0s autopkgtest [09:26:20]: starting date and time: 2024-11-13 09:26:20+0000 0s autopkgtest [09:26:20]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [09:26:20]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.7jus7hru/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 python-pyfaidx --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-arm64-1.secgroup --name adt-plucky-arm64-python-pyfaidx-20241113-092619-juju-7f2275-prod-proposed-migration-environment-15-a26d5b78-d7fc-4c54-9b19-6ce28d9a9bd0 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --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/ 96s autopkgtest [09:27:56]: testbed dpkg architecture: arm64 97s autopkgtest [09:27:57]: testbed apt version: 2.9.8 97s autopkgtest [09:27:57]: @@@@@@@@@@@@@@@@@@@@ test bed setup 98s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 98s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 98s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 98s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 98s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 98s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [104 kB] 98s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB] 98s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [601 kB] 98s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [17.1 kB] 99s Fetched 1793 kB in 1s (1957 kB/s) 99s Reading package lists... 102s Reading package lists... 102s Building dependency tree... 102s Reading state information... 103s Calculating upgrade... 104s The following NEW packages will be installed: 104s python3.13-gdbm 104s The following packages will be upgraded: 104s libpython3-stdlib python3 python3-gdbm python3-minimal 104s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 104s Need to get 101 kB of archives. 104s After this operation, 141 kB of additional disk space will be used. 104s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-minimal arm64 3.12.7-1 [27.4 kB] 104s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3 arm64 3.12.7-1 [24.0 kB] 104s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-stdlib arm64 3.12.7-1 [10.0 kB] 104s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-gdbm arm64 3.13.0-2 [30.7 kB] 104s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-gdbm arm64 3.12.7-1 [8642 B] 105s Fetched 101 kB in 0s (277 kB/s) 105s (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 ... 79924 files and directories currently installed.) 105s Preparing to unpack .../python3-minimal_3.12.7-1_arm64.deb ... 105s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 106s Setting up python3-minimal (3.12.7-1) ... 106s (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 ... 79924 files and directories currently installed.) 106s Preparing to unpack .../python3_3.12.7-1_arm64.deb ... 106s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 106s Preparing to unpack .../libpython3-stdlib_3.12.7-1_arm64.deb ... 106s Unpacking libpython3-stdlib:arm64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 106s Selecting previously unselected package python3.13-gdbm. 106s Preparing to unpack .../python3.13-gdbm_3.13.0-2_arm64.deb ... 106s Unpacking python3.13-gdbm (3.13.0-2) ... 106s Preparing to unpack .../python3-gdbm_3.12.7-1_arm64.deb ... 106s Unpacking python3-gdbm:arm64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 106s Setting up python3.13-gdbm (3.13.0-2) ... 106s Setting up libpython3-stdlib:arm64 (3.12.7-1) ... 106s Setting up python3 (3.12.7-1) ... 107s Setting up python3-gdbm:arm64 (3.12.7-1) ... 107s Processing triggers for man-db (2.12.1-3) ... 108s Reading package lists... 108s Building dependency tree... 108s Reading state information... 109s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 110s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 110s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 110s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 110s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 111s Reading package lists... 111s Reading package lists... 112s Building dependency tree... 112s Reading state information... 113s Calculating upgrade... 115s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 115s Reading package lists... 115s Building dependency tree... 115s Reading state information... 117s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 120s autopkgtest [09:28:20]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024 120s autopkgtest [09:28:20]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pyfaidx 123s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (dsc) [2544 B] 123s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (tar) [96.5 kB] 123s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (diff) [7096 B] 123s gpgv: Signature made Wed Oct 16 19:20:44 2024 UTC 123s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 123s gpgv: issuer "emollier@debian.org" 123s gpgv: Can't check signature: No public key 123s dpkg-source: warning: cannot verify inline signature for ./python-pyfaidx_0.8.1.3-1.dsc: no acceptable signature found 123s autopkgtest [09:28:23]: testing package python-pyfaidx version 0.8.1.3-1 124s autopkgtest [09:28:24]: build not needed 128s autopkgtest [09:28:28]: test run-unit-test: preparing testbed 132s Reading package lists... 133s Building dependency tree... 133s Reading state information... 134s Starting pkgProblemResolver with broken count: 0 134s Starting 2 pkgProblemResolver with broken count: 0 134s Done 135s The following additional packages will be installed: 135s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 135s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libgfortran5 135s libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 libimagequant0 libjbig0 135s libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 liblerc4 libopenjp2-7 135s libpixman-1-0 libpython3.13-minimal libpython3.13-stdlib libraqm0 135s libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 135s libxcb-shm0 libxrender1 python-pyfaidx-examples python3-all 135s python3-biopython python3-cairo python3-freetype python3-importlib-metadata 135s python3-iniconfig python3-numpy python3-packaging python3-pil python3-pluggy 135s python3-pyfaidx python3-pytest python3-reportlab python3-rlpycairo 135s python3.13 python3.13-minimal sgml-base tabix w3c-sgml-lib x11-common 135s xfonts-encodings xfonts-utils xml-core 135s Suggested packages: 135s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 135s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 135s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 135s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 135s gcc gfortran python-numpy-doc python3-dev python-pil-doc pdf-viewer 135s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 135s python3.13-venv python3.13-doc binfmt-support sgml-base-doc debhelper 135s Recommended packages: 135s python-biopython-doc ncbi-blast+ python3-olefile fonts-dejavu-extra 135s The following NEW packages will be installed: 135s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 135s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 135s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 135s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 135s liblerc4 libopenjp2-7 libpixman-1-0 libpython3.13-minimal 135s libpython3.13-stdlib libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 135s libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 python-pyfaidx-examples 135s python3-all python3-biopython python3-cairo python3-freetype 135s python3-importlib-metadata python3-iniconfig python3-numpy python3-packaging 135s python3-pil python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 135s python3-rlpycairo python3.13 python3.13-minimal sgml-base tabix w3c-sgml-lib 135s x11-common xfonts-encodings xfonts-utils xml-core 136s 0 upgraded, 59 newly installed, 0 to remove and 0 not upgraded. 136s Need to get 33.0 MB/33.0 MB of archives. 136s After this operation, 110 MB of additional disk space will be used. 136s Get:1 /tmp/autopkgtest.KuQ3bx/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [748 B] 136s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-minimal arm64 3.13.0-2 [877 kB] 136s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-minimal arm64 3.13.0-2 [2100 kB] 137s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 sgml-base all 1.31 [11.4 kB] 137s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB] 137s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB] 137s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontenc1 arm64 1:1.1.8-1build1 [13.9 kB] 137s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 137s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 137s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 xfonts-utils arm64 1:7.7+7 [95.6 kB] 137s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-urw-base35 all 20200910-8 [11.0 MB] 138s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-1.1ubuntu2 [37.4 kB] 138s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB] 138s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-1.1ubuntu2 [142 kB] 138s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB] 138s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB] 138s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B] 138s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB] 138s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB] 138s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.22-1 [46.2 kB] 138s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-8ubuntu1 [438 kB] 139s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-8ubuntu1 [145 kB] 139s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB] 139s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.0.1-1 [487 kB] 139s Get:25 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhtscodecs2 arm64 1.6.1-1 [82.5 kB] 139s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libimagequant0 arm64 2.18.0-1build1 [37.1 kB] 139s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-2ubuntu2 [163 kB] 139s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B] 139s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB] 139s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 liblcms2-2 arm64 2.16-2 [170 kB] 139s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-4ubuntu2 [154 kB] 139s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-stdlib arm64 3.13.0-2 [2073 kB] 139s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libraqm0 arm64 0.10.1-1build1 [14.7 kB] 139s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [16.3 kB] 139s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB] 139s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.4.0-0.1 [192 kB] 139s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB] 139s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpdemux2 arm64 1.4.0-0.1 [12.3 kB] 139s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebpmux3 arm64 1.4.0-0.1 [25.1 kB] 139s Get:40 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-pyfaidx-examples all 0.8.1.3-1 [38.6 kB] 139s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13 arm64 3.13.0-2 [719 kB] 139s Get:42 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all arm64 3.12.7-1 [890 B] 139s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11build1 [3654 kB] 139s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 libopenjp2-7 arm64 2.5.0-2ubuntu1 [182 kB] 139s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-pil arm64 10.4.0-1ubuntu1 [456 kB] 139s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-cairo arm64 1.26.1-2 [121 kB] 139s Get:47 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-freetype all 2.5.1-1 [92.3 kB] 139s Get:48 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-rlpycairo all 0.3.0-3 [9130 B] 139s Get:49 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-reportlab all 4.2.5-1 [1107 kB] 139s Get:50 http://ftpmaster.internal/ubuntu plucky/main arm64 xml-core all 0.19 [20.3 kB] 139s Get:51 http://ftpmaster.internal/ubuntu plucky/universe arm64 w3c-sgml-lib all 1.3-3 [280 kB] 139s Get:52 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-biopython arm64 1.84+dfsg-4 [1689 kB] 139s Get:53 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 139s Get:54 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] 139s Get:55 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.1-1 [41.4 kB] 139s Get:56 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB] 139s Get:57 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 139s Get:58 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest all 8.3.3-1 [251 kB] 139s Get:59 http://ftpmaster.internal/ubuntu plucky/universe arm64 tabix arm64 1.20+ds-1 [515 kB] 140s Fetched 33.0 MB in 4s (8804 kB/s) 140s Selecting previously unselected package libpython3.13-minimal:arm64. 140s (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 ... 79931 files and directories currently installed.) 140s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_arm64.deb ... 140s Unpacking libpython3.13-minimal:arm64 (3.13.0-2) ... 140s Selecting previously unselected package python3.13-minimal. 140s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_arm64.deb ... 140s Unpacking python3.13-minimal (3.13.0-2) ... 140s Selecting previously unselected package sgml-base. 140s Preparing to unpack .../02-sgml-base_1.31_all.deb ... 140s Unpacking sgml-base (1.31) ... 140s Selecting previously unselected package fonts-dejavu-mono. 140s Preparing to unpack .../03-fonts-dejavu-mono_2.37-8_all.deb ... 140s Unpacking fonts-dejavu-mono (2.37-8) ... 140s Selecting previously unselected package fonts-dejavu-core. 140s Preparing to unpack .../04-fonts-dejavu-core_2.37-8_all.deb ... 140s Unpacking fonts-dejavu-core (2.37-8) ... 140s Selecting previously unselected package libfontenc1:arm64. 140s Preparing to unpack .../05-libfontenc1_1%3a1.1.8-1build1_arm64.deb ... 140s Unpacking libfontenc1:arm64 (1:1.1.8-1build1) ... 141s Selecting previously unselected package x11-common. 141s Preparing to unpack .../06-x11-common_1%3a7.7+23ubuntu3_all.deb ... 141s Unpacking x11-common (1:7.7+23ubuntu3) ... 141s Selecting previously unselected package xfonts-encodings. 141s Preparing to unpack .../07-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 141s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 141s Selecting previously unselected package xfonts-utils. 141s Preparing to unpack .../08-xfonts-utils_1%3a7.7+7_arm64.deb ... 141s Unpacking xfonts-utils (1:7.7+7) ... 141s Selecting previously unselected package fonts-urw-base35. 141s Preparing to unpack .../09-fonts-urw-base35_20200910-8_all.deb ... 141s Unpacking fonts-urw-base35 (20200910-8) ... 141s Selecting previously unselected package fontconfig-config. 141s Preparing to unpack .../10-fontconfig-config_2.15.0-1.1ubuntu2_arm64.deb ... 141s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 141s Selecting previously unselected package libblas3:arm64. 141s Preparing to unpack .../11-libblas3_3.12.0-3build2_arm64.deb ... 141s Unpacking libblas3:arm64 (3.12.0-3build2) ... 142s Selecting previously unselected package libfontconfig1:arm64. 142s Preparing to unpack .../12-libfontconfig1_2.15.0-1.1ubuntu2_arm64.deb ... 142s Unpacking libfontconfig1:arm64 (2.15.0-1.1ubuntu2) ... 142s Selecting previously unselected package libpixman-1-0:arm64. 142s Preparing to unpack .../13-libpixman-1-0_0.44.0-3_arm64.deb ... 142s Unpacking libpixman-1-0:arm64 (0.44.0-3) ... 142s Selecting previously unselected package libxcb-render0:arm64. 143s Preparing to unpack .../14-libxcb-render0_1.17.0-2_arm64.deb ... 143s Unpacking libxcb-render0:arm64 (1.17.0-2) ... 143s Selecting previously unselected package libxcb-shm0:arm64. 143s Preparing to unpack .../15-libxcb-shm0_1.17.0-2_arm64.deb ... 143s Unpacking libxcb-shm0:arm64 (1.17.0-2) ... 143s Selecting previously unselected package libxrender1:arm64. 143s Preparing to unpack .../16-libxrender1_1%3a0.9.10-1.1build1_arm64.deb ... 143s Unpacking libxrender1:arm64 (1:0.9.10-1.1build1) ... 143s Selecting previously unselected package libcairo2:arm64. 143s Preparing to unpack .../17-libcairo2_1.18.2-2_arm64.deb ... 143s Unpacking libcairo2:arm64 (1.18.2-2) ... 143s Selecting previously unselected package libdeflate0:arm64. 143s Preparing to unpack .../18-libdeflate0_1.22-1_arm64.deb ... 143s Unpacking libdeflate0:arm64 (1.22-1) ... 143s Selecting previously unselected package libgfortran5:arm64. 143s Preparing to unpack .../19-libgfortran5_14.2.0-8ubuntu1_arm64.deb ... 143s Unpacking libgfortran5:arm64 (14.2.0-8ubuntu1) ... 143s Selecting previously unselected package libgomp1:arm64. 143s Preparing to unpack .../20-libgomp1_14.2.0-8ubuntu1_arm64.deb ... 143s Unpacking libgomp1:arm64 (14.2.0-8ubuntu1) ... 143s Selecting previously unselected package libgraphite2-3:arm64. 143s Preparing to unpack .../21-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ... 143s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 143s Selecting previously unselected package libharfbuzz0b:arm64. 143s Preparing to unpack .../22-libharfbuzz0b_10.0.1-1_arm64.deb ... 143s Unpacking libharfbuzz0b:arm64 (10.0.1-1) ... 143s Selecting previously unselected package libhtscodecs2:arm64. 143s Preparing to unpack .../23-libhtscodecs2_1.6.1-1_arm64.deb ... 143s Unpacking libhtscodecs2:arm64 (1.6.1-1) ... 143s Selecting previously unselected package libimagequant0:arm64. 143s Preparing to unpack .../24-libimagequant0_2.18.0-1build1_arm64.deb ... 143s Unpacking libimagequant0:arm64 (2.18.0-1build1) ... 143s Selecting previously unselected package libjpeg-turbo8:arm64. 143s Preparing to unpack .../25-libjpeg-turbo8_2.1.5-2ubuntu2_arm64.deb ... 143s Unpacking libjpeg-turbo8:arm64 (2.1.5-2ubuntu2) ... 143s Selecting previously unselected package libjpeg8:arm64. 143s Preparing to unpack .../26-libjpeg8_8c-2ubuntu11_arm64.deb ... 143s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ... 143s Selecting previously unselected package liblapack3:arm64. 143s Preparing to unpack .../27-liblapack3_3.12.0-3build2_arm64.deb ... 143s Unpacking liblapack3:arm64 (3.12.0-3build2) ... 143s Selecting previously unselected package liblcms2-2:arm64. 143s Preparing to unpack .../28-liblcms2-2_2.16-2_arm64.deb ... 143s Unpacking liblcms2-2:arm64 (2.16-2) ... 143s Selecting previously unselected package liblerc4:arm64. 143s Preparing to unpack .../29-liblerc4_4.0.0+ds-4ubuntu2_arm64.deb ... 143s Unpacking liblerc4:arm64 (4.0.0+ds-4ubuntu2) ... 143s Selecting previously unselected package libpython3.13-stdlib:arm64. 143s Preparing to unpack .../30-libpython3.13-stdlib_3.13.0-2_arm64.deb ... 143s Unpacking libpython3.13-stdlib:arm64 (3.13.0-2) ... 143s Selecting previously unselected package libraqm0:arm64. 143s Preparing to unpack .../31-libraqm0_0.10.1-1build1_arm64.deb ... 143s Unpacking libraqm0:arm64 (0.10.1-1build1) ... 143s Selecting previously unselected package libsharpyuv0:arm64. 143s Preparing to unpack .../32-libsharpyuv0_1.4.0-0.1_arm64.deb ... 143s Unpacking libsharpyuv0:arm64 (1.4.0-0.1) ... 144s Selecting previously unselected package libjbig0:arm64. 144s Preparing to unpack .../33-libjbig0_2.1-6.1ubuntu2_arm64.deb ... 144s Unpacking libjbig0:arm64 (2.1-6.1ubuntu2) ... 144s Selecting previously unselected package libwebp7:arm64. 144s Preparing to unpack .../34-libwebp7_1.4.0-0.1_arm64.deb ... 144s Unpacking libwebp7:arm64 (1.4.0-0.1) ... 144s Selecting previously unselected package libtiff6:arm64. 144s Preparing to unpack .../35-libtiff6_4.5.1+git230720-4ubuntu4_arm64.deb ... 144s Unpacking libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 144s Selecting previously unselected package libwebpdemux2:arm64. 144s Preparing to unpack .../36-libwebpdemux2_1.4.0-0.1_arm64.deb ... 144s Unpacking libwebpdemux2:arm64 (1.4.0-0.1) ... 144s Selecting previously unselected package libwebpmux3:arm64. 144s Preparing to unpack .../37-libwebpmux3_1.4.0-0.1_arm64.deb ... 144s Unpacking libwebpmux3:arm64 (1.4.0-0.1) ... 144s Selecting previously unselected package python-pyfaidx-examples. 144s Preparing to unpack .../38-python-pyfaidx-examples_0.8.1.3-1_all.deb ... 144s Unpacking python-pyfaidx-examples (0.8.1.3-1) ... 144s Selecting previously unselected package python3.13. 144s Preparing to unpack .../39-python3.13_3.13.0-2_arm64.deb ... 144s Unpacking python3.13 (3.13.0-2) ... 144s Selecting previously unselected package python3-all. 144s Preparing to unpack .../40-python3-all_3.12.7-1_arm64.deb ... 144s Unpacking python3-all (3.12.7-1) ... 144s Selecting previously unselected package python3-numpy. 144s Preparing to unpack .../41-python3-numpy_1%3a1.26.4+ds-11build1_arm64.deb ... 144s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 144s Selecting previously unselected package libopenjp2-7:arm64. 144s Preparing to unpack .../42-libopenjp2-7_2.5.0-2ubuntu1_arm64.deb ... 144s Unpacking libopenjp2-7:arm64 (2.5.0-2ubuntu1) ... 144s Selecting previously unselected package python3-pil:arm64. 144s Preparing to unpack .../43-python3-pil_10.4.0-1ubuntu1_arm64.deb ... 144s Unpacking python3-pil:arm64 (10.4.0-1ubuntu1) ... 144s Selecting previously unselected package python3-cairo. 144s Preparing to unpack .../44-python3-cairo_1.26.1-2_arm64.deb ... 144s Unpacking python3-cairo (1.26.1-2) ... 144s Selecting previously unselected package python3-freetype. 144s Preparing to unpack .../45-python3-freetype_2.5.1-1_all.deb ... 144s Unpacking python3-freetype (2.5.1-1) ... 144s Selecting previously unselected package python3-rlpycairo. 144s Preparing to unpack .../46-python3-rlpycairo_0.3.0-3_all.deb ... 144s Unpacking python3-rlpycairo (0.3.0-3) ... 144s Selecting previously unselected package python3-reportlab. 144s Preparing to unpack .../47-python3-reportlab_4.2.5-1_all.deb ... 144s Unpacking python3-reportlab (4.2.5-1) ... 144s Selecting previously unselected package xml-core. 144s Preparing to unpack .../48-xml-core_0.19_all.deb ... 144s Unpacking xml-core (0.19) ... 144s Selecting previously unselected package w3c-sgml-lib. 144s Preparing to unpack .../49-w3c-sgml-lib_1.3-3_all.deb ... 144s Unpacking w3c-sgml-lib (1.3-3) ... 144s Selecting previously unselected package python3-biopython. 144s Preparing to unpack .../50-python3-biopython_1.84+dfsg-4_arm64.deb ... 144s Unpacking python3-biopython (1.84+dfsg-4) ... 144s Selecting previously unselected package python3-importlib-metadata. 144s Preparing to unpack .../51-python3-importlib-metadata_8.5.0-1_all.deb ... 144s Unpacking python3-importlib-metadata (8.5.0-1) ... 145s Selecting previously unselected package python3-iniconfig. 145s Preparing to unpack .../52-python3-iniconfig_1.1.1-2_all.deb ... 145s Unpacking python3-iniconfig (1.1.1-2) ... 145s Selecting previously unselected package python3-packaging. 145s Preparing to unpack .../53-python3-packaging_24.1-1_all.deb ... 145s Unpacking python3-packaging (24.1-1) ... 145s Selecting previously unselected package python3-pluggy. 145s Preparing to unpack .../54-python3-pluggy_1.5.0-1_all.deb ... 145s Unpacking python3-pluggy (1.5.0-1) ... 145s Selecting previously unselected package python3-pyfaidx. 145s Preparing to unpack .../55-python3-pyfaidx_0.8.1.3-1_all.deb ... 145s Unpacking python3-pyfaidx (0.8.1.3-1) ... 145s Selecting previously unselected package python3-pytest. 145s Preparing to unpack .../56-python3-pytest_8.3.3-1_all.deb ... 145s Unpacking python3-pytest (8.3.3-1) ... 145s Selecting previously unselected package tabix. 145s Preparing to unpack .../57-tabix_1.20+ds-1_arm64.deb ... 145s Unpacking tabix (1.20+ds-1) ... 145s Selecting previously unselected package autopkgtest-satdep. 145s Preparing to unpack .../58-1-autopkgtest-satdep.deb ... 145s Unpacking autopkgtest-satdep (0) ... 145s Setting up libhtscodecs2:arm64 (1.6.1-1) ... 145s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 145s Setting up liblcms2-2:arm64 (2.16-2) ... 145s Setting up python3-iniconfig (1.1.1-2) ... 145s Setting up libpixman-1-0:arm64 (0.44.0-3) ... 145s Setting up libsharpyuv0:arm64 (1.4.0-0.1) ... 145s Setting up liblerc4:arm64 (4.0.0+ds-4ubuntu2) ... 145s Setting up python3-importlib-metadata (8.5.0-1) ... 146s Setting up libxrender1:arm64 (1:0.9.10-1.1build1) ... 146s Setting up python-pyfaidx-examples (0.8.1.3-1) ... 146s Setting up libxcb-render0:arm64 (1.17.0-2) ... 146s Setting up x11-common (1:7.7+23ubuntu3) ... 146s Setting up libdeflate0:arm64 (1.22-1) ... 146s Setting up libxcb-shm0:arm64 (1.17.0-2) ... 146s Setting up libgomp1:arm64 (14.2.0-8ubuntu1) ... 146s Setting up python3-freetype (2.5.1-1) ... 147s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ... 147s Setting up libpython3.13-minimal:arm64 (3.13.0-2) ... 147s Setting up libfontenc1:arm64 (1:1.1.8-1build1) ... 147s Setting up libblas3:arm64 (3.12.0-3build2) ... 147s 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 147s Setting up python3-packaging (24.1-1) ... 147s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 147s Setting up libimagequant0:arm64 (2.18.0-1build1) ... 147s Setting up fonts-dejavu-mono (2.37-8) ... 147s Setting up fonts-dejavu-core (2.37-8) ... 147s Setting up libjpeg-turbo8:arm64 (2.1.5-2ubuntu2) ... 147s Setting up libgfortran5:arm64 (14.2.0-8ubuntu1) ... 147s Setting up python3-pluggy (1.5.0-1) ... 148s Setting up libwebp7:arm64 (1.4.0-0.1) ... 148s Setting up libopenjp2-7:arm64 (2.5.0-2ubuntu1) ... 148s Setting up python3.13-minimal (3.13.0-2) ... 149s Setting up libharfbuzz0b:arm64 (10.0.1-1) ... 149s Setting up sgml-base (1.31) ... 149s Setting up libwebpmux3:arm64 (1.4.0-0.1) ... 149s Setting up tabix (1.20+ds-1) ... 149s Setting up libpython3.13-stdlib:arm64 (3.13.0-2) ... 149s Setting up libjpeg8:arm64 (8c-2ubuntu11) ... 149s Setting up python3-pyfaidx (0.8.1.3-1) ... 149s Setting up liblapack3:arm64 (3.12.0-3build2) ... 149s 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 149s Setting up python3.13 (3.13.0-2) ... 151s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 151s Setting up python3-pytest (8.3.3-1) ... 152s Setting up libwebpdemux2:arm64 (1.4.0-0.1) ... 152s Setting up python3-all (3.12.7-1) ... 152s Setting up xfonts-utils (1:7.7+7) ... 152s Setting up libraqm0:arm64 (0.10.1-1build1) ... 153s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 158s Setting up libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 158s Setting up xml-core (0.19) ... 158s Setting up libfontconfig1:arm64 (2.15.0-1.1ubuntu2) ... 158s Setting up fonts-urw-base35 (20200910-8) ... 159s Setting up libcairo2:arm64 (1.18.2-2) ... 159s Setting up python3-pil:arm64 (10.4.0-1ubuntu1) ... 160s Setting up python3-cairo (1.26.1-2) ... 160s Setting up python3-rlpycairo (0.3.0-3) ... 160s Setting up python3-reportlab (4.2.5-1) ... 163s Processing triggers for libc-bin (2.40-1ubuntu3) ... 163s Processing triggers for systemd (256.5-2ubuntu4) ... 163s Processing triggers for man-db (2.12.1-3) ... 164s Processing triggers for sgml-base (1.31) ... 164s Setting up w3c-sgml-lib (1.3-3) ... 205s Setting up python3-biopython (1.84+dfsg-4) ... 209s Setting up autopkgtest-satdep (0) ... 216s (Reading database ... 84134 files and directories currently installed.) 216s Removing autopkgtest-satdep (0) ... 217s autopkgtest [09:29:57]: test run-unit-test: [----------------------- 218s Testing with python3.13 in /tmp/autopkgtest.KuQ3bx/build.3gW/src: 218s ============================= test session starts ============================== 218s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 218s cachedir: .pytest_cache 218s rootdir: /tmp/autopkgtest.KuQ3bx/build.3gW/src 218s configfile: pyproject.toml 218s plugins: typeguard-4.4.1 219s collecting ... collected 136 items 219s 219s tests/test_FastaRecord.py::test_sequence_uppercase PASSED [ 0%] 219s tests/test_FastaRecord.py::test_long_names PASSED [ 1%] 219s tests/test_FastaRecord.py::test_issue_62 PASSED [ 2%] 219s tests/test_FastaRecord.py::test_unpadded_length PASSED [ 2%] 219s tests/test_FastaRecord.py::test_numpy_array FAILED [ 3%] 219s tests/test_FastaRecord_iter.py::test_fetch_whole_fasta PASSED [ 4%] 219s tests/test_FastaRecord_iter.py::test_line_len PASSED [ 5%] 219s tests/test_FastaRecord_iter.py::test_reverse_iter PASSED [ 5%] 219s tests/test_FastaVariant.py::test_fetch_variant SKIPPED (pysam not in...) [ 6%] 219s tests/test_FastaVariant.py::test_fetch_hom_variant SKIPPED (pysam no...) [ 7%] 219s tests/test_FastaVariant.py::test_fetch_het_variant SKIPPED (pysam no...) [ 8%] 219s tests/test_FastaVariant.py::test_fetch_chr_not_in_vcf SKIPPED (pysam...) [ 8%] 219s tests/test_FastaVariant.py::test_all_pos SKIPPED (pysam not installed.) [ 9%] 219s tests/test_FastaVariant.py::test_all_diff SKIPPED (pysam not installed.) [ 10%] 219s tests/test_Fasta_bgzip.py::test_build_issue_126 SKIPPED (Biopython i...) [ 11%] 219s tests/test_Fasta_bgzip.py::test_integer_slice PASSED [ 11%] 219s tests/test_Fasta_bgzip.py::test_integer_index PASSED [ 12%] 219s tests/test_Fasta_bgzip.py::test_fetch_whole_fasta PASSED [ 13%] 219s tests/test_Fasta_bgzip.py::test_line_len PASSED [ 13%] 219s tests/test_Fasta_bgzip.py::test_mutable_bgzf PASSED [ 14%] 219s tests/test_Fasta_bgzip.py::test_long_names XFAIL [ 15%] 219s tests/test_Fasta_bgzip.py::test_fetch_whole_entry PASSED [ 16%] 219s tests/test_Fasta_bgzip.py::test_fetch_middle PASSED [ 16%] 219s tests/test_Fasta_bgzip.py::test_fetch_end PASSED [ 17%] 219s tests/test_Fasta_bgzip.py::test_fetch_border PASSED [ 18%] 219s tests/test_Fasta_bgzip.py::test_rev PASSED [ 19%] 219s tests/test_Fasta_bgzip.py::test_fetch_past_bounds PASSED [ 19%] 219s tests/test_Fasta_bgzip.py::test_fetch_negative PASSED [ 20%] 219s tests/test_Fasta_bgzip.py::test_fetch_reversed_coordinates PASSED [ 21%] 219s tests/test_Fasta_bgzip.py::test_fetch_keyerror PASSED [ 22%] 219s tests/test_Fasta_bgzip.py::test_blank_string PASSED [ 22%] 219s tests/test_Fasta_bgzip.py::test_slice_from_beginning PASSED [ 23%] 219s tests/test_Fasta_bgzip.py::test_slice_from_end PASSED [ 24%] 219s tests/test_Fasta_bgzip.py::test_issue_74_start PASSED [ 25%] 219s tests/test_Fasta_bgzip.py::test_issue_74_consistency PASSED [ 25%] 219s tests/test_Fasta_bgzip.py::test_issue_74_end_faidx PASSED [ 26%] 219s tests/test_Fasta_bgzip.py::test_issue_74_end_fasta PASSED [ 27%] 219s tests/test_Fasta_bgzip.py::test_issue_79_fix PASSED [ 27%] 219s tests/test_Fasta_bgzip.py::test_issue_79_fix_negate PASSED [ 28%] 219s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false PASSED [ 29%] 219s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false_negate PASSED [ 30%] 219s tests/test_Fasta_bgzip.py::test_fetch_border_padded PASSED [ 30%] 219s tests/test_Fasta_integer_index.py::test_integer_slice PASSED [ 31%] 219s tests/test_Fasta_integer_index.py::test_integer_index PASSED [ 32%] 219s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads PASSED [ 33%] 220s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads_and_writes PASSED [ 33%] 220s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_writes PASSED [ 34%] 220s tests/test_Path.py::test_Faidx PASSED [ 35%] 220s tests/test_Path.py::test_Fasta PASSED [ 36%] 220s tests/test_bio_seqio.py::test_fetch_whole_entry SKIPPED (Biopython i...) [ 36%] 220s tests/test_bio_seqio.py::test_slice_whole_entry SKIPPED (Biopython i...) [ 37%] 221s tests/test_bio_seqio.py::test_revcomp_whole_entry SKIPPED (Biopython...) [ 38%] 221s tests/test_faidx.py::test_short_line_lengths PASSED [ 38%] 221s tests/test_faidx.py::test_fetch_whole_file PASSED [ 39%] 221s tests/test_faidx.py::test_split_entry PASSED [ 40%] 221s tests/test_faidx.py::test_fetch_error PASSED [ 41%] 221s tests/test_faidx.py::test_key_warning PASSED [ 41%] 221s tests/test_faidx.py::test_auto_strand PASSED [ 42%] 221s tests/test_faidx.py::test_regexp PASSED [ 43%] 221s tests/test_faidx.py::test_not_regexp PASSED [ 44%] 221s tests/test_faidx.py::test_not_regexp_multi PASSED [ 44%] 221s tests/test_feature_bounds_check.py::test_index_zero_length PASSED [ 45%] 221s tests/test_feature_bounds_check.py::test_fetch_zero_length PASSED [ 46%] 221s tests/test_feature_bounds_check.py::test_as_raw_zero_length_subsequence PASSED [ 47%] 221s tests/test_feature_bounds_check.py::test_zero_length_subsequence PASSED [ 47%] 221s tests/test_feature_bounds_check.py::test_fetch_whole_entry PASSED [ 48%] 221s tests/test_feature_bounds_check.py::test_fetch_middle PASSED [ 49%] 221s tests/test_feature_bounds_check.py::test_fetch_end PASSED [ 50%] 221s tests/test_feature_bounds_check.py::test_fetch_border PASSED [ 50%] 221s tests/test_feature_bounds_check.py::test_rev PASSED [ 51%] 221s tests/test_feature_bounds_check.py::test_fetch_past_bounds PASSED [ 52%] 221s tests/test_feature_bounds_check.py::test_fetch_negative PASSED [ 52%] 221s tests/test_feature_bounds_check.py::test_fetch_reversed_coordinates PASSED [ 53%] 221s tests/test_feature_bounds_check.py::test_fetch_keyerror PASSED [ 54%] 221s tests/test_feature_bounds_check.py::test_blank_string PASSED [ 55%] 221s tests/test_feature_bounds_check.py::test_slice_from_beginning PASSED [ 55%] 221s tests/test_feature_bounds_check.py::test_slice_from_end PASSED [ 56%] 221s tests/test_feature_bounds_check.py::test_issue_74_start PASSED [ 57%] 221s tests/test_feature_bounds_check.py::test_issue_74_consistency PASSED [ 58%] 221s tests/test_feature_bounds_check.py::test_issue_74_end_faidx PASSED [ 58%] 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[ 93%] 232s tests/test_sequence_class.py::test_negate PASSED [ 94%] 232s tests/test_sequence_class.py::test_negate_metadata PASSED [ 94%] 232s tests/test_sequence_class.py::test_seq_invalid PASSED [ 95%] 232s tests/test_sequence_class.py::test_integer_index PASSED [ 96%] 232s tests/test_sequence_class.py::test_slice_index PASSED [ 97%] 232s tests/test_sequence_class.py::test_comp_invalid PASSED [ 97%] 232s tests/test_sequence_class.py::test_check_coordinates PASSED [ 98%] 232s tests/test_sequence_class.py::test_comp_valid PASSED [ 99%] 232s tests/test_sequence_class.py::test_comp_empty PASSED [100%] 232s 232s =================================== FAILURES =================================== 232s _______________________________ test_numpy_array _______________________________ 232s 232s """ 232s Contains the core of NumPy: ndarray, ufuncs, dtypes, etc. 232s 232s Please note that this module is private. All functions and objects 232s are available in the main ``numpy`` namespace - use that instead. 232s 232s """ 232s 232s import os 232s import warnings 232s 232s from numpy.version import version as __version__ 232s 232s 232s # disables OpenBLAS affinity setting of the main thread that limits 232s # python threads or processes to one core 232s env_added = [] 232s for envkey in ['OPENBLAS_MAIN_FREE', 'GOTOBLAS_MAIN_FREE']: 232s if envkey not in os.environ: 232s os.environ[envkey] = '1' 232s env_added.append(envkey) 232s 232s try: 232s > from . import multiarray 232s 232s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: 232s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 232s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 232s from . import overrides 232s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 232s 232s """Implementation of __array_function__ overrides from NEP-18.""" 232s import collections 232s import functools 232s import os 232s 232s from .._utils import set_module 232s from .._utils._inspect import getargspec 232s > from numpy.core._multiarray_umath import ( 232s add_docstring, _get_implementing_args, _ArrayFunctionDispatcher) 232s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 232s 232s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: ModuleNotFoundError 232s 232s During handling of the above exception, another exception occurred: 232s 232s """ 232s NumPy 232s ===== 232s 232s Provides 232s 1. An array object of arbitrary homogeneous items 232s 2. Fast mathematical operations over arrays 232s 3. Linear Algebra, Fourier Transforms, Random Number Generation 232s 232s How to use the documentation 232s ---------------------------- 232s Documentation is available in two forms: docstrings provided 232s with the code, and a loose standing reference guide, available from 232s `the NumPy homepage `_. 232s 232s We recommend exploring the docstrings using 232s `IPython `_, an advanced Python shell with 232s TAB-completion and introspection capabilities. See below for further 232s instructions. 232s 232s The docstring examples assume that `numpy` has been imported as ``np``:: 232s 232s >>> import numpy as np 232s 232s Code snippets are indicated by three greater-than signs:: 232s 232s >>> x = 42 232s >>> x = x + 1 232s 232s Use the built-in ``help`` function to view a function's docstring:: 232s 232s >>> help(np.sort) 232s ... # doctest: +SKIP 232s 232s For some objects, ``np.info(obj)`` may provide additional help. This is 232s particularly true if you see the line "Help on ufunc object:" at the top 232s of the help() page. Ufuncs are implemented in C, not Python, for speed. 232s The native Python help() does not know how to view their help, but our 232s np.info() function does. 232s 232s To search for documents containing a keyword, do:: 232s 232s >>> np.lookfor('keyword') 232s ... # doctest: +SKIP 232s 232s General-purpose documents like a glossary and help on the basic concepts 232s of numpy are available under the ``doc`` sub-module:: 232s 232s >>> from numpy import doc 232s >>> help(doc) 232s ... # doctest: +SKIP 232s 232s Available subpackages 232s --------------------- 232s lib 232s Basic functions used by several sub-packages. 232s random 232s Core Random Tools 232s linalg 232s Core Linear Algebra Tools 232s fft 232s Core FFT routines 232s polynomial 232s Polynomial tools 232s testing 232s NumPy testing tools 232s distutils 232s Enhancements to distutils with support for 232s Fortran compilers support and more (for Python <= 3.11). 232s 232s Utilities 232s --------- 232s test 232s Run numpy unittests 232s show_config 232s Show numpy build configuration 232s matlib 232s Make everything matrices. 232s __version__ 232s NumPy version string 232s 232s Viewing documentation using IPython 232s ----------------------------------- 232s 232s Start IPython and import `numpy` usually under the alias ``np``: `import 232s numpy as np`. Then, directly past or use the ``%cpaste`` magic to paste 232s examples into the shell. To see which functions are available in `numpy`, 232s type ``np.`` (where ```` refers to the TAB key), or use 232s ``np.*cos*?`` (where ```` refers to the ENTER key) to narrow 232s down the list. To view the docstring for a function, use 232s ``np.cos?`` (to view the docstring) and ``np.cos??`` (to view 232s the source code). 232s 232s Copies vs. in-place operation 232s ----------------------------- 232s Most of the functions in `numpy` return a copy of the array argument 232s (e.g., `np.sort`). In-place versions of these functions are often 232s available as array methods, i.e. ``x = np.array([1,2,3]); x.sort()``. 232s Exceptions to this rule are documented. 232s 232s """ 232s import sys 232s import warnings 232s 232s from ._globals import _NoValue, _CopyMode 232s # These exceptions were moved in 1.25 and are hidden from __dir__() 232s from .exceptions import ( 232s ComplexWarning, ModuleDeprecationWarning, VisibleDeprecationWarning, 232s TooHardError, AxisError) 232s 232s 232s # If a version with git hash was stored, use that instead 232s from . import version 232s from .version import __version__ 232s 232s # We first need to detect if we're being called as part of the numpy setup 232s # procedure itself in a reliable manner. 232s try: 232s __NUMPY_SETUP__ 232s except NameError: 232s __NUMPY_SETUP__ = False 232s 232s if __NUMPY_SETUP__: 232s sys.stderr.write('Running from numpy source directory.\n') 232s else: 232s # Allow distributors to run custom init code before importing numpy.core 232s from . import _distributor_init 232s 232s try: 232s > from numpy.__config__ import show as show_config 232s 232s /usr/lib/python3/dist-packages/numpy/__init__.py:130: 232s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 232s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 232s from numpy.core._multiarray_umath import ( 232s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 232s 232s """ 232s Contains the core of NumPy: ndarray, ufuncs, dtypes, etc. 232s 232s Please note that this module is private. All functions and objects 232s are available in the main ``numpy`` namespace - use that instead. 232s 232s """ 232s 232s import os 232s import warnings 232s 232s from numpy.version import version as __version__ 232s 232s 232s # disables OpenBLAS affinity setting of the main thread that limits 232s # python threads or processes to one core 232s env_added = [] 232s for envkey in ['OPENBLAS_MAIN_FREE', 'GOTOBLAS_MAIN_FREE']: 232s if envkey not in os.environ: 232s os.environ[envkey] = '1' 232s env_added.append(envkey) 232s 232s try: 232s from . import multiarray 232s except ImportError as exc: 232s import sys 232s msg = """ 232s 232s IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 232s 232s Importing the numpy C-extensions failed. This error can happen for 232s many reasons, often due to issues with your setup or how NumPy was 232s installed. 232s 232s We have compiled some common reasons and troubleshooting tips at: 232s 232s https://numpy.org/devdocs/user/troubleshooting-importerror.html 232s 232s Please note and check the following: 232s 232s * The Python version is: Python%d.%d from "%s" 232s * The NumPy version is: "%s" 232s 232s and make sure that they are the versions you expect. 232s Please carefully study the documentation linked above for further help. 232s 232s Original error was: %s 232s """ % (sys.version_info[0], sys.version_info[1], sys.executable, 232s __version__, exc) 232s > raise ImportError(msg) 232s E ImportError: 232s E 232s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 232s E 232s E Importing the numpy C-extensions failed. This error can happen for 232s E many reasons, often due to issues with your setup or how NumPy was 232s E installed. 232s E 232s E We have compiled some common reasons and troubleshooting tips at: 232s E 232s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 232s E 232s E Please note and check the following: 232s E 232s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 232s E * The NumPy version is: "1.26.4" 232s E 232s E and make sure that they are the versions you expect. 232s E Please carefully study the documentation linked above for further help. 232s E 232s E Original error was: No module named 'numpy.core._multiarray_umath' 232s 232s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: ImportError 232s 232s The above exception was the direct cause of the following exception: 232s 232s remove_index = None 232s 232s def test_numpy_array(remove_index): 232s """ Test the __array_interface__ """ 232s > import numpy 232s 232s /tmp/autopkgtest.KuQ3bx/build.3gW/src/tests/test_FastaRecord.py:103: 232s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 232s 232s """ 232s NumPy 232s ===== 232s 232s Provides 232s 1. An array object of arbitrary homogeneous items 232s 2. Fast mathematical operations over arrays 232s 3. Linear Algebra, Fourier Transforms, Random Number Generation 232s 232s How to use the documentation 232s ---------------------------- 232s Documentation is available in two forms: docstrings provided 232s with the code, and a loose standing reference guide, available from 232s `the NumPy homepage `_. 232s 232s We recommend exploring the docstrings using 232s `IPython `_, an advanced Python shell with 232s TAB-completion and introspection capabilities. See below for further 232s instructions. 232s 232s The docstring examples assume that `numpy` has been imported as ``np``:: 232s 232s >>> import numpy as np 232s 232s Code snippets are indicated by three greater-than signs:: 232s 232s >>> x = 42 232s >>> x = x + 1 232s 232s Use the built-in ``help`` function to view a function's docstring:: 232s 232s >>> help(np.sort) 232s ... # doctest: +SKIP 232s 232s For some objects, ``np.info(obj)`` may provide additional help. This is 232s particularly true if you see the line "Help on ufunc object:" at the top 232s of the help() page. Ufuncs are implemented in C, not Python, for speed. 232s The native Python help() does not know how to view their help, but our 232s np.info() function does. 232s 232s To search for documents containing a keyword, do:: 232s 232s >>> np.lookfor('keyword') 232s ... # doctest: +SKIP 232s 232s General-purpose documents like a glossary and help on the basic concepts 232s of numpy are available under the ``doc`` sub-module:: 232s 232s >>> from numpy import doc 232s >>> help(doc) 232s ... # doctest: +SKIP 232s 232s Available subpackages 232s --------------------- 232s lib 232s Basic functions used by several sub-packages. 232s random 232s Core Random Tools 232s linalg 232s Core Linear Algebra Tools 232s fft 232s Core FFT routines 232s polynomial 232s Polynomial tools 232s testing 232s NumPy testing tools 232s distutils 232s Enhancements to distutils with support for 232s Fortran compilers support and more (for Python <= 3.11). 232s 232s Utilities 232s --------- 232s test 232s Run numpy unittests 232s show_config 232s Show numpy build configuration 232s matlib 232s Make everything matrices. 232s __version__ 232s NumPy version string 232s 232s Viewing documentation using IPython 232s ----------------------------------- 232s 232s Start IPython and import `numpy` usually under the alias ``np``: `import 232s numpy as np`. Then, directly past or use the ``%cpaste`` magic to paste 232s examples into the shell. To see which functions are available in `numpy`, 232s type ``np.`` (where ```` refers to the TAB key), or use 232s ``np.*cos*?`` (where ```` refers to the ENTER key) to narrow 232s down the list. To view the docstring for a function, use 232s ``np.cos?`` (to view the docstring) and ``np.cos??`` (to view 232s the source code). 232s 232s Copies vs. in-place operation 232s ----------------------------- 232s Most of the functions in `numpy` return a copy of the array argument 232s (e.g., `np.sort`). In-place versions of these functions are often 232s available as array methods, i.e. ``x = np.array([1,2,3]); x.sort()``. 232s Exceptions to this rule are documented. 232s 232s """ 232s import sys 232s import warnings 232s 232s from ._globals import _NoValue, _CopyMode 232s # These exceptions were moved in 1.25 and are hidden from __dir__() 232s from .exceptions import ( 232s ComplexWarning, ModuleDeprecationWarning, VisibleDeprecationWarning, 232s TooHardError, AxisError) 232s 232s 232s # If a version with git hash was stored, use that instead 232s from . import version 232s from .version import __version__ 232s 232s # We first need to detect if we're being called as part of the numpy setup 232s # procedure itself in a reliable manner. 232s try: 232s __NUMPY_SETUP__ 232s except NameError: 232s __NUMPY_SETUP__ = False 232s 232s if __NUMPY_SETUP__: 232s sys.stderr.write('Running from numpy source directory.\n') 232s else: 232s # Allow distributors to run custom init code before importing numpy.core 232s from . import _distributor_init 232s 232s try: 232s from numpy.__config__ import show as show_config 232s except ImportError as e: 232s msg = """Error importing numpy: you should not try to import numpy from 232s its source directory; please exit the numpy source tree, and relaunch 232s your python interpreter from there.""" 232s > raise ImportError(msg) from e 232s E ImportError: Error importing numpy: you should not try to import numpy from 232s E its source directory; please exit the numpy source tree, and relaunch 232s E your python interpreter from there. 232s 232s /usr/lib/python3/dist-packages/numpy/__init__.py:135: ImportError 232s =========================== short test summary info ============================ 232s FAILED tests/test_FastaRecord.py::test_numpy_array - ImportError: Error impor... 232s ============ 1 failed, 120 passed, 14 skipped, 1 xfailed in 13.90s ============= 233s autopkgtest [09:30:13]: test run-unit-test: -----------------------] 233s run-unit-test FAIL non-zero exit status 1 233s autopkgtest [09:30:13]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 234s autopkgtest [09:30:14]: test autodep8-python3: preparing testbed 379s autopkgtest [09:32:39]: testbed dpkg architecture: arm64 379s autopkgtest [09:32:39]: testbed apt version: 2.9.8 379s autopkgtest [09:32:39]: @@@@@@@@@@@@@@@@@@@@ test bed setup 380s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 381s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 381s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 381s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 381s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 381s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [104 kB] 381s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB] 381s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [601 kB] 381s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [17.1 kB] 381s Fetched 1793 kB in 1s (2041 kB/s) 381s Reading package lists... 383s Reading package lists... 384s Building dependency tree... 384s Reading state information... 384s Calculating upgrade... 385s The following NEW packages will be installed: 385s python3.13-gdbm 385s The following packages will be upgraded: 385s libpython3-stdlib python3 python3-gdbm python3-minimal 385s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 385s Need to get 101 kB of archives. 385s After this operation, 141 kB of additional disk space will be used. 385s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-minimal arm64 3.12.7-1 [27.4 kB] 385s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3 arm64 3.12.7-1 [24.0 kB] 385s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-stdlib arm64 3.12.7-1 [10.0 kB] 385s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-gdbm arm64 3.13.0-2 [30.7 kB] 385s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-gdbm arm64 3.12.7-1 [8642 B] 386s Fetched 101 kB in 0s (280 kB/s) 386s (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 ... 79924 files and directories currently installed.) 386s Preparing to unpack .../python3-minimal_3.12.7-1_arm64.deb ... 386s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 386s Setting up python3-minimal (3.12.7-1) ... 387s (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 ... 79924 files and directories currently installed.) 387s Preparing to unpack .../python3_3.12.7-1_arm64.deb ... 387s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 387s Preparing to unpack .../libpython3-stdlib_3.12.7-1_arm64.deb ... 387s Unpacking libpython3-stdlib:arm64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 387s Selecting previously unselected package python3.13-gdbm. 387s Preparing to unpack .../python3.13-gdbm_3.13.0-2_arm64.deb ... 387s Unpacking python3.13-gdbm (3.13.0-2) ... 387s Preparing to unpack .../python3-gdbm_3.12.7-1_arm64.deb ... 387s Unpacking python3-gdbm:arm64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 387s Setting up python3.13-gdbm (3.13.0-2) ... 387s Setting up libpython3-stdlib:arm64 (3.12.7-1) ... 387s Setting up python3 (3.12.7-1) ... 387s Setting up python3-gdbm:arm64 (3.12.7-1) ... 387s Processing triggers for man-db (2.12.1-3) ... 388s Reading package lists... 388s Building dependency tree... 388s Reading state information... 389s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 390s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 390s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 390s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 390s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 391s Reading package lists... 391s Reading package lists... 392s Building dependency tree... 392s Reading state information... 392s Calculating upgrade... 393s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 393s Reading package lists... 393s Building dependency tree... 393s Reading state information... 394s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 400s Reading package lists... 400s Building dependency tree... 400s Reading state information... 401s Starting pkgProblemResolver with broken count: 0 401s Starting 2 pkgProblemResolver with broken count: 0 401s Done 402s The following additional packages will be installed: 402s libpython3.13-minimal libpython3.13-stdlib python3-all 402s python3-importlib-metadata python3-packaging python3-pyfaidx python3.13 402s python3.13-minimal 402s Suggested packages: 402s python3.13-venv python3.13-doc binfmt-support 402s Recommended packages: 402s python3-biopython 402s The following NEW packages will be installed: 402s autopkgtest-satdep libpython3.13-minimal libpython3.13-stdlib python3-all 402s python3-importlib-metadata python3-packaging python3-pyfaidx python3.13 402s python3.13-minimal 402s 0 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. 402s Need to get 5862 kB/5863 kB of archives. 402s After this operation, 24.5 MB of additional disk space will be used. 402s Get:1 /tmp/autopkgtest.KuQ3bx/2-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [712 B] 402s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-minimal arm64 3.13.0-2 [877 kB] 402s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-minimal arm64 3.13.0-2 [2100 kB] 402s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-stdlib arm64 3.13.0-2 [2073 kB] 402s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13 arm64 3.13.0-2 [719 kB] 402s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all arm64 3.12.7-1 [890 B] 402s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 402s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.1-1 [41.4 kB] 402s Get:9 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 403s Fetched 5862 kB in 1s (7416 kB/s) 403s Selecting previously unselected package libpython3.13-minimal:arm64. 403s (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 ... 79931 files and directories currently installed.) 403s Preparing to unpack .../0-libpython3.13-minimal_3.13.0-2_arm64.deb ... 403s Unpacking libpython3.13-minimal:arm64 (3.13.0-2) ... 403s Selecting previously unselected package python3.13-minimal. 403s Preparing to unpack .../1-python3.13-minimal_3.13.0-2_arm64.deb ... 403s Unpacking python3.13-minimal (3.13.0-2) ... 403s Selecting previously unselected package libpython3.13-stdlib:arm64. 403s Preparing to unpack .../2-libpython3.13-stdlib_3.13.0-2_arm64.deb ... 403s Unpacking libpython3.13-stdlib:arm64 (3.13.0-2) ... 403s Selecting previously unselected package python3.13. 403s Preparing to unpack .../3-python3.13_3.13.0-2_arm64.deb ... 403s Unpacking python3.13 (3.13.0-2) ... 403s Selecting previously unselected package python3-all. 403s Preparing to unpack .../4-python3-all_3.12.7-1_arm64.deb ... 403s Unpacking python3-all (3.12.7-1) ... 403s Selecting previously unselected package python3-importlib-metadata. 403s Preparing to unpack .../5-python3-importlib-metadata_8.5.0-1_all.deb ... 403s Unpacking python3-importlib-metadata (8.5.0-1) ... 403s Selecting previously unselected package python3-packaging. 403s Preparing to unpack .../6-python3-packaging_24.1-1_all.deb ... 403s Unpacking python3-packaging (24.1-1) ... 403s Selecting previously unselected package python3-pyfaidx. 403s Preparing to unpack .../7-python3-pyfaidx_0.8.1.3-1_all.deb ... 403s Unpacking python3-pyfaidx (0.8.1.3-1) ... 403s Selecting previously unselected package autopkgtest-satdep. 403s Preparing to unpack .../8-2-autopkgtest-satdep.deb ... 403s Unpacking autopkgtest-satdep (0) ... 403s Setting up python3-importlib-metadata (8.5.0-1) ... 404s Setting up libpython3.13-minimal:arm64 (3.13.0-2) ... 404s Setting up python3-packaging (24.1-1) ... 404s Setting up python3.13-minimal (3.13.0-2) ... 405s Setting up libpython3.13-stdlib:arm64 (3.13.0-2) ... 405s Setting up python3-pyfaidx (0.8.1.3-1) ... 405s Setting up python3.13 (3.13.0-2) ... 407s Setting up python3-all (3.12.7-1) ... 407s Setting up autopkgtest-satdep (0) ... 407s Processing triggers for man-db (2.12.1-3) ... 407s Processing triggers for systemd (256.5-2ubuntu4) ... 410s (Reading database ... 80726 files and directories currently installed.) 410s Removing autopkgtest-satdep (0) ... 412s autopkgtest [09:33:12]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import pyfaidx; print(pyfaidx)" ; done 412s autopkgtest [09:33:12]: test autodep8-python3: [----------------------- 412s Testing with python3.13: 412s 412s Testing with python3.12: 412s 413s autopkgtest [09:33:13]: test autodep8-python3: -----------------------] 413s autopkgtest [09:33:13]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 413s autodep8-python3 PASS (superficial) 413s autopkgtest [09:33:13]: @@@@@@@@@@@@@@@@@@@@ summary 413s run-unit-test FAIL non-zero exit status 1 413s autodep8-python3 PASS (superficial) 425s nova [W] Skipping flock in bos03-arm64 425s Creating nova instance adt-plucky-arm64-python-pyfaidx-20241113-092619-juju-7f2275-prod-proposed-migration-environment-15-a26d5b78-d7fc-4c54-9b19-6ce28d9a9bd0 from image adt/ubuntu-plucky-arm64-server-20241113.img (UUID 2d7760e6-2439-4200-89d6-5ed33e5c6330)... 425s nova [W] Skipping flock in bos03-arm64 425s Creating nova instance adt-plucky-arm64-python-pyfaidx-20241113-092619-juju-7f2275-prod-proposed-migration-environment-15-a26d5b78-d7fc-4c54-9b19-6ce28d9a9bd0 from image adt/ubuntu-plucky-arm64-server-20241113.img (UUID 2d7760e6-2439-4200-89d6-5ed33e5c6330)...