0s autopkgtest [13:36:39]: starting date and time: 2024-11-14 13:36:39+0000 0s autopkgtest [13:36:39]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [13:36:39]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.v89sl88m/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 builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-27.secgroup --name adt-plucky-amd64-python-pyfaidx-20241114-133638-juju-7f2275-prod-proposed-migration-environment-20-c650d61f-6901-4bb6-a5a6-213282004b58 --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/ 48s autopkgtest [13:37:26]: testbed dpkg architecture: amd64 48s autopkgtest [13:37:27]: testbed apt version: 2.9.8 48s autopkgtest [13:37:27]: @@@@@@@@@@@@@@@@@@@@ test bed setup 49s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 49s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 49s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [983 kB] 49s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [105 kB] 49s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 49s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [138 kB] 49s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [79.9 kB] 49s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 49s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [291 kB] 49s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [749 kB] 49s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9252 B] 49s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [1084 B] 49s Fetched 2484 kB in 1s (2990 kB/s) 50s Reading package lists... 52s Reading package lists... 53s Building dependency tree... 53s Reading state information... 53s Calculating upgrade... 53s The following NEW packages will be installed: 53s python3.13-gdbm 53s The following packages will be upgraded: 53s libpython3-stdlib pastebinit python3 python3-gdbm python3-minimal 53s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 53s Need to get 116 kB of archives. 53s After this operation, 100 kB of additional disk space will be used. 53s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 53s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 53s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 53s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 53s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 53s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 54s Fetched 116 kB in 0s (318 kB/s) 54s (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.) 54s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 54s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 54s Setting up python3-minimal (3.12.7-1) ... 54s (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.) 54s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 54s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 54s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 54s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 54s Selecting previously unselected package python3.13-gdbm. 54s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 54s Unpacking python3.13-gdbm (3.13.0-2) ... 54s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 54s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 54s Preparing to unpack .../pastebinit_1.7.1-1_all.deb ... 54s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 54s Setting up python3.13-gdbm (3.13.0-2) ... 54s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 54s Setting up python3 (3.12.7-1) ... 55s Setting up python3-gdbm:amd64 (3.12.7-1) ... 55s Setting up pastebinit (1.7.1-1) ... 55s Processing triggers for man-db (2.12.1-3) ... 55s Reading package lists... 56s Building dependency tree... 56s Reading state information... 56s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 56s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 56s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 56s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 56s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 57s Reading package lists... 57s Reading package lists... 57s Building dependency tree... 57s Reading state information... 58s Calculating upgrade... 58s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 58s Reading package lists... 58s Building dependency tree... 58s Reading state information... 58s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 61s autopkgtest [13:37:40]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 61s autopkgtest [13:37:40]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pyfaidx 64s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (dsc) [2544 B] 64s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (tar) [96.5 kB] 64s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pyfaidx 0.8.1.3-1 (diff) [7096 B] 64s gpgv: Signature made Wed Oct 16 19:20:44 2024 UTC 64s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 64s gpgv: issuer "emollier@debian.org" 64s gpgv: Can't check signature: No public key 64s dpkg-source: warning: cannot verify inline signature for ./python-pyfaidx_0.8.1.3-1.dsc: no acceptable signature found 64s autopkgtest [13:37:43]: testing package python-pyfaidx version 0.8.1.3-1 64s autopkgtest [13:37:43]: build not needed 65s autopkgtest [13:37:44]: test run-unit-test: preparing testbed 70s Reading package lists... 70s Building dependency tree... 70s Reading state information... 70s Starting pkgProblemResolver with broken count: 0 70s Starting 2 pkgProblemResolver with broken count: 0 70s Done 71s The following additional packages will be installed: 71s fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-urw-base35 71s libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 libgfortran5 71s libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 libimagequant0 libjbig0 71s libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 liblerc4 libopenjp2-7 71s libpixman-1-0 libpython3.13-minimal libpython3.13-stdlib libraqm0 71s libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 71s libxcb-shm0 libxrender1 python-pyfaidx-examples python3-all 71s python3-biopython python3-cairo python3-freetype python3-importlib-metadata 71s python3-iniconfig python3-numpy python3-packaging python3-pil python3-pluggy 71s python3-pyfaidx python3-pytest python3-reportlab python3-rlpycairo 71s python3.13 python3.13-minimal sgml-base tabix w3c-sgml-lib x11-common 71s xfonts-encodings xfonts-utils xml-core 71s Suggested packages: 71s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre liblcms2-utils 71s python3-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 71s phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf 71s python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise 71s gcc gfortran python-numpy-doc python3-dev python-pil-doc pdf-viewer 71s python3-egenix-mxtexttools python-reportlab-doc rl-accel rl-renderpm 71s python3.13-venv python3.13-doc binfmt-support sgml-base-doc debhelper 71s Recommended packages: 71s python-biopython-doc ncbi-blast+ python3-olefile fonts-dejavu-extra 71s The following NEW packages will be installed: 71s autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-mono 71s fonts-urw-base35 libblas3 libcairo2 libdeflate0 libfontconfig1 libfontenc1 71s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhtscodecs2 71s libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 71s liblerc4 libopenjp2-7 libpixman-1-0 libpython3.13-minimal 71s libpython3.13-stdlib libraqm0 libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 71s libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 python-pyfaidx-examples 71s python3-all python3-biopython python3-cairo python3-freetype 71s python3-importlib-metadata python3-iniconfig python3-numpy python3-packaging 71s python3-pil python3-pluggy python3-pyfaidx python3-pytest python3-reportlab 71s python3-rlpycairo python3.13 python3.13-minimal sgml-base tabix w3c-sgml-lib 71s x11-common xfonts-encodings xfonts-utils xml-core 71s 0 upgraded, 59 newly installed, 0 to remove and 0 not upgraded. 71s Need to get 35.4 MB/35.4 MB of archives. 71s After this operation, 116 MB of additional disk space will be used. 71s Get:1 /tmp/autopkgtest.GWgN0b/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [752 B] 71s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 72s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 72s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 72s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 72s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 72s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontenc1 amd64 1:1.1.8-1build1 [14.0 kB] 72s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 72s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 72s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 xfonts-utils amd64 1:7.7+7 [97.1 kB] 72s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-urw-base35 all 20200910-8 [11.0 MB] 72s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 72s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 72s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 72s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 72s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 72s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 72s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 72s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 72s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 72s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 72s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 72s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 72s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 72s Get:25 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-1 [132 kB] 72s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 72s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 72s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 72s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 72s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 72s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 72s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 72s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.1-1build1 [15.0 kB] 72s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 72s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 72s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 72s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 72s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [12.4 kB] 72s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.4.0-0.1 [25.8 kB] 72s Get:40 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-pyfaidx-examples all 0.8.1.3-1 [38.6 kB] 72s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 72s Get:42 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 72s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 72s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.0-2ubuntu1 [184 kB] 72s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 10.4.0-1ubuntu1 [463 kB] 73s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cairo amd64 1.26.1-2 [119 kB] 73s Get:47 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-freetype all 2.5.1-1 [92.3 kB] 73s Get:48 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-rlpycairo all 0.3.0-3 [9130 B] 73s Get:49 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-reportlab all 4.2.5-1 [1107 kB] 73s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 73s Get:51 http://ftpmaster.internal/ubuntu plucky/universe amd64 w3c-sgml-lib all 1.3-3 [280 kB] 73s Get:52 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biopython amd64 1.84+dfsg-4 [1714 kB] 73s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 73s Get:54 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 73s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 73s Get:56 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 73s Get:57 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 73s Get:58 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 73s Get:59 http://ftpmaster.internal/ubuntu plucky/universe amd64 tabix amd64 1.20+ds-1 [510 kB] 73s Fetched 35.4 MB in 2s (20.5 MB/s) 73s Selecting previously unselected package libpython3.13-minimal:amd64. 73s (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 ... 75549 files and directories currently installed.) 73s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 73s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 73s Selecting previously unselected package python3.13-minimal. 73s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 73s Unpacking python3.13-minimal (3.13.0-2) ... 73s Selecting previously unselected package sgml-base. 73s Preparing to unpack .../02-sgml-base_1.31_all.deb ... 73s Unpacking sgml-base (1.31) ... 73s Selecting previously unselected package fonts-dejavu-mono. 73s Preparing to unpack .../03-fonts-dejavu-mono_2.37-8_all.deb ... 73s Unpacking fonts-dejavu-mono (2.37-8) ... 73s Selecting previously unselected package fonts-dejavu-core. 73s Preparing to unpack .../04-fonts-dejavu-core_2.37-8_all.deb ... 73s Unpacking fonts-dejavu-core (2.37-8) ... 73s Selecting previously unselected package libfontenc1:amd64. 73s Preparing to unpack .../05-libfontenc1_1%3a1.1.8-1build1_amd64.deb ... 73s Unpacking libfontenc1:amd64 (1:1.1.8-1build1) ... 73s Selecting previously unselected package x11-common. 73s Preparing to unpack .../06-x11-common_1%3a7.7+23ubuntu3_all.deb ... 73s Unpacking x11-common (1:7.7+23ubuntu3) ... 73s Selecting previously unselected package xfonts-encodings. 73s Preparing to unpack .../07-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 73s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 73s Selecting previously unselected package xfonts-utils. 73s Preparing to unpack .../08-xfonts-utils_1%3a7.7+7_amd64.deb ... 73s Unpacking xfonts-utils (1:7.7+7) ... 73s Selecting previously unselected package fonts-urw-base35. 73s Preparing to unpack .../09-fonts-urw-base35_20200910-8_all.deb ... 73s Unpacking fonts-urw-base35 (20200910-8) ... 74s Selecting previously unselected package fontconfig-config. 74s Preparing to unpack .../10-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 74s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 74s Selecting previously unselected package libblas3:amd64. 74s Preparing to unpack .../11-libblas3_3.12.0-3build2_amd64.deb ... 74s Unpacking libblas3:amd64 (3.12.0-3build2) ... 74s Selecting previously unselected package libfontconfig1:amd64. 74s Preparing to unpack .../12-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 74s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 74s Selecting previously unselected package libpixman-1-0:amd64. 74s Preparing to unpack .../13-libpixman-1-0_0.44.0-3_amd64.deb ... 74s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 74s Selecting previously unselected package libxcb-render0:amd64. 74s Preparing to unpack .../14-libxcb-render0_1.17.0-2_amd64.deb ... 74s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 74s Selecting previously unselected package libxcb-shm0:amd64. 74s Preparing to unpack .../15-libxcb-shm0_1.17.0-2_amd64.deb ... 74s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 74s Selecting previously unselected package libxrender1:amd64. 74s Preparing to unpack .../16-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 74s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 74s Selecting previously unselected package libcairo2:amd64. 74s Preparing to unpack .../17-libcairo2_1.18.2-2_amd64.deb ... 74s Unpacking libcairo2:amd64 (1.18.2-2) ... 74s Selecting previously unselected package libdeflate0:amd64. 74s Preparing to unpack .../18-libdeflate0_1.22-1_amd64.deb ... 74s Unpacking libdeflate0:amd64 (1.22-1) ... 74s Selecting previously unselected package libgfortran5:amd64. 74s Preparing to unpack .../19-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 74s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 74s Selecting previously unselected package libgomp1:amd64. 74s Preparing to unpack .../20-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 74s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 74s Selecting previously unselected package libgraphite2-3:amd64. 74s Preparing to unpack .../21-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 74s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 74s Selecting previously unselected package libharfbuzz0b:amd64. 74s Preparing to unpack .../22-libharfbuzz0b_10.0.1-1_amd64.deb ... 74s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 74s Selecting previously unselected package libhtscodecs2:amd64. 74s Preparing to unpack .../23-libhtscodecs2_1.6.1-1_amd64.deb ... 74s Unpacking libhtscodecs2:amd64 (1.6.1-1) ... 74s Selecting previously unselected package libimagequant0:amd64. 74s Preparing to unpack .../24-libimagequant0_2.18.0-1build1_amd64.deb ... 74s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 74s Selecting previously unselected package libjpeg-turbo8:amd64. 74s Preparing to unpack .../25-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 74s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 74s Selecting previously unselected package libjpeg8:amd64. 74s Preparing to unpack .../26-libjpeg8_8c-2ubuntu11_amd64.deb ... 74s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 74s Selecting previously unselected package liblapack3:amd64. 74s Preparing to unpack .../27-liblapack3_3.12.0-3build2_amd64.deb ... 74s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 74s Selecting previously unselected package liblcms2-2:amd64. 74s Preparing to unpack .../28-liblcms2-2_2.16-2_amd64.deb ... 74s Unpacking liblcms2-2:amd64 (2.16-2) ... 74s Selecting previously unselected package liblerc4:amd64. 74s Preparing to unpack .../29-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 74s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 74s Selecting previously unselected package libpython3.13-stdlib:amd64. 74s Preparing to unpack .../30-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 74s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 74s Selecting previously unselected package libraqm0:amd64. 74s Preparing to unpack .../31-libraqm0_0.10.1-1build1_amd64.deb ... 74s Unpacking libraqm0:amd64 (0.10.1-1build1) ... 74s Selecting previously unselected package libsharpyuv0:amd64. 74s Preparing to unpack .../32-libsharpyuv0_1.4.0-0.1_amd64.deb ... 74s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 74s Selecting previously unselected package libjbig0:amd64. 74s Preparing to unpack .../33-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 74s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 74s Selecting previously unselected package libwebp7:amd64. 74s Preparing to unpack .../34-libwebp7_1.4.0-0.1_amd64.deb ... 74s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 74s Selecting previously unselected package libtiff6:amd64. 74s Preparing to unpack .../35-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 74s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 74s Selecting previously unselected package libwebpdemux2:amd64. 74s Preparing to unpack .../36-libwebpdemux2_1.4.0-0.1_amd64.deb ... 74s Unpacking libwebpdemux2:amd64 (1.4.0-0.1) ... 75s Selecting previously unselected package libwebpmux3:amd64. 75s Preparing to unpack .../37-libwebpmux3_1.4.0-0.1_amd64.deb ... 75s Unpacking libwebpmux3:amd64 (1.4.0-0.1) ... 75s Selecting previously unselected package python-pyfaidx-examples. 75s Preparing to unpack .../38-python-pyfaidx-examples_0.8.1.3-1_all.deb ... 75s Unpacking python-pyfaidx-examples (0.8.1.3-1) ... 75s Selecting previously unselected package python3.13. 75s Preparing to unpack .../39-python3.13_3.13.0-2_amd64.deb ... 75s Unpacking python3.13 (3.13.0-2) ... 75s Selecting previously unselected package python3-all. 75s Preparing to unpack .../40-python3-all_3.12.7-1_amd64.deb ... 75s Unpacking python3-all (3.12.7-1) ... 75s Selecting previously unselected package python3-numpy. 75s Preparing to unpack .../41-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 75s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 75s Selecting previously unselected package libopenjp2-7:amd64. 75s Preparing to unpack .../42-libopenjp2-7_2.5.0-2ubuntu1_amd64.deb ... 75s Unpacking libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 75s Selecting previously unselected package python3-pil:amd64. 75s Preparing to unpack .../43-python3-pil_10.4.0-1ubuntu1_amd64.deb ... 75s Unpacking python3-pil:amd64 (10.4.0-1ubuntu1) ... 75s Selecting previously unselected package python3-cairo. 75s Preparing to unpack .../44-python3-cairo_1.26.1-2_amd64.deb ... 75s Unpacking python3-cairo (1.26.1-2) ... 75s Selecting previously unselected package python3-freetype. 75s Preparing to unpack .../45-python3-freetype_2.5.1-1_all.deb ... 75s Unpacking python3-freetype (2.5.1-1) ... 75s Selecting previously unselected package python3-rlpycairo. 75s Preparing to unpack .../46-python3-rlpycairo_0.3.0-3_all.deb ... 75s Unpacking python3-rlpycairo (0.3.0-3) ... 75s Selecting previously unselected package python3-reportlab. 75s Preparing to unpack .../47-python3-reportlab_4.2.5-1_all.deb ... 75s Unpacking python3-reportlab (4.2.5-1) ... 75s Selecting previously unselected package xml-core. 75s Preparing to unpack .../48-xml-core_0.19_all.deb ... 75s Unpacking xml-core (0.19) ... 75s Selecting previously unselected package w3c-sgml-lib. 75s Preparing to unpack .../49-w3c-sgml-lib_1.3-3_all.deb ... 75s Unpacking w3c-sgml-lib (1.3-3) ... 75s Selecting previously unselected package python3-biopython. 75s Preparing to unpack .../50-python3-biopython_1.84+dfsg-4_amd64.deb ... 75s Unpacking python3-biopython (1.84+dfsg-4) ... 75s Selecting previously unselected package python3-importlib-metadata. 75s Preparing to unpack .../51-python3-importlib-metadata_8.5.0-1_all.deb ... 75s Unpacking python3-importlib-metadata (8.5.0-1) ... 75s Selecting previously unselected package python3-iniconfig. 75s Preparing to unpack .../52-python3-iniconfig_1.1.1-2_all.deb ... 75s Unpacking python3-iniconfig (1.1.1-2) ... 75s Selecting previously unselected package python3-packaging. 75s Preparing to unpack .../53-python3-packaging_24.1-1_all.deb ... 75s Unpacking python3-packaging (24.1-1) ... 75s Selecting previously unselected package python3-pluggy. 75s Preparing to unpack .../54-python3-pluggy_1.5.0-1_all.deb ... 75s Unpacking python3-pluggy (1.5.0-1) ... 75s Selecting previously unselected package python3-pyfaidx. 75s Preparing to unpack .../55-python3-pyfaidx_0.8.1.3-1_all.deb ... 75s Unpacking python3-pyfaidx (0.8.1.3-1) ... 75s Selecting previously unselected package python3-pytest. 75s Preparing to unpack .../56-python3-pytest_8.3.3-1_all.deb ... 75s Unpacking python3-pytest (8.3.3-1) ... 75s Selecting previously unselected package tabix. 75s Preparing to unpack .../57-tabix_1.20+ds-1_amd64.deb ... 75s Unpacking tabix (1.20+ds-1) ... 75s Selecting previously unselected package autopkgtest-satdep. 75s Preparing to unpack .../58-1-autopkgtest-satdep.deb ... 75s Unpacking autopkgtest-satdep (0) ... 75s Setting up libhtscodecs2:amd64 (1.6.1-1) ... 75s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 75s Setting up liblcms2-2:amd64 (2.16-2) ... 75s Setting up python3-iniconfig (1.1.1-2) ... 76s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 76s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 76s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 76s Setting up python3-importlib-metadata (8.5.0-1) ... 76s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 76s Setting up python-pyfaidx-examples (0.8.1.3-1) ... 76s Setting up libxcb-render0:amd64 (1.17.0-2) ... 76s Setting up x11-common (1:7.7+23ubuntu3) ... 76s Setting up libdeflate0:amd64 (1.22-1) ... 76s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 76s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 76s Setting up python3-freetype (2.5.1-1) ... 76s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 76s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 76s Setting up libfontenc1:amd64 (1:1.1.8-1build1) ... 76s Setting up libblas3:amd64 (3.12.0-3build2) ... 76s 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 76s Setting up python3-packaging (24.1-1) ... 77s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 77s Setting up libimagequant0:amd64 (2.18.0-1build1) ... 77s Setting up fonts-dejavu-mono (2.37-8) ... 77s Setting up fonts-dejavu-core (2.37-8) ... 77s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 77s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 77s Setting up python3-pluggy (1.5.0-1) ... 77s Setting up libwebp7:amd64 (1.4.0-0.1) ... 77s Setting up libopenjp2-7:amd64 (2.5.0-2ubuntu1) ... 77s Setting up python3.13-minimal (3.13.0-2) ... 77s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 77s Setting up sgml-base (1.31) ... 77s Setting up libwebpmux3:amd64 (1.4.0-0.1) ... 77s Setting up tabix (1.20+ds-1) ... 77s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 77s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 77s Setting up python3-pyfaidx (0.8.1.3-1) ... 78s Setting up liblapack3:amd64 (3.12.0-3build2) ... 78s 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 78s Setting up python3.13 (3.13.0-2) ... 78s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 79s Setting up python3-pytest (8.3.3-1) ... 79s Setting up libwebpdemux2:amd64 (1.4.0-0.1) ... 79s Setting up python3-all (3.12.7-1) ... 79s Setting up xfonts-utils (1:7.7+7) ... 79s Setting up libraqm0:amd64 (0.10.1-1build1) ... 79s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 82s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 82s Setting up xml-core (0.19) ... 82s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 82s Setting up fonts-urw-base35 (20200910-8) ... 82s Setting up libcairo2:amd64 (1.18.2-2) ... 82s Setting up python3-pil:amd64 (10.4.0-1ubuntu1) ... 83s Setting up python3-cairo (1.26.1-2) ... 83s Setting up python3-rlpycairo (0.3.0-3) ... 83s Setting up python3-reportlab (4.2.5-1) ... 84s Processing triggers for libc-bin (2.40-1ubuntu3) ... 84s Processing triggers for systemd (256.5-2ubuntu4) ... 84s Processing triggers for man-db (2.12.1-3) ... 85s Processing triggers for sgml-base (1.31) ... 85s Setting up w3c-sgml-lib (1.3-3) ... 108s Setting up python3-biopython (1.84+dfsg-4) ... 110s Setting up autopkgtest-satdep (0) ... 113s (Reading database ... 79752 files and directories currently installed.) 113s Removing autopkgtest-satdep (0) ... 113s autopkgtest [13:38:32]: test run-unit-test: [----------------------- 114s Testing with python3.13 in /tmp/autopkgtest.GWgN0b/build.xT8/src: 114s ============================= test session starts ============================== 114s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 114s cachedir: .pytest_cache 114s rootdir: /tmp/autopkgtest.GWgN0b/build.xT8/src 114s configfile: pyproject.toml 114s plugins: typeguard-4.4.1 114s collecting ... collected 136 items 114s 114s tests/test_FastaRecord.py::test_sequence_uppercase PASSED [ 0%] 114s tests/test_FastaRecord.py::test_long_names PASSED [ 1%] 114s tests/test_FastaRecord.py::test_issue_62 PASSED [ 2%] 114s tests/test_FastaRecord.py::test_unpadded_length PASSED [ 2%] 114s tests/test_FastaRecord.py::test_numpy_array FAILED [ 3%] 114s tests/test_FastaRecord_iter.py::test_fetch_whole_fasta PASSED [ 4%] 114s tests/test_FastaRecord_iter.py::test_line_len PASSED [ 5%] 114s tests/test_FastaRecord_iter.py::test_reverse_iter PASSED [ 5%] 114s tests/test_FastaVariant.py::test_fetch_variant SKIPPED (pysam not in...) [ 6%] 114s tests/test_FastaVariant.py::test_fetch_hom_variant SKIPPED (pysam no...) [ 7%] 114s tests/test_FastaVariant.py::test_fetch_het_variant SKIPPED (pysam no...) [ 8%] 114s tests/test_FastaVariant.py::test_fetch_chr_not_in_vcf SKIPPED (pysam...) [ 8%] 114s tests/test_FastaVariant.py::test_all_pos SKIPPED (pysam not installed.) [ 9%] 114s tests/test_FastaVariant.py::test_all_diff SKIPPED (pysam not installed.) [ 10%] 114s tests/test_Fasta_bgzip.py::test_build_issue_126 SKIPPED (Biopython i...) [ 11%] 114s tests/test_Fasta_bgzip.py::test_integer_slice PASSED [ 11%] 114s tests/test_Fasta_bgzip.py::test_integer_index PASSED [ 12%] 114s tests/test_Fasta_bgzip.py::test_fetch_whole_fasta PASSED [ 13%] 114s tests/test_Fasta_bgzip.py::test_line_len PASSED [ 13%] 114s tests/test_Fasta_bgzip.py::test_mutable_bgzf PASSED [ 14%] 114s tests/test_Fasta_bgzip.py::test_long_names XFAIL [ 15%] 114s tests/test_Fasta_bgzip.py::test_fetch_whole_entry PASSED [ 16%] 114s tests/test_Fasta_bgzip.py::test_fetch_middle PASSED [ 16%] 114s tests/test_Fasta_bgzip.py::test_fetch_end PASSED [ 17%] 114s tests/test_Fasta_bgzip.py::test_fetch_border PASSED [ 18%] 114s tests/test_Fasta_bgzip.py::test_rev PASSED [ 19%] 114s tests/test_Fasta_bgzip.py::test_fetch_past_bounds PASSED [ 19%] 114s tests/test_Fasta_bgzip.py::test_fetch_negative PASSED [ 20%] 114s tests/test_Fasta_bgzip.py::test_fetch_reversed_coordinates PASSED [ 21%] 114s tests/test_Fasta_bgzip.py::test_fetch_keyerror PASSED [ 22%] 114s tests/test_Fasta_bgzip.py::test_blank_string PASSED [ 22%] 114s tests/test_Fasta_bgzip.py::test_slice_from_beginning PASSED [ 23%] 114s tests/test_Fasta_bgzip.py::test_slice_from_end PASSED [ 24%] 114s tests/test_Fasta_bgzip.py::test_issue_74_start PASSED [ 25%] 114s tests/test_Fasta_bgzip.py::test_issue_74_consistency PASSED [ 25%] 114s tests/test_Fasta_bgzip.py::test_issue_74_end_faidx PASSED [ 26%] 114s tests/test_Fasta_bgzip.py::test_issue_74_end_fasta PASSED [ 27%] 114s tests/test_Fasta_bgzip.py::test_issue_79_fix PASSED [ 27%] 114s tests/test_Fasta_bgzip.py::test_issue_79_fix_negate PASSED [ 28%] 114s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false PASSED [ 29%] 114s tests/test_Fasta_bgzip.py::test_issue_79_fix_one_based_false_negate PASSED [ 30%] 114s tests/test_Fasta_bgzip.py::test_fetch_border_padded PASSED [ 30%] 114s tests/test_Fasta_integer_index.py::test_integer_slice PASSED [ 31%] 114s tests/test_Fasta_integer_index.py::test_integer_index PASSED [ 32%] 114s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads PASSED [ 33%] 115s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_reads_and_writes PASSED [ 33%] 115s tests/test_Fasta_synchronization.py::TestFastaIntIndex::test_simultaneous_writes PASSED [ 34%] 115s tests/test_Path.py::test_Faidx PASSED [ 35%] 115s tests/test_Path.py::test_Fasta PASSED [ 36%] 115s tests/test_bio_seqio.py::test_fetch_whole_entry SKIPPED (Biopython i...) [ 36%] 115s tests/test_bio_seqio.py::test_slice_whole_entry SKIPPED (Biopython i...) [ 37%] 115s tests/test_bio_seqio.py::test_revcomp_whole_entry SKIPPED (Biopython...) [ 38%] 115s tests/test_faidx.py::test_short_line_lengths PASSED [ 38%] 115s tests/test_faidx.py::test_fetch_whole_file PASSED [ 39%] 115s tests/test_faidx.py::test_split_entry PASSED [ 40%] 115s tests/test_faidx.py::test_fetch_error PASSED [ 41%] 115s tests/test_faidx.py::test_key_warning PASSED [ 41%] 115s tests/test_faidx.py::test_auto_strand PASSED [ 42%] 115s tests/test_faidx.py::test_regexp PASSED [ 43%] 115s tests/test_faidx.py::test_not_regexp PASSED [ 44%] 115s tests/test_faidx.py::test_not_regexp_multi PASSED [ 44%] 115s tests/test_feature_bounds_check.py::test_index_zero_length PASSED [ 45%] 115s tests/test_feature_bounds_check.py::test_fetch_zero_length PASSED [ 46%] 115s tests/test_feature_bounds_check.py::test_as_raw_zero_length_subsequence PASSED [ 47%] 115s tests/test_feature_bounds_check.py::test_zero_length_subsequence PASSED [ 47%] 115s tests/test_feature_bounds_check.py::test_fetch_whole_entry PASSED [ 48%] 115s tests/test_feature_bounds_check.py::test_fetch_middle 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[ 93%] 124s tests/test_sequence_class.py::test_negate PASSED [ 94%] 124s tests/test_sequence_class.py::test_negate_metadata PASSED [ 94%] 124s tests/test_sequence_class.py::test_seq_invalid PASSED [ 95%] 124s tests/test_sequence_class.py::test_integer_index PASSED [ 96%] 124s tests/test_sequence_class.py::test_slice_index PASSED [ 97%] 124s tests/test_sequence_class.py::test_comp_invalid PASSED [ 97%] 124s tests/test_sequence_class.py::test_check_coordinates PASSED [ 98%] 124s tests/test_sequence_class.py::test_comp_valid PASSED [ 99%] 124s tests/test_sequence_class.py::test_comp_empty PASSED [100%] 124s 124s =================================== FAILURES =================================== 124s _______________________________ test_numpy_array _______________________________ 124s 124s """ 124s Contains the core of NumPy: ndarray, ufuncs, dtypes, etc. 124s 124s Please note that this module is private. All functions and objects 124s are available in the main ``numpy`` namespace - use that instead. 124s 124s """ 124s 124s import os 124s import warnings 124s 124s from numpy.version import version as __version__ 124s 124s 124s # disables OpenBLAS affinity setting of the main thread that limits 124s # python threads or processes to one core 124s env_added = [] 124s for envkey in ['OPENBLAS_MAIN_FREE', 'GOTOBLAS_MAIN_FREE']: 124s if envkey not in os.environ: 124s os.environ[envkey] = '1' 124s env_added.append(envkey) 124s 124s try: 124s > from . import multiarray 124s 124s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: 124s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 124s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 124s from . import overrides 124s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 124s 124s """Implementation of __array_function__ overrides from NEP-18.""" 124s import collections 124s import functools 124s import os 124s 124s from .._utils import set_module 124s from .._utils._inspect import getargspec 124s > from numpy.core._multiarray_umath import ( 124s add_docstring, _get_implementing_args, _ArrayFunctionDispatcher) 124s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 124s 124s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: ModuleNotFoundError 124s 124s During handling of the above exception, another exception occurred: 124s 124s """ 124s NumPy 124s ===== 124s 124s Provides 124s 1. An array object of arbitrary homogeneous items 124s 2. Fast mathematical operations over arrays 124s 3. Linear Algebra, Fourier Transforms, Random Number Generation 124s 124s How to use the documentation 124s ---------------------------- 124s Documentation is available in two forms: docstrings provided 124s with the code, and a loose standing reference guide, available from 124s `the NumPy homepage `_. 124s 124s We recommend exploring the docstrings using 124s `IPython `_, an advanced Python shell with 124s TAB-completion and introspection capabilities. See below for further 124s instructions. 124s 124s The docstring examples assume that `numpy` has been imported as ``np``:: 124s 124s >>> import numpy as np 124s 124s Code snippets are indicated by three greater-than signs:: 124s 124s >>> x = 42 124s >>> x = x + 1 124s 124s Use the built-in ``help`` function to view a function's docstring:: 124s 124s >>> help(np.sort) 124s ... # doctest: +SKIP 124s 124s For some objects, ``np.info(obj)`` may provide additional help. This is 124s particularly true if you see the line "Help on ufunc object:" at the top 124s of the help() page. Ufuncs are implemented in C, not Python, for speed. 124s The native Python help() does not know how to view their help, but our 124s np.info() function does. 124s 124s To search for documents containing a keyword, do:: 124s 124s >>> np.lookfor('keyword') 124s ... # doctest: +SKIP 124s 124s General-purpose documents like a glossary and help on the basic concepts 124s of numpy are available under the ``doc`` sub-module:: 124s 124s >>> from numpy import doc 124s >>> help(doc) 124s ... # doctest: +SKIP 124s 124s Available subpackages 124s --------------------- 124s lib 124s Basic functions used by several sub-packages. 124s random 124s Core Random Tools 124s linalg 124s Core Linear Algebra Tools 124s fft 124s Core FFT routines 124s polynomial 124s Polynomial tools 124s testing 124s NumPy testing tools 124s distutils 124s Enhancements to distutils with support for 124s Fortran compilers support and more (for Python <= 3.11). 124s 124s Utilities 124s --------- 124s test 124s Run numpy unittests 124s show_config 124s Show numpy build configuration 124s matlib 124s Make everything matrices. 124s __version__ 124s NumPy version string 124s 124s Viewing documentation using IPython 124s ----------------------------------- 124s 124s Start IPython and import `numpy` usually under the alias ``np``: `import 124s numpy as np`. Then, directly past or use the ``%cpaste`` magic to paste 124s examples into the shell. To see which functions are available in `numpy`, 124s type ``np.`` (where ```` refers to the TAB key), or use 124s ``np.*cos*?`` (where ```` refers to the ENTER key) to narrow 124s down the list. To view the docstring for a function, use 124s ``np.cos?`` (to view the docstring) and ``np.cos??`` (to view 124s the source code). 124s 124s Copies vs. in-place operation 124s ----------------------------- 124s Most of the functions in `numpy` return a copy of the array argument 124s (e.g., `np.sort`). In-place versions of these functions are often 124s available as array methods, i.e. ``x = np.array([1,2,3]); x.sort()``. 124s Exceptions to this rule are documented. 124s 124s """ 124s import sys 124s import warnings 124s 124s from ._globals import _NoValue, _CopyMode 124s # These exceptions were moved in 1.25 and are hidden from __dir__() 124s from .exceptions import ( 124s ComplexWarning, ModuleDeprecationWarning, VisibleDeprecationWarning, 124s TooHardError, AxisError) 124s 124s 124s # If a version with git hash was stored, use that instead 124s from . import version 124s from .version import __version__ 124s 124s # We first need to detect if we're being called as part of the numpy setup 124s # procedure itself in a reliable manner. 124s try: 124s __NUMPY_SETUP__ 124s except NameError: 124s __NUMPY_SETUP__ = False 124s 124s if __NUMPY_SETUP__: 124s sys.stderr.write('Running from numpy source directory.\n') 124s else: 124s # Allow distributors to run custom init code before importing numpy.core 124s from . import _distributor_init 124s 124s try: 124s > from numpy.__config__ import show as show_config 124s 124s /usr/lib/python3/dist-packages/numpy/__init__.py:130: 124s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 124s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 124s from numpy.core._multiarray_umath import ( 124s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 124s 124s """ 124s Contains the core of NumPy: ndarray, ufuncs, dtypes, etc. 124s 124s Please note that this module is private. All functions and objects 124s are available in the main ``numpy`` namespace - use that instead. 124s 124s """ 124s 124s import os 124s import warnings 124s 124s from numpy.version import version as __version__ 124s 124s 124s # disables OpenBLAS affinity setting of the main thread that limits 124s # python threads or processes to one core 124s env_added = [] 124s for envkey in ['OPENBLAS_MAIN_FREE', 'GOTOBLAS_MAIN_FREE']: 124s if envkey not in os.environ: 124s os.environ[envkey] = '1' 124s env_added.append(envkey) 124s 124s try: 124s from . import multiarray 124s except ImportError as exc: 124s import sys 124s msg = """ 124s 124s IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 124s 124s Importing the numpy C-extensions failed. This error can happen for 124s many reasons, often due to issues with your setup or how NumPy was 124s installed. 124s 124s We have compiled some common reasons and troubleshooting tips at: 124s 124s https://numpy.org/devdocs/user/troubleshooting-importerror.html 124s 124s Please note and check the following: 124s 124s * The Python version is: Python%d.%d from "%s" 124s * The NumPy version is: "%s" 124s 124s and make sure that they are the versions you expect. 124s Please carefully study the documentation linked above for further help. 124s 124s Original error was: %s 124s """ % (sys.version_info[0], sys.version_info[1], sys.executable, 124s __version__, exc) 124s > raise ImportError(msg) 124s E ImportError: 124s E 124s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 124s E 124s E Importing the numpy C-extensions failed. This error can happen for 124s E many reasons, often due to issues with your setup or how NumPy was 124s E installed. 124s E 124s E We have compiled some common reasons and troubleshooting tips at: 124s E 124s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 124s E 124s E Please note and check the following: 124s E 124s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 124s E * The NumPy version is: "1.26.4" 124s E 124s E and make sure that they are the versions you expect. 124s E Please carefully study the documentation linked above for further help. 124s E 124s E Original error was: No module named 'numpy.core._multiarray_umath' 124s 124s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: ImportError 124s 124s The above exception was the direct cause of the following exception: 124s 124s remove_index = None 124s 124s def test_numpy_array(remove_index): 124s """ Test the __array_interface__ """ 124s > import numpy 124s 124s /tmp/autopkgtest.GWgN0b/build.xT8/src/tests/test_FastaRecord.py:103: 124s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 124s 124s """ 124s NumPy 124s ===== 124s 124s Provides 124s 1. An array object of arbitrary homogeneous items 124s 2. Fast mathematical operations over arrays 124s 3. Linear Algebra, Fourier Transforms, Random Number Generation 124s 124s How to use the documentation 124s ---------------------------- 124s Documentation is available in two forms: docstrings provided 124s with the code, and a loose standing reference guide, available from 124s `the NumPy homepage `_. 124s 124s We recommend exploring the docstrings using 124s `IPython `_, an advanced Python shell with 124s TAB-completion and introspection capabilities. See below for further 124s instructions. 124s 124s The docstring examples assume that `numpy` has been imported as ``np``:: 124s 124s >>> import numpy as np 124s 124s Code snippets are indicated by three greater-than signs:: 124s 124s >>> x = 42 124s >>> x = x + 1 124s 124s Use the built-in ``help`` function to view a function's docstring:: 124s 124s >>> help(np.sort) 124s ... # doctest: +SKIP 124s 124s For some objects, ``np.info(obj)`` may provide additional help. This is 124s particularly true if you see the line "Help on ufunc object:" at the top 124s of the help() page. Ufuncs are implemented in C, not Python, for speed. 124s The native Python help() does not know how to view their help, but our 124s np.info() function does. 124s 124s To search for documents containing a keyword, do:: 124s 124s >>> np.lookfor('keyword') 124s ... # doctest: +SKIP 124s 124s General-purpose documents like a glossary and help on the basic concepts 124s of numpy are available under the ``doc`` sub-module:: 124s 124s >>> from numpy import doc 124s >>> help(doc) 124s ... # doctest: +SKIP 124s 124s Available subpackages 124s --------------------- 124s lib 124s Basic functions used by several sub-packages. 124s random 124s Core Random Tools 124s linalg 124s Core Linear Algebra Tools 124s fft 124s Core FFT routines 124s polynomial 124s Polynomial tools 124s testing 124s NumPy testing tools 124s distutils 124s Enhancements to distutils with support for 124s Fortran compilers support and more (for Python <= 3.11). 124s 124s Utilities 124s --------- 124s test 124s Run numpy unittests 124s show_config 124s Show numpy build configuration 124s matlib 124s Make everything matrices. 124s __version__ 124s NumPy version string 124s 124s Viewing documentation using IPython 124s ----------------------------------- 124s 124s Start IPython and import `numpy` usually under the alias ``np``: `import 124s numpy as np`. Then, directly past or use the ``%cpaste`` magic to paste 124s examples into the shell. To see which functions are available in `numpy`, 124s type ``np.`` (where ```` refers to the TAB key), or use 124s ``np.*cos*?`` (where ```` refers to the ENTER key) to narrow 124s down the list. To view the docstring for a function, use 124s ``np.cos?`` (to view the docstring) and ``np.cos??`` (to view 124s the source code). 124s 124s Copies vs. in-place operation 124s ----------------------------- 124s Most of the functions in `numpy` return a copy of the array argument 124s (e.g., `np.sort`). In-place versions of these functions are often 124s available as array methods, i.e. ``x = np.array([1,2,3]); x.sort()``. 124s Exceptions to this rule are documented. 124s 124s """ 124s import sys 124s import warnings 124s 124s from ._globals import _NoValue, _CopyMode 124s # These exceptions were moved in 1.25 and are hidden from __dir__() 124s from .exceptions import ( 124s ComplexWarning, ModuleDeprecationWarning, VisibleDeprecationWarning, 124s TooHardError, AxisError) 124s 124s 124s # If a version with git hash was stored, use that instead 124s from . import version 124s from .version import __version__ 124s 124s # We first need to detect if we're being called as part of the numpy setup 124s # procedure itself in a reliable manner. 124s try: 124s __NUMPY_SETUP__ 124s except NameError: 124s __NUMPY_SETUP__ = False 124s 124s if __NUMPY_SETUP__: 124s sys.stderr.write('Running from numpy source directory.\n') 124s else: 124s # Allow distributors to run custom init code before importing numpy.core 124s from . import _distributor_init 124s 124s try: 124s from numpy.__config__ import show as show_config 124s except ImportError as e: 124s msg = """Error importing numpy: you should not try to import numpy from 124s its source directory; please exit the numpy source tree, and relaunch 124s your python interpreter from there.""" 124s > raise ImportError(msg) from e 124s E ImportError: Error importing numpy: you should not try to import numpy from 124s E its source directory; please exit the numpy source tree, and relaunch 124s E your python interpreter from there. 124s 124s /usr/lib/python3/dist-packages/numpy/__init__.py:135: ImportError 124s =========================== short test summary info ============================ 124s FAILED tests/test_FastaRecord.py::test_numpy_array - ImportError: Error impor... 124s ============ 1 failed, 120 passed, 14 skipped, 1 xfailed in 10.31s ============= 125s autopkgtest [13:38:44]: test run-unit-test: -----------------------] 125s autopkgtest [13:38:44]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 125s run-unit-test FAIL non-zero exit status 1 125s autopkgtest [13:38:44]: test autodep8-python3: preparing testbed 185s autopkgtest [13:39:44]: testbed dpkg architecture: amd64 186s autopkgtest [13:39:45]: testbed apt version: 2.9.8 186s autopkgtest [13:39:45]: @@@@@@@@@@@@@@@@@@@@ test bed setup 186s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 187s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 187s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 187s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [983 kB] 187s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [105 kB] 187s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [138 kB] 187s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [79.9 kB] 187s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 187s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [291 kB] 187s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [749 kB] 187s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9252 B] 187s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [1084 B] 187s Fetched 2484 kB in 1s (2883 kB/s) 187s Reading package lists... 189s Reading package lists... 189s Building dependency tree... 189s Reading state information... 190s Calculating upgrade... 190s The following NEW packages will be installed: 190s python3.13-gdbm 190s The following packages will be upgraded: 190s libpython3-stdlib pastebinit python3 python3-gdbm python3-minimal 190s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 190s Need to get 116 kB of archives. 190s After this operation, 100 kB of additional disk space will be used. 190s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 190s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 190s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 190s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 190s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 190s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 190s Fetched 116 kB in 0s (341 kB/s) 191s (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.) 191s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 191s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 191s Setting up python3-minimal (3.12.7-1) ... 191s (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.) 191s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 191s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 191s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 191s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 191s Selecting previously unselected package python3.13-gdbm. 191s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 191s Unpacking python3.13-gdbm (3.13.0-2) ... 191s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 191s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 191s Preparing to unpack .../pastebinit_1.7.1-1_all.deb ... 191s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 191s Setting up python3.13-gdbm (3.13.0-2) ... 191s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 191s Setting up python3 (3.12.7-1) ... 191s Setting up python3-gdbm:amd64 (3.12.7-1) ... 191s Setting up pastebinit (1.7.1-1) ... 191s Processing triggers for man-db (2.12.1-3) ... 192s Reading package lists... 192s Building dependency tree... 192s Reading state information... 192s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 193s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 193s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 193s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 193s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 194s Reading package lists... 194s Reading package lists... 194s Building dependency tree... 194s Reading state information... 194s Calculating upgrade... 194s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 194s Reading package lists... 194s Building dependency tree... 194s Reading state information... 195s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 199s Reading package lists... 200s Building dependency tree... 200s Reading state information... 200s Starting pkgProblemResolver with broken count: 0 200s Starting 2 pkgProblemResolver with broken count: 0 200s Done 200s The following additional packages will be installed: 200s libpython3.13-minimal libpython3.13-stdlib python3-all 200s python3-importlib-metadata python3-packaging python3-pyfaidx python3.13 200s python3.13-minimal 200s Suggested packages: 200s python3.13-venv python3.13-doc binfmt-support 200s Recommended packages: 200s python3-biopython 200s The following NEW packages will be installed: 200s autopkgtest-satdep libpython3.13-minimal libpython3.13-stdlib python3-all 200s python3-importlib-metadata python3-packaging python3-pyfaidx python3.13 200s python3.13-minimal 200s 0 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. 200s Need to get 5985 kB/5986 kB of archives. 200s After this operation, 22.8 MB of additional disk space will be used. 200s Get:1 /tmp/autopkgtest.GWgN0b/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [712 B] 200s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 201s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 201s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 201s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 201s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 201s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-importlib-metadata all 8.5.0-1 [20.7 kB] 201s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 201s Get:9 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyfaidx all 0.8.1.3-1 [29.7 kB] 201s Fetched 5985 kB in 1s (6076 kB/s) 201s Selecting previously unselected package libpython3.13-minimal:amd64. 201s (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 ... 75549 files and directories currently installed.) 201s Preparing to unpack .../0-libpython3.13-minimal_3.13.0-2_amd64.deb ... 201s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 202s Selecting previously unselected package python3.13-minimal. 202s Preparing to unpack .../1-python3.13-minimal_3.13.0-2_amd64.deb ... 202s Unpacking python3.13-minimal (3.13.0-2) ... 202s Selecting previously unselected package libpython3.13-stdlib:amd64. 202s Preparing to unpack .../2-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 202s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 202s Selecting previously unselected package python3.13. 202s Preparing to unpack .../3-python3.13_3.13.0-2_amd64.deb ... 202s Unpacking python3.13 (3.13.0-2) ... 202s Selecting previously unselected package python3-all. 202s Preparing to unpack .../4-python3-all_3.12.7-1_amd64.deb ... 202s Unpacking python3-all (3.12.7-1) ... 202s Selecting previously unselected package python3-importlib-metadata. 202s Preparing to unpack .../5-python3-importlib-metadata_8.5.0-1_all.deb ... 202s Unpacking python3-importlib-metadata (8.5.0-1) ... 202s Selecting previously unselected package python3-packaging. 202s Preparing to unpack .../6-python3-packaging_24.1-1_all.deb ... 202s Unpacking python3-packaging (24.1-1) ... 202s Selecting previously unselected package python3-pyfaidx. 202s Preparing to unpack .../7-python3-pyfaidx_0.8.1.3-1_all.deb ... 202s Unpacking python3-pyfaidx (0.8.1.3-1) ... 202s Selecting previously unselected package autopkgtest-satdep. 202s Preparing to unpack .../8-2-autopkgtest-satdep.deb ... 202s Unpacking autopkgtest-satdep (0) ... 202s Setting up python3-importlib-metadata (8.5.0-1) ... 202s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 202s Setting up python3-packaging (24.1-1) ... 202s Setting up python3.13-minimal (3.13.0-2) ... 203s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 203s Setting up python3-pyfaidx (0.8.1.3-1) ... 203s Setting up python3.13 (3.13.0-2) ... 204s Setting up python3-all (3.12.7-1) ... 204s Setting up autopkgtest-satdep (0) ... 204s Processing triggers for man-db (2.12.1-3) ... 204s Processing triggers for systemd (256.5-2ubuntu4) ... 206s (Reading database ... 76344 files and directories currently installed.) 206s Removing autopkgtest-satdep (0) ... 209s autopkgtest [13:40:08]: 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 209s autopkgtest [13:40:08]: test autodep8-python3: [----------------------- 210s Testing with python3.13: 210s 210s Testing with python3.12: 210s 210s autopkgtest [13:40:09]: test autodep8-python3: -----------------------] 210s autodep8-python3 PASS (superficial) 210s autopkgtest [13:40:09]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 211s autopkgtest [13:40:10]: @@@@@@@@@@@@@@@@@@@@ summary 211s run-unit-test FAIL non-zero exit status 1 211s autodep8-python3 PASS (superficial) 223s nova [W] Skipping flock for amd64 223s Creating nova instance adt-plucky-amd64-python-pyfaidx-20241114-133638-juju-7f2275-prod-proposed-migration-environment-20-c650d61f-6901-4bb6-a5a6-213282004b58 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)... 223s nova [W] Skipping flock for amd64 223s Creating nova instance adt-plucky-amd64-python-pyfaidx-20241114-133638-juju-7f2275-prod-proposed-migration-environment-20-c650d61f-6901-4bb6-a5a6-213282004b58 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)...