0s autopkgtest [11:02:25]: starting date and time: 2024-11-15 11:02:25+0000 0s autopkgtest [11:02:25]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [11:02:25]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.qefez4ky/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:numpy --apt-upgrade cyvcf2 --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=numpy/1:1.26.4+ds-11ubuntu1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-10.secgroup --name adt-plucky-amd64-cyvcf2-20241115-110224-juju-7f2275-prod-proposed-migration-environment-20-0d0a9fa3-4d59-4690-9f60-fca8ac5c8546 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-amd64 -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/ 41s autopkgtest [11:03:06]: testbed dpkg architecture: amd64 41s autopkgtest [11:03:06]: testbed apt version: 2.9.8 41s autopkgtest [11:03:06]: @@@@@@@@@@@@@@@@@@@@ test bed setup 42s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 42s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 43s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 43s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1056 kB] 43s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [94.5 kB] 43s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [176 kB] 43s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [109 kB] 43s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 43s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [297 kB] 43s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [833 kB] 43s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 43s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9416 B] 43s Fetched 2704 kB in 1s (3319 kB/s) 43s Reading package lists... 45s Reading package lists... 45s Building dependency tree... 45s Reading state information... 46s Calculating upgrade... 46s The following packages will be upgraded: 46s firmware-sof-signed grub-common grub-pc grub-pc-bin grub2-common libcap-ng0 46s libexpat1 lxd-installer man-db pastebinit python3-systemd xfsprogs 46s 12 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 46s Need to get 13.6 MB of archives. 46s After this operation, 477 kB of additional disk space will be used. 46s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 firmware-sof-signed all 2024.06-1ubuntu2 [7083 kB] 47s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 47s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1 amd64 2.6.4-1 [94.9 kB] 47s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 man-db amd64 2.13.0-1 [1352 kB] 47s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 grub2-common amd64 2.12-5ubuntu7 [672 kB] 47s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc amd64 2.12-5ubuntu7 [137 kB] 47s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc-bin amd64 2.12-5ubuntu7 [1127 kB] 47s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-common amd64 2.12-5ubuntu7 [2110 kB] 47s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 9 [5084 B] 47s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 47s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 47s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 xfsprogs amd64 6.8.0-2.2ubuntu2 [926 kB] 47s Preconfiguring packages ... 47s Fetched 13.6 MB in 1s (13.0 MB/s) 47s (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 ... 75542 files and directories currently installed.) 47s Preparing to unpack .../firmware-sof-signed_2024.06-1ubuntu2_all.deb ... 47s Unpacking firmware-sof-signed (2024.06-1ubuntu2) over (2024.06-1ubuntu1) ... 47s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 47s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 47s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 48s (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 ... 75568 files and directories currently installed.) 48s Preparing to unpack .../0-libexpat1_2.6.4-1_amd64.deb ... 48s Unpacking libexpat1:amd64 (2.6.4-1) over (2.6.2-2) ... 48s Preparing to unpack .../1-man-db_2.13.0-1_amd64.deb ... 48s Unpacking man-db (2.13.0-1) over (2.12.1-3) ... 48s Preparing to unpack .../2-grub2-common_2.12-5ubuntu7_amd64.deb ... 48s Unpacking grub2-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 48s Preparing to unpack .../3-grub-pc_2.12-5ubuntu7_amd64.deb ... 48s Unpacking grub-pc (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 48s Preparing to unpack .../4-grub-pc-bin_2.12-5ubuntu7_amd64.deb ... 48s Unpacking grub-pc-bin (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 48s Preparing to unpack .../5-grub-common_2.12-5ubuntu7_amd64.deb ... 48s Unpacking grub-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 48s Preparing to unpack .../6-lxd-installer_9_all.deb ... 48s Unpacking lxd-installer (9) over (8) ... 48s Preparing to unpack .../7-pastebinit_1.7.1-1_all.deb ... 48s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 48s Preparing to unpack .../8-python3-systemd_235-1build5_amd64.deb ... 48s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 48s Preparing to unpack .../9-xfsprogs_6.8.0-2.2ubuntu2_amd64.deb ... 48s Unpacking xfsprogs (6.8.0-2.2ubuntu2) over (6.8.0-2.2ubuntu1) ... 48s Setting up libexpat1:amd64 (2.6.4-1) ... 48s Setting up firmware-sof-signed (2024.06-1ubuntu2) ... 48s Setting up pastebinit (1.7.1-1) ... 48s Setting up man-db (2.13.0-1) ... 48s Updating database of manual pages ... 50s man-db.service is a disabled or a static unit not running, not starting it. 50s Setting up grub-common (2.12-5ubuntu7) ... 50s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 51s Setting up xfsprogs (6.8.0-2.2ubuntu2) ... 51s update-initramfs: deferring update (trigger activated) 51s Setting up lxd-installer (9) ... 51s Setting up python3-systemd (235-1build5) ... 52s Setting up grub2-common (2.12-5ubuntu7) ... 52s Setting up grub-pc-bin (2.12-5ubuntu7) ... 52s Setting up grub-pc (2.12-5ubuntu7) ... 52s Installing for i386-pc platform. 52s Installation finished. No error reported. 52s Sourcing file `/etc/default/grub' 52s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 52s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 52s Generating grub configuration file ... 52s Found linux image: /boot/vmlinuz-6.11.0-8-generic 52s Found initrd image: /boot/initrd.img-6.11.0-8-generic 53s Warning: os-prober will not be executed to detect other bootable partitions. 53s Systems on them will not be added to the GRUB boot configuration. 53s Check GRUB_DISABLE_OS_PROBER documentation entry. 53s Adding boot menu entry for UEFI Firmware Settings ... 53s done 53s Processing triggers for libc-bin (2.40-1ubuntu3) ... 53s Processing triggers for install-info (7.1.1-1) ... 53s Processing triggers for initramfs-tools (0.142ubuntu34) ... 53s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 53s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 60s Reading package lists... 61s Building dependency tree... 61s Reading state information... 61s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 61s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 61s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 61s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 61s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 62s Reading package lists... 62s Reading package lists... 62s Building dependency tree... 62s Reading state information... 62s Calculating upgrade... 63s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 63s Reading package lists... 63s Building dependency tree... 63s Reading state information... 63s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 63s autopkgtest [11:03:28]: rebooting testbed after setup commands that affected boot 80s autopkgtest [11:03:45]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 82s autopkgtest [11:03:47]: @@@@@@@@@@@@@@@@@@@@ apt-source cyvcf2 84s Get:1 http://ftpmaster.internal/ubuntu plucky/universe cyvcf2 0.31.1-2 (dsc) [2337 B] 84s Get:2 http://ftpmaster.internal/ubuntu plucky/universe cyvcf2 0.31.1-2 (tar) [420 kB] 84s Get:3 http://ftpmaster.internal/ubuntu plucky/universe cyvcf2 0.31.1-2 (diff) [6764 B] 84s gpgv: Signature made Wed Jul 31 09:42:06 2024 UTC 84s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 84s gpgv: Can't check signature: No public key 84s dpkg-source: warning: cannot verify inline signature for ./cyvcf2_0.31.1-2.dsc: no acceptable signature found 84s autopkgtest [11:03:49]: testing package cyvcf2 version 0.31.1-2 85s autopkgtest [11:03:50]: build not needed 85s autopkgtest [11:03:50]: test run-unit-test: preparing testbed 86s Reading package lists... 86s Building dependency tree... 86s Reading state information... 87s Starting pkgProblemResolver with broken count: 0 87s Starting 2 pkgProblemResolver with broken count: 0 87s Done 87s The following additional packages will be installed: 87s libblas3 libdeflate0 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 87s python3-all python3-click python3-colorama python3-coloredlogs 87s python3-cyvcf2 python3-humanfriendly python3-iniconfig python3-numpy 87s python3-packaging python3-pluggy python3-pytest 87s Suggested packages: 87s gcc gfortran python-numpy-doc python3-dev 87s The following NEW packages will be installed: 87s autopkgtest-satdep libblas3 libdeflate0 libgfortran5 libhts3t64 87s libhtscodecs2 liblapack3 python3-all python3-click python3-colorama 87s python3-coloredlogs python3-cyvcf2 python3-humanfriendly python3-iniconfig 87s python3-numpy python3-packaging python3-pluggy python3-pytest 87s 0 upgraded, 18 newly installed, 0 to remove and 0 not upgraded. 87s Need to get 11.2 MB/11.2 MB of archives. 87s After this operation, 60.3 MB of additional disk space will be used. 87s Get:1 /tmp/autopkgtest.wuvvOj/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [724 B] 87s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 88s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 88s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 88s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-1 [132 kB] 88s Get:6 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts3t64 amd64 1.20+ds-1 [439 kB] 88s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 88s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.12.6-0ubuntu1 [886 B] 88s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-colorama all 0.4.6-4 [32.1 kB] 88s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-click all 8.1.7-2 [79.5 kB] 88s Get:11 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-humanfriendly all 10.0-6 [70.8 kB] 88s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-coloredlogs all 15.0.1-1 [38.2 kB] 88s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-numpy amd64 1:1.26.4+ds-11ubuntu1 [5319 kB] 88s Get:14 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cyvcf2 amd64 0.31.1-2 [925 kB] 88s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 88s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 88s Get:17 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 88s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 88s Fetched 11.2 MB in 1s (10.9 MB/s) 88s Selecting previously unselected package libblas3:amd64. 89s (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 ... 75575 files and directories currently installed.) 89s Preparing to unpack .../00-libblas3_3.12.0-3build2_amd64.deb ... 89s Unpacking libblas3:amd64 (3.12.0-3build2) ... 89s Selecting previously unselected package libdeflate0:amd64. 89s Preparing to unpack .../01-libdeflate0_1.22-1_amd64.deb ... 89s Unpacking libdeflate0:amd64 (1.22-1) ... 89s Selecting previously unselected package libgfortran5:amd64. 89s Preparing to unpack .../02-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 89s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 89s Selecting previously unselected package libhtscodecs2:amd64. 89s Preparing to unpack .../03-libhtscodecs2_1.6.1-1_amd64.deb ... 89s Unpacking libhtscodecs2:amd64 (1.6.1-1) ... 89s Selecting previously unselected package libhts3t64:amd64. 89s Preparing to unpack .../04-libhts3t64_1.20+ds-1_amd64.deb ... 89s Unpacking libhts3t64:amd64 (1.20+ds-1) ... 89s Selecting previously unselected package liblapack3:amd64. 89s Preparing to unpack .../05-liblapack3_3.12.0-3build2_amd64.deb ... 89s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 89s Selecting previously unselected package python3-all. 89s Preparing to unpack .../06-python3-all_3.12.6-0ubuntu1_amd64.deb ... 89s Unpacking python3-all (3.12.6-0ubuntu1) ... 89s Selecting previously unselected package python3-colorama. 89s Preparing to unpack .../07-python3-colorama_0.4.6-4_all.deb ... 89s Unpacking python3-colorama (0.4.6-4) ... 89s Selecting previously unselected package python3-click. 89s Preparing to unpack .../08-python3-click_8.1.7-2_all.deb ... 89s Unpacking python3-click (8.1.7-2) ... 89s Selecting previously unselected package python3-humanfriendly. 89s Preparing to unpack .../09-python3-humanfriendly_10.0-6_all.deb ... 89s Unpacking python3-humanfriendly (10.0-6) ... 89s Selecting previously unselected package python3-coloredlogs. 89s Preparing to unpack .../10-python3-coloredlogs_15.0.1-1_all.deb ... 89s Unpacking python3-coloredlogs (15.0.1-1) ... 89s Selecting previously unselected package python3-numpy. 89s Preparing to unpack .../11-python3-numpy_1%3a1.26.4+ds-11ubuntu1_amd64.deb ... 89s Unpacking python3-numpy (1:1.26.4+ds-11ubuntu1) ... 89s Selecting previously unselected package python3-cyvcf2. 89s Preparing to unpack .../12-python3-cyvcf2_0.31.1-2_amd64.deb ... 89s Unpacking python3-cyvcf2 (0.31.1-2) ... 89s Selecting previously unselected package python3-iniconfig. 89s Preparing to unpack .../13-python3-iniconfig_1.1.1-2_all.deb ... 89s Unpacking python3-iniconfig (1.1.1-2) ... 89s Selecting previously unselected package python3-packaging. 89s Preparing to unpack .../14-python3-packaging_24.1-1_all.deb ... 89s Unpacking python3-packaging (24.1-1) ... 89s Selecting previously unselected package python3-pluggy. 89s Preparing to unpack .../15-python3-pluggy_1.5.0-1_all.deb ... 89s Unpacking python3-pluggy (1.5.0-1) ... 89s Selecting previously unselected package python3-pytest. 89s Preparing to unpack .../16-python3-pytest_8.3.3-1_all.deb ... 89s Unpacking python3-pytest (8.3.3-1) ... 89s Selecting previously unselected package autopkgtest-satdep. 89s Preparing to unpack .../17-1-autopkgtest-satdep.deb ... 89s Unpacking autopkgtest-satdep (0) ... 89s Setting up libhtscodecs2:amd64 (1.6.1-1) ... 89s Setting up python3-iniconfig (1.1.1-2) ... 89s Setting up python3-colorama (0.4.6-4) ... 89s Setting up libdeflate0:amd64 (1.22-1) ... 89s Setting up python3-all (3.12.6-0ubuntu1) ... 89s Setting up python3-click (8.1.7-2) ... 90s Setting up libblas3:amd64 (3.12.0-3build2) ... 90s 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 90s Setting up python3-packaging (24.1-1) ... 90s Setting up python3-humanfriendly (10.0-6) ... 90s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 90s Setting up python3-pluggy (1.5.0-1) ... 90s Setting up libhts3t64:amd64 (1.20+ds-1) ... 90s Setting up python3-coloredlogs (15.0.1-1) ... 90s Setting up liblapack3:amd64 (3.12.0-3build2) ... 90s 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 90s Setting up python3-pytest (8.3.3-1) ... 90s Setting up python3-numpy (1:1.26.4+ds-11ubuntu1) ... 92s Setting up python3-cyvcf2 (0.31.1-2) ... 92s Setting up autopkgtest-satdep (0) ... 92s Processing triggers for man-db (2.13.0-1) ... 93s Processing triggers for libc-bin (2.40-1ubuntu3) ... 95s (Reading database ... 76861 files and directories currently installed.) 95s Removing autopkgtest-satdep (0) ... 95s autopkgtest [11:04:00]: test run-unit-test: [----------------------- 96s Testing with python3.12 in /tmp/autopkgtest.wuvvOj/autopkgtest_tmp: 96s ============================= test session starts ============================== 96s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.12 96s cachedir: .pytest_cache 96s rootdir: /tmp/autopkgtest.wuvvOj/autopkgtest_tmp 96s plugins: typeguard-4.4.1 96s collecting ... collected 112 items 96s 96s cyvcf2/tests/test_cli.py::test_version PASSED [ 0%] 96s cyvcf2/tests/test_hemi.py::test_hemi PASSED [ 1%] 96s cyvcf2/tests/test_reader.py::test_init PASSED [ 2%] 96s cyvcf2/tests/test_reader.py::test_type PASSED [ 3%] 96s cyvcf2/tests/test_reader.py::test_type_mnp PASSED [ 4%] 96s cyvcf2/tests/test_reader.py::test_format_str PASSED [ 5%] 96s cyvcf2/tests/test_reader.py::test_missing_samples PASSED [ 6%] 96s cyvcf2/tests/test_reader.py::test_ibd PASSED [ 7%] 96s cyvcf2/tests/test_reader.py::test_relatedness PASSED [ 8%] 96s cyvcf2/tests/test_reader.py::test_pls PASSED [ 8%] 96s cyvcf2/tests/test_reader.py::test_gt_alt_freqs PASSED [ 9%] 96s cyvcf2/tests/test_reader.py::test_str PASSED [ 10%] 96s cyvcf2/tests/test_reader.py::test_region PASSED [ 11%] 96s cyvcf2/tests/test_reader.py::test_empty_info PASSED [ 12%] 96s cyvcf2/tests/test_reader.py::test_phases PASSED [ 13%] 96s cyvcf2/tests/test_reader.py::test_bad_init PASSED [ 14%] 96s cyvcf2/tests/test_reader.py::test_samples PASSED [ 15%] 96s cyvcf2/tests/test_reader.py::test_next PASSED [ 16%] 96s cyvcf2/tests/test_reader.py::test_variant PASSED [ 16%] 96s cyvcf2/tests/test_reader.py::test_info_dict PASSED [ 17%] 96s cyvcf2/tests/test_reader.py::test_attrs PASSED [ 18%] 96s cyvcf2/tests/test_reader.py::test_empty PASSED [ 19%] 96s cyvcf2/tests/test_reader.py::test_format_field PASSED [ 20%] 96s cyvcf2/tests/test_reader.py::test_writer_from_string PASSED [ 21%] 96s cyvcf2/tests/test_reader.py::test_isa PASSED [ 22%] 96s cyvcf2/tests/test_reader.py::test_writer PASSED [ 23%] 96s cyvcf2/tests/test_reader.py::test_filters PASSED [ 24%] 96s cyvcf2/tests/test_reader.py::test_add_info_to_header PASSED [ 25%] 96s cyvcf2/tests/test_reader.py::test_read_flag PASSED [ 25%] 96s cyvcf2/tests/test_reader.py::test_add_flag PASSED [ 26%] 96s cyvcf2/tests/test_reader.py::test_issue198 PASSED [ 27%] 96s cyvcf2/tests/test_reader.py::test_constants PASSED [ 28%] 96s cyvcf2/tests/test_reader.py::test_add_filter_to_header PASSED [ 29%] 96s cyvcf2/tests/test_reader.py::test_seqnames PASSED [ 30%] 96s cyvcf2/tests/test_reader.py::test_different_index PASSED [ 31%] 96s cyvcf2/tests/test_reader.py::test_var_type PASSED [ 32%] 96s cyvcf2/tests/test_reader.py::test_header_info PASSED [ 33%] 96s cyvcf2/tests/test_reader.py::test_snpeff_header PASSED [ 33%] 97s cyvcf2/tests/test_reader.py::test_gt_types PASSED [ 34%] 97s cyvcf2/tests/test_reader.py::test_raw_header PASSED [ 35%] 97s cyvcf2/tests/test_reader.py::test_iterate PASSED [ 36%] 97s cyvcf2/tests/test_reader.py::test_empty_call PASSED [ 37%] 97s cyvcf2/tests/test_reader.py::test_haploid PASSED [ 38%] 97s cyvcf2/tests/test_reader.py::test_diploid PASSED [ 39%] 97s cyvcf2/tests/test_reader.py::test_format PASSED [ 40%] 97s cyvcf2/tests/test_reader.py::test_header_stuff PASSED [ 41%] 97s cyvcf2/tests/test_reader.py::test_bcf PASSED [ 41%] 97s cyvcf2/tests/test_reader.py::test_vcf_no_intervals PASSED [ 42%] 97s cyvcf2/tests/test_reader.py::test_issue12 PASSED [ 43%] 97s cyvcf2/tests/test_reader.py::test_gt_bases_nondiploid PASSED [ 44%] 97s cyvcf2/tests/test_reader.py::test_set_format_float PASSED [ 45%] 97s cyvcf2/tests/test_reader.py::test_set_format_int_a PASSED [ 46%] 97s cyvcf2/tests/test_reader.py::test_set_format_int_b PASSED [ 47%] 97s cyvcf2/tests/test_reader.py::test_set_format_int_c PASSED [ 48%] 97s cyvcf2/tests/test_reader.py::test_set_format_int3 PASSED [ 49%] 97s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_second_longer PASSED [ 50%] 97s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_first_longer PASSED [ 50%] 97s cyvcf2/tests/test_reader.py::test_set_format_str_bytes_number3 PASSED [ 51%] 97s cyvcf2/tests/test_reader.py::test_set_gts PASSED [ 52%] 97s cyvcf2/tests/test_reader.py::test_info_del PASSED [ 53%] 97s cyvcf2/tests/test_reader.py::test_filter_id PASSED [ 54%] 97s cyvcf2/tests/test_reader.py::test_access_gts PASSED [ 55%] 97s cyvcf2/tests/test_reader.py::test_access_genotype PASSED [ 56%] 97s cyvcf2/tests/test_reader.py::test_access_genotype_array PASSED [ 57%] 97s cyvcf2/tests/test_reader.py::test_alt_homozygous_gt PASSED [ 58%] 97s cyvcf2/tests/test_reader.py::test_write_missing_contig PASSED [ 58%] 97s cyvcf2/tests/test_reader.py::test_set_samples PASSED [ 59%] 97s cyvcf2/tests/test_reader.py::test_hrec PASSED [ 60%] 97s cyvcf2/tests/test_reader.py::test_issue44 PASSED [ 61%] 97s cyvcf2/tests/test_reader.py::test_id_field_updates PASSED [ 62%] 97s cyvcf2/tests/test_reader.py::test_set_pos PASSED [ 63%] 97s cyvcf2/tests/test_reader.py::test_set_chrom_when_contig_not_in_header PASSED [ 64%] 97s cyvcf2/tests/test_reader.py::test_set_chrom_after_contig_is_added_to_header PASSED [ 65%] 97s cyvcf2/tests/test_reader.py::test_set_qual PASSED [ 66%] 97s cyvcf2/tests/test_reader.py::test_strict_gt_option_flag PASSED [ 66%] 97s cyvcf2/tests/test_reader.py::test_alt_repr PASSED [ 67%] 97s cyvcf2/tests/test_reader.py::test_closed_iter PASSED [ 68%] 97s cyvcf2/tests/test_reader.py::test_issue72 PASSED [ 69%] 97s cyvcf2/tests/test_reader.py::test_is_transition PASSED [ 70%] 97s cyvcf2/tests/test_reader.py::test_decomposed PASSED [ 71%] 97s cyvcf2/tests/test_reader.py::test_fd PASSED [ 72%] 97s cyvcf2/tests/test_reader.py::test_set_reference PASSED [ 73%] 97s cyvcf2/tests/test_reader.py::test_set_alternates PASSED [ 74%] 97s cyvcf2/tests/test_reader.py::test_no_seqlen PASSED [ 75%] 97s cyvcf2/tests/test_reader.py::test_set_unknown_format PASSED [ 75%] 97s cyvcf2/tests/test_reader.py::test_invalid_header PASSED [ 76%] 97s cyvcf2/tests/test_reader.py::test_genotypes PASSED [ 77%] 97s cyvcf2/tests/test_reader.py::test_issue236 PASSED [ 78%] 97s cyvcf2/tests/test_reader.py::test_issue17_no_gt PASSED [ 79%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed[test.vcf.gz] PASSED [ 80%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-multiallelic-homozygous-alt.vcf.gz] PASSED [ 81%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-strict-gt-option-flag.vcf.gz0] PASSED [ 82%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed[test-strict-gt-option-flag.vcf.gz1] PASSED [ 83%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed[multi-contig.vcf.gz] PASSED [ 83%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed[multi-contig.bcf] PASSED [ 84%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed[test.snpeff.bcf] PASSED [ 85%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed_csi_tabix[csi] PASSED [ 86%] 97s cyvcf2/tests/test_reader.py::test_num_records_indexed_csi_tabix[tbi] PASSED [ 87%] 97s cyvcf2/tests/test_reader.py::test_num_records_set_index_multiple_times PASSED [ 88%] 97s cyvcf2/tests/test_reader.py::test_num_records_set_wrong_index PASSED [ 89%] 97s cyvcf2/tests/test_reader.py::test_num_records_no_index[test-genotypes.vcf] PASSED [ 90%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithVcfFname_returnsUncompressedVcf PASSED [ 91%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithBcfFname_returnsCompressedBcf PASSED [ 91%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithBcfFnameAndUncompressedMode_returnsUncompressedBcf PASSED [ 92%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithCompressedBcfFname_returnsCompressedBcf PASSED [ 93%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithCompressedVcfFname_returnsCompressedVcf PASSED [ 94%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithStdOut_returnsUncompressedVcf PASSED [ 95%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithNonVcfName_returnsUncompressedVcf PASSED [ 96%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithIntFname_returnsUncompressedVcf PASSED [ 97%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithHandle_returnsUncompressedVcf PASSED [ 98%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_defaultModeWithPosixPath_returnsUncompressedVcf PASSED [ 99%] 97s cyvcf2/tests/test_writer.py::TestFileModeInference::test_explicitMode_doesNotInferFromFname PASSED [100%] 97s 97s ============================= 112 passed in 0.83s ============================== 97s autopkgtest [11:04:02]: test run-unit-test: -----------------------] 98s run-unit-test PASS 98s autopkgtest [11:04:03]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 98s autopkgtest [11:04:03]: test autodep8-python3: preparing testbed 150s autopkgtest [11:04:55]: testbed dpkg architecture: amd64 150s autopkgtest [11:04:55]: testbed apt version: 2.9.8 150s autopkgtest [11:04:55]: @@@@@@@@@@@@@@@@@@@@ test bed setup 151s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 151s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [94.5 kB] 151s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1056 kB] 151s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 151s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 151s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [109 kB] 151s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [176 kB] 151s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 151s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [297 kB] 151s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [833 kB] 151s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 151s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9416 B] 152s Fetched 2704 kB in 1s (3062 kB/s) 152s Reading package lists... 154s Reading package lists... 154s Building dependency tree... 154s Reading state information... 154s Calculating upgrade... 154s The following packages will be upgraded: 154s firmware-sof-signed grub-common grub-pc grub-pc-bin grub2-common libcap-ng0 154s libexpat1 lxd-installer man-db pastebinit python3-systemd xfsprogs 154s 12 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 154s Need to get 13.6 MB of archives. 154s After this operation, 477 kB of additional disk space will be used. 154s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 firmware-sof-signed all 2024.06-1ubuntu2 [7083 kB] 155s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 155s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1 amd64 2.6.4-1 [94.9 kB] 155s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 man-db amd64 2.13.0-1 [1352 kB] 155s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 grub2-common amd64 2.12-5ubuntu7 [672 kB] 155s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc amd64 2.12-5ubuntu7 [137 kB] 155s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-pc-bin amd64 2.12-5ubuntu7 [1127 kB] 155s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 grub-common amd64 2.12-5ubuntu7 [2110 kB] 155s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 9 [5084 B] 155s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 155s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 155s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 xfsprogs amd64 6.8.0-2.2ubuntu2 [926 kB] 156s Preconfiguring packages ... 156s Fetched 13.6 MB in 1s (10.8 MB/s) 156s (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 ... 75542 files and directories currently installed.) 156s Preparing to unpack .../firmware-sof-signed_2024.06-1ubuntu2_all.deb ... 156s Unpacking firmware-sof-signed (2024.06-1ubuntu2) over (2024.06-1ubuntu1) ... 156s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 156s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 156s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 156s (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 ... 75568 files and directories currently installed.) 156s Preparing to unpack .../0-libexpat1_2.6.4-1_amd64.deb ... 156s Unpacking libexpat1:amd64 (2.6.4-1) over (2.6.2-2) ... 156s Preparing to unpack .../1-man-db_2.13.0-1_amd64.deb ... 156s Unpacking man-db (2.13.0-1) over (2.12.1-3) ... 157s Preparing to unpack .../2-grub2-common_2.12-5ubuntu7_amd64.deb ... 157s Unpacking grub2-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 157s Preparing to unpack .../3-grub-pc_2.12-5ubuntu7_amd64.deb ... 157s Unpacking grub-pc (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 157s Preparing to unpack .../4-grub-pc-bin_2.12-5ubuntu7_amd64.deb ... 157s Unpacking grub-pc-bin (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 157s Preparing to unpack .../5-grub-common_2.12-5ubuntu7_amd64.deb ... 157s Unpacking grub-common (2.12-5ubuntu7) over (2.12-5ubuntu5.1) ... 157s Preparing to unpack .../6-lxd-installer_9_all.deb ... 157s Unpacking lxd-installer (9) over (8) ... 157s Preparing to unpack .../7-pastebinit_1.7.1-1_all.deb ... 157s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 157s Preparing to unpack .../8-python3-systemd_235-1build5_amd64.deb ... 157s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 157s Preparing to unpack .../9-xfsprogs_6.8.0-2.2ubuntu2_amd64.deb ... 157s Unpacking xfsprogs (6.8.0-2.2ubuntu2) over (6.8.0-2.2ubuntu1) ... 157s Setting up libexpat1:amd64 (2.6.4-1) ... 157s Setting up firmware-sof-signed (2024.06-1ubuntu2) ... 157s Setting up pastebinit (1.7.1-1) ... 157s Setting up man-db (2.13.0-1) ... 157s Updating database of manual pages ... 159s man-db.service is a disabled or a static unit not running, not starting it. 159s Setting up grub-common (2.12-5ubuntu7) ... 159s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 160s Setting up xfsprogs (6.8.0-2.2ubuntu2) ... 160s update-initramfs: deferring update (trigger activated) 160s Setting up lxd-installer (9) ... 160s Setting up python3-systemd (235-1build5) ... 161s Setting up grub2-common (2.12-5ubuntu7) ... 161s Setting up grub-pc-bin (2.12-5ubuntu7) ... 161s Setting up grub-pc (2.12-5ubuntu7) ... 161s Installing for i386-pc platform. 161s Installation finished. No error reported. 161s Sourcing file `/etc/default/grub' 161s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 161s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 161s Generating grub configuration file ... 161s Found linux image: /boot/vmlinuz-6.11.0-8-generic 161s Found initrd image: /boot/initrd.img-6.11.0-8-generic 162s Warning: os-prober will not be executed to detect other bootable partitions. 162s Systems on them will not be added to the GRUB boot configuration. 162s Check GRUB_DISABLE_OS_PROBER documentation entry. 162s Adding boot menu entry for UEFI Firmware Settings ... 162s done 162s Processing triggers for libc-bin (2.40-1ubuntu3) ... 162s Processing triggers for install-info (7.1.1-1) ... 162s Processing triggers for initramfs-tools (0.142ubuntu34) ... 162s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 162s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 170s Reading package lists... 170s Building dependency tree... 170s Reading state information... 170s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 170s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 170s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 170s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 170s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 171s Reading package lists... 171s Reading package lists... 171s Building dependency tree... 171s Reading state information... 172s Calculating upgrade... 172s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 172s Reading package lists... 172s Building dependency tree... 172s Reading state information... 172s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 172s autopkgtest [11:05:17]: rebooting testbed after setup commands that affected boot 192s Reading package lists... 192s Building dependency tree... 192s Reading state information... 193s Starting pkgProblemResolver with broken count: 0 193s Starting 2 pkgProblemResolver with broken count: 0 193s Done 193s The following additional packages will be installed: 193s libblas3 libdeflate0 libgfortran5 libhts3t64 libhtscodecs2 liblapack3 193s python3-all python3-click python3-colorama python3-coloredlogs 193s python3-cyvcf2 python3-humanfriendly python3-numpy 193s Suggested packages: 193s gcc gfortran python-numpy-doc python3-dev python3-pytest 193s The following NEW packages will be installed: 193s autopkgtest-satdep libblas3 libdeflate0 libgfortran5 libhts3t64 193s libhtscodecs2 liblapack3 python3-all python3-click python3-colorama 193s python3-coloredlogs python3-cyvcf2 python3-humanfriendly python3-numpy 193s 0 upgraded, 14 newly installed, 0 to remove and 0 not upgraded. 193s Need to get 10.9 MB/10.9 MB of archives. 193s After this operation, 58.7 MB of additional disk space will be used. 193s Get:1 /tmp/autopkgtest.wuvvOj/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [712 B] 193s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 194s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 194s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 194s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-1 [132 kB] 194s Get:6 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts3t64 amd64 1.20+ds-1 [439 kB] 194s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 194s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.12.6-0ubuntu1 [886 B] 194s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-colorama all 0.4.6-4 [32.1 kB] 194s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-click all 8.1.7-2 [79.5 kB] 194s Get:11 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-humanfriendly all 10.0-6 [70.8 kB] 194s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-coloredlogs all 15.0.1-1 [38.2 kB] 194s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-numpy amd64 1:1.26.4+ds-11ubuntu1 [5319 kB] 194s Get:14 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cyvcf2 amd64 0.31.1-2 [925 kB] 194s Fetched 10.9 MB in 1s (10.5 MB/s) 194s Selecting previously unselected package libblas3:amd64. 195s (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 ... 75575 files and directories currently installed.) 195s Preparing to unpack .../00-libblas3_3.12.0-3build2_amd64.deb ... 195s Unpacking libblas3:amd64 (3.12.0-3build2) ... 195s Selecting previously unselected package libdeflate0:amd64. 195s Preparing to unpack .../01-libdeflate0_1.22-1_amd64.deb ... 195s Unpacking libdeflate0:amd64 (1.22-1) ... 195s Selecting previously unselected package libgfortran5:amd64. 195s Preparing to unpack .../02-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 195s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 195s Selecting previously unselected package libhtscodecs2:amd64. 195s Preparing to unpack .../03-libhtscodecs2_1.6.1-1_amd64.deb ... 195s Unpacking libhtscodecs2:amd64 (1.6.1-1) ... 195s Selecting previously unselected package libhts3t64:amd64. 195s Preparing to unpack .../04-libhts3t64_1.20+ds-1_amd64.deb ... 195s Unpacking libhts3t64:amd64 (1.20+ds-1) ... 195s Selecting previously unselected package liblapack3:amd64. 195s Preparing to unpack .../05-liblapack3_3.12.0-3build2_amd64.deb ... 195s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 195s Selecting previously unselected package python3-all. 195s Preparing to unpack .../06-python3-all_3.12.6-0ubuntu1_amd64.deb ... 195s Unpacking python3-all (3.12.6-0ubuntu1) ... 195s Selecting previously unselected package python3-colorama. 195s Preparing to unpack .../07-python3-colorama_0.4.6-4_all.deb ... 195s Unpacking python3-colorama (0.4.6-4) ... 195s Selecting previously unselected package python3-click. 195s Preparing to unpack .../08-python3-click_8.1.7-2_all.deb ... 195s Unpacking python3-click (8.1.7-2) ... 195s Selecting previously unselected package python3-humanfriendly. 195s Preparing to unpack .../09-python3-humanfriendly_10.0-6_all.deb ... 195s Unpacking python3-humanfriendly (10.0-6) ... 195s Selecting previously unselected package python3-coloredlogs. 195s Preparing to unpack .../10-python3-coloredlogs_15.0.1-1_all.deb ... 195s Unpacking python3-coloredlogs (15.0.1-1) ... 195s Selecting previously unselected package python3-numpy. 195s Preparing to unpack .../11-python3-numpy_1%3a1.26.4+ds-11ubuntu1_amd64.deb ... 195s Unpacking python3-numpy (1:1.26.4+ds-11ubuntu1) ... 195s Selecting previously unselected package python3-cyvcf2. 195s Preparing to unpack .../12-python3-cyvcf2_0.31.1-2_amd64.deb ... 195s Unpacking python3-cyvcf2 (0.31.1-2) ... 195s Selecting previously unselected package autopkgtest-satdep. 195s Preparing to unpack .../13-2-autopkgtest-satdep.deb ... 195s Unpacking autopkgtest-satdep (0) ... 195s Setting up libhtscodecs2:amd64 (1.6.1-1) ... 195s Setting up python3-colorama (0.4.6-4) ... 195s Setting up libdeflate0:amd64 (1.22-1) ... 195s Setting up python3-all (3.12.6-0ubuntu1) ... 195s Setting up python3-click (8.1.7-2) ... 195s Setting up libblas3:amd64 (3.12.0-3build2) ... 195s 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 195s Setting up python3-humanfriendly (10.0-6) ... 195s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 195s Setting up libhts3t64:amd64 (1.20+ds-1) ... 195s Setting up python3-coloredlogs (15.0.1-1) ... 196s Setting up liblapack3:amd64 (3.12.0-3build2) ... 196s 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 196s Setting up python3-numpy (1:1.26.4+ds-11ubuntu1) ... 197s Setting up python3-cyvcf2 (0.31.1-2) ... 197s Setting up autopkgtest-satdep (0) ... 197s Processing triggers for man-db (2.13.0-1) ... 198s Processing triggers for libc-bin (2.40-1ubuntu3) ... 200s (Reading database ... 76697 files and directories currently installed.) 200s Removing autopkgtest-satdep (0) ... 201s autopkgtest [11:05:46]: 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 201s autopkgtest [11:05:46]: test autodep8-python3: [----------------------- 202s Testing with python3.12: 202s 202s autopkgtest [11:05:47]: test autodep8-python3: -----------------------] 202s autodep8-python3 PASS (superficial) 202s autopkgtest [11:05:47]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 203s autopkgtest [11:05:48]: @@@@@@@@@@@@@@@@@@@@ summary 203s run-unit-test PASS 203s autodep8-python3 PASS (superficial) 214s nova [W] Skipping flock for amd64 214s Creating nova instance adt-plucky-amd64-cyvcf2-20241115-110224-juju-7f2275-prod-proposed-migration-environment-20-0d0a9fa3-4d59-4690-9f60-fca8ac5c8546 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)... 214s nova [W] Skipping flock for amd64 214s Creating nova instance adt-plucky-amd64-cyvcf2-20241115-110224-juju-7f2275-prod-proposed-migration-environment-20-0d0a9fa3-4d59-4690-9f60-fca8ac5c8546 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)...