5s autopkgtest [14:31:12]: starting date and time: 2024-07-12 14:31:12+0000 5s autopkgtest [14:31:12]: git checkout: fd3bed09 nova: allow more retries for quota issues 5s autopkgtest [14:31:12]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.nuektq7p/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade cyvcf2 --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.39-3.1ubuntu3 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-9.secgroup --name adt-oracular-arm64-cyvcf2-20240712-143101-juju-7f2275-prod-proposed-migration-environment-2-464614e4-5ab9-41b6-8740-b5951636f0c8 --image adt/ubuntu-oracular-arm64-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/ 295s autopkgtest [14:36:02]: testbed dpkg architecture: arm64 305s autopkgtest [14:36:12]: testbed apt version: 2.9.6 305s autopkgtest [14:36:12]: @@@@@@@@@@@@@@@@@@@@ test bed setup 309s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [126 kB] 313s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [344 kB] 314s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [2576 B] 314s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [43.3 kB] 314s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [8548 B] 314s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 Packages [89.9 kB] 314s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 c-n-f Metadata [2104 B] 314s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/restricted arm64 Packages [43.9 kB] 314s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/restricted arm64 c-n-f Metadata [364 B] 314s Get:10 http://ftpmaster.internal/ubuntu oracular-proposed/universe arm64 Packages [359 kB] 314s Get:11 http://ftpmaster.internal/ubuntu oracular-proposed/universe arm64 c-n-f Metadata [7988 B] 314s Get:12 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse arm64 Packages [7596 B] 314s Get:13 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse arm64 c-n-f Metadata [276 B] 319s Fetched 1036 kB in 6s (184 kB/s) 319s Reading package lists... 332s Reading package lists... 333s Building dependency tree... 333s Reading state information... 333s Calculating upgrade... 334s The following packages will be upgraded: 334s libc-bin libc-dev-bin libc-devtools libc6 libc6-dev locales openssh-client 334s openssh-server openssh-sftp-server 334s 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 334s Need to get 10.6 MB of archives. 334s After this operation, 28.7 kB disk space will be freed. 334s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc-devtools arm64 2.39-3.1ubuntu3 [27.7 kB] 334s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc6-dev arm64 2.39-3.1ubuntu3 [1591 kB] 335s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc-dev-bin arm64 2.39-3.1ubuntu3 [19.7 kB] 335s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc6 arm64 2.39-3.1ubuntu3 [2770 kB] 335s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc-bin arm64 2.39-3.1ubuntu3 [579 kB] 335s Get:6 http://ftpmaster.internal/ubuntu oracular/main arm64 openssh-sftp-server arm64 1:9.6p1-3ubuntu17 [36.7 kB] 335s Get:7 http://ftpmaster.internal/ubuntu oracular/main arm64 openssh-server arm64 1:9.6p1-3ubuntu17 [502 kB] 335s Get:8 http://ftpmaster.internal/ubuntu oracular/main arm64 openssh-client arm64 1:9.6p1-3ubuntu17 [888 kB] 335s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 locales all 2.39-3.1ubuntu3 [4220 kB] 336s Preconfiguring packages ... 337s Fetched 10.6 MB in 1s (9400 kB/s) 337s (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 ... 78392 files and directories currently installed.) 337s Preparing to unpack .../libc-devtools_2.39-3.1ubuntu3_arm64.deb ... 337s Unpacking libc-devtools (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 338s Preparing to unpack .../libc6-dev_2.39-3.1ubuntu3_arm64.deb ... 338s Unpacking libc6-dev:arm64 (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 338s Preparing to unpack .../libc-dev-bin_2.39-3.1ubuntu3_arm64.deb ... 338s Unpacking libc-dev-bin (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 339s Preparing to unpack .../libc6_2.39-3.1ubuntu3_arm64.deb ... 339s Unpacking libc6:arm64 (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 339s Setting up libc6:arm64 (2.39-3.1ubuntu3) ... 339s Error: Could not restart systemd, systemd binary not working 340s (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 ... 78392 files and directories currently installed.) 340s Preparing to unpack .../libc-bin_2.39-3.1ubuntu3_arm64.deb ... 340s Unpacking libc-bin (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 340s Setting up libc-bin (2.39-3.1ubuntu3) ... 341s (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 ... 78392 files and directories currently installed.) 341s Preparing to unpack .../openssh-sftp-server_1%3a9.6p1-3ubuntu17_arm64.deb ... 341s Unpacking openssh-sftp-server (1:9.6p1-3ubuntu17) over (1:9.6p1-3ubuntu15) ... 341s Preparing to unpack .../openssh-server_1%3a9.6p1-3ubuntu17_arm64.deb ... 342s Unpacking openssh-server (1:9.6p1-3ubuntu17) over (1:9.6p1-3ubuntu15) ... 343s Preparing to unpack .../openssh-client_1%3a9.6p1-3ubuntu17_arm64.deb ... 343s Unpacking openssh-client (1:9.6p1-3ubuntu17) over (1:9.6p1-3ubuntu15) ... 344s Preparing to unpack .../locales_2.39-3.1ubuntu3_all.deb ... 344s Unpacking locales (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 345s Setting up openssh-client (1:9.6p1-3ubuntu17) ... 345s Setting up locales (2.39-3.1ubuntu3) ... 349s Generating locales (this might take a while)... 352s en_US.UTF-8... done 352s Generation complete. 352s Setting up libc-dev-bin (2.39-3.1ubuntu3) ... 352s Setting up libc-devtools (2.39-3.1ubuntu3) ... 352s Setting up openssh-sftp-server (1:9.6p1-3ubuntu17) ... 352s Setting up openssh-server (1:9.6p1-3ubuntu17) ... 352s Installing new version of config file /etc/pam.d/sshd ... 357s Setting up libc6-dev:arm64 (2.39-3.1ubuntu3) ... 357s Processing triggers for systemd (256-1ubuntu1) ... 358s Processing triggers for man-db (2.12.1-2) ... 359s Processing triggers for ufw (0.36.2-6) ... 360s Reading package lists... 360s Building dependency tree... 360s Reading state information... 361s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 365s Hit:1 http://ftpmaster.internal/ubuntu oracular InRelease 365s Hit:2 http://ftpmaster.internal/ubuntu oracular-updates InRelease 365s Hit:3 http://ftpmaster.internal/ubuntu oracular-security InRelease 365s Hit:4 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 376s Reading package lists... 377s Reading package lists... 377s Building dependency tree... 377s Reading state information... 378s Calculating upgrade... 378s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 378s Reading package lists... 378s Building dependency tree... 378s Reading state information... 379s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 380s autopkgtest [14:37:27]: rebooting testbed after setup commands that affected boot 421s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 475s autopkgtest [14:39:02]: testbed running kernel: Linux 6.8.0-31-generic #31-Ubuntu SMP PREEMPT_DYNAMIC Sat Apr 20 02:32:42 UTC 2024 494s autopkgtest [14:39:21]: @@@@@@@@@@@@@@@@@@@@ apt-source cyvcf2 515s Get:1 http://ftpmaster.internal/ubuntu oracular/universe cyvcf2 0.31.0-1 (dsc) [2486 B] 515s Get:2 http://ftpmaster.internal/ubuntu oracular/universe cyvcf2 0.31.0-1 (tar) [420 kB] 515s Get:3 http://ftpmaster.internal/ubuntu oracular/universe cyvcf2 0.31.0-1 (diff) [6696 B] 525s gpgv: Signature made Sat Jun 1 08:34:30 2024 UTC 525s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 525s gpgv: issuer "emollier@debian.org" 525s gpgv: Can't check signature: No public key 526s dpkg-source: warning: cannot verify inline signature for ./cyvcf2_0.31.0-1.dsc: no acceptable signature found 540s autopkgtest [14:40:07]: testing package cyvcf2 version 0.31.0-1 552s autopkgtest [14:40:19]: build not needed 557s autopkgtest [14:40:24]: test run-unit-test: preparing testbed 579s Reading package lists... 581s Building dependency tree... 581s Reading state information... 581s Starting pkgProblemResolver with broken count: 0 581s Starting 2 pkgProblemResolver with broken count: 0 581s Done 582s The following additional packages will be installed: 582s libblas3 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 python3-all 582s python3-click python3-colorama python3-coloredlogs python3-cyvcf2 582s python3-humanfriendly python3-iniconfig python3-numpy python3-packaging 582s python3-pluggy python3-pytest 582s Suggested packages: 582s gcc gfortran python-numpy-doc python3-dev 583s The following NEW packages will be installed: 583s autopkgtest-satdep libblas3 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 583s python3-all python3-click python3-colorama python3-coloredlogs 583s python3-cyvcf2 python3-humanfriendly python3-iniconfig python3-numpy 583s python3-packaging python3-pluggy python3-pytest 584s 0 upgraded, 17 newly installed, 0 to remove and 0 not upgraded. 584s Need to get 8325 kB/8325 kB of archives. 584s After this operation, 35.9 MB of additional disk space will be used. 584s Get:1 /tmp/autopkgtest.eaI4dv/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [724 B] 584s Get:2 http://ftpmaster.internal/ubuntu oracular/main arm64 libblas3 arm64 3.12.0-3build1 [143 kB] 585s Get:3 http://ftpmaster.internal/ubuntu oracular/main arm64 libgfortran5 arm64 14.1.0-1ubuntu1 [443 kB] 585s Get:4 http://ftpmaster.internal/ubuntu oracular/universe arm64 libhtscodecs2 arm64 1.6.0-1build1 [78.0 kB] 585s Get:5 http://ftpmaster.internal/ubuntu oracular/universe arm64 libhts3t64 arm64 1.20+ds-1 [431 kB] 585s Get:6 http://ftpmaster.internal/ubuntu oracular/main arm64 liblapack3 arm64 3.12.0-3build1 [2241 kB] 585s Get:7 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-all arm64 3.12.3-0ubuntu1 [888 B] 585s Get:8 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-colorama all 0.4.6-4 [32.1 kB] 585s Get:9 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-click all 8.1.7-1 [79.1 kB] 585s Get:10 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-humanfriendly all 10.0-5 [70.5 kB] 585s Get:11 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-coloredlogs all 15.0.1-1 [38.2 kB] 585s Get:12 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-numpy arm64 1:1.26.4+ds-10 [3565 kB] 585s Get:13 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-cyvcf2 arm64 0.31.0-1 [829 kB] 585s Get:14 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] 585s Get:15 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-packaging all 24.1-1 [41.4 kB] 585s Get:16 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB] 585s Get:17 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-pytest all 7.4.4-1 [305 kB] 592s Fetched 8325 kB in 2s (4920 kB/s) 594s Selecting previously unselected package libblas3:arm64. 594s (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 ... 78392 files and directories currently installed.) 594s Preparing to unpack .../00-libblas3_3.12.0-3build1_arm64.deb ... 595s Unpacking libblas3:arm64 (3.12.0-3build1) ... 595s Selecting previously unselected package libgfortran5:arm64. 595s Preparing to unpack .../01-libgfortran5_14.1.0-1ubuntu1_arm64.deb ... 595s Unpacking libgfortran5:arm64 (14.1.0-1ubuntu1) ... 595s Selecting previously unselected package libhtscodecs2:arm64. 596s Preparing to unpack .../02-libhtscodecs2_1.6.0-1build1_arm64.deb ... 596s Unpacking libhtscodecs2:arm64 (1.6.0-1build1) ... 596s Selecting previously unselected package libhts3t64:arm64. 597s Preparing to unpack .../03-libhts3t64_1.20+ds-1_arm64.deb ... 597s Unpacking libhts3t64:arm64 (1.20+ds-1) ... 597s Selecting previously unselected package liblapack3:arm64. 598s Preparing to unpack .../04-liblapack3_3.12.0-3build1_arm64.deb ... 598s Unpacking liblapack3:arm64 (3.12.0-3build1) ... 598s Selecting previously unselected package python3-all. 598s Preparing to unpack .../05-python3-all_3.12.3-0ubuntu1_arm64.deb ... 598s Unpacking python3-all (3.12.3-0ubuntu1) ... 598s Selecting previously unselected package python3-colorama. 599s Preparing to unpack .../06-python3-colorama_0.4.6-4_all.deb ... 599s Unpacking python3-colorama (0.4.6-4) ... 599s Selecting previously unselected package python3-click. 599s Preparing to unpack .../07-python3-click_8.1.7-1_all.deb ... 599s Unpacking python3-click (8.1.7-1) ... 599s Selecting previously unselected package python3-humanfriendly. 599s Preparing to unpack .../08-python3-humanfriendly_10.0-5_all.deb ... 599s Unpacking python3-humanfriendly (10.0-5) ... 599s Selecting previously unselected package python3-coloredlogs. 599s Preparing to unpack .../09-python3-coloredlogs_15.0.1-1_all.deb ... 599s Unpacking python3-coloredlogs (15.0.1-1) ... 599s Selecting previously unselected package python3-numpy. 600s Preparing to unpack .../10-python3-numpy_1%3a1.26.4+ds-10_arm64.deb ... 600s Unpacking python3-numpy (1:1.26.4+ds-10) ... 600s Selecting previously unselected package python3-cyvcf2. 600s Preparing to unpack .../11-python3-cyvcf2_0.31.0-1_arm64.deb ... 600s Unpacking python3-cyvcf2 (0.31.0-1) ... 600s Selecting previously unselected package python3-iniconfig. 600s Preparing to unpack .../12-python3-iniconfig_1.1.1-2_all.deb ... 600s Unpacking python3-iniconfig (1.1.1-2) ... 600s Selecting previously unselected package python3-packaging. 601s Preparing to unpack .../13-python3-packaging_24.1-1_all.deb ... 601s Unpacking python3-packaging (24.1-1) ... 601s Selecting previously unselected package python3-pluggy. 601s Preparing to unpack .../14-python3-pluggy_1.5.0-1_all.deb ... 601s Unpacking python3-pluggy (1.5.0-1) ... 601s Selecting previously unselected package python3-pytest. 601s Preparing to unpack .../15-python3-pytest_7.4.4-1_all.deb ... 601s Unpacking python3-pytest (7.4.4-1) ... 601s Selecting previously unselected package autopkgtest-satdep. 601s Preparing to unpack .../16-1-autopkgtest-satdep.deb ... 601s Unpacking autopkgtest-satdep (0) ... 601s Setting up libhtscodecs2:arm64 (1.6.0-1build1) ... 601s Setting up python3-iniconfig (1.1.1-2) ... 601s Setting up python3-colorama (0.4.6-4) ... 601s Setting up python3-all (3.12.3-0ubuntu1) ... 601s Setting up python3-click (8.1.7-1) ... 602s Setting up libblas3:arm64 (3.12.0-3build1) ... 602s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 602s Setting up python3-packaging (24.1-1) ... 602s Setting up python3-humanfriendly (10.0-5) ... 602s Setting up libgfortran5:arm64 (14.1.0-1ubuntu1) ... 602s Setting up python3-pluggy (1.5.0-1) ... 602s Setting up libhts3t64:arm64 (1.20+ds-1) ... 602s Setting up python3-coloredlogs (15.0.1-1) ... 602s Setting up liblapack3:arm64 (3.12.0-3build1) ... 602s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 602s Setting up python3-pytest (7.4.4-1) ... 603s Setting up python3-numpy (1:1.26.4+ds-10) ... 605s Setting up python3-cyvcf2 (0.31.0-1) ... 606s Setting up autopkgtest-satdep (0) ... 606s Processing triggers for man-db (2.12.1-2) ... 607s Processing triggers for libc-bin (2.39-3.1ubuntu3) ... 622s (Reading database ... 79654 files and directories currently installed.) 622s Removing autopkgtest-satdep (0) ... 624s autopkgtest [14:41:31]: test run-unit-test: [----------------------- 625s Testing with python3.12 in /tmp/autopkgtest.eaI4dv/autopkgtest_tmp: 625s ============================= test session starts ============================== 625s platform linux -- Python 3.12.4, pytest-7.4.4, pluggy-1.5.0 -- /usr/bin/python3.12 625s cachedir: .pytest_cache 625s rootdir: /tmp/autopkgtest.eaI4dv/autopkgtest_tmp 627s collecting ... collected 112 items 627s 627s cyvcf2/tests/test_cli.py::test_version PASSED [ 0%] 627s cyvcf2/tests/test_hemi.py::test_hemi PASSED [ 1%] 627s cyvcf2/tests/test_reader.py::test_init PASSED [ 2%] 627s cyvcf2/tests/test_reader.py::test_type PASSED [ 3%] 627s cyvcf2/tests/test_reader.py::test_type_mnp PASSED [ 4%] 627s cyvcf2/tests/test_reader.py::test_format_str PASSED [ 5%] 627s cyvcf2/tests/test_reader.py::test_missing_samples PASSED [ 6%] 627s cyvcf2/tests/test_reader.py::test_ibd PASSED [ 7%] 627s cyvcf2/tests/test_reader.py::test_relatedness PASSED [ 8%] 627s cyvcf2/tests/test_reader.py::test_pls PASSED [ 8%] 627s cyvcf2/tests/test_reader.py::test_gt_alt_freqs PASSED [ 9%] 627s cyvcf2/tests/test_reader.py::test_str PASSED [ 10%] 627s cyvcf2/tests/test_reader.py::test_region PASSED [ 11%] 627s cyvcf2/tests/test_reader.py::test_empty_info PASSED [ 12%] 627s cyvcf2/tests/test_reader.py::test_phases PASSED [ 13%] 627s cyvcf2/tests/test_reader.py::test_bad_init PASSED [ 14%] 627s cyvcf2/tests/test_reader.py::test_samples PASSED [ 15%] 627s cyvcf2/tests/test_reader.py::test_next PASSED [ 16%] 627s cyvcf2/tests/test_reader.py::test_variant PASSED [ 16%] 627s cyvcf2/tests/test_reader.py::test_info_dict PASSED [ 17%] 627s cyvcf2/tests/test_reader.py::test_attrs PASSED [ 18%] 627s cyvcf2/tests/test_reader.py::test_empty PASSED [ 19%] 627s cyvcf2/tests/test_reader.py::test_format_field PASSED [ 20%] 627s cyvcf2/tests/test_reader.py::test_writer_from_string PASSED [ 21%] 627s cyvcf2/tests/test_reader.py::test_isa PASSED [ 22%] 627s cyvcf2/tests/test_reader.py::test_writer PASSED [ 23%] 627s cyvcf2/tests/test_reader.py::test_filters PASSED [ 24%] 627s cyvcf2/tests/test_reader.py::test_add_info_to_header PASSED [ 25%] 627s cyvcf2/tests/test_reader.py::test_read_flag PASSED [ 25%] 627s cyvcf2/tests/test_reader.py::test_add_flag PASSED [ 26%] 627s cyvcf2/tests/test_reader.py::test_issue198 PASSED [ 27%] 627s cyvcf2/tests/test_reader.py::test_constants PASSED [ 28%] 627s cyvcf2/tests/test_reader.py::test_add_filter_to_header PASSED [ 29%] 627s cyvcf2/tests/test_reader.py::test_seqnames PASSED [ 30%] 627s cyvcf2/tests/test_reader.py::test_different_index PASSED [ 31%] 627s cyvcf2/tests/test_reader.py::test_var_type PASSED [ 32%] 627s cyvcf2/tests/test_reader.py::test_header_info PASSED [ 33%] 627s cyvcf2/tests/test_reader.py::test_snpeff_header PASSED [ 33%] 628s cyvcf2/tests/test_reader.py::test_gt_types PASSED [ 34%] 628s cyvcf2/tests/test_reader.py::test_raw_header PASSED [ 35%] 628s cyvcf2/tests/test_reader.py::test_iterate PASSED [ 36%] 628s cyvcf2/tests/test_reader.py::test_empty_call PASSED [ 37%] 628s cyvcf2/tests/test_reader.py::test_haploid PASSED [ 38%] 628s cyvcf2/tests/test_reader.py::test_diploid PASSED [ 39%] 628s cyvcf2/tests/test_reader.py::test_format PASSED [ 40%] 628s cyvcf2/tests/test_reader.py::test_header_stuff PASSED [ 41%] 628s cyvcf2/tests/test_reader.py::test_bcf PASSED [ 41%] 628s cyvcf2/tests/test_reader.py::test_vcf_no_intervals PASSED [ 42%] 628s cyvcf2/tests/test_reader.py::test_issue12 PASSED [ 43%] 628s cyvcf2/tests/test_reader.py::test_gt_bases_nondiploid PASSED [ 44%] 628s cyvcf2/tests/test_reader.py::test_set_format_float PASSED [ 45%] 628s cyvcf2/tests/test_reader.py::test_set_format_int_a PASSED [ 46%] 628s cyvcf2/tests/test_reader.py::test_set_format_int_b PASSED [ 47%] 628s cyvcf2/tests/test_reader.py::test_set_format_int_c PASSED [ 48%] 628s cyvcf2/tests/test_reader.py::test_set_format_int3 PASSED [ 49%] 628s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_second_longer PASSED [ 50%] 628s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_first_longer PASSED [ 50%] 628s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_number3 PASSED [ 51%] 628s cyvcf2/tests/test_reader.py::test_set_gts PASSED [ 52%] 628s cyvcf2/tests/test_reader.py::test_info_del PASSED [ 53%] 628s cyvcf2/tests/test_reader.py::test_filter_id PASSED [ 54%] 628s cyvcf2/tests/test_reader.py::test_access_gts PASSED [ 55%] 628s cyvcf2/tests/test_reader.py::test_access_genotype PASSED [ 56%] 628s cyvcf2/tests/test_reader.py::test_access_genotype_array PASSED [ 57%] 628s cyvcf2/tests/test_reader.py::test_alt_homozygous_gt PASSED [ 58%] 628s cyvcf2/tests/test_reader.py::test_write_missing_contig PASSED [ 58%] 628s cyvcf2/tests/test_reader.py::test_set_samples PASSED [ 59%] 628s cyvcf2/tests/test_reader.py::test_hrec PASSED [ 60%] 628s cyvcf2/tests/test_reader.py::test_issue44 PASSED [ 61%] 628s cyvcf2/tests/test_reader.py::test_id_field_updates PASSED [ 62%] 628s cyvcf2/tests/test_reader.py::test_set_pos PASSED [ 63%] 628s cyvcf2/tests/test_reader.py::test_set_chrom_when_contig_not_in_header PASSED [ 64%] 628s cyvcf2/tests/test_reader.py::test_set_chrom_after_contig_is_added_to_header PASSED [ 65%] 628s cyvcf2/tests/test_reader.py::test_set_qual PASSED [ 66%] 628s cyvcf2/tests/test_reader.py::test_strict_gt_option_flag PASSED [ 66%] 628s cyvcf2/tests/test_reader.py::test_alt_repr PASSED [ 67%] 628s cyvcf2/tests/test_reader.py::test_closed_iter PASSED [ 68%] 628s cyvcf2/tests/test_reader.py::test_issue72 PASSED [ 69%] 628s cyvcf2/tests/test_reader.py::test_is_transition PASSED [ 70%] 628s cyvcf2/tests/test_reader.py::test_decomposed PASSED [ 71%] 628s cyvcf2/tests/test_reader.py::test_fd PASSED [ 72%] 628s cyvcf2/tests/test_reader.py::test_set_reference PASSED [ 73%] 628s cyvcf2/tests/test_reader.py::test_set_alternates PASSED [ 74%] 628s cyvcf2/tests/test_reader.py::test_no_seqlen PASSED [ 75%] 628s cyvcf2/tests/test_reader.py::test_set_unknown_format PASSED [ 75%] 628s cyvcf2/tests/test_reader.py::test_invalid_header PASSED [ 76%] 628s cyvcf2/tests/test_reader.py::test_genotypes PASSED [ 77%] 628s cyvcf2/tests/test_reader.py::test_issue236 PASSED [ 78%] 628s cyvcf2/tests/test_reader.py::test_issue17_no_gt PASSED [ 79%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed[test.vcf.gz] PASSED [ 80%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-multiallelic-homozygous-alt.vcf.gz] PASSED [ 81%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-strict-gt-option-flag.vcf.gz0] PASSED [ 82%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-strict-gt-option-flag.vcf.gz1] PASSED [ 83%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed[multi-contig.vcf.gz] PASSED [ 83%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed[multi-contig.bcf] PASSED [ 84%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed[test.snpeff.bcf] PASSED [ 85%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed_csi_tabix[csi] PASSED [ 86%] 628s cyvcf2/tests/test_reader.py::test_num_records_indexed_csi_tabix[tbi] PASSED [ 87%] 628s cyvcf2/tests/test_reader.py::test_num_records_set_index_multiple_times PASSED [ 88%] 628s cyvcf2/tests/test_reader.py::test_num_records_set_wrong_index PASSED [ 89%] 628s cyvcf2/tests/test_reader.py::test_num_records_no_index[test-genotypes.vcf] PASSED [ 90%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithVcfFname_returnsUncompressedVcf PASSED [ 91%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithBcfFname_returnsCompressedBcf PASSED [ 91%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithBcfFnameAndUncompressedMode_returnsUncompressedBcf PASSED [ 92%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithCompressedBcfFname_returnsCompressedBcf PASSED [ 93%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithCompressedVcfFname_returnsCompressedVcf PASSED [ 94%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithStdOut_returnsUncompressedVcf PASSED [ 95%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithNonVcfName_returnsUncompressedVcf PASSED [ 96%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithIntFname_returnsUncompressedVcf PASSED [ 97%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithHandle_returnsUncompressedVcf PASSED [ 98%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithPosixPath_returnsUncompressedVcf PASSED [ 99%] 628s cyvcf2/tests/test_writer.py::TestFileModeInference::test_explicitMode_doesNotInferFromFname PASSED [100%] 628s 628s ============================= 112 passed in 2.71s ============================== 628s autopkgtest [14:41:35]: test run-unit-test: -----------------------] 642s run-unit-test PASS 642s autopkgtest [14:41:48]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 643s autopkgtest [14:41:50]: test autodep8-python3: preparing testbed 779s autopkgtest [14:44:06]: testbed dpkg architecture: arm64 779s autopkgtest [14:44:06]: testbed apt version: 2.9.6 779s autopkgtest [14:44:06]: @@@@@@@@@@@@@@@@@@@@ test bed setup 780s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [126 kB] 780s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [344 kB] 780s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [2576 B] 780s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [43.3 kB] 780s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [8548 B] 780s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 Packages [89.9 kB] 780s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 c-n-f Metadata [2104 B] 780s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/restricted arm64 Packages [43.9 kB] 780s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/restricted arm64 c-n-f Metadata [364 B] 780s Get:10 http://ftpmaster.internal/ubuntu oracular-proposed/universe arm64 Packages [359 kB] 781s Get:11 http://ftpmaster.internal/ubuntu oracular-proposed/universe arm64 c-n-f Metadata [7988 B] 781s Get:12 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse arm64 Packages [7596 B] 781s Get:13 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse arm64 c-n-f Metadata [276 B] 783s Fetched 1036 kB in 1s (1288 kB/s) 783s Reading package lists... 801s Reading package lists... 801s Building dependency tree... 801s Reading state information... 802s Calculating upgrade... 802s The following packages will be upgraded: 802s libc-bin libc-dev-bin libc-devtools libc6 libc6-dev locales openssh-client 802s openssh-server openssh-sftp-server 802s 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 802s Need to get 10.6 MB of archives. 802s After this operation, 28.7 kB disk space will be freed. 802s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc-devtools arm64 2.39-3.1ubuntu3 [27.7 kB] 802s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc6-dev arm64 2.39-3.1ubuntu3 [1591 kB] 803s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc-dev-bin arm64 2.39-3.1ubuntu3 [19.7 kB] 803s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc6 arm64 2.39-3.1ubuntu3 [2770 kB] 803s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 libc-bin arm64 2.39-3.1ubuntu3 [579 kB] 803s Get:6 http://ftpmaster.internal/ubuntu oracular/main arm64 openssh-sftp-server arm64 1:9.6p1-3ubuntu17 [36.7 kB] 803s Get:7 http://ftpmaster.internal/ubuntu oracular/main arm64 openssh-server arm64 1:9.6p1-3ubuntu17 [502 kB] 803s Get:8 http://ftpmaster.internal/ubuntu oracular/main arm64 openssh-client arm64 1:9.6p1-3ubuntu17 [888 kB] 803s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/main arm64 locales all 2.39-3.1ubuntu3 [4220 kB] 804s Preconfiguring packages ... 804s Fetched 10.6 MB in 1s (11.3 MB/s) 804s (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 ... 78392 files and directories currently installed.) 804s Preparing to unpack .../libc-devtools_2.39-3.1ubuntu3_arm64.deb ... 804s Unpacking libc-devtools (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 804s Preparing to unpack .../libc6-dev_2.39-3.1ubuntu3_arm64.deb ... 804s Unpacking libc6-dev:arm64 (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 804s Preparing to unpack .../libc-dev-bin_2.39-3.1ubuntu3_arm64.deb ... 804s Unpacking libc-dev-bin (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 804s Preparing to unpack .../libc6_2.39-3.1ubuntu3_arm64.deb ... 805s Unpacking libc6:arm64 (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 805s Setting up libc6:arm64 (2.39-3.1ubuntu3) ... 805s Error: Could not restart systemd, systemd binary not working 805s (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 ... 78392 files and directories currently installed.) 805s Preparing to unpack .../libc-bin_2.39-3.1ubuntu3_arm64.deb ... 805s Unpacking libc-bin (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 805s Setting up libc-bin (2.39-3.1ubuntu3) ... 805s (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 ... 78392 files and directories currently installed.) 805s Preparing to unpack .../openssh-sftp-server_1%3a9.6p1-3ubuntu17_arm64.deb ... 805s Unpacking openssh-sftp-server (1:9.6p1-3ubuntu17) over (1:9.6p1-3ubuntu15) ... 805s Preparing to unpack .../openssh-server_1%3a9.6p1-3ubuntu17_arm64.deb ... 805s Unpacking openssh-server (1:9.6p1-3ubuntu17) over (1:9.6p1-3ubuntu15) ... 806s Preparing to unpack .../openssh-client_1%3a9.6p1-3ubuntu17_arm64.deb ... 806s Unpacking openssh-client (1:9.6p1-3ubuntu17) over (1:9.6p1-3ubuntu15) ... 806s Preparing to unpack .../locales_2.39-3.1ubuntu3_all.deb ... 806s Unpacking locales (2.39-3.1ubuntu3) over (2.39-0ubuntu9) ... 806s Setting up openssh-client (1:9.6p1-3ubuntu17) ... 806s Setting up locales (2.39-3.1ubuntu3) ... 807s Generating locales (this might take a while)... 809s en_US.UTF-8... done 809s Generation complete. 809s Setting up libc-dev-bin (2.39-3.1ubuntu3) ... 809s Setting up libc-devtools (2.39-3.1ubuntu3) ... 809s Setting up openssh-sftp-server (1:9.6p1-3ubuntu17) ... 809s Setting up openssh-server (1:9.6p1-3ubuntu17) ... 809s Installing new version of config file /etc/pam.d/sshd ... 811s Setting up libc6-dev:arm64 (2.39-3.1ubuntu3) ... 811s Processing triggers for systemd (256-1ubuntu1) ... 812s Processing triggers for man-db (2.12.1-2) ... 813s Processing triggers for ufw (0.36.2-6) ... 814s Reading package lists... 814s Building dependency tree... 814s Reading state information... 815s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 816s Hit:1 http://ftpmaster.internal/ubuntu oracular InRelease 816s Hit:2 http://ftpmaster.internal/ubuntu oracular-updates InRelease 817s Hit:3 http://ftpmaster.internal/ubuntu oracular-security InRelease 817s Hit:4 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 820s Reading package lists... 820s Reading package lists... 820s Building dependency tree... 820s Reading state information... 821s Calculating upgrade... 821s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 821s Reading package lists... 822s Building dependency tree... 822s Reading state information... 822s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 822s autopkgtest [14:44:49]: rebooting testbed after setup commands that affected boot 833s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 910s Reading package lists... 910s Building dependency tree... 910s Reading state information... 910s Starting pkgProblemResolver with broken count: 0 910s Starting 2 pkgProblemResolver with broken count: 0 910s Done 911s The following additional packages will be installed: 911s libblas3 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 python3-all 911s python3-click python3-colorama python3-coloredlogs python3-cyvcf2 911s python3-humanfriendly python3-numpy 911s Suggested packages: 911s gcc gfortran python-numpy-doc python3-dev python3-pytest 911s The following NEW packages will be installed: 911s autopkgtest-satdep libblas3 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 911s python3-all python3-click python3-colorama python3-coloredlogs 911s python3-cyvcf2 python3-humanfriendly python3-numpy 911s 0 upgraded, 13 newly installed, 0 to remove and 0 not upgraded. 911s Need to get 7951 kB/7952 kB of archives. 911s After this operation, 34.3 MB of additional disk space will be used. 911s Get:1 /tmp/autopkgtest.eaI4dv/2-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [712 B] 911s Get:2 http://ftpmaster.internal/ubuntu oracular/main arm64 libblas3 arm64 3.12.0-3build1 [143 kB] 912s Get:3 http://ftpmaster.internal/ubuntu oracular/main arm64 libgfortran5 arm64 14.1.0-1ubuntu1 [443 kB] 912s Get:4 http://ftpmaster.internal/ubuntu oracular/universe arm64 libhtscodecs2 arm64 1.6.0-1build1 [78.0 kB] 912s Get:5 http://ftpmaster.internal/ubuntu oracular/universe arm64 libhts3t64 arm64 1.20+ds-1 [431 kB] 912s Get:6 http://ftpmaster.internal/ubuntu oracular/main arm64 liblapack3 arm64 3.12.0-3build1 [2241 kB] 912s Get:7 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-all arm64 3.12.3-0ubuntu1 [888 B] 912s Get:8 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-colorama all 0.4.6-4 [32.1 kB] 912s Get:9 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-click all 8.1.7-1 [79.1 kB] 912s Get:10 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-humanfriendly all 10.0-5 [70.5 kB] 912s Get:11 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-coloredlogs all 15.0.1-1 [38.2 kB] 912s Get:12 http://ftpmaster.internal/ubuntu oracular/main arm64 python3-numpy arm64 1:1.26.4+ds-10 [3565 kB] 912s Get:13 http://ftpmaster.internal/ubuntu oracular/universe arm64 python3-cyvcf2 arm64 0.31.0-1 [829 kB] 913s Fetched 7951 kB in 1s (9156 kB/s) 913s Selecting previously unselected package libblas3:arm64. 913s (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 ... 78392 files and directories currently installed.) 913s Preparing to unpack .../00-libblas3_3.12.0-3build1_arm64.deb ... 913s Unpacking libblas3:arm64 (3.12.0-3build1) ... 913s Selecting previously unselected package libgfortran5:arm64. 913s Preparing to unpack .../01-libgfortran5_14.1.0-1ubuntu1_arm64.deb ... 913s Unpacking libgfortran5:arm64 (14.1.0-1ubuntu1) ... 913s Selecting previously unselected package libhtscodecs2:arm64. 913s Preparing to unpack .../02-libhtscodecs2_1.6.0-1build1_arm64.deb ... 913s Unpacking libhtscodecs2:arm64 (1.6.0-1build1) ... 913s Selecting previously unselected package libhts3t64:arm64. 913s Preparing to unpack .../03-libhts3t64_1.20+ds-1_arm64.deb ... 913s Unpacking libhts3t64:arm64 (1.20+ds-1) ... 913s Selecting previously unselected package liblapack3:arm64. 913s Preparing to unpack .../04-liblapack3_3.12.0-3build1_arm64.deb ... 913s Unpacking liblapack3:arm64 (3.12.0-3build1) ... 913s Selecting previously unselected package python3-all. 913s Preparing to unpack .../05-python3-all_3.12.3-0ubuntu1_arm64.deb ... 913s Unpacking python3-all (3.12.3-0ubuntu1) ... 913s Selecting previously unselected package python3-colorama. 913s Preparing to unpack .../06-python3-colorama_0.4.6-4_all.deb ... 913s Unpacking python3-colorama (0.4.6-4) ... 913s Selecting previously unselected package python3-click. 913s Preparing to unpack .../07-python3-click_8.1.7-1_all.deb ... 913s Unpacking python3-click (8.1.7-1) ... 913s Selecting previously unselected package python3-humanfriendly. 913s Preparing to unpack .../08-python3-humanfriendly_10.0-5_all.deb ... 913s Unpacking python3-humanfriendly (10.0-5) ... 913s Selecting previously unselected package python3-coloredlogs. 913s Preparing to unpack .../09-python3-coloredlogs_15.0.1-1_all.deb ... 913s Unpacking python3-coloredlogs (15.0.1-1) ... 913s Selecting previously unselected package python3-numpy. 913s Preparing to unpack .../10-python3-numpy_1%3a1.26.4+ds-10_arm64.deb ... 913s Unpacking python3-numpy (1:1.26.4+ds-10) ... 913s Selecting previously unselected package python3-cyvcf2. 913s Preparing to unpack .../11-python3-cyvcf2_0.31.0-1_arm64.deb ... 913s Unpacking python3-cyvcf2 (0.31.0-1) ... 913s Selecting previously unselected package autopkgtest-satdep. 913s Preparing to unpack .../12-2-autopkgtest-satdep.deb ... 913s Unpacking autopkgtest-satdep (0) ... 914s Setting up libhtscodecs2:arm64 (1.6.0-1build1) ... 914s Setting up python3-colorama (0.4.6-4) ... 914s Setting up python3-all (3.12.3-0ubuntu1) ... 914s Setting up python3-click (8.1.7-1) ... 914s Setting up libblas3:arm64 (3.12.0-3build1) ... 914s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 914s Setting up python3-humanfriendly (10.0-5) ... 914s Setting up libgfortran5:arm64 (14.1.0-1ubuntu1) ... 914s Setting up libhts3t64:arm64 (1.20+ds-1) ... 914s Setting up python3-coloredlogs (15.0.1-1) ... 914s Setting up liblapack3:arm64 (3.12.0-3build1) ... 914s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 914s Setting up python3-numpy (1:1.26.4+ds-10) ... 916s Setting up python3-cyvcf2 (0.31.0-1) ... 916s Setting up autopkgtest-satdep (0) ... 916s Processing triggers for man-db (2.12.1-2) ... 917s Processing triggers for libc-bin (2.39-3.1ubuntu3) ... 921s (Reading database ... 79490 files and directories currently installed.) 921s Removing autopkgtest-satdep (0) ... 926s autopkgtest [14:46:33]: 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 926s autopkgtest [14:46:33]: test autodep8-python3: [----------------------- 927s Testing with python3.12: 927s 927s autopkgtest [14:46:34]: test autodep8-python3: -----------------------] 932s autopkgtest [14:46:39]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 932s autodep8-python3 PASS (superficial) 932s autopkgtest [14:46:39]: @@@@@@@@@@@@@@@@@@@@ summary 932s run-unit-test PASS 932s autodep8-python3 PASS (superficial) 952s nova [W] Skipping flock in bos03-arm64 952s Creating nova instance adt-oracular-arm64-cyvcf2-20240712-143101-juju-7f2275-prod-proposed-migration-environment-2-464614e4-5ab9-41b6-8740-b5951636f0c8 from image adt/ubuntu-oracular-arm64-server-20240712.img (UUID a9c53646-2a41-49d7-a14b-d40262a2cb6c)... 952s nova [W] Skipping flock in bos03-arm64 952s Creating nova instance adt-oracular-arm64-cyvcf2-20240712-143101-juju-7f2275-prod-proposed-migration-environment-2-464614e4-5ab9-41b6-8740-b5951636f0c8 from image adt/ubuntu-oracular-arm64-server-20240712.img (UUID a9c53646-2a41-49d7-a14b-d40262a2cb6c)...