5s autopkgtest [20:58:35]: starting date and time: 2024-07-20 20:58:35+0000 5s autopkgtest [20:58:35]: git checkout: fd3bed09 nova: allow more retries for quota issues 5s autopkgtest [20:58:35]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.7zrltyog/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade cyvcf2 --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.4-1 python3-stdlib-extensions/3.12.4-2' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-17.secgroup --name adt-oracular-amd64-cyvcf2-20240720-205830-juju-7f2275-prod-proposed-migration-environment-2-c1f41897-6026-43ef-9347-2a5ee949c86c --image adt/ubuntu-oracular-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 81s autopkgtest [20:59:51]: testbed dpkg architecture: amd64 81s autopkgtest [20:59:51]: testbed apt version: 2.9.6 81s autopkgtest [20:59:51]: @@@@@@@@@@@@@@@@@@@@ test bed setup 86s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [126 kB] 86s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [4092 B] 86s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [8548 B] 86s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [401 kB] 86s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [63.6 kB] 86s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 Packages [121 kB] 86s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main i386 Packages [89.5 kB] 86s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 c-n-f Metadata [2116 B] 86s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/restricted amd64 Packages [34.9 kB] 86s Get:10 http://ftpmaster.internal/ubuntu oracular-proposed/restricted i386 Packages [6244 B] 86s Get:11 http://ftpmaster.internal/ubuntu oracular-proposed/restricted amd64 c-n-f Metadata [368 B] 86s Get:12 http://ftpmaster.internal/ubuntu oracular-proposed/universe i386 Packages [401 kB] 86s Get:13 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 Packages [574 kB] 86s Get:14 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 c-n-f Metadata [9900 B] 86s Get:15 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse amd64 Packages [8604 B] 86s Get:16 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse i386 Packages [3052 B] 86s Get:17 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse amd64 c-n-f Metadata [276 B] 87s Fetched 1855 kB in 0s (6776 kB/s) 87s Reading package lists... 89s Reading package lists... 89s Building dependency tree... 89s Reading state information... 90s Calculating upgrade... 90s The following packages will be upgraded: 90s libheif-plugin-aomdec libheif-plugin-aomenc libheif-plugin-libde265 libheif1 90s libpython3-stdlib python3 python3-gdbm python3-minimal 90s 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 90s Need to get 388 kB of archives. 90s After this operation, 30.7 kB of additional disk space will be used. 90s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 python3-minimal amd64 3.12.4-1 [27.1 kB] 90s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 python3 amd64 3.12.4-1 [24.0 kB] 90s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 libpython3-stdlib amd64 3.12.4-1 [9818 B] 90s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 python3-gdbm amd64 3.12.4-2 [18.2 kB] 90s Get:5 http://ftpmaster.internal/ubuntu oracular/main amd64 libheif-plugin-aomdec amd64 1.17.6-4build1 [10.3 kB] 90s Get:6 http://ftpmaster.internal/ubuntu oracular/main amd64 libheif-plugin-aomenc amd64 1.17.6-4build1 [14.8 kB] 90s Get:7 http://ftpmaster.internal/ubuntu oracular/main amd64 libheif1 amd64 1.17.6-4build1 [276 kB] 90s Get:8 http://ftpmaster.internal/ubuntu oracular/main amd64 libheif-plugin-libde265 amd64 1.17.6-4build1 [8328 B] 91s Fetched 388 kB in 0s (16.5 MB/s) 91s (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 ... 74487 files and directories currently installed.) 91s Preparing to unpack .../python3-minimal_3.12.4-1_amd64.deb ... 91s Unpacking python3-minimal (3.12.4-1) over (3.12.3-0ubuntu1) ... 91s Setting up python3-minimal (3.12.4-1) ... 91s (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 ... 74487 files and directories currently installed.) 91s Preparing to unpack .../0-python3_3.12.4-1_amd64.deb ... 91s Unpacking python3 (3.12.4-1) over (3.12.3-0ubuntu1) ... 91s Preparing to unpack .../1-libpython3-stdlib_3.12.4-1_amd64.deb ... 91s Unpacking libpython3-stdlib:amd64 (3.12.4-1) over (3.12.3-0ubuntu1) ... 91s Preparing to unpack .../2-python3-gdbm_3.12.4-2_amd64.deb ... 91s Unpacking python3-gdbm:amd64 (3.12.4-2) over (3.12.3-0ubuntu1) ... 91s Preparing to unpack .../3-libheif-plugin-aomdec_1.17.6-4build1_amd64.deb ... 91s Unpacking libheif-plugin-aomdec:amd64 (1.17.6-4build1) over (1.17.6-3build2) ... 91s Preparing to unpack .../4-libheif-plugin-aomenc_1.17.6-4build1_amd64.deb ... 91s Unpacking libheif-plugin-aomenc:amd64 (1.17.6-4build1) over (1.17.6-3build2) ... 91s Preparing to unpack .../5-libheif1_1.17.6-4build1_amd64.deb ... 91s Unpacking libheif1:amd64 (1.17.6-4build1) over (1.17.6-3build2) ... 91s Preparing to unpack .../6-libheif-plugin-libde265_1.17.6-4build1_amd64.deb ... 91s Unpacking libheif-plugin-libde265:amd64 (1.17.6-4build1) over (1.17.6-3build2) ... 91s Setting up libpython3-stdlib:amd64 (3.12.4-1) ... 91s Setting up python3 (3.12.4-1) ... 92s Setting up python3-gdbm:amd64 (3.12.4-2) ... 92s Setting up libheif-plugin-aomdec:amd64 (1.17.6-4build1) ... 92s Setting up libheif1:amd64 (1.17.6-4build1) ... 92s Setting up libheif-plugin-libde265:amd64 (1.17.6-4build1) ... 92s Setting up libheif-plugin-aomenc:amd64 (1.17.6-4build1) ... 92s Processing triggers for libc-bin (2.39-0ubuntu9) ... 92s Processing triggers for man-db (2.12.1-2) ... 92s Reading package lists... 93s Building dependency tree... 93s Reading state information... 93s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 93s Hit:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 93s Hit:2 http://ftpmaster.internal/ubuntu oracular InRelease 93s Hit:3 http://ftpmaster.internal/ubuntu oracular-updates InRelease 93s Hit:4 http://ftpmaster.internal/ubuntu oracular-security InRelease 94s Reading package lists... 94s Reading package lists... 95s Building dependency tree... 95s Reading state information... 95s Calculating upgrade... 95s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 95s Reading package lists... 96s Building dependency tree... 96s Reading state information... 96s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 97s autopkgtest [21:00:07]: testbed running kernel: Linux 6.8.0-31-generic #31-Ubuntu SMP PREEMPT_DYNAMIC Sat Apr 20 00:40:06 UTC 2024 97s autopkgtest [21:00:07]: @@@@@@@@@@@@@@@@@@@@ apt-source cyvcf2 97s Get:1 http://ftpmaster.internal/ubuntu oracular/universe cyvcf2 0.31.0-1 (dsc) [2486 B] 97s Get:2 http://ftpmaster.internal/ubuntu oracular/universe cyvcf2 0.31.0-1 (tar) [420 kB] 97s Get:3 http://ftpmaster.internal/ubuntu oracular/universe cyvcf2 0.31.0-1 (diff) [6696 B] 98s gpgv: Signature made Sat Jun 1 08:34:30 2024 UTC 98s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 98s gpgv: issuer "emollier@debian.org" 98s gpgv: Can't check signature: No public key 98s dpkg-source: warning: cannot verify inline signature for ./cyvcf2_0.31.0-1.dsc: no acceptable signature found 98s autopkgtest [21:00:08]: testing package cyvcf2 version 0.31.0-1 99s autopkgtest [21:00:09]: build not needed 99s autopkgtest [21:00:09]: test run-unit-test: preparing testbed 100s Reading package lists... 100s Building dependency tree... 100s Reading state information... 100s Starting pkgProblemResolver with broken count: 0 100s Starting 2 pkgProblemResolver with broken count: 0 100s Done 101s The following additional packages will be installed: 101s libblas3 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 python3-all 101s python3-click python3-colorama python3-coloredlogs python3-cyvcf2 101s python3-humanfriendly python3-iniconfig python3-numpy python3-packaging 101s python3-pluggy python3-pytest 101s Suggested packages: 101s gcc gfortran python-numpy-doc python3-dev 101s The following NEW packages will be installed: 101s autopkgtest-satdep libblas3 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 101s python3-all python3-click python3-colorama python3-coloredlogs 101s python3-cyvcf2 python3-humanfriendly python3-iniconfig python3-numpy 101s python3-packaging python3-pluggy python3-pytest 101s 0 upgraded, 17 newly installed, 0 to remove and 0 not upgraded. 101s Need to get 10.2 MB/10.2 MB of archives. 101s After this operation, 44.0 MB of additional disk space will be used. 101s Get:1 /tmp/autopkgtest.CodsPW/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [724 B] 101s Get:2 http://ftpmaster.internal/ubuntu oracular/main amd64 libblas3 amd64 3.12.0-3build1 [238 kB] 101s Get:3 http://ftpmaster.internal/ubuntu oracular/main amd64 libgfortran5 amd64 14.1.0-4ubuntu2 [909 kB] 101s Get:4 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhtscodecs2 amd64 1.6.0-1build1 [98.8 kB] 101s Get:5 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhts3t64 amd64 1.20+ds-1 [439 kB] 101s Get:6 http://ftpmaster.internal/ubuntu oracular/main amd64 liblapack3 amd64 3.12.0-3build1 [2650 kB] 101s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 python3-all amd64 3.12.4-1 [882 B] 101s Get:8 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-colorama all 0.4.6-4 [32.1 kB] 101s Get:9 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-click all 8.1.7-1 [79.1 kB] 101s Get:10 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-humanfriendly all 10.0-5 [70.5 kB] 101s Get:11 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-coloredlogs all 15.0.1-1 [38.2 kB] 101s Get:12 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-numpy amd64 1:1.26.4+ds-10 [4437 kB] 101s Get:13 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-cyvcf2 amd64 0.31.0-1 [848 kB] 101s Get:14 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 101s Get:15 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-packaging all 24.1-1 [41.4 kB] 101s Get:16 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 101s Get:17 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-pytest all 7.4.4-1 [305 kB] 101s Fetched 10.2 MB in 0s (72.0 MB/s) 101s Selecting previously unselected package libblas3:amd64. 101s (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 ... 74490 files and directories currently installed.) 101s Preparing to unpack .../00-libblas3_3.12.0-3build1_amd64.deb ... 101s Unpacking libblas3:amd64 (3.12.0-3build1) ... 101s Selecting previously unselected package libgfortran5:amd64. 101s Preparing to unpack .../01-libgfortran5_14.1.0-4ubuntu2_amd64.deb ... 101s Unpacking libgfortran5:amd64 (14.1.0-4ubuntu2) ... 101s Selecting previously unselected package libhtscodecs2:amd64. 101s Preparing to unpack .../02-libhtscodecs2_1.6.0-1build1_amd64.deb ... 101s Unpacking libhtscodecs2:amd64 (1.6.0-1build1) ... 101s Selecting previously unselected package libhts3t64:amd64. 101s Preparing to unpack .../03-libhts3t64_1.20+ds-1_amd64.deb ... 101s Unpacking libhts3t64:amd64 (1.20+ds-1) ... 102s Selecting previously unselected package liblapack3:amd64. 102s Preparing to unpack .../04-liblapack3_3.12.0-3build1_amd64.deb ... 102s Unpacking liblapack3:amd64 (3.12.0-3build1) ... 102s Selecting previously unselected package python3-all. 102s Preparing to unpack .../05-python3-all_3.12.4-1_amd64.deb ... 102s Unpacking python3-all (3.12.4-1) ... 102s Selecting previously unselected package python3-colorama. 102s Preparing to unpack .../06-python3-colorama_0.4.6-4_all.deb ... 102s Unpacking python3-colorama (0.4.6-4) ... 102s Selecting previously unselected package python3-click. 102s Preparing to unpack .../07-python3-click_8.1.7-1_all.deb ... 102s Unpacking python3-click (8.1.7-1) ... 102s Selecting previously unselected package python3-humanfriendly. 102s Preparing to unpack .../08-python3-humanfriendly_10.0-5_all.deb ... 102s Unpacking python3-humanfriendly (10.0-5) ... 102s Selecting previously unselected package python3-coloredlogs. 102s Preparing to unpack .../09-python3-coloredlogs_15.0.1-1_all.deb ... 102s Unpacking python3-coloredlogs (15.0.1-1) ... 102s Selecting previously unselected package python3-numpy. 102s Preparing to unpack .../10-python3-numpy_1%3a1.26.4+ds-10_amd64.deb ... 102s Unpacking python3-numpy (1:1.26.4+ds-10) ... 102s Selecting previously unselected package python3-cyvcf2. 102s Preparing to unpack .../11-python3-cyvcf2_0.31.0-1_amd64.deb ... 102s Unpacking python3-cyvcf2 (0.31.0-1) ... 102s Selecting previously unselected package python3-iniconfig. 102s Preparing to unpack .../12-python3-iniconfig_1.1.1-2_all.deb ... 102s Unpacking python3-iniconfig (1.1.1-2) ... 102s Selecting previously unselected package python3-packaging. 102s Preparing to unpack .../13-python3-packaging_24.1-1_all.deb ... 102s Unpacking python3-packaging (24.1-1) ... 102s Selecting previously unselected package python3-pluggy. 102s Preparing to unpack .../14-python3-pluggy_1.5.0-1_all.deb ... 102s Unpacking python3-pluggy (1.5.0-1) ... 102s Selecting previously unselected package python3-pytest. 102s Preparing to unpack .../15-python3-pytest_7.4.4-1_all.deb ... 102s Unpacking python3-pytest (7.4.4-1) ... 102s Selecting previously unselected package autopkgtest-satdep. 102s Preparing to unpack .../16-1-autopkgtest-satdep.deb ... 102s Unpacking autopkgtest-satdep (0) ... 102s Setting up libhtscodecs2:amd64 (1.6.0-1build1) ... 102s Setting up python3-iniconfig (1.1.1-2) ... 102s Setting up python3-colorama (0.4.6-4) ... 102s Setting up python3-all (3.12.4-1) ... 102s Setting up python3-click (8.1.7-1) ... 103s Setting up libblas3:amd64 (3.12.0-3build1) ... 103s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 103s Setting up python3-packaging (24.1-1) ... 103s Setting up python3-humanfriendly (10.0-5) ... 103s Setting up libgfortran5:amd64 (14.1.0-4ubuntu2) ... 103s Setting up python3-pluggy (1.5.0-1) ... 103s Setting up libhts3t64:amd64 (1.20+ds-1) ... 103s Setting up python3-coloredlogs (15.0.1-1) ... 103s Setting up liblapack3:amd64 (3.12.0-3build1) ... 103s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 103s Setting up python3-pytest (7.4.4-1) ... 103s Setting up python3-numpy (1:1.26.4+ds-10) ... 105s Setting up python3-cyvcf2 (0.31.0-1) ... 105s Setting up autopkgtest-satdep (0) ... 105s Processing triggers for man-db (2.12.1-2) ... 106s Processing triggers for libc-bin (2.39-0ubuntu9) ... 121s (Reading database ... 75752 files and directories currently installed.) 121s Removing autopkgtest-satdep (0) ... 121s autopkgtest [21:00:31]: test run-unit-test: [----------------------- 121s Testing with python3.12 in /tmp/autopkgtest.CodsPW/autopkgtest_tmp: 121s ============================= test session starts ============================== 121s platform linux -- Python 3.12.4, pytest-7.4.4, pluggy-1.5.0 -- /usr/bin/python3.12 121s cachedir: .pytest_cache 121s rootdir: /tmp/autopkgtest.CodsPW/autopkgtest_tmp 122s collecting ... collected 112 items 122s 122s cyvcf2/tests/test_cli.py::test_version PASSED [ 0%] 122s cyvcf2/tests/test_hemi.py::test_hemi PASSED [ 1%] 122s cyvcf2/tests/test_reader.py::test_init PASSED [ 2%] 122s cyvcf2/tests/test_reader.py::test_type PASSED [ 3%] 122s cyvcf2/tests/test_reader.py::test_type_mnp PASSED [ 4%] 122s cyvcf2/tests/test_reader.py::test_format_str PASSED [ 5%] 122s cyvcf2/tests/test_reader.py::test_missing_samples PASSED [ 6%] 122s cyvcf2/tests/test_reader.py::test_ibd PASSED [ 7%] 122s cyvcf2/tests/test_reader.py::test_relatedness PASSED [ 8%] 122s cyvcf2/tests/test_reader.py::test_pls PASSED [ 8%] 122s cyvcf2/tests/test_reader.py::test_gt_alt_freqs PASSED [ 9%] 122s cyvcf2/tests/test_reader.py::test_str PASSED [ 10%] 122s cyvcf2/tests/test_reader.py::test_region PASSED [ 11%] 122s cyvcf2/tests/test_reader.py::test_empty_info PASSED [ 12%] 122s cyvcf2/tests/test_reader.py::test_phases PASSED [ 13%] 122s cyvcf2/tests/test_reader.py::test_bad_init PASSED [ 14%] 122s cyvcf2/tests/test_reader.py::test_samples PASSED [ 15%] 122s cyvcf2/tests/test_reader.py::test_next PASSED [ 16%] 122s cyvcf2/tests/test_reader.py::test_variant PASSED [ 16%] 122s cyvcf2/tests/test_reader.py::test_info_dict PASSED [ 17%] 122s cyvcf2/tests/test_reader.py::test_attrs PASSED [ 18%] 122s cyvcf2/tests/test_reader.py::test_empty PASSED [ 19%] 122s cyvcf2/tests/test_reader.py::test_format_field PASSED [ 20%] 122s cyvcf2/tests/test_reader.py::test_writer_from_string PASSED [ 21%] 122s cyvcf2/tests/test_reader.py::test_isa PASSED [ 22%] 122s cyvcf2/tests/test_reader.py::test_writer PASSED [ 23%] 122s cyvcf2/tests/test_reader.py::test_filters PASSED [ 24%] 122s cyvcf2/tests/test_reader.py::test_add_info_to_header PASSED [ 25%] 122s cyvcf2/tests/test_reader.py::test_read_flag PASSED [ 25%] 122s cyvcf2/tests/test_reader.py::test_add_flag PASSED [ 26%] 122s cyvcf2/tests/test_reader.py::test_issue198 PASSED [ 27%] 122s cyvcf2/tests/test_reader.py::test_constants PASSED [ 28%] 122s cyvcf2/tests/test_reader.py::test_add_filter_to_header PASSED [ 29%] 122s cyvcf2/tests/test_reader.py::test_seqnames PASSED [ 30%] 122s cyvcf2/tests/test_reader.py::test_different_index PASSED [ 31%] 122s cyvcf2/tests/test_reader.py::test_var_type PASSED [ 32%] 122s cyvcf2/tests/test_reader.py::test_header_info PASSED [ 33%] 122s cyvcf2/tests/test_reader.py::test_snpeff_header PASSED [ 33%] 122s cyvcf2/tests/test_reader.py::test_gt_types PASSED [ 34%] 122s cyvcf2/tests/test_reader.py::test_raw_header PASSED [ 35%] 122s cyvcf2/tests/test_reader.py::test_iterate PASSED [ 36%] 122s cyvcf2/tests/test_reader.py::test_empty_call PASSED [ 37%] 122s cyvcf2/tests/test_reader.py::test_haploid PASSED [ 38%] 122s cyvcf2/tests/test_reader.py::test_diploid PASSED [ 39%] 122s cyvcf2/tests/test_reader.py::test_format PASSED [ 40%] 123s cyvcf2/tests/test_reader.py::test_header_stuff PASSED [ 41%] 123s cyvcf2/tests/test_reader.py::test_bcf PASSED [ 41%] 123s cyvcf2/tests/test_reader.py::test_vcf_no_intervals PASSED [ 42%] 123s cyvcf2/tests/test_reader.py::test_issue12 PASSED [ 43%] 123s cyvcf2/tests/test_reader.py::test_gt_bases_nondiploid PASSED [ 44%] 123s cyvcf2/tests/test_reader.py::test_set_format_float PASSED [ 45%] 123s cyvcf2/tests/test_reader.py::test_set_format_int_a PASSED [ 46%] 123s cyvcf2/tests/test_reader.py::test_set_format_int_b PASSED [ 47%] 123s cyvcf2/tests/test_reader.py::test_set_format_int_c PASSED [ 48%] 123s cyvcf2/tests/test_reader.py::test_set_format_int3 PASSED [ 49%] 123s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_second_longer PASSED [ 50%] 123s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_first_longer PASSED [ 50%] 123s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_number3 PASSED [ 51%] 123s cyvcf2/tests/test_reader.py::test_set_gts PASSED [ 52%] 123s cyvcf2/tests/test_reader.py::test_info_del PASSED [ 53%] 123s cyvcf2/tests/test_reader.py::test_filter_id PASSED [ 54%] 123s cyvcf2/tests/test_reader.py::test_access_gts PASSED [ 55%] 123s cyvcf2/tests/test_reader.py::test_access_genotype PASSED [ 56%] 123s cyvcf2/tests/test_reader.py::test_access_genotype_array PASSED [ 57%] 123s cyvcf2/tests/test_reader.py::test_alt_homozygous_gt PASSED [ 58%] 123s cyvcf2/tests/test_reader.py::test_write_missing_contig PASSED [ 58%] 123s cyvcf2/tests/test_reader.py::test_set_samples PASSED [ 59%] 123s cyvcf2/tests/test_reader.py::test_hrec PASSED [ 60%] 123s cyvcf2/tests/test_reader.py::test_issue44 PASSED [ 61%] 123s cyvcf2/tests/test_reader.py::test_id_field_updates PASSED [ 62%] 123s cyvcf2/tests/test_reader.py::test_set_pos PASSED [ 63%] 123s cyvcf2/tests/test_reader.py::test_set_chrom_when_contig_not_in_header PASSED [ 64%] 123s cyvcf2/tests/test_reader.py::test_set_chrom_after_contig_is_added_to_header PASSED [ 65%] 123s cyvcf2/tests/test_reader.py::test_set_qual PASSED [ 66%] 123s cyvcf2/tests/test_reader.py::test_strict_gt_option_flag PASSED [ 66%] 123s cyvcf2/tests/test_reader.py::test_alt_repr PASSED [ 67%] 123s cyvcf2/tests/test_reader.py::test_closed_iter PASSED [ 68%] 123s cyvcf2/tests/test_reader.py::test_issue72 PASSED [ 69%] 123s cyvcf2/tests/test_reader.py::test_is_transition PASSED [ 70%] 123s cyvcf2/tests/test_reader.py::test_decomposed PASSED [ 71%] 123s cyvcf2/tests/test_reader.py::test_fd PASSED [ 72%] 123s cyvcf2/tests/test_reader.py::test_set_reference PASSED [ 73%] 123s cyvcf2/tests/test_reader.py::test_set_alternates PASSED [ 74%] 123s cyvcf2/tests/test_reader.py::test_no_seqlen PASSED [ 75%] 123s cyvcf2/tests/test_reader.py::test_set_unknown_format PASSED [ 75%] 123s cyvcf2/tests/test_reader.py::test_invalid_header PASSED [ 76%] 123s cyvcf2/tests/test_reader.py::test_genotypes PASSED [ 77%] 123s cyvcf2/tests/test_reader.py::test_issue236 PASSED [ 78%] 123s cyvcf2/tests/test_reader.py::test_issue17_no_gt PASSED [ 79%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed[test.vcf.gz] PASSED [ 80%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-multiallelic-homozygous-alt.vcf.gz] PASSED [ 81%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-strict-gt-option-flag.vcf.gz0] PASSED [ 82%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-strict-gt-option-flag.vcf.gz1] PASSED [ 83%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed[multi-contig.vcf.gz] PASSED [ 83%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed[multi-contig.bcf] PASSED [ 84%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed[test.snpeff.bcf] PASSED [ 85%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed_csi_tabix[csi] PASSED [ 86%] 123s cyvcf2/tests/test_reader.py::test_num_records_indexed_csi_tabix[tbi] PASSED [ 87%] 123s cyvcf2/tests/test_reader.py::test_num_records_set_index_multiple_times PASSED [ 88%] 123s cyvcf2/tests/test_reader.py::test_num_records_set_wrong_index PASSED [ 89%] 123s cyvcf2/tests/test_reader.py::test_num_records_no_index[test-genotypes.vcf] PASSED [ 90%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithVcfFname_returnsUncompressedVcf PASSED [ 91%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithBcfFname_returnsCompressedBcf PASSED [ 91%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithBcfFnameAndUncompressedMode_returnsUncompressedBcf PASSED [ 92%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithCompressedBcfFname_returnsCompressedBcf PASSED [ 93%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithCompressedVcfFname_returnsCompressedVcf PASSED [ 94%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithStdOut_returnsUncompressedVcf PASSED [ 95%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithNonVcfName_returnsUncompressedVcf PASSED [ 96%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithIntFname_returnsUncompressedVcf PASSED [ 97%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithHandle_returnsUncompressedVcf PASSED [ 98%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithPosixPath_returnsUncompressedVcf PASSED [ 99%] 123s cyvcf2/tests/test_writer.py::TestFileModeInference::test_explicitMode_doesNotInferFromFname PASSED [100%] 123s 123s ============================= 112 passed in 1.12s ============================== 123s autopkgtest [21:00:33]: test run-unit-test: -----------------------] 123s autopkgtest [21:00:33]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 123s run-unit-test PASS 125s autopkgtest [21:00:35]: test autodep8-python3: preparing testbed 242s autopkgtest [21:02:32]: testbed dpkg architecture: amd64 242s autopkgtest [21:02:32]: testbed apt version: 2.9.6 242s autopkgtest [21:02:32]: @@@@@@@@@@@@@@@@@@@@ test bed setup 243s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [126 kB] 243s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [4092 B] 243s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [401 kB] 243s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [63.6 kB] 243s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [8548 B] 243s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 Packages [121 kB] 243s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main i386 Packages [89.5 kB] 243s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 c-n-f Metadata [2116 B] 243s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/restricted i386 Packages [6244 B] 243s Get:10 http://ftpmaster.internal/ubuntu oracular-proposed/restricted amd64 Packages [34.9 kB] 243s Get:11 http://ftpmaster.internal/ubuntu oracular-proposed/restricted amd64 c-n-f Metadata [368 B] 243s Get:12 http://ftpmaster.internal/ubuntu oracular-proposed/universe i386 Packages [401 kB] 243s Get:13 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 Packages [574 kB] 243s Get:14 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 c-n-f Metadata [9900 B] 243s Get:15 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse i386 Packages [3052 B] 243s Get:16 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse amd64 Packages [8604 B] 243s Get:17 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse amd64 c-n-f Metadata [276 B] 245s Fetched 1855 kB in 0s (6178 kB/s) 245s Reading package lists... 246s Reading package lists... 246s Building dependency tree... 246s Reading state information... 247s Calculating upgrade... 247s The following packages will be upgraded: 247s libheif-plugin-aomdec libheif-plugin-aomenc libheif-plugin-libde265 libheif1 247s libpython3-stdlib python3 python3-gdbm python3-minimal 247s 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 247s Need to get 388 kB of archives. 247s After this operation, 30.7 kB of additional disk space will be used. 247s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 python3-minimal amd64 3.12.4-1 [27.1 kB] 247s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 python3 amd64 3.12.4-1 [24.0 kB] 247s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 libpython3-stdlib amd64 3.12.4-1 [9818 B] 247s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 python3-gdbm amd64 3.12.4-2 [18.2 kB] 247s Get:5 http://ftpmaster.internal/ubuntu oracular/main amd64 libheif-plugin-aomdec amd64 1.17.6-4build1 [10.3 kB] 247s Get:6 http://ftpmaster.internal/ubuntu oracular/main amd64 libheif-plugin-aomenc amd64 1.17.6-4build1 [14.8 kB] 247s Get:7 http://ftpmaster.internal/ubuntu oracular/main amd64 libheif1 amd64 1.17.6-4build1 [276 kB] 247s Get:8 http://ftpmaster.internal/ubuntu oracular/main amd64 libheif-plugin-libde265 amd64 1.17.6-4build1 [8328 B] 247s Fetched 388 kB in 0s (17.1 MB/s) 247s (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 ... 74487 files and directories currently installed.) 247s Preparing to unpack .../python3-minimal_3.12.4-1_amd64.deb ... 247s Unpacking python3-minimal (3.12.4-1) over (3.12.3-0ubuntu1) ... 247s Setting up python3-minimal (3.12.4-1) ... 248s (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 ... 74487 files and directories currently installed.) 248s Preparing to unpack .../0-python3_3.12.4-1_amd64.deb ... 248s Unpacking python3 (3.12.4-1) over (3.12.3-0ubuntu1) ... 248s Preparing to unpack .../1-libpython3-stdlib_3.12.4-1_amd64.deb ... 248s Unpacking libpython3-stdlib:amd64 (3.12.4-1) over (3.12.3-0ubuntu1) ... 248s Preparing to unpack .../2-python3-gdbm_3.12.4-2_amd64.deb ... 248s Unpacking python3-gdbm:amd64 (3.12.4-2) over (3.12.3-0ubuntu1) ... 248s Preparing to unpack .../3-libheif-plugin-aomdec_1.17.6-4build1_amd64.deb ... 248s Unpacking libheif-plugin-aomdec:amd64 (1.17.6-4build1) over (1.17.6-3build2) ... 248s Preparing to unpack .../4-libheif-plugin-aomenc_1.17.6-4build1_amd64.deb ... 248s Unpacking libheif-plugin-aomenc:amd64 (1.17.6-4build1) over (1.17.6-3build2) ... 248s Preparing to unpack .../5-libheif1_1.17.6-4build1_amd64.deb ... 248s Unpacking libheif1:amd64 (1.17.6-4build1) over (1.17.6-3build2) ... 248s Preparing to unpack .../6-libheif-plugin-libde265_1.17.6-4build1_amd64.deb ... 248s Unpacking libheif-plugin-libde265:amd64 (1.17.6-4build1) over (1.17.6-3build2) ... 248s Setting up libpython3-stdlib:amd64 (3.12.4-1) ... 248s Setting up python3 (3.12.4-1) ... 248s Setting up python3-gdbm:amd64 (3.12.4-2) ... 248s Setting up libheif-plugin-aomdec:amd64 (1.17.6-4build1) ... 248s Setting up libheif1:amd64 (1.17.6-4build1) ... 248s Setting up libheif-plugin-libde265:amd64 (1.17.6-4build1) ... 248s Setting up libheif-plugin-aomenc:amd64 (1.17.6-4build1) ... 248s Processing triggers for libc-bin (2.39-0ubuntu9) ... 248s Processing triggers for man-db (2.12.1-2) ... 249s Reading package lists... 249s Building dependency tree... 249s Reading state information... 250s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 250s Hit:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 250s Hit:2 http://ftpmaster.internal/ubuntu oracular InRelease 250s Hit:3 http://ftpmaster.internal/ubuntu oracular-updates InRelease 250s Hit:4 http://ftpmaster.internal/ubuntu oracular-security InRelease 251s Reading package lists... 251s Reading package lists... 252s Building dependency tree... 252s Reading state information... 252s Calculating upgrade... 252s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 252s Reading package lists... 252s Building dependency tree... 252s Reading state information... 253s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 254s Reading package lists... 254s Building dependency tree... 254s Reading state information... 255s Starting pkgProblemResolver with broken count: 0 255s Starting 2 pkgProblemResolver with broken count: 0 255s Done 255s The following additional packages will be installed: 255s libblas3 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 python3-all 255s python3-click python3-colorama python3-coloredlogs python3-cyvcf2 255s python3-humanfriendly python3-numpy 255s Suggested packages: 255s gcc gfortran python-numpy-doc python3-dev python3-pytest 255s The following NEW packages will be installed: 255s autopkgtest-satdep libblas3 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 255s python3-all python3-click python3-colorama python3-coloredlogs 255s python3-cyvcf2 python3-humanfriendly python3-numpy 255s 0 upgraded, 13 newly installed, 0 to remove and 0 not upgraded. 255s Need to get 9841 kB/9842 kB of archives. 255s After this operation, 42.5 MB of additional disk space will be used. 255s Get:1 /tmp/autopkgtest.CodsPW/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [716 B] 255s Get:2 http://ftpmaster.internal/ubuntu oracular/main amd64 libblas3 amd64 3.12.0-3build1 [238 kB] 255s Get:3 http://ftpmaster.internal/ubuntu oracular/main amd64 libgfortran5 amd64 14.1.0-4ubuntu2 [909 kB] 255s Get:4 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhtscodecs2 amd64 1.6.0-1build1 [98.8 kB] 255s Get:5 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhts3t64 amd64 1.20+ds-1 [439 kB] 255s Get:6 http://ftpmaster.internal/ubuntu oracular/main amd64 liblapack3 amd64 3.12.0-3build1 [2650 kB] 255s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 python3-all amd64 3.12.4-1 [882 B] 255s Get:8 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-colorama all 0.4.6-4 [32.1 kB] 255s Get:9 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-click all 8.1.7-1 [79.1 kB] 255s Get:10 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-humanfriendly all 10.0-5 [70.5 kB] 255s Get:11 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-coloredlogs all 15.0.1-1 [38.2 kB] 255s Get:12 http://ftpmaster.internal/ubuntu oracular/main amd64 python3-numpy amd64 1:1.26.4+ds-10 [4437 kB] 255s Get:13 http://ftpmaster.internal/ubuntu oracular/universe amd64 python3-cyvcf2 amd64 0.31.0-1 [848 kB] 255s Fetched 9841 kB in 0s (84.1 MB/s) 255s Selecting previously unselected package libblas3:amd64. 255s (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 ... 74490 files and directories currently installed.) 255s Preparing to unpack .../00-libblas3_3.12.0-3build1_amd64.deb ... 255s Unpacking libblas3:amd64 (3.12.0-3build1) ... 255s Selecting previously unselected package libgfortran5:amd64. 255s Preparing to unpack .../01-libgfortran5_14.1.0-4ubuntu2_amd64.deb ... 255s Unpacking libgfortran5:amd64 (14.1.0-4ubuntu2) ... 255s Selecting previously unselected package libhtscodecs2:amd64. 255s Preparing to unpack .../02-libhtscodecs2_1.6.0-1build1_amd64.deb ... 255s Unpacking libhtscodecs2:amd64 (1.6.0-1build1) ... 256s Selecting previously unselected package libhts3t64:amd64. 256s Preparing to unpack .../03-libhts3t64_1.20+ds-1_amd64.deb ... 256s Unpacking libhts3t64:amd64 (1.20+ds-1) ... 256s Selecting previously unselected package liblapack3:amd64. 256s Preparing to unpack .../04-liblapack3_3.12.0-3build1_amd64.deb ... 256s Unpacking liblapack3:amd64 (3.12.0-3build1) ... 256s Selecting previously unselected package python3-all. 256s Preparing to unpack .../05-python3-all_3.12.4-1_amd64.deb ... 256s Unpacking python3-all (3.12.4-1) ... 256s Selecting previously unselected package python3-colorama. 256s Preparing to unpack .../06-python3-colorama_0.4.6-4_all.deb ... 256s Unpacking python3-colorama (0.4.6-4) ... 256s Selecting previously unselected package python3-click. 256s Preparing to unpack .../07-python3-click_8.1.7-1_all.deb ... 256s Unpacking python3-click (8.1.7-1) ... 256s Selecting previously unselected package python3-humanfriendly. 256s Preparing to unpack .../08-python3-humanfriendly_10.0-5_all.deb ... 256s Unpacking python3-humanfriendly (10.0-5) ... 256s Selecting previously unselected package python3-coloredlogs. 256s Preparing to unpack .../09-python3-coloredlogs_15.0.1-1_all.deb ... 256s Unpacking python3-coloredlogs (15.0.1-1) ... 256s Selecting previously unselected package python3-numpy. 256s Preparing to unpack .../10-python3-numpy_1%3a1.26.4+ds-10_amd64.deb ... 256s Unpacking python3-numpy (1:1.26.4+ds-10) ... 256s Selecting previously unselected package python3-cyvcf2. 256s Preparing to unpack .../11-python3-cyvcf2_0.31.0-1_amd64.deb ... 256s Unpacking python3-cyvcf2 (0.31.0-1) ... 256s Selecting previously unselected package autopkgtest-satdep. 256s Preparing to unpack .../12-2-autopkgtest-satdep.deb ... 256s Unpacking autopkgtest-satdep (0) ... 256s Setting up libhtscodecs2:amd64 (1.6.0-1build1) ... 256s Setting up python3-colorama (0.4.6-4) ... 256s Setting up python3-all (3.12.4-1) ... 256s Setting up python3-click (8.1.7-1) ... 256s Setting up libblas3:amd64 (3.12.0-3build1) ... 256s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 256s Setting up python3-humanfriendly (10.0-5) ... 256s Setting up libgfortran5:amd64 (14.1.0-4ubuntu2) ... 256s Setting up libhts3t64:amd64 (1.20+ds-1) ... 256s Setting up python3-coloredlogs (15.0.1-1) ... 257s Setting up liblapack3:amd64 (3.12.0-3build1) ... 257s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 257s Setting up python3-numpy (1:1.26.4+ds-10) ... 258s Setting up python3-cyvcf2 (0.31.0-1) ... 258s Setting up autopkgtest-satdep (0) ... 258s Processing triggers for man-db (2.12.1-2) ... 259s Processing triggers for libc-bin (2.39-0ubuntu9) ... 286s (Reading database ... 75588 files and directories currently installed.) 286s Removing autopkgtest-satdep (0) ... 297s autopkgtest [21:03:27]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import cyvcf2; print(cyvcf2)" ; done 297s autopkgtest [21:03:27]: test autodep8-python3: [----------------------- 297s Testing with python3.12: 297s 298s autopkgtest [21:03:28]: test autodep8-python3: -----------------------] 343s autopkgtest [21:04:13]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 343s autodep8-python3 PASS (superficial) 343s autopkgtest [21:04:13]: @@@@@@@@@@@@@@@@@@@@ summary 343s run-unit-test PASS 343s autodep8-python3 PASS (superficial) 359s nova [W] Skipping flock for amd64 359s Creating nova instance adt-oracular-amd64-cyvcf2-20240720-205830-juju-7f2275-prod-proposed-migration-environment-2-c1f41897-6026-43ef-9347-2a5ee949c86c from image adt/ubuntu-oracular-amd64-server-20240720.img (UUID 7d1e67ab-b95e-41e3-9f93-a01c05dbb6a2)... 359s nova [W] Skipping flock for amd64 359s Creating nova instance adt-oracular-amd64-cyvcf2-20240720-205830-juju-7f2275-prod-proposed-migration-environment-2-c1f41897-6026-43ef-9347-2a5ee949c86c from image adt/ubuntu-oracular-amd64-server-20240720.img (UUID 7d1e67ab-b95e-41e3-9f93-a01c05dbb6a2)...