0s autopkgtest [09:33:07]: starting date and time: 2024-11-13 09:33:07+0000 0s autopkgtest [09:33:07]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [09:33:07]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.j7bst1a8/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 pyensembl --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-15@bos03-12.secgroup --name adt-plucky-amd64-pyensembl-20241113-093307-juju-7f2275-prod-proposed-migration-environment-15-a6738dd9-c66e-40ef-8b90-8cb7482c7688 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --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/ 709s autopkgtest [09:44:55]: testbed dpkg architecture: amd64 709s autopkgtest [09:44:56]: testbed apt version: 2.9.8 709s autopkgtest [09:44:56]: @@@@@@@@@@@@@@@@@@@@ test bed setup 710s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 710s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 710s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 710s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 710s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 710s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB] 710s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [65.2 kB] 710s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 710s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [639 kB] 710s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [255 kB] 710s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [13.0 kB] 710s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [37.7 kB] 711s Fetched 2175 kB in 1s (2308 kB/s) 711s Reading package lists... 715s Reading package lists... 715s Building dependency tree... 715s Reading state information... 715s Calculating upgrade... 715s The following NEW packages will be installed: 715s python3.13-gdbm 715s The following packages will be upgraded: 715s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 715s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 715s Need to get 253 kB of archives. 715s After this operation, 147 kB of additional disk space will be used. 715s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 716s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 716s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 716s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 716s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 716s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.23.2-5ubuntu4 [152 kB] 716s Fetched 253 kB in 0s (541 kB/s) 716s (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 ... 75541 files and directories currently installed.) 716s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 716s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 716s Setting up python3-minimal (3.12.7-1) ... 716s (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 ... 75541 files and directories currently installed.) 716s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 717s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 717s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 717s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 717s Selecting previously unselected package python3.13-gdbm. 717s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 717s Unpacking python3.13-gdbm (3.13.0-2) ... 717s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 717s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 717s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_amd64.deb ... 717s Unpacking libgpgme11t64:amd64 (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 717s Setting up libgpgme11t64:amd64 (1.23.2-5ubuntu4) ... 717s Setting up python3.13-gdbm (3.13.0-2) ... 717s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 717s Setting up python3 (3.12.7-1) ... 717s Setting up python3-gdbm:amd64 (3.12.7-1) ... 717s Processing triggers for man-db (2.12.1-3) ... 717s Processing triggers for libc-bin (2.40-1ubuntu3) ... 718s Reading package lists... 718s Building dependency tree... 718s Reading state information... 718s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 719s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 719s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 719s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 719s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 720s Reading package lists... 720s Reading package lists... 720s Building dependency tree... 720s Reading state information... 720s Calculating upgrade... 720s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 720s Reading package lists... 720s Building dependency tree... 720s Reading state information... 720s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 725s autopkgtest [09:45:12]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 725s autopkgtest [09:45:12]: @@@@@@@@@@@@@@@@@@@@ apt-source pyensembl 727s Get:1 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (dsc) [2291 B] 727s Get:2 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (tar) [60.7 kB] 727s Get:3 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (diff) [5404 B] 727s gpgv: Signature made Sat May 11 16:47:07 2024 UTC 727s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 727s gpgv: issuer "tchet@debian.org" 727s gpgv: Can't check signature: No public key 727s dpkg-source: warning: cannot verify inline signature for ./pyensembl_2.3.13-1.dsc: no acceptable signature found 727s autopkgtest [09:45:14]: testing package pyensembl version 2.3.13-1 729s autopkgtest [09:45:16]: build not needed 730s autopkgtest [09:45:17]: test run-unit-test: preparing testbed 738s Reading package lists... 738s Building dependency tree... 738s Reading state information... 739s Starting pkgProblemResolver with broken count: 0 739s Starting 2 pkgProblemResolver with broken count: 0 739s Done 739s The following additional packages will be installed: 739s libblas3 libgfortran5 libjs-jquery libjs-sphinxdoc libjs-underscore 739s liblapack3 libpython3.13-minimal libpython3.13-stdlib pyensembl pylint 739s python3-all python3-astroid python3-datacache python3-dateutil python3-dill 739s python3-gtfparse python3-iniconfig python3-isort python3-logilab-common 739s python3-mccabe python3-memoized-property python3-mypy-extensions 739s python3-numpy python3-packaging python3-pandas python3-pandas-lib 739s python3-platformdirs python3-pluggy python3-pytest python3-serializable 739s python3-simplejson python3-six python3-tomlkit python3-typechecks python3-tz 739s python3.13 python3.13-minimal 739s Suggested packages: 739s python3-objgraph gcc gfortran python-numpy-doc python3-dev python-pandas-doc 739s python3-statsmodels python3.13-venv python3.13-doc binfmt-support 739s Recommended packages: 739s javascript-common python3-tk python3-scipy python3-matplotlib 739s python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 739s python3-html5lib python3-lxml python3-tables python3-numba 739s The following NEW packages will be installed: 739s autopkgtest-satdep libblas3 libgfortran5 libjs-jquery libjs-sphinxdoc 739s libjs-underscore liblapack3 libpython3.13-minimal libpython3.13-stdlib 739s pyensembl pylint python3-all python3-astroid python3-datacache 739s python3-dateutil python3-dill python3-gtfparse python3-iniconfig 739s python3-isort python3-logilab-common python3-mccabe 739s python3-memoized-property python3-mypy-extensions python3-numpy 739s python3-packaging python3-pandas python3-pandas-lib python3-platformdirs 739s python3-pluggy python3-pytest python3-serializable python3-simplejson 739s python3-six python3-tomlkit python3-typechecks python3-tz python3.13 739s python3.13-minimal 739s 0 upgraded, 38 newly installed, 0 to remove and 0 not upgraded. 739s Need to get 24.6 MB/24.6 MB of archives. 739s After this operation, 118 MB of additional disk space will be used. 739s Get:1 /tmp/autopkgtest.JAlU9m/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [716 B] 739s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 740s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 740s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 740s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 740s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 740s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 740s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] 740s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 740s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 740s Get:11 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-astroid all 3.2.2-1 [174 kB] 740s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-isort all 5.13.2-2 [59.3 kB] 740s Get:13 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mypy-extensions all 1.0.0-1 [6148 B] 740s Get:14 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-logilab-common all 2.0.0-1 [281 kB] 740s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-dill all 0.3.9-1 [84.5 kB] 740s Get:16 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mccabe all 0.7.0-1 [8678 B] 740s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-platformdirs all 4.3.6-1 [16.8 kB] 740s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-tomlkit all 0.13.2-1 [37.6 kB] 740s Get:19 http://ftpmaster.internal/ubuntu plucky/universe amd64 pylint all 3.2.7-1 [343 kB] 740s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-six all 1.16.0-7 [13.1 kB] 740s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-2 [80.3 kB] 740s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 740s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2024.1-2 [31.4 kB] 740s Get:24 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-5 [5087 kB] 740s Get:25 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-5 [3112 kB] 740s Get:26 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-typechecks all 0.1.0+ds-4 [4562 B] 740s Get:27 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-datacache all 1.4.1-2 [13.1 kB] 740s Get:28 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-gtfparse all 1.3.0+ds-1 [10.1 kB] 740s Get:29 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-memoized-property all 1.0.3-2 [5286 B] 740s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-simplejson amd64 3.19.3-1 [58.7 kB] 740s Get:31 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-serializable all 0.4.1+ds-1 [8392 B] 740s Get:32 http://ftpmaster.internal/ubuntu plucky/universe amd64 pyensembl all 2.3.13-1 [37.1 kB] 740s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 740s Get:34 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 740s Get:35 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 740s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 741s Get:37 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 741s Get:38 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 741s Fetched 24.6 MB in 1s (17.3 MB/s) 741s Selecting previously unselected package libpython3.13-minimal:amd64. 741s (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 ... 75548 files and directories currently installed.) 741s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 741s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 741s Selecting previously unselected package python3.13-minimal. 741s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 741s Unpacking python3.13-minimal (3.13.0-2) ... 741s Selecting previously unselected package libblas3:amd64. 741s Preparing to unpack .../02-libblas3_3.12.0-3build2_amd64.deb ... 741s Unpacking libblas3:amd64 (3.12.0-3build2) ... 741s Selecting previously unselected package libgfortran5:amd64. 741s Preparing to unpack .../03-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 741s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 741s Selecting previously unselected package libjs-jquery. 741s Preparing to unpack .../04-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 741s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 741s Selecting previously unselected package libjs-underscore. 741s Preparing to unpack .../05-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 741s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 741s Selecting previously unselected package libjs-sphinxdoc. 741s Preparing to unpack .../06-libjs-sphinxdoc_7.4.7-4_all.deb ... 741s Unpacking libjs-sphinxdoc (7.4.7-4) ... 741s Selecting previously unselected package liblapack3:amd64. 741s Preparing to unpack .../07-liblapack3_3.12.0-3build2_amd64.deb ... 741s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 741s Selecting previously unselected package libpython3.13-stdlib:amd64. 741s Preparing to unpack .../08-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 741s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 741s Selecting previously unselected package python3-astroid. 741s Preparing to unpack .../09-python3-astroid_3.2.2-1_all.deb ... 741s Unpacking python3-astroid (3.2.2-1) ... 741s Selecting previously unselected package python3-isort. 741s Preparing to unpack .../10-python3-isort_5.13.2-2_all.deb ... 741s Unpacking python3-isort (5.13.2-2) ... 741s Selecting previously unselected package python3-mypy-extensions. 741s Preparing to unpack .../11-python3-mypy-extensions_1.0.0-1_all.deb ... 741s Unpacking python3-mypy-extensions (1.0.0-1) ... 741s Selecting previously unselected package python3-logilab-common. 741s Preparing to unpack .../12-python3-logilab-common_2.0.0-1_all.deb ... 741s Unpacking python3-logilab-common (2.0.0-1) ... 741s Selecting previously unselected package python3-dill. 741s Preparing to unpack .../13-python3-dill_0.3.9-1_all.deb ... 741s Unpacking python3-dill (0.3.9-1) ... 741s Selecting previously unselected package python3-mccabe. 741s Preparing to unpack .../14-python3-mccabe_0.7.0-1_all.deb ... 741s Unpacking python3-mccabe (0.7.0-1) ... 741s Selecting previously unselected package python3-platformdirs. 741s Preparing to unpack .../15-python3-platformdirs_4.3.6-1_all.deb ... 741s Unpacking python3-platformdirs (4.3.6-1) ... 741s Selecting previously unselected package python3-tomlkit. 741s Preparing to unpack .../16-python3-tomlkit_0.13.2-1_all.deb ... 741s Unpacking python3-tomlkit (0.13.2-1) ... 741s Selecting previously unselected package pylint. 741s Preparing to unpack .../17-pylint_3.2.7-1_all.deb ... 741s Unpacking pylint (3.2.7-1) ... 741s Selecting previously unselected package python3-six. 742s Preparing to unpack .../18-python3-six_1.16.0-7_all.deb ... 742s Unpacking python3-six (1.16.0-7) ... 742s Selecting previously unselected package python3-dateutil. 742s Preparing to unpack .../19-python3-dateutil_2.9.0-2_all.deb ... 742s Unpacking python3-dateutil (2.9.0-2) ... 742s Selecting previously unselected package python3-numpy. 742s Preparing to unpack .../20-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 742s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 742s Selecting previously unselected package python3-tz. 742s Preparing to unpack .../21-python3-tz_2024.1-2_all.deb ... 742s Unpacking python3-tz (2024.1-2) ... 742s Selecting previously unselected package python3-pandas-lib:amd64. 742s Preparing to unpack .../22-python3-pandas-lib_2.2.3+dfsg-5_amd64.deb ... 742s Unpacking python3-pandas-lib:amd64 (2.2.3+dfsg-5) ... 742s Selecting previously unselected package python3-pandas. 742s Preparing to unpack .../23-python3-pandas_2.2.3+dfsg-5_all.deb ... 742s Unpacking python3-pandas (2.2.3+dfsg-5) ... 742s Selecting previously unselected package python3-typechecks. 742s Preparing to unpack .../24-python3-typechecks_0.1.0+ds-4_all.deb ... 742s Unpacking python3-typechecks (0.1.0+ds-4) ... 742s Selecting previously unselected package python3-datacache. 742s Preparing to unpack .../25-python3-datacache_1.4.1-2_all.deb ... 742s Unpacking python3-datacache (1.4.1-2) ... 742s Selecting previously unselected package python3-gtfparse. 742s Preparing to unpack .../26-python3-gtfparse_1.3.0+ds-1_all.deb ... 742s Unpacking python3-gtfparse (1.3.0+ds-1) ... 742s Selecting previously unselected package python3-memoized-property. 742s Preparing to unpack .../27-python3-memoized-property_1.0.3-2_all.deb ... 742s Unpacking python3-memoized-property (1.0.3-2) ... 742s Selecting previously unselected package python3-simplejson. 742s Preparing to unpack .../28-python3-simplejson_3.19.3-1_amd64.deb ... 742s Unpacking python3-simplejson (3.19.3-1) ... 742s Selecting previously unselected package python3-serializable. 742s Preparing to unpack .../29-python3-serializable_0.4.1+ds-1_all.deb ... 742s Unpacking python3-serializable (0.4.1+ds-1) ... 742s Selecting previously unselected package pyensembl. 742s Preparing to unpack .../30-pyensembl_2.3.13-1_all.deb ... 742s Unpacking pyensembl (2.3.13-1) ... 742s Selecting previously unselected package python3.13. 742s Preparing to unpack .../31-python3.13_3.13.0-2_amd64.deb ... 742s Unpacking python3.13 (3.13.0-2) ... 742s Selecting previously unselected package python3-all. 742s Preparing to unpack .../32-python3-all_3.12.7-1_amd64.deb ... 742s Unpacking python3-all (3.12.7-1) ... 742s Selecting previously unselected package python3-iniconfig. 742s Preparing to unpack .../33-python3-iniconfig_1.1.1-2_all.deb ... 742s Unpacking python3-iniconfig (1.1.1-2) ... 742s Selecting previously unselected package python3-packaging. 742s Preparing to unpack .../34-python3-packaging_24.1-1_all.deb ... 742s Unpacking python3-packaging (24.1-1) ... 742s Selecting previously unselected package python3-pluggy. 742s Preparing to unpack .../35-python3-pluggy_1.5.0-1_all.deb ... 742s Unpacking python3-pluggy (1.5.0-1) ... 742s Selecting previously unselected package python3-pytest. 742s Preparing to unpack .../36-python3-pytest_8.3.3-1_all.deb ... 742s Unpacking python3-pytest (8.3.3-1) ... 742s Selecting previously unselected package autopkgtest-satdep. 742s Preparing to unpack .../37-1-autopkgtest-satdep.deb ... 742s Unpacking autopkgtest-satdep (0) ... 742s Setting up python3-iniconfig (1.1.1-2) ... 743s Setting up python3-typechecks (0.1.0+ds-4) ... 743s Setting up python3-memoized-property (1.0.3-2) ... 743s Setting up python3-mypy-extensions (1.0.0-1) ... 743s Setting up python3-platformdirs (4.3.6-1) ... 743s Setting up python3-tz (2024.1-2) ... 743s Setting up python3-six (1.16.0-7) ... 743s Setting up python3-simplejson (3.19.3-1) ... 744s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 744s Setting up libblas3:amd64 (3.12.0-3build2) ... 744s 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 744s Setting up python3-packaging (24.1-1) ... 744s Setting up python3-dill (0.3.9-1) ... 744s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 744s Setting up python3-isort (5.13.2-2) ... 744s Setting up python3-pluggy (1.5.0-1) ... 745s Setting up python3-astroid (3.2.2-1) ... 745s Setting up python3.13-minimal (3.13.0-2) ... 746s Setting up python3-dateutil (2.9.0-2) ... 746s Setting up python3-mccabe (0.7.0-1) ... 746s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 746s Setting up python3-tomlkit (0.13.2-1) ... 746s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 746s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 746s Setting up liblapack3:amd64 (3.12.0-3build2) ... 746s 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 746s Setting up python3.13 (3.13.0-2) ... 747s Setting up python3-pytest (8.3.3-1) ... 747s Setting up python3-all (3.12.7-1) ... 747s Setting up python3-serializable (0.4.1+ds-1) ... 748s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 750s Setting up libjs-sphinxdoc (7.4.7-4) ... 750s Setting up python3-logilab-common (2.0.0-1) ... 751s Setting up python3-pandas-lib:amd64 (2.2.3+dfsg-5) ... 751s Setting up python3-pandas (2.2.3+dfsg-5) ... 758s Setting up pylint (3.2.7-1) ... 759s Setting up python3-datacache (1.4.1-2) ... 759s Setting up python3-gtfparse (1.3.0+ds-1) ... 759s Setting up pyensembl (2.3.13-1) ... 759s Setting up autopkgtest-satdep (0) ... 759s Processing triggers for systemd (256.5-2ubuntu4) ... 759s Processing triggers for man-db (2.12.1-3) ... 759s Processing triggers for libc-bin (2.40-1ubuntu3) ... 762s (Reading database ... 79986 files and directories currently installed.) 762s Removing autopkgtest-satdep (0) ... 763s autopkgtest [09:45:50]: test run-unit-test: [----------------------- 765s ============================= test session starts ============================== 765s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 765s rootdir: /tmp/autopkgtest.JAlU9m/autopkgtest_tmp 765s plugins: typeguard-4.4.1 765s collected 0 items / 4 errors 765s 765s ==================================== ERRORS ==================================== 765s ___________ ERROR collecting tests/test_ensembl_object_properties.py ___________ 765s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/tests/test_ensembl_object_properties.py'. 765s Hint: make sure your test modules/packages have valid Python names. 765s Traceback: 765s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 765s return _bootstrap._gcd_import(name[level:], package, level) 765s tests/test_ensembl_object_properties.py:8: in 765s from .common import eq_ 765s tests/common.py:3: in 765s from pyensembl import genome_for_reference_name, cached_release 765s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 765s from .database import Database 765s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 765s import datacache 765s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 765s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 765s /usr/lib/python3/dist-packages/datacache/download.py:24: in 765s import pandas as pd 765s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 765s raise ImportError( 765s E ImportError: Unable to import required dependencies: 765s E numpy: Error importing numpy: you should not try to import numpy from 765s E its source directory; please exit the numpy source tree, and relaunch 765s E your python interpreter from there. 765s _____________________ ERROR collecting tests/test_locus.py _____________________ 765s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/tests/test_locus.py'. 765s Hint: make sure your test modules/packages have valid Python names. 765s Traceback: 765s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 765s return _bootstrap._gcd_import(name[level:], package, level) 765s tests/test_locus.py:1: in 765s from pyensembl.locus import Locus 765s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 765s from .database import Database 765s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 765s import datacache 765s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 765s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 765s /usr/lib/python3/dist-packages/datacache/download.py:24: in 765s import pandas as pd 765s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 765s raise ImportError( 765s E ImportError: Unable to import required dependencies: 765s E numpy: Error importing numpy: you should not try to import numpy from 765s E its source directory; please exit the numpy source tree, and relaunch 765s E your python interpreter from there. 765s _______________ ERROR collecting tests/test_release_versions.py ________________ 765s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/tests/test_release_versions.py'. 765s Hint: make sure your test modules/packages have valid Python names. 765s Traceback: 765s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 765s return _bootstrap._gcd_import(name[level:], package, level) 765s tests/test_release_versions.py:1: in 765s from pyensembl import EnsemblRelease, MAX_ENSEMBL_RELEASE 765s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 765s from .database import Database 765s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 765s import datacache 765s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 765s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 765s /usr/lib/python3/dist-packages/datacache/download.py:24: in 765s import pandas as pd 765s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 765s raise ImportError( 765s E ImportError: Unable to import required dependencies: 765s E numpy: Error importing numpy: you should not try to import numpy from 765s E its source directory; please exit the numpy source tree, and relaunch 765s E your python interpreter from there. 765s _____________________ ERROR collecting tests/test_shell.py _____________________ 765s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/tests/test_shell.py'. 765s Hint: make sure your test modules/packages have valid Python names. 765s Traceback: 765s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 765s return _bootstrap._gcd_import(name[level:], package, level) 765s tests/test_shell.py:1: in 765s from pyensembl.shell import parser, all_combinations_of_ensembl_genomes 765s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 765s from .database import Database 765s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 765s import datacache 765s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 765s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 765s /usr/lib/python3/dist-packages/datacache/download.py:24: in 765s import pandas as pd 765s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 765s raise ImportError( 765s E ImportError: Unable to import required dependencies: 765s E numpy: Error importing numpy: you should not try to import numpy from 765s E its source directory; please exit the numpy source tree, and relaunch 765s E your python interpreter from there. 765s =========================== short test summary info ============================ 765s ERROR tests/test_ensembl_object_properties.py 765s ERROR tests/test_locus.py 765s ERROR tests/test_release_versions.py 765s ERROR tests/test_shell.py 765s !!!!!!!!!!!!!!!!!!! Interrupted: 4 errors during collection !!!!!!!!!!!!!!!!!!!! 765s ============================== 4 errors in 0.59s =============================== 765s autopkgtest [09:45:52]: test run-unit-test: -----------------------] 765s autopkgtest [09:45:52]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 765s run-unit-test FAIL non-zero exit status 2 766s autopkgtest [09:45:53]: test pybuild-autopkgtest: preparing testbed 768s Reading package lists... 768s Building dependency tree... 768s Reading state information... 768s Starting pkgProblemResolver with broken count: 0 768s Starting 2 pkgProblemResolver with broken count: 0 768s Done 768s The following additional packages will be installed: 768s autoconf automake autopoint autotools-dev build-essential cpp cpp-14 768s cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu debhelper debugedit 768s dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 768s g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 768s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gettext intltool-debian 768s libarchive-zip-perl libasan8 libcc1-0 libdebhelper-perl 768s libfile-stripnondeterminism-perl libgcc-14-dev libgomp1 libhwasan0 libisl23 768s libitm1 liblsan0 libmpc3 libquadmath0 libstdc++-14-dev libtool libtsan2 768s libubsan1 m4 po-debconf pybuild-plugin-autopkgtest 768s Suggested packages: 768s autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-14-locales 769s cpp-14-doc dh-make flit python3-build python3-installer python3-wheel 769s g++-multilib g++-14-multilib gcc-14-doc gcc-multilib manpages-dev flex bison 769s gdb gcc-doc gcc-14-multilib gdb-x86-64-linux-gnu gettext-doc libasprintf-dev 769s libgettextpo-dev libstdc++-14-doc libtool-doc gfortran | fortran95-compiler 769s gcj-jdk m4-doc libmail-box-perl 769s Recommended packages: 769s libarchive-cpio-perl libltdl-dev libmail-sendmail-perl 769s The following NEW packages will be installed: 769s autoconf automake autopkgtest-satdep autopoint autotools-dev build-essential 769s cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu debhelper debugedit 769s dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 769s g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 769s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gettext intltool-debian 769s libarchive-zip-perl libasan8 libcc1-0 libdebhelper-perl 769s libfile-stripnondeterminism-perl libgcc-14-dev libgomp1 libhwasan0 libisl23 769s libitm1 liblsan0 libmpc3 libquadmath0 libstdc++-14-dev libtool libtsan2 769s libubsan1 m4 po-debconf pybuild-plugin-autopkgtest 769s 0 upgraded, 46 newly installed, 0 to remove and 0 not upgraded. 769s Need to get 70.0 MB/70.0 MB of archives. 769s After this operation, 235 MB of additional disk space will be used. 769s Get:1 /tmp/autopkgtest.JAlU9m/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [840 B] 769s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 m4 amd64 1.4.19-4build1 [244 kB] 769s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 autoconf all 2.72-3 [382 kB] 769s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 autotools-dev all 20220109.1 [44.9 kB] 769s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 automake all 1:1.16.5-1.3ubuntu1 [558 kB] 769s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 autopoint all 0.22.5-2 [616 kB] 769s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 769s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 769s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 770s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 770s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 770s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 770s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 770s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 770s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 770s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 770s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 770s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 770s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 770s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 770s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 770s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 770s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 771s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 771s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 771s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 771s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 771s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 771s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 771s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 771s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 771s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 771s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 771s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libtool all 2.4.7-7build1 [166 kB] 771s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-autoreconf all 20 [16.1 kB] 771s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] 771s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 771s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-strip-nondeterminism all 1.14.0-1 [5058 B] 772s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 debugedit amd64 1:5.1-1 [46.9 kB] 772s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 dwz amd64 0.15-1build6 [115 kB] 772s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 gettext amd64 0.22.5-2 [948 kB] 772s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 772s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] 772s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 debhelper all 13.20ubuntu1 [893 kB] 772s Get:45 http://ftpmaster.internal/ubuntu plucky/universe amd64 dh-python all 6.20241024 [112 kB] 772s Get:46 http://ftpmaster.internal/ubuntu plucky/universe amd64 pybuild-plugin-autopkgtest all 6.20241024 [1746 B] 772s Fetched 70.0 MB in 3s (22.8 MB/s) 772s Selecting previously unselected package m4. 772s (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 ... 79986 files and directories currently installed.) 772s Preparing to unpack .../00-m4_1.4.19-4build1_amd64.deb ... 772s Unpacking m4 (1.4.19-4build1) ... 772s Selecting previously unselected package autoconf. 772s Preparing to unpack .../01-autoconf_2.72-3_all.deb ... 772s Unpacking autoconf (2.72-3) ... 772s Selecting previously unselected package autotools-dev. 772s Preparing to unpack .../02-autotools-dev_20220109.1_all.deb ... 772s Unpacking autotools-dev (20220109.1) ... 772s Selecting previously unselected package automake. 772s Preparing to unpack .../03-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 772s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 772s Selecting previously unselected package autopoint. 772s Preparing to unpack .../04-autopoint_0.22.5-2_all.deb ... 772s Unpacking autopoint (0.22.5-2) ... 772s Selecting previously unselected package libisl23:amd64. 772s Preparing to unpack .../05-libisl23_0.27-1_amd64.deb ... 772s Unpacking libisl23:amd64 (0.27-1) ... 772s Selecting previously unselected package libmpc3:amd64. 772s Preparing to unpack .../06-libmpc3_1.3.1-1build2_amd64.deb ... 772s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 773s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 773s Preparing to unpack .../07-cpp-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package cpp-14. 773s Preparing to unpack .../08-cpp-14_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package cpp-x86-64-linux-gnu. 773s Preparing to unpack .../09-cpp-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 773s Unpacking cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 773s Selecting previously unselected package cpp. 773s Preparing to unpack .../10-cpp_4%3a14.1.0-2ubuntu1_amd64.deb ... 773s Unpacking cpp (4:14.1.0-2ubuntu1) ... 773s Selecting previously unselected package libcc1-0:amd64. 773s Preparing to unpack .../11-libcc1-0_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libcc1-0:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package libgomp1:amd64. 773s Preparing to unpack .../12-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package libitm1:amd64. 773s Preparing to unpack .../13-libitm1_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libitm1:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package libasan8:amd64. 773s Preparing to unpack .../14-libasan8_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libasan8:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package liblsan0:amd64. 773s Preparing to unpack .../15-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package libtsan2:amd64. 773s Preparing to unpack .../16-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package libubsan1:amd64. 773s Preparing to unpack .../17-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package libhwasan0:amd64. 773s Preparing to unpack .../18-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package libquadmath0:amd64. 773s Preparing to unpack .../19-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package libgcc-14-dev:amd64. 773s Preparing to unpack .../20-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 773s Preparing to unpack .../21-gcc-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package gcc-14. 773s Preparing to unpack .../22-gcc-14_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package gcc-x86-64-linux-gnu. 773s Preparing to unpack .../23-gcc-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 773s Unpacking gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 773s Selecting previously unselected package gcc. 773s Preparing to unpack .../24-gcc_4%3a14.1.0-2ubuntu1_amd64.deb ... 773s Unpacking gcc (4:14.1.0-2ubuntu1) ... 773s Selecting previously unselected package libstdc++-14-dev:amd64. 773s Preparing to unpack .../25-libstdc++-14-dev_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 773s Selecting previously unselected package g++-14-x86-64-linux-gnu. 773s Preparing to unpack .../26-g++-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 773s Unpacking g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 774s Selecting previously unselected package g++-14. 774s Preparing to unpack .../27-g++-14_14.2.0-8ubuntu1_amd64.deb ... 774s Unpacking g++-14 (14.2.0-8ubuntu1) ... 774s Selecting previously unselected package g++-x86-64-linux-gnu. 774s Preparing to unpack .../28-g++-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 774s Unpacking g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 774s Selecting previously unselected package g++. 774s Preparing to unpack .../29-g++_4%3a14.1.0-2ubuntu1_amd64.deb ... 774s Unpacking g++ (4:14.1.0-2ubuntu1) ... 774s Selecting previously unselected package build-essential. 774s Preparing to unpack .../30-build-essential_12.10ubuntu1_amd64.deb ... 774s Unpacking build-essential (12.10ubuntu1) ... 774s Selecting previously unselected package libdebhelper-perl. 774s Preparing to unpack .../31-libdebhelper-perl_13.20ubuntu1_all.deb ... 774s Unpacking libdebhelper-perl (13.20ubuntu1) ... 774s Selecting previously unselected package libtool. 774s Preparing to unpack .../32-libtool_2.4.7-7build1_all.deb ... 774s Unpacking libtool (2.4.7-7build1) ... 774s Selecting previously unselected package dh-autoreconf. 774s Preparing to unpack .../33-dh-autoreconf_20_all.deb ... 774s Unpacking dh-autoreconf (20) ... 774s Selecting previously unselected package libarchive-zip-perl. 774s Preparing to unpack .../34-libarchive-zip-perl_1.68-1_all.deb ... 774s Unpacking libarchive-zip-perl (1.68-1) ... 774s Selecting previously unselected package libfile-stripnondeterminism-perl. 774s Preparing to unpack .../35-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... 774s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... 774s Selecting previously unselected package dh-strip-nondeterminism. 774s Preparing to unpack .../36-dh-strip-nondeterminism_1.14.0-1_all.deb ... 774s Unpacking dh-strip-nondeterminism (1.14.0-1) ... 774s Selecting previously unselected package debugedit. 774s Preparing to unpack .../37-debugedit_1%3a5.1-1_amd64.deb ... 774s Unpacking debugedit (1:5.1-1) ... 774s Selecting previously unselected package dwz. 774s Preparing to unpack .../38-dwz_0.15-1build6_amd64.deb ... 774s Unpacking dwz (0.15-1build6) ... 774s Selecting previously unselected package gettext. 774s Preparing to unpack .../39-gettext_0.22.5-2_amd64.deb ... 774s Unpacking gettext (0.22.5-2) ... 774s Selecting previously unselected package intltool-debian. 774s Preparing to unpack .../40-intltool-debian_0.35.0+20060710.6_all.deb ... 774s Unpacking intltool-debian (0.35.0+20060710.6) ... 774s Selecting previously unselected package po-debconf. 774s Preparing to unpack .../41-po-debconf_1.0.21+nmu1_all.deb ... 774s Unpacking po-debconf (1.0.21+nmu1) ... 774s Selecting previously unselected package debhelper. 774s Preparing to unpack .../42-debhelper_13.20ubuntu1_all.deb ... 774s Unpacking debhelper (13.20ubuntu1) ... 774s Selecting previously unselected package dh-python. 774s Preparing to unpack .../43-dh-python_6.20241024_all.deb ... 774s Unpacking dh-python (6.20241024) ... 774s Selecting previously unselected package pybuild-plugin-autopkgtest. 774s Preparing to unpack .../44-pybuild-plugin-autopkgtest_6.20241024_all.deb ... 774s Unpacking pybuild-plugin-autopkgtest (6.20241024) ... 774s Selecting previously unselected package autopkgtest-satdep. 774s Preparing to unpack .../45-2-autopkgtest-satdep.deb ... 774s Unpacking autopkgtest-satdep (0) ... 774s Setting up dh-python (6.20241024) ... 774s Setting up libarchive-zip-perl (1.68-1) ... 774s Setting up libdebhelper-perl (13.20ubuntu1) ... 774s Setting up m4 (1.4.19-4build1) ... 774s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 774s Setting up autotools-dev (20220109.1) ... 774s Setting up libquadmath0:amd64 (14.2.0-8ubuntu1) ... 774s Setting up libmpc3:amd64 (1.3.1-1build2) ... 774s Setting up autopoint (0.22.5-2) ... 774s Setting up autoconf (2.72-3) ... 774s Setting up libubsan1:amd64 (14.2.0-8ubuntu1) ... 774s Setting up dwz (0.15-1build6) ... 774s Setting up libhwasan0:amd64 (14.2.0-8ubuntu1) ... 774s Setting up libasan8:amd64 (14.2.0-8ubuntu1) ... 774s Setting up debugedit (1:5.1-1) ... 774s Setting up libtsan2:amd64 (14.2.0-8ubuntu1) ... 774s Setting up libisl23:amd64 (0.27-1) ... 774s Setting up libcc1-0:amd64 (14.2.0-8ubuntu1) ... 774s Setting up liblsan0:amd64 (14.2.0-8ubuntu1) ... 774s Setting up libitm1:amd64 (14.2.0-8ubuntu1) ... 774s Setting up automake (1:1.16.5-1.3ubuntu1) ... 774s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 774s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 774s Setting up gettext (0.22.5-2) ... 774s Setting up intltool-debian (0.35.0+20060710.6) ... 774s Setting up cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 774s Setting up cpp-14 (14.2.0-8ubuntu1) ... 774s Setting up dh-strip-nondeterminism (1.14.0-1) ... 774s Setting up libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 774s Setting up libstdc++-14-dev:amd64 (14.2.0-8ubuntu1) ... 774s Setting up cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 774s Setting up po-debconf (1.0.21+nmu1) ... 774s Setting up cpp (4:14.1.0-2ubuntu1) ... 774s Setting up gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 774s Setting up gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 774s Setting up gcc-14 (14.2.0-8ubuntu1) ... 774s Setting up g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 774s Setting up g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 774s Setting up g++-14 (14.2.0-8ubuntu1) ... 774s Setting up libtool (2.4.7-7build1) ... 774s Setting up gcc (4:14.1.0-2ubuntu1) ... 774s Setting up dh-autoreconf (20) ... 774s Setting up g++ (4:14.1.0-2ubuntu1) ... 774s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 774s Setting up build-essential (12.10ubuntu1) ... 774s Setting up debhelper (13.20ubuntu1) ... 774s Setting up pybuild-plugin-autopkgtest (6.20241024) ... 774s Setting up autopkgtest-satdep (0) ... 774s Processing triggers for man-db (2.12.1-3) ... 775s Processing triggers for install-info (7.1.1-1) ... 775s Processing triggers for libc-bin (2.40-1ubuntu3) ... 779s (Reading database ... 82393 files and directories currently installed.) 779s Removing autopkgtest-satdep (0) ... 780s autopkgtest [09:46:07]: test pybuild-autopkgtest: pybuild-autopkgtest 780s autopkgtest [09:46:07]: test pybuild-autopkgtest: [----------------------- 780s pybuild-autopkgtest 780s I: pybuild base:311: cd /tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build; python3.13 -m pytest -v -k 'not test_download_cache.py and not test_gene_ids.py and not test_gene_names.py and not test_gene_objects.py and not test_id_length.py and not test_search.py and not test_serialization.py and not test_transcript_ids.py and not test_transcript_objects.py and not test_contigs.py and not test_exon_id.py and not test_exon_object.py and not test_string_representation.py and not test_timings.py and not test_transcript_sequences.py and not test_transcript_support_level.py' 780s ============================= test session starts ============================== 780s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 780s cachedir: .pytest_cache 780s rootdir: /tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build 780s plugins: typeguard-4.4.1 781s collecting ... collected 0 items / 25 errors 781s 781s ==================================== ERRORS ==================================== 781s ____________________ ERROR collecting tests/test_contigs.py ____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_contigs.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_contigs.py:1: in 781s from pyensembl import genome_for_reference_name 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ________________ ERROR collecting tests/test_download_cache.py _________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_download_cache.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_download_cache.py:5: in 781s from pyensembl.download_cache import DownloadCache, MissingLocalFile, MissingRemoteFile 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s __________________ ERROR collecting tests/test_ensembl_gtf.py __________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_ensembl_gtf.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_ensembl_gtf.py:5: in 781s from .common import run_multiple_genomes 781s tests/common.py:3: in 781s from pyensembl import genome_for_reference_name, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ___________ ERROR collecting tests/test_ensembl_object_properties.py ___________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_ensembl_object_properties.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_ensembl_object_properties.py:8: in 781s from .common import eq_ 781s tests/common.py:3: in 781s from pyensembl import genome_for_reference_name, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ____________________ ERROR collecting tests/test_exon_id.py ____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_exon_id.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_exon_id.py:7: in 781s from pyensembl import cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s __________________ ERROR collecting tests/test_exon_object.py __________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_exon_object.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_exon_object.py:8: in 781s from pyensembl import cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ___________________ ERROR collecting tests/test_gene_ids.py ____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_gene_ids.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_gene_ids.py:10: in 781s from pyensembl import ensembl_grch38, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s __________________ ERROR collecting tests/test_gene_names.py ___________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_gene_names.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_gene_names.py:6: in 781s from pyensembl import genome_for_reference_name 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _________________ ERROR collecting tests/test_gene_objects.py __________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_gene_objects.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_gene_objects.py:1: in 781s from .common import eq_ 781s tests/common.py:3: in 781s from pyensembl import genome_for_reference_name, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ___________________ ERROR collecting tests/test_id_length.py ___________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_id_length.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_id_length.py:1: in 781s from .common import major_releases 781s tests/common.py:3: in 781s from pyensembl import genome_for_reference_name, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _____________________ ERROR collecting tests/test_locus.py _____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_locus.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_locus.py:1: in 781s from pyensembl.locus import Locus 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ____________ ERROR collecting tests/test_missing_genome_sources.py _____________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_missing_genome_sources.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_missing_genome_sources.py:1: in 781s from pyensembl import Genome 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _____________________ ERROR collecting tests/test_mouse.py _____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_mouse.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_mouse.py:1: in 781s from .common import eq_ 781s tests/common.py:3: in 781s from pyensembl import genome_for_reference_name, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _______________ ERROR collecting tests/test_release_versions.py ________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_release_versions.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_release_versions.py:1: in 781s from pyensembl import EnsemblRelease, MAX_ENSEMBL_RELEASE 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there.E: pybuild pybuild:389: test: plugin distutils failed with: exit code=2: cd /tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build; python3.13 -m pytest -v -k 'not test_download_cache.py and not test_gene_ids.py and not test_gene_names.py and not test_gene_objects.py and not test_id_length.py and not test_search.py and not test_serialization.py and not test_transcript_ids.py and not test_transcript_objects.py and not test_contigs.py and not test_exon_id.py and not test_exon_object.py and not test_string_representation.py and not test_timings.py and not test_transcript_sequences.py and not test_transcript_support_level.py' 781s I: pybuild base:311: cd /tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build; python3.12 -m pytest -v -k 'not test_download_cache.py and not test_gene_ids.py and not test_gene_names.py and not test_gene_objects.py and not test_id_length.py and not test_search.py and not test_serialization.py and not test_transcript_ids.py and not test_transcript_objects.py and not test_contigs.py and not test_exon_id.py and not test_exon_object.py and not test_string_representation.py and not test_timings.py and not test_transcript_sequences.py and not test_transcript_support_level.py' 781s 781s ____________________ ERROR collecting tests/test_search.py _____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_search.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_search.py:1: in 781s from pyensembl import find_nearest_locus 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _________________ ERROR collecting tests/test_sequence_data.py _________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_sequence_data.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_sequence_data.py:8: in 781s from pyensembl import SequenceData 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _________________ ERROR collecting tests/test_serialization.py _________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_serialization.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_serialization.py:15: in 781s from pyensembl import Genome, Transcript, Gene, Exon 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _____________________ ERROR collecting tests/test_shell.py _____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_shell.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_shell.py:1: in 781s from pyensembl.shell import parser, all_combinations_of_ensembl_genomes 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _____________ ERROR collecting tests/test_string_representation.py _____________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_string_representation.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_string_representation.py:1: in 781s from pyensembl import Locus, Gene, ensembl_grch37, Transcript, Exon 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ____________________ ERROR collecting tests/test_timings.py ____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_timings.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_timings.py:1: in 781s from pyensembl import genome_for_reference_name 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ________________ ERROR collecting tests/test_transcript_ids.py _________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_transcript_ids.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_transcript_ids.py:7: in 781s from pyensembl import genome_for_reference_name 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ______________ ERROR collecting tests/test_transcript_objects.py _______________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_transcript_objects.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_transcript_objects.py:1: in 781s from pyensembl import Locus, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s _____________ ERROR collecting tests/test_transcript_sequences.py ______________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_transcript_sequences.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_transcript_sequences.py:7: in 781s from .common import eq_ 781s tests/common.py:3: in 781s from pyensembl import genome_for_reference_name, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ___________ ERROR collecting tests/test_transcript_support_level.py ____________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_transcript_support_level.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_transcript_support_level.py:7: in 781s from .common import eq_ 781s tests/common.py:3: in 781s from pyensembl import genome_for_reference_name, cached_release 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s ___________________ ERROR collecting tests/test_ucsc_gtf.py ____________________ 781s ImportError while importing test module '/tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build/tests/test_ucsc_gtf.py'. 781s Hint: make sure your test modules/packages have valid Python names. 781s Traceback: 781s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 781s return _bootstrap._gcd_import(name[level:], package, level) 781s tests/test_ucsc_gtf.py:1: in 781s from pyensembl import Genome, Database 781s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 781s from .database import Database 781s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 781s import datacache 781s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 781s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 781s /usr/lib/python3/dist-packages/datacache/download.py:24: in 781s import pandas as pd 781s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 781s raise ImportError( 781s E ImportError: Unable to import required dependencies: 781s E numpy: Error importing numpy: you should not try to import numpy from 781s E its source directory; please exit the numpy source tree, and relaunch 781s E your python interpreter from there. 781s =========================== short test summary info ============================ 781s ERROR tests/test_contigs.py 781s ERROR tests/test_download_cache.py 781s ERROR tests/test_ensembl_gtf.py 781s ERROR tests/test_ensembl_object_properties.py 781s ERROR tests/test_exon_id.py 781s ERROR tests/test_exon_object.py 781s ERROR tests/test_gene_ids.py 781s ERROR tests/test_gene_names.py 781s ERROR tests/test_gene_objects.py 781s ERROR tests/test_id_length.py 781s ERROR tests/test_locus.py 781s ERROR tests/test_missing_genome_sources.py 781s ERROR tests/test_mouse.py 781s ERROR tests/test_release_versions.py 781s ERROR tests/test_search.py 781s ERROR tests/test_sequence_data.py 781s ERROR tests/test_serialization.py 781s ERROR tests/test_shell.py 781s ERROR tests/test_string_representation.py 781s ERROR tests/test_timings.py 781s ERROR tests/test_transcript_ids.py 781s ERROR tests/test_transcript_objects.py 781s ERROR tests/test_transcript_sequences.py 781s ERROR tests/test_transcript_support_level.py 781s ERROR tests/test_ucsc_gtf.py 781s !!!!!!!!!!!!!!!!!!! Interrupted: 25 errors during collection !!!!!!!!!!!!!!!!!!! 781s ============================== 25 errors in 0.82s ============================== 781s ============================= test session starts ============================== 781s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.12 781s cachedir: .pytest_cache 781s rootdir: /tmp/autopkgtest.JAlU9m/autopkgtest_tmp/build 781s plugins: typeguard-4.4.1 782s collecting ... collected 126 items / 98 deselected / 28 selected 782s 782s tests/test_ensembl_object_properties.py::test_human_reference_name PASSED [ 3%] 782s tests/test_locus.py::test_normalize_chromosome PASSED [ 7%] 782s tests/test_locus.py::test_locus_overlaps PASSED [ 10%] 782s tests/test_locus.py::test_locus_contains PASSED [ 14%] 782s tests/test_locus.py::test_position_offset PASSED [ 17%] 782s tests/test_locus.py::test_range_offset PASSED [ 21%] 782s tests/test_locus.py::test_locus_distance PASSED [ 25%] 782s tests/test_missing_genome_sources.py::test_transcript_fasta_only PASSED [ 28%] 782s tests/test_missing_genome_sources.py::test_protein_fasta_only PASSED [ 32%] 782s tests/test_missing_genome_sources.py::test_gtf_only PASSED [ 35%] 782s tests/test_missing_genome_sources.py::test_gtf_transcript_only PASSED [ 39%] 782s tests/test_missing_genome_sources.py::test_gtf_protein_only PASSED [ 42%] 782s tests/test_mouse.py::test_mouse_ENSMUSG00000017167 PASSED [ 46%] 782s tests/test_release_versions.py::test_version_too_old_1 PASSED [ 50%] 782s tests/test_release_versions.py::test_version_too_old_47 PASSED [ 53%] 782s tests/test_release_versions.py::test_version_is_not_numeric PASSED [ 57%] 782s tests/test_release_versions.py::test_version_is_none PASSED [ 60%] 782s tests/test_release_versions.py::test_max_ensembl_release PASSED [ 64%] 782s tests/test_release_versions.py::test_int_version PASSED [ 67%] 782s tests/test_release_versions.py::test_str_version PASSED [ 71%] 782s tests/test_sequence_data.py::test_sequence_type PASSED [ 75%] 782s tests/test_sequence_data.py::test_missing_sequence PASSED [ 78%] 782s tests/test_sequence_data.py::test_clear_cache PASSED [ 82%] 782s tests/test_shell.py::test_genome_selection_grch38 PASSED [ 85%] 782s tests/test_ucsc_gtf.py::test_ucsc_gencode_gtf PASSED [ 89%] 782s tests/test_ucsc_gtf.py::test_ucsc_gencode_genome PASSED [ 92%] 782s tests/test_ucsc_gtf.py::test_ucsc_refseq_gtf PASSED [ 96%] 782s tests/test_ucsc_gtf.py::test_ucsc_refseq_genome PASSED [100%] 782s 782s =============================== warnings summary =============================== 782s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:43 782s /usr/lib/python3/dist-packages/pyensembl/shell.py:43: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html 782s import pkg_resources 782s 782s ../../../../usr/lib/python3/dist-packages/pkg_resources/__init__.py:3154 782s /usr/lib/python3/dist-packages/pkg_resources/__init__.py:3154: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('logilab')`. 782s Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages 782s declare_namespace(pkg) 782s 782s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:74 782s /usr/lib/python3/dist-packages/pyensembl/shell.py:74: DeprecationWarning: Nesting argument groups is deprecated. 782s release_group = root_group.add_argument_group() 782s 782s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:96 782s /usr/lib/python3/dist-packages/pyensembl/shell.py:96: DeprecationWarning: Nesting argument groups is deprecated. 782s path_group = root_group.add_argument_group() 782s 782s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 782s ================ 28 passed, 98 deselected, 4 warnings in 0.76s ================= 782s pybuild-autopkgtest: error: pybuild --autopkgtest --test-pytest -i python{version} -p "3.13 3.12" returned exit code 13 782s make: *** [/tmp/m1O3GK_njQ/run:4: pybuild-autopkgtest] Error 25 782s pybuild-autopkgtest: error: /tmp/m1O3GK_njQ/run pybuild-autopkgtest returned exit code 2 783s autopkgtest [09:46:10]: test pybuild-autopkgtest: -----------------------] 783s autopkgtest [09:46:10]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 783s pybuild-autopkgtest FAIL non-zero exit status 25 784s autopkgtest [09:46:10]: @@@@@@@@@@@@@@@@@@@@ summary 784s run-unit-test FAIL non-zero exit status 2 784s pybuild-autopkgtest FAIL non-zero exit status 25 976s nova [W] Skipping flock for amd64 976s Creating nova instance adt-plucky-amd64-pyensembl-20241113-093307-juju-7f2275-prod-proposed-migration-environment-15-a6738dd9-c66e-40ef-8b90-8cb7482c7688 from image adt/ubuntu-plucky-amd64-server-20241113.img (UUID 62c21ac4-2290-4c8d-8313-dddd18eacff4)...