630377920 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Dec 8 00:26:23 -12 2024 -I: pbuilder-time-stamp: 1733660783 +I: Current time: Sun Jan 11 08:52:11 +14 2026 +I: pbuilder-time-stamp: 1768071131 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -32,52 +32,84 @@ dpkg-source: info: applying numpy_1.24.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3132161/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3387027/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Jan 10 18:52 /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/3387027/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3387027/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='c02a8c2d47fc43d09815005fe0a2b132' - 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='3132161' - PS1='# ' - PS2='> ' + INVOCATION_ID=691e855f9fdf4e319a8cb143047a8849 + 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=3387027 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.CLQhk14G/pbuilderrc_nUPj --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.CLQhk14G/b1 --logfile b1/build.log python-pbcore_2.1.2+dfsg-9.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.CLQhk14G/pbuilderrc_6tRi --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.CLQhk14G/b2 --logfile b2/build.log python-pbcore_2.1.2+dfsg-9.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3132161/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3387027/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -344,7 +376,7 @@ Get: 193 http://deb.debian.org/debian trixie/main arm64 python3-sphinx all 7.4.7-4 [588 kB] Get: 194 http://deb.debian.org/debian trixie/main arm64 python3-uritools all 4.0.3-1 [28.6 kB] Get: 195 http://deb.debian.org/debian trixie/main arm64 python3-xmlschema all 3.4.3-1 [239 kB] -Fetched 85.7 MB in 1s (140 MB/s) +Fetched 85.7 MB in 1s (95.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libjs-jquery. (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 ... 20088 files and directories currently installed.) @@ -986,8 +1018,8 @@ Setting up tzdata (2024b-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Sun Dec 8 12:26:51 UTC 2024. -Universal Time is now: Sun Dec 8 12:26:51 UTC 2024. +Local time is now: Sat Jan 10 18:53:20 UTC 2026. +Universal Time is now: Sat Jan 10 18:53:20 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libpython3.13-minimal:arm64 (3.13.1-1) ... @@ -1168,7 +1200,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/python-pbcore-2.1.2+dfsg/ && 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 > ../python-pbcore_2.1.2+dfsg-9_source.changes +I: user script /srv/workspace/pbuilder/3387027/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3387027/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/python-pbcore-2.1.2+dfsg/ && 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 > ../python-pbcore_2.1.2+dfsg-9_source.changes dpkg-buildpackage: info: source package python-pbcore dpkg-buildpackage: info: source version 2.1.2+dfsg-9 dpkg-buildpackage: info: source distribution unstable @@ -1186,8 +1222,8 @@ Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. - By 2025-Mar-03, you need to update your project and remove deprecated calls - or your builds will no longer be supported. + This deprecation is overdue, please update your project and remove deprecated + calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** @@ -1228,8 +1264,8 @@ Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. - By 2025-Mar-03, you need to update your project and remove deprecated calls - or your builds will no longer be supported. + This deprecation is overdue, please update your project and remove deprecated + calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** @@ -1250,8 +1286,8 @@ Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. - By 2025-Mar-03, you need to update your project and remove deprecated calls - or your builds will no longer be supported. + This deprecation is overdue, please update your project and remove deprecated + calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** @@ -1451,7 +1487,7 @@ WARNING: The pre-Sphinx 1.0 'intersphinx_mapping' format is deprecated and will be removed in Sphinx 8. Update to the current format as described in the documentation. Hint: `intersphinx_mapping = {'': ('http://docs.python.org/', None)}`.https://www.sphinx-doc.org/en/master/usage/extensions/intersphinx.html#confval-intersphinx_mapping loading intersphinx inventory 'main_inventory' from http://docs.python.org/objects.inv... WARNING: failed to reach any of the inventories with the following issues: -intersphinx inventory 'http://docs.python.org/objects.inv' not fetchable due to : HTTPConnectionPool(host='docs.python.org', port=80): Max retries exceeded with url: /objects.inv (Caused by NameResolutionError(": Failed to resolve 'docs.python.org' ([Errno -3] Temporary failure in name resolution)")) +intersphinx inventory 'http://docs.python.org/objects.inv' not fetchable due to : HTTPConnectionPool(host='docs.python.org', port=80): Max retries exceeded with url: /objects.inv (Caused by NameResolutionError(": Failed to resolve 'docs.python.org' ([Errno -3] Temporary failure in name resolution)")) building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 11 source files that are out of date @@ -1529,286 +1565,286 @@ scheduling tests via LoadScopeScheduling +tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ -[gw3] [ 0%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ -tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency -tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 -tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations -tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration -[gw5] [ 1%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration -tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName -[gw5] [ 2%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName -tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById -[gw5] [ 2%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById -tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition -[gw5] [ 3%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition -tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ -[gw4] [ 4%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ -[gw4] [ 5%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString -[gw4] [ 5%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 -[gw4] [ 6%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 -[gw4] [ 7%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len -[gw4] [ 7%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len +tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str +[gw8] [ 0%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str +tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification +[gw8] [ 1%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification +tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString +[gw8] [ 2%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString +[gw6] [ 2%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__init__ tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ -[gw3] [ 8%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ +[gw6] [ 3%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test__str__ tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString -[gw3] [ 9%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString +[gw6] [ 4%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_fromString tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 -[gw3] [ 10%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 -tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 -[gw3] [ 10%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ +[gw4] [ 5%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__init__ +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ +[gw5] [ 5%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testIteration +tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName +[gw5] [ 6%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByName +tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 +[gw9] [ 7%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 +tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 +tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse +[gw3] [ 7%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse +tests/test_pbdataset_split.py::TestDataSetSplit::test_split tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs -[gw8] [ 11%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs +[gw10] [ 8%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted -[gw8] [ 12%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted -tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff -[gw8] [ 12%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff +[gw10] [ 9%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_merge_gffs_sorted +tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement +[gw3] [ 10%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations +tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid +tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById +[gw5] [ 10%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessById +tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition +tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency +[gw6] [ 11%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement1 +tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 +[gw6] [ 12%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_reverse_complement2 +[gw5] [ 12%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testAccessByPosition +tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice [gw5] [ 13%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::testSlice tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta -tests/test_pbdataset_split.py::TestDataSetSplit::test_split -[gw1] [ 14%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation -[gw1] [ 15%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName -[gw1] [ 15%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName -tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse -[gw6] [ 16%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse -tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement -[gw6] [ 17%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement -[gw6] [ 17%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement +[gw3] [ 14%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverseComplement tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac -[gw6] [ 18%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac -[gw9] [ 19%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid -tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype -[gw9] [ 20%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype +[gw3] [ 15%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_iupac tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error -[gw6] [ 20%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error +[gw3] [ 15%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_complement_error +[gw5] [ 16%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta +[gw1] [ 17%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation +[gw1] [ 17%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testStrandOrientation +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName +[gw1] [ 18%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadName +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead +[gw9] [ 19%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 +tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff +[gw10] [ 20%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_sort_gff +[gw11] [ 20%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency +tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming +[gw11] [ 21%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming +tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire +[gw11] [ 22%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire +[gw4] [ 22%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test__str__ +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString +[gw4] [ 23%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_fromString +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 +[gw4] [ 24%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement1 +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 +[gw4] [ 25%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_reverse_complement2 +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len +[gw4] [ 25%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_len +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq +[gw4] [ 26%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len -[gw3] [ 21%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len +[gw6] [ 27%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_len tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq -[gw3] [ 22%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead -[gw1] [ 22%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead -[gw1] [ 23%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations -[gw2] [ 24%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations +[gw6] [ 27%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_eq +[gw0] [ 28%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation -[gw2] [ 25%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation +[gw0] [ 29%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testStrandOrientation tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName -[gw2] [ 25%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName +[gw0] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadName tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead -[gw2] [ 26%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead +[gw0] [ 30%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedRead tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead -[gw5] [ 27%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta +[gw0] [ 31%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference +[gw7] [ 32%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid +tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype +[gw7] [ 32%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix -[gw9] [ 27%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix -tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str -[gw7] [ 28%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_str -tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification -[gw7] [ 29%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_modification -tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString -[gw7] [ 30%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_fromString -tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex -[gw5] [ 30%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex -[gw11] [ 31%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 -tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 -[gw11] [ 32%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq2 -tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file -[gw8] [ 32%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file -[gw10] [ 33%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency -tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming -[gw10] [ 34%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming -tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire -[gw10] [ 35%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_streaming_entire -tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties -[gw5] [ 35%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties +[gw7] [ 33%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_dsIdToSuffix +[gw1] [ 34%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedRead +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead +[gw1] [ 35%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedRead tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference -[gw1] [ 36%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference +[gw1] [ 35%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testAlignedReference tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference -[gw1] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference +[gw1] [ 36%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testUnalignedReference tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV [gw1] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testDeletionQV tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq -[gw4] [ 38%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_eq -tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal -[gw4] [ 39%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal -tests/test_pbcore_io_FofnIO.py::test_simple -[gw4] [ 40%] PASSED tests/test_pbcore_io_FofnIO.py::test_simple -tests/test_pbcore_io_FofnIO.py::test_empty_lines -[gw4] [ 40%] PASSED tests/test_pbcore_io_FofnIO.py::test_empty_lines -[gw2] [ 41%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedRead -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference -[gw2] [ 42%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference +[gw1] [ 37%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments +[gw1] [ 38%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments +tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange +[gw0] [ 39%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testAlignedReference tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference -[gw2] [ 42%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference +[gw0] [ 40%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testUnalignedReference tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV -[gw2] [ 43%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV +tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get +[gw8] [ 40%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get +tests/test_pbcore_io_FofnIO.py::test_simple +[gw0] [ 41%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testDeletionQV +tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 +[gw9] [ 42%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 +tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations +[gw9] [ 42%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations +[gw8] [ 43%] PASSED tests/test_pbcore_io_FofnIO.py::test_simple +tests/test_pbcore_io_FofnIO.py::test_empty_lines +[gw8] [ 44%] PASSED tests/test_pbcore_io_FofnIO.py::test_empty_lines tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript -[gw2] [ 44%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript +[gw0] [ 45%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testTranscript tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments -[gw2] [ 45%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange -[gw1] [ 45%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testTranscript -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments -[gw1] [ 46%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testClippedAlignments -tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange -tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations -[gw8] [ 47%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testBasicOperations -[gw0] [ 47%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split -tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws +tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex +[gw5] [ 45%] PASSED tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_readWeirdFastaIndex +tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error -tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal -[gw6] [ 48%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error -tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges -[gw9] [ 49%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges -[gw3] [ 50%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal -tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta -tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 +[gw3] [ 46%] PASSED tests/test_pbcore_util_sequences.py::TestReverseComplement::test_reverse_complement_error tests/test_pbcore_io_BlasrIO.py::test_m4 -tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 -[gw11] [ 50%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq3 -tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers -tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names -[gw5] [ 51%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names -tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 -[gw5] [ 52%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 -[gw3] [ 52%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 -[gw11] [ 53%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers -[gw6] [ 54%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta +[gw0] [ 47%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testClippedAlignments +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange +tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file +[gw10] [ 47%] PASSED tests/test_pbcore_io_GffIO.py::TestGffSorting::test_empty_file +tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta +[gw3] [ 48%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m4 +[gw10] [ 49%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_readFasta tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index -[gw10] [ 55%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index -tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations -tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable -[gw8] [ 55%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable -tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader -[gw9] [ 56%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m4 -tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get -[gw7] [ 57%] PASSED tests/test_pbcore_io_GffIO.py::TestGff3Record::test_get +[gw11] [ 50%] PASSED tests/test_pbindex.py::TestPbIndex::test_pbindex_with_zmw_index +tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 +[gw11] [ 50%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta1 +[gw5] [ 51%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_retrieve_read_group_properties +tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal +[gw4] [ 52%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqRecord::test_not_equal tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs -[gw7] [ 57%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs +[gw4] [ 52%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testAsciiFromQvs +tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal +[gw6] [ 53%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaRecord::test_not_equal +tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 +[gw6] [ 54%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq1 tests/test_pbcore_io_FofnIO.py::test_absolutifying -[gw4] [ 58%] PASSED tests/test_pbcore_io_FofnIO.py::test_absolutifying +[gw8] [ 55%] PASSED tests/test_pbcore_io_FofnIO.py::test_absolutifying +tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations +tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names +[gw5] [ 55%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMultipleReadGroups::test_sample_names tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv -[gw10] [ 59%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations -[gw8] [ 60%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader -[gw4] [ 60%] PASSED tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv +[gw5] [ 56%] PASSED tests/test_pbcore_util.py::TestStatistics::test_accuracy_as_phred_qv +[gw8] [ 57%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testInvalidOperations +tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable +[gw9] [ 57%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable tests/test_pbcore_io_BlasrIO.py::test_m5 -[gw9] [ 61%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m5 +[gw3] [ 58%] PASSED tests/test_pbcore_io_BlasrIO.py::test_m5 +tests/test_dataset_run_split.py::test +[gw3] [ 59%] SKIPPED tests/test_dataset_run_split.py::test +tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta +[gw10] [ 60%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta +tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader +[gw9] [ 60%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeHeader +[gw2] [ 61%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split +tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws +tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges +[gw7] [ 62%] PASSED tests/test_pbdataset_utils.py::TestDataSetUtils::test_divideKeys_keysToRanges +tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers +[gw7] [ 62%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test_headers +tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 +[gw11] [ 63%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 +tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties +tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 +[gw6] [ 64%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 +tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 +[gw6] [ 65%] SKIPPED tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 +tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd +[gw8] [ 65%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd +tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord +[gw9] [ 66%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord +[gw11] [ 67%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties +tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support +[gw3] [ 67%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support +tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement +[gw10] [ 68%] PASSED tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement +tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range +[gw10] [ 69%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range +tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy +[gw5] [ 70%] PASSED tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__ -[gw11] [ 62%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__ -[gw2] [ 62%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange +[gw7] [ 70%] PASSED tests/test_pbcore_io_GffIO.py::TestGffReader::test__iter__ +[gw0] [ 71%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange +tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii +[gw4] [ 72%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii +tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam +[gw4] [ 72%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable -[gw2] [ 63%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable +[gw0] [ 73%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadGroupTable tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry -[gw2] [ 64%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry +[gw0] [ 74%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSequencingChemistry tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion -[gw2] [ 65%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion +tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping +[gw11] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping +[gw0] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testSpecVersion tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore -[gw2] [ 65%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore -tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord -tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range -tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd -[gw10] [ 66%] PASSED tests/test_pbcore_io_unaligned_bam.py::TestUnalignedBam::testIpd -tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 -[gw3] [ 67%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaWriter::test_writeFasta2 -tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support -[gw3] [ 67%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestTranscriptBam::test_transcript_set_support -tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 -[gw5] [ 68%] PASSED tests/test_pbcore_io_FastqIO.py::TestFastqReader::test_readFastq2 -tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties -[gw5] [ 69%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestMissingHeaderM5::test_retrieve_read_group_properties -[gw8] [ 70%] PASSED tests/test_pbcore_io_GffIO.py::TestGffWriter::test_writeRecord -[gw0] [ 70%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws -tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize -tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii -[gw7] [ 71%] PASSED tests/test_pbcore_io_FastqIO.py::TestQvConversion::testQvsFromAscii -tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta -[gw6] [ 72%] PASSED tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta -tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement -[gw6] [ 72%] PASSED tests/test_pbcore_extract_bam_sequence.py::TestCase::test_reverse_complement -tests/test_dataset_run_split.py::test -[gw9] [ 73%] SKIPPED tests/test_dataset_run_split.py::test -[gw1] [ 74%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange +[gw0] [ 76%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadScore +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default +[gw0] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default +tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted +[gw4] [ 77%] PASSED tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted +tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default +[gw0] [ 78%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default +[gw1] [ 79%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable -[gw1] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable +[gw1] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadGroupTable tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry -[gw1] [ 75%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry +[gw1] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testSequencingChemistry tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV -[gw1] [ 76%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV +[gw1] [ 81%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testMapQV tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers -[gw1] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers -[gw11] [ 77%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestEmptyBam::test_empty_bam_reads_in_range +[gw1] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts -[gw1] [ 78%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts +[gw1] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testErrorCounts tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName -[gw1] [ 79%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default -[gw2] [ 80%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_sample_name_default -tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy -[gw4] [ 80%] PASSED tests/test_pbcore_util.py::TestStatistics::test_phred_qv_as_accuracy -tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted +[gw1] [ 83%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsByName tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam -[gw1] [ 81%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam +[gw1] [ 84%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_empty_bam tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity -tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default -[gw11] [ 82%] PASSED tests/test_pbcore_io_VcfIO.py::TestVcfSorting::test_merge_vcfs_sorted -[gw1] [ 82%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity +[gw1] [ 85%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed -tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping -[gw5] [ 83%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestUpdatedChemistryMapping::test_load_updated_mapping -tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 -[gw6] [ 84%] SKIPPED tests/test_pbcore_io_lossless_bam.py::TestCase::test_1 -[gw2] [ 85%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::test_library_name_default -tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam -[gw3] [ 85%] SKIPPED tests/test_pbcore_io_AlnFileReaders.py::TestBarcodedBam::test_read_lima_demultiplexed_bam +[gw2] [ 85%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws +tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize [gw1] [ 86%] PASSED tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed -[gw0] [ 87%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize +[gw2] [ 87%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws -[gw0] [ 87%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws +[gw2] [ 87%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_large_split_zmws tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws -[gw0] [ 88%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws +[gw2] [ 88%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_simple_filters -[gw0] [ 89%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_simple_filters +[gw2] [ 89%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_simple_filters tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_filters -[gw0] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_filters +[gw2] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_existing_filters tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split -[gw0] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split +[gw2] [ 90%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_movie_split tests/test_pbdataset_split.py::TestDataSetSplit::test_split_references -[gw0] [ 91%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_references +[gw2] [ 91%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_references tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_with_existing_movie_filter -[gw0] [ 92%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_with_existing_movie_filter +[gw2] [ 92%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_multi_movie_split_zmws_with_existing_movie_filter tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_presplit -[gw0] [ 92%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_presplit +[gw2] [ 92%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_presplit tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks -[gw0] [ 93%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks +[gw2] [ 93%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split -[gw0] [ 94%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split +[gw2] [ 94%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows -[gw0] [ 95%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows +[gw2] [ 95%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split -[gw0] [ 95%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split +[gw2] [ 95%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_huge_zmw_split tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name -[gw0] [ 96%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name +[gw2] [ 96%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split -[gw0] [ 97%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split +[gw2] [ 97%] PASSED tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded -[gw0] [ 97%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded +[gw2] [ 97%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_isBarcoded tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases -[gw0] [ 98%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases +[gw2] [ 98%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_cornercases tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks -[gw0] [ 99%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks +[gw2] [ 99%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_barcode_split_maxChunks tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups -[gw0] [100%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups +[gw2] [100%] SKIPPED tests/test_pbdataset_split.py::TestDataSetSplit::test_split_read_groups =============================== warnings summary =============================== pbcore/__init__.py:1: 13 warnings @@ -1829,15 +1865,15 @@ /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.12_pbcore/build/pbcore/io/align/PacBioBamIndex.py:159: DeprecationWarning: Conversion of an array with ndim > 0 to a scalar is deprecated, and will error in future. Ensure you extract a single element from your array before performing this operation. (Deprecated NumPy 1.25.) ntId = int(peek("u4", 1)) +tests/test_pbcore_io_AlnFileReaders.py: 28 warnings + /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.12_pbcore/build/pbcore/io/align/BamAlignment.py:583: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. + return r.tostring().decode("ascii") + tests/test_pbdataset_utils.py: 10 warnings tests/test_pbdataset_split.py: 249 warnings /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.12_pbcore/build/pbcore/io/dataset/utils.py:24: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). time = datetime.datetime.utcnow().strftime("%y%m%d_%H%M%S%f")[:-3] -tests/test_pbcore_io_AlnFileReaders.py: 28 warnings - /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.12_pbcore/build/pbcore/io/align/BamAlignment.py:583: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. - return r.tostring().decode("ascii") - tests/test_pbcore_io_AlnFileReaders.py: 20 warnings /build/reproducible-path/python-pbcore-2.1.2+dfsg/.pybuild/cpython3_3.12_pbcore/build/pbcore/io/align/BamAlignment.py:368: DeprecationWarning: tostring() is deprecated. Use tobytes() instead. return y.tostring().decode("ascii") @@ -1887,27 +1923,27 @@ Coverage XML written to file coverage.xml ============================= slowest 20 durations ============================= -0.30s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks -0.24s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split -0.16s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize -0.14s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split -0.14s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange -0.13s call tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange -0.11s call tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split -0.09s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws -0.04s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed -0.04s setup tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations -0.04s setup tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations -0.03s call tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta +0.32s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split_and_maxChunks +0.29s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testReadsInRange +0.26s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split +0.26s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_by_contigs_with_split +0.23s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws_targetsize +0.23s call tests/test_pbdataset_split.py::TestDataSetSplit::test_split_zmws +0.18s call tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testReadsInRange +0.15s call tests/test_pbdataset_split.py::TestDataSetSplit::test_contigset_split +0.06s call tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency +0.05s setup tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testBasicOperations +0.05s setup tests/test_pbcore_io_AlnFileReaders.py::TestBasicBam::testBasicOperations +0.05s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid +0.05s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity_unindexed +0.04s call tests/test_pbcore_io_FastaTable.py::TestIndexedFastaReader::test_dosLineEndingsFasta 0.03s call tests/test_pbdataset_split.py::TestDataSetSplit::test_refWindows -0.03s call tests/test_pbindex.py::TestPbIndex::test_pbindex_bam_consistency 0.03s call tests/test_pbdataset_split.py::TestDataSetSplit::test_subreadset_split_metadata_element_name 0.02s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::test_alignment_identity -0.02s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_uuid -0.01s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers -0.01s call tests/test_pbcore_io_FastaIO.py::TestFastaReader::test_dosLineEndingsFasta -0.01s call tests/test_pbcore_io_AlnFileReaders.py::TestCCSBam::testQStartEndUnavailable -================ 122 passed, 18 skipped, 518 warnings in 4.14s ================= +0.02s call tests/test_pbcore_io_AlnFileReaders.py::TestIndexedBam::testHoleNumbers +0.02s call tests/test_pbdataset_utils.py::TestDataSetUtils::test_get_dataset_metatype +0.01s call tests/test_pbcore_io_FastqIO.py::TestFastqWriter::test_writeFastq1 +================ 122 passed, 18 skipped, 518 warnings in 7.71s ================= # copy working test data into doc dir as user examples mkdir -p _tmp/usr/share/doc/python3-pbcore cp -a tests _tmp/usr/share/doc/python3-pbcore @@ -1928,8 +1964,8 @@ Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead. - By 2025-Mar-03, you need to update your project and remove deprecated calls - or your builds will no longer be supported. + This deprecation is overdue, please update your project and remove deprecated + calls to avoid build errors in the future. See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** @@ -2267,8 +2303,8 @@ dpkg-gencontrol: warning: package python-pbcore-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild -dpkg-deb: building package 'python3-pbcore' in '../python3-pbcore_2.1.2+dfsg-9_all.deb'. dpkg-deb: building package 'python-pbcore-doc' in '../python-pbcore-doc_2.1.2+dfsg-9_all.deb'. +dpkg-deb: building package 'python3-pbcore' in '../python3-pbcore_2.1.2+dfsg-9_all.deb'. dpkg-genbuildinfo --build=binary -O../python-pbcore_2.1.2+dfsg-9_arm64.buildinfo dpkg-genchanges --build=binary -O../python-pbcore_2.1.2+dfsg-9_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -2276,12 +2312,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3387027/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3387027/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/3132161 and its subdirectories -I: Current time: Sun Dec 8 00:29:07 -12 2024 -I: pbuilder-time-stamp: 1733660947 +I: removing directory /srv/workspace/pbuilder/3387027 and its subdirectories +I: Current time: Sun Jan 11 08:56:25 +14 2026 +I: pbuilder-time-stamp: 1768071385