0s autopkgtest [22:17:17]: starting date and time: 2024-11-14 22:17:17+0000 0s autopkgtest [22:17:17]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [22:17:17]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.7kd17ctx/out --timeout-copy=6000 -a i386 --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-20@bos03-23.secgroup --name adt-plucky-i386-pyensembl-20241114-221717-juju-7f2275-prod-proposed-migration-environment-20-e0fd23f2-3db9-4f4f-8069-138aa4da80a2 --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/ 39s autopkgtest [22:17:56]: testbed dpkg architecture: amd64 39s autopkgtest [22:17:56]: testbed apt version: 2.9.8 39s autopkgtest [22:17:56]: test architecture: i386 39s autopkgtest [22:17:56]: @@@@@@@@@@@@@@@@@@@@ test bed setup 40s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 41s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1037 kB] 41s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [16.1 kB] 41s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 41s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [106 kB] 41s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [79.0 kB] 41s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [144 kB] 41s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 41s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [296 kB] 41s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [807 kB] 41s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9388 B] 41s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 41s Fetched 2609 kB in 1s (2558 kB/s) 41s Reading package lists... 43s Reading package lists... 44s Building dependency tree... 44s Reading state information... 44s Calculating upgrade... 44s The following NEW packages will be installed: 44s python3.13-gdbm 44s The following packages will be upgraded: 44s libcap-ng0 libpython3-stdlib pastebinit python3 python3-gdbm python3-minimal 44s python3-systemd 44s 7 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 44s Need to get 178 kB of archives. 44s After this operation, 256 kB of additional disk space will be used. 44s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 44s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 44s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 44s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 44s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 44s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 44s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 44s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 45s Fetched 178 kB in 0s (438 kB/s) 45s (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.) 45s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 45s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 45s Setting up python3-minimal (3.12.7-1) ... 45s (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.) 45s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 45s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 45s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 45s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 45s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 45s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 45s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 45s Selecting previously unselected package python3.13-gdbm. 45s (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.) 45s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 45s Unpacking python3.13-gdbm (3.13.0-2) ... 45s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 45s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 45s Preparing to unpack .../pastebinit_1.7.1-1_all.deb ... 45s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 45s Preparing to unpack .../python3-systemd_235-1build5_amd64.deb ... 45s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 45s Setting up python3.13-gdbm (3.13.0-2) ... 45s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 45s Setting up python3 (3.12.7-1) ... 45s Setting up python3-systemd (235-1build5) ... 46s Setting up python3-gdbm:amd64 (3.12.7-1) ... 46s Setting up pastebinit (1.7.1-1) ... 46s Processing triggers for libc-bin (2.40-1ubuntu3) ... 46s Processing triggers for man-db (2.12.1-3) ... 46s Reading package lists... 46s Building dependency tree... 46s Reading state information... 47s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 47s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 47s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 47s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 47s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 48s Reading package lists... 48s Reading package lists... 48s Building dependency tree... 48s Reading state information... 48s Calculating upgrade... 48s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 48s Reading package lists... 48s Building dependency tree... 48s Reading state information... 49s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 51s autopkgtest [22:18:08]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 51s autopkgtest [22:18:08]: @@@@@@@@@@@@@@@@@@@@ apt-source pyensembl 53s Get:1 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (dsc) [2291 B] 53s Get:2 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (tar) [60.7 kB] 53s Get:3 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (diff) [5404 B] 53s gpgv: Signature made Sat May 11 16:47:07 2024 UTC 53s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 53s gpgv: issuer "tchet@debian.org" 53s gpgv: Can't check signature: No public key 53s dpkg-source: warning: cannot verify inline signature for ./pyensembl_2.3.13-1.dsc: no acceptable signature found 53s autopkgtest [22:18:10]: testing package pyensembl version 2.3.13-1 53s autopkgtest [22:18:10]: build not needed 54s autopkgtest [22:18:11]: test run-unit-test: preparing testbed 56s Note, using file '/tmp/autopkgtest.7HZlzt/1-autopkgtest-satdep.dsc' to get the build dependencies 56s Reading package lists... 56s Building dependency tree... 56s Reading state information... 56s Starting pkgProblemResolver with broken count: 0 56s Starting 2 pkgProblemResolver with broken count: 0 56s Done 56s The following NEW packages will be installed: 56s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu g++ 56s g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 56s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libblas3 libcc1-0 56s libgcc-14-dev libgfortran5 libgomp1 libhwasan0 libisl23 libitm1 libjs-jquery 56s libjs-sphinxdoc libjs-underscore liblapack3 liblsan0 libmpc3 56s libpython3.13-minimal libpython3.13-stdlib libquadmath0 libstdc++-14-dev 56s libtsan2 libubsan1 pyensembl pylint python3-all python3-astroid 56s python3-datacache python3-dateutil python3-dill python3-gtfparse 56s python3-iniconfig python3-isort python3-logilab-common python3-mccabe 56s python3-memoized-property python3-mypy-extensions python3-numpy 56s python3-packaging python3-pandas python3-pandas-lib python3-platformdirs 56s python3-pluggy python3-pytest python3-serializable python3-simplejson 56s python3-six python3-tomlkit python3-typechecks python3-tz python3.13 56s python3.13-minimal 57s 0 upgraded, 63 newly installed, 0 to remove and 0 not upgraded. 57s Need to get 90.0 MB of archives. 57s After this operation, 341 MB of additional disk space will be used. 57s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 57s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 57s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 57s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 57s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [11.9 MB] 58s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-8ubuntu1 [1030 B] 58s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [5452 B] 58s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.1.0-2ubuntu1 [22.4 kB] 58s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 14.2.0-8ubuntu1 [47.6 kB] 58s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 58s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 14.2.0-8ubuntu1 [29.1 kB] 58s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 14.2.0-8ubuntu1 [2998 kB] 59s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 14.2.0-8ubuntu1 [1317 kB] 59s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 14.2.0-8ubuntu1 [2732 kB] 59s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 14.2.0-8ubuntu1 [1177 kB] 59s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 14.2.0-8ubuntu1 [1634 kB] 59s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 14.2.0-8ubuntu1 [153 kB] 59s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-8ubuntu1 [2814 kB] 59s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [23.3 MB] 60s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-8ubuntu1 [528 kB] 60s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [1214 B] 60s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.1.0-2ubuntu1 [5000 B] 60s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-8ubuntu1 [2504 kB] 60s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8ubuntu1 [13.3 MB] 60s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-8ubuntu1 [19.9 kB] 60s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.1.0-2ubuntu1 [966 B] 60s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.1.0-2ubuntu1 [1100 B] 60s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 60s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 60s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 60s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 60s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 60s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB] 60s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 60s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 60s Get:36 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-astroid all 3.2.2-1 [174 kB] 60s Get:37 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-isort all 5.13.2-2 [59.3 kB] 60s Get:38 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mypy-extensions all 1.0.0-1 [6148 B] 60s Get:39 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-logilab-common all 2.0.0-1 [281 kB] 60s Get:40 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-dill all 0.3.9-1 [84.5 kB] 60s Get:41 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mccabe all 0.7.0-1 [8678 B] 60s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-platformdirs all 4.3.6-1 [16.8 kB] 60s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-tomlkit all 0.13.2-1 [37.6 kB] 60s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 pylint all 3.2.7-1 [343 kB] 60s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-six all 1.16.0-7 [13.1 kB] 60s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-2 [80.3 kB] 60s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 61s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2024.1-2 [31.4 kB] 61s Get:49 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-5 [5087 kB] 61s Get:50 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-5 [3112 kB] 61s Get:51 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-typechecks all 0.1.0+ds-4 [4562 B] 61s Get:52 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-datacache all 1.4.1-2 [13.1 kB] 61s Get:53 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-gtfparse all 1.3.0+ds-1 [10.1 kB] 61s Get:54 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-memoized-property all 1.0.3-2 [5286 B] 61s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-simplejson amd64 3.19.3-1build1 [59.3 kB] 61s Get:56 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-serializable all 0.4.1+ds-1 [8392 B] 61s Get:57 http://ftpmaster.internal/ubuntu plucky/universe amd64 pyensembl all 2.3.13-1 [37.1 kB] 61s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 61s Get:59 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 61s Get:60 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 61s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 61s Get:62 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 61s Get:63 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 61s Fetched 90.0 MB in 4s (20.4 MB/s) 61s Selecting previously unselected package libpython3.13-minimal:amd64. 61s (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 ... 75554 files and directories currently installed.) 61s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 61s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 61s Selecting previously unselected package python3.13-minimal. 61s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 61s Unpacking python3.13-minimal (3.13.0-2) ... 61s Selecting previously unselected package libisl23:amd64. 61s Preparing to unpack .../02-libisl23_0.27-1_amd64.deb ... 61s Unpacking libisl23:amd64 (0.27-1) ... 61s Selecting previously unselected package libmpc3:amd64. 61s Preparing to unpack .../03-libmpc3_1.3.1-1build2_amd64.deb ... 61s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 61s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 61s Preparing to unpack .../04-cpp-14-x86-64-linux-gnu_14.2.0-8ubuntu1_amd64.deb ... 61s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package cpp-14. 62s Preparing to unpack .../05-cpp-14_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package cpp-x86-64-linux-gnu. 62s Preparing to unpack .../06-cpp-x86-64-linux-gnu_4%3a14.1.0-2ubuntu1_amd64.deb ... 62s Unpacking cpp-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 62s Selecting previously unselected package cpp. 62s Preparing to unpack .../07-cpp_4%3a14.1.0-2ubuntu1_amd64.deb ... 62s Unpacking cpp (4:14.1.0-2ubuntu1) ... 62s Selecting previously unselected package libcc1-0:amd64. 62s Preparing to unpack .../08-libcc1-0_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libcc1-0:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package libgomp1:amd64. 62s Preparing to unpack .../09-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package libitm1:amd64. 62s Preparing to unpack .../10-libitm1_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libitm1:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package libasan8:amd64. 62s Preparing to unpack .../11-libasan8_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libasan8:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package liblsan0:amd64. 62s Preparing to unpack .../12-liblsan0_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking liblsan0:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package libtsan2:amd64. 62s Preparing to unpack .../13-libtsan2_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libtsan2:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package libubsan1:amd64. 62s Preparing to unpack .../14-libubsan1_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libubsan1:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package libhwasan0:amd64. 62s Preparing to unpack .../15-libhwasan0_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libhwasan0:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package libquadmath0:amd64. 62s Preparing to unpack .../16-libquadmath0_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libquadmath0:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package libgcc-14-dev:amd64. 62s Preparing to unpack .../17-libgcc-14-dev_14.2.0-8ubuntu1_amd64.deb ... 62s Unpacking libgcc-14-dev:amd64 (14.2.0-8ubuntu1) ... 62s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 62s Preparing to unpack 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80s Setting up cpp (4:14.1.0-2ubuntu1) ... 80s Setting up gcc-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 80s Setting up pylint (3.2.7-1) ... 80s Setting up gcc-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 80s Setting up python3-datacache (1.4.1-2) ... 81s Setting up python3-gtfparse (1.3.0+ds-1) ... 81s Setting up gcc-14 (14.2.0-8ubuntu1) ... 81s Setting up g++-14-x86-64-linux-gnu (14.2.0-8ubuntu1) ... 81s Setting up g++-x86-64-linux-gnu (4:14.1.0-2ubuntu1) ... 81s Setting up g++-14 (14.2.0-8ubuntu1) ... 81s Setting up pyensembl (2.3.13-1) ... 81s Setting up gcc (4:14.1.0-2ubuntu1) ... 81s Setting up g++ (4:14.1.0-2ubuntu1) ... 81s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 81s Setting up build-essential (12.10ubuntu1) ... 81s Processing triggers for systemd (256.5-2ubuntu4) ... 81s Processing triggers for man-db (2.12.1-3) ... 81s Processing triggers for libc-bin (2.40-1ubuntu3) ... 83s Reading package lists... 83s Building dependency tree... 83s Reading state information... 83s Starting pkgProblemResolver with broken count: 0 83s Starting 2 pkgProblemResolver with broken count: 0 83s Done 83s The following NEW packages will be installed: 83s autopkgtest-satdep 83s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 83s Need to get 0 B/700 B of archives. 83s After this operation, 0 B of additional disk space will be used. 83s Get:1 /tmp/autopkgtest.7HZlzt/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [700 B] 83s Selecting previously unselected package autopkgtest-satdep. 83s (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 ... 81253 files and directories currently installed.) 83s Preparing to unpack .../2-autopkgtest-satdep.deb ... 83s Unpacking autopkgtest-satdep (0) ... 83s Setting up autopkgtest-satdep (0) ... 84s autopkgtest: WARNING: package pyensembl:i386 is not installed though it should be 85s (Reading database ... 81253 files and directories currently installed.) 85s Removing autopkgtest-satdep (0) ... 86s autopkgtest [22:18:43]: test run-unit-test: [----------------------- 87s ============================= test session starts ============================== 87s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 87s rootdir: /tmp/autopkgtest.7HZlzt/autopkgtest_tmp 87s plugins: typeguard-4.4.1 87s collected 0 items / 4 errors 87s 87s ==================================== ERRORS ==================================== 87s ___________ ERROR collecting tests/test_ensembl_object_properties.py ___________ 87s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/tests/test_ensembl_object_properties.py'. 87s Hint: make sure your test modules/packages have valid Python names. 87s Traceback: 87s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 87s return _bootstrap._gcd_import(name[level:], package, level) 87s tests/test_ensembl_object_properties.py:8: in 87s from .common import eq_ 87s tests/common.py:3: in 87s from pyensembl import genome_for_reference_name, cached_release 87s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 87s from .database import Database 87s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 87s import datacache 87s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 87s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 87s /usr/lib/python3/dist-packages/datacache/download.py:24: in 87s import pandas as pd 87s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 87s raise ImportError( 87s E ImportError: Unable to import required dependencies: 87s E numpy: Error importing numpy: you should not try to import numpy from 87s E its source directory; please exit the numpy source tree, and relaunch 87s E your python interpreter from there. 87s _____________________ ERROR collecting tests/test_locus.py _____________________ 87s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/tests/test_locus.py'. 87s Hint: make sure your test modules/packages have valid Python names. 87s Traceback: 87s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 87s return _bootstrap._gcd_import(name[level:], package, level) 87s tests/test_locus.py:1: in 87s from pyensembl.locus import Locus 87s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 87s from .database import Database 87s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 87s import datacache 87s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 87s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 87s /usr/lib/python3/dist-packages/datacache/download.py:24: in 87s import pandas as pd 87s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 87s raise ImportError( 87s E ImportError: Unable to import required dependencies: 87s E numpy: Error importing numpy: you should not try to import numpy from 87s E its source directory; please exit the numpy source tree, and relaunch 87s E your python interpreter from there. 87s _______________ ERROR collecting tests/test_release_versions.py ________________ 87s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/tests/test_release_versions.py'. 87s Hint: make sure your test modules/packages have valid Python names. 87s Traceback: 87s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 87s return _bootstrap._gcd_import(name[level:], package, level) 87s tests/test_release_versions.py:1: in 87s from pyensembl import EnsemblRelease, MAX_ENSEMBL_RELEASE 87s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 87s from .database import Database 87s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 87s import datacache 87s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 87s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 87s /usr/lib/python3/dist-packages/datacache/download.py:24: in 87s import pandas as pd 87s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 87s raise ImportError( 87s E ImportError: Unable to import required dependencies: 87s E numpy: Error importing numpy: you should not try to import numpy from 87s E its source directory; please exit the numpy source tree, and relaunch 87s E your python interpreter from there. 87s _____________________ ERROR collecting tests/test_shell.py _____________________ 87s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/tests/test_shell.py'. 87s Hint: make sure your test modules/packages have valid Python names. 87s Traceback: 87s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 87s return _bootstrap._gcd_import(name[level:], package, level) 87s tests/test_shell.py:1: in 87s from pyensembl.shell import parser, all_combinations_of_ensembl_genomes 87s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 87s from .database import Database 87s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 87s import datacache 87s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 87s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 87s /usr/lib/python3/dist-packages/datacache/download.py:24: in 87s import pandas as pd 87s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 87s raise ImportError( 87s E ImportError: Unable to import required dependencies: 87s E numpy: Error importing numpy: you should not try to import numpy from 87s E its source directory; please exit the numpy source tree, and relaunch 87s E your python interpreter from there. 87s =========================== short test summary info ============================ 87s ERROR tests/test_ensembl_object_properties.py 87s ERROR tests/test_locus.py 87s ERROR tests/test_release_versions.py 87s ERROR tests/test_shell.py 87s !!!!!!!!!!!!!!!!!!! Interrupted: 4 errors during collection !!!!!!!!!!!!!!!!!!!! 87s ============================== 4 errors in 0.59s =============================== 87s autopkgtest [22:18:44]: test run-unit-test: -----------------------] 88s run-unit-test FAIL non-zero exit status 2 88s autopkgtest [22:18:45]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 88s autopkgtest [22:18:45]: test pybuild-autopkgtest: preparing testbed 90s Note, using file '/tmp/autopkgtest.7HZlzt/3-autopkgtest-satdep.dsc' to get the build dependencies 90s Reading package lists... 90s Building dependency tree... 90s Reading state information... 90s Starting pkgProblemResolver with broken count: 0 90s Starting 2 pkgProblemResolver with broken count: 0 90s Done 90s The following NEW packages will be installed: 90s autoconf automake autopoint autotools-dev debhelper debugedit dh-autoreconf 90s dh-python dh-strip-nondeterminism dwz gettext intltool-debian 90s libarchive-zip-perl libdebhelper-perl libfile-stripnondeterminism-perl 90s libtool m4 po-debconf pybuild-plugin-autopkgtest 91s 0 upgraded, 19 newly installed, 0 to remove and 0 not upgraded. 91s Need to get 4608 kB of archives. 91s After this operation, 13.1 MB of additional disk space will be used. 91s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 m4 amd64 1.4.19-4build1 [244 kB] 91s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 autoconf all 2.72-3 [382 kB] 91s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 autotools-dev all 20220109.1 [44.9 kB] 91s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 automake all 1:1.16.5-1.3ubuntu1 [558 kB] 91s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 autopoint all 0.22.5-2 [616 kB] 91s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 91s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libtool all 2.4.7-7build1 [166 kB] 91s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-autoreconf all 20 [16.1 kB] 91s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] 91s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 91s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-strip-nondeterminism all 1.14.0-1 [5058 B] 91s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 debugedit amd64 1:5.1-1 [46.9 kB] 91s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 dwz amd64 0.15-1build6 [115 kB] 91s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 gettext amd64 0.22.5-2 [948 kB] 91s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 91s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] 91s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 debhelper all 13.20ubuntu1 [893 kB] 91s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 dh-python all 6.20241024 [112 kB] 91s Get:19 http://ftpmaster.internal/ubuntu plucky/universe amd64 pybuild-plugin-autopkgtest all 6.20241024 [1746 B] 91s Fetched 4608 kB in 1s (6091 kB/s) 91s Selecting previously unselected package m4. 92s (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 ... 81253 files and directories currently installed.) 92s Preparing to unpack .../00-m4_1.4.19-4build1_amd64.deb ... 92s Unpacking m4 (1.4.19-4build1) ... 92s Selecting previously unselected package autoconf. 92s Preparing to unpack .../01-autoconf_2.72-3_all.deb ... 92s Unpacking autoconf (2.72-3) ... 92s Selecting previously unselected package autotools-dev. 92s Preparing to unpack .../02-autotools-dev_20220109.1_all.deb ... 92s Unpacking autotools-dev (20220109.1) ... 92s Selecting previously unselected package automake. 92s Preparing to unpack .../03-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 92s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 92s Selecting previously unselected package autopoint. 92s Preparing to unpack .../04-autopoint_0.22.5-2_all.deb ... 92s Unpacking autopoint (0.22.5-2) ... 92s Selecting previously unselected package libdebhelper-perl. 92s Preparing to unpack .../05-libdebhelper-perl_13.20ubuntu1_all.deb ... 92s Unpacking libdebhelper-perl (13.20ubuntu1) ... 92s Selecting previously unselected package libtool. 92s Preparing to unpack .../06-libtool_2.4.7-7build1_all.deb ... 92s Unpacking libtool (2.4.7-7build1) ... 92s Selecting previously unselected package dh-autoreconf. 92s Preparing to unpack .../07-dh-autoreconf_20_all.deb ... 92s Unpacking dh-autoreconf (20) ... 92s Selecting previously unselected package libarchive-zip-perl. 92s Preparing to unpack .../08-libarchive-zip-perl_1.68-1_all.deb ... 92s 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to unpack .../14-intltool-debian_0.35.0+20060710.6_all.deb ... 92s Unpacking intltool-debian (0.35.0+20060710.6) ... 92s Selecting previously unselected package po-debconf. 92s Preparing to unpack .../15-po-debconf_1.0.21+nmu1_all.deb ... 92s Unpacking po-debconf (1.0.21+nmu1) ... 92s Selecting previously unselected package debhelper. 92s Preparing to unpack .../16-debhelper_13.20ubuntu1_all.deb ... 92s Unpacking debhelper (13.20ubuntu1) ... 92s Selecting previously unselected package dh-python. 92s Preparing to unpack .../17-dh-python_6.20241024_all.deb ... 92s Unpacking dh-python (6.20241024) ... 92s Selecting previously unselected package pybuild-plugin-autopkgtest. 92s Preparing to unpack .../18-pybuild-plugin-autopkgtest_6.20241024_all.deb ... 92s Unpacking pybuild-plugin-autopkgtest (6.20241024) ... 92s Setting up dh-python (6.20241024) ... 92s Setting up gettext (0.22.5-2) ... 92s Setting up libarchive-zip-perl (1.68-1) ... 92s Setting up libdebhelper-perl (13.20ubuntu1) ... 92s Setting up m4 (1.4.19-4build1) ... 92s Setting up intltool-debian (0.35.0+20060710.6) ... 92s Setting up autotools-dev (20220109.1) ... 92s Setting up autopoint (0.22.5-2) ... 92s Setting up autoconf (2.72-3) ... 92s Setting up dwz (0.15-1build6) ... 92s Setting up debugedit (1:5.1-1) ... 92s Setting up automake (1:1.16.5-1.3ubuntu1) ... 92s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 92s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 92s Setting up libtool (2.4.7-7build1) ... 92s Setting up po-debconf (1.0.21+nmu1) ... 92s Setting up dh-autoreconf (20) ... 92s Setting up dh-strip-nondeterminism (1.14.0-1) ... 92s Setting up debhelper (13.20ubuntu1) ... 92s Setting up pybuild-plugin-autopkgtest (6.20241024) ... 92s Processing triggers for install-info (7.1.1-1) ... 92s Processing triggers for libc-bin (2.40-1ubuntu3) ... 92s Processing triggers for man-db (2.12.1-3) ... 94s Reading package lists... 94s Building dependency tree... 94s Reading state information... 94s Starting pkgProblemResolver with broken count: 0 94s Starting 2 pkgProblemResolver with broken count: 0 94s Done 95s The following NEW packages will be installed: 95s autopkgtest-satdep 95s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 95s Need to get 0 B/700 B of archives. 95s After this operation, 0 B of additional disk space will be used. 95s Get:1 /tmp/autopkgtest.7HZlzt/4-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [700 B] 95s Selecting previously unselected package autopkgtest-satdep. 95s (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 ... 82400 files and directories currently installed.) 95s Preparing to unpack .../4-autopkgtest-satdep.deb ... 95s Unpacking autopkgtest-satdep (0) ... 95s Setting up autopkgtest-satdep (0) ... 97s (Reading database ... 82400 files and directories currently installed.) 97s Removing autopkgtest-satdep (0) ... 97s autopkgtest [22:18:54]: test pybuild-autopkgtest: pybuild-autopkgtest 97s autopkgtest [22:18:54]: test pybuild-autopkgtest: [----------------------- 98s pybuild-autopkgtest 98s I: pybuild base:311: cd /tmp/autopkgtest.7HZlzt/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' 98s ============================= test session starts ============================== 98s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 98s cachedir: .pytest_cache 98s rootdir: /tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build 98s plugins: typeguard-4.4.1 99s collecting ... collected 0 items / 25 errors 99s 99s ==================================== ERRORS ==================================== 99s ____________________ ERROR collecting tests/test_contigs.py ____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_contigs.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_contigs.py:1: in 99s from pyensembl import genome_for_reference_name 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s E pytz: No module named '_sysconfigdata__i386-linux-gnu' 99s ________________ ERROR collecting tests/test_download_cache.py _________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_download_cache.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_download_cache.py:5: in 99s from pyensembl.download_cache import DownloadCache, MissingLocalFile, MissingRemoteFile 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s __________________ ERROR collecting tests/test_ensembl_gtf.py __________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_ensembl_gtf.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_ensembl_gtf.py:5: in 99s from .common import run_multiple_genomes 99s tests/common.py:3: in 99s from pyensembl import genome_for_reference_name, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ___________ ERROR collecting tests/test_ensembl_object_properties.py ___________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_ensembl_object_properties.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_ensembl_object_properties.py:8: in 99s from .common import eq_ 99s tests/common.py:3: in 99s from pyensembl import genome_for_reference_name, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ____________________ ERROR collecting tests/test_exon_id.py ____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_exon_id.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_exon_id.py:7: in 99s from pyensembl import cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s __________________ ERROR collecting tests/test_exon_object.py __________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_exon_object.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_exon_object.py:8: in 99s from pyensembl import cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ___________________ ERROR collecting tests/test_gene_ids.py ____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_gene_ids.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_gene_ids.py:10: in 99s from pyensembl import ensembl_grch38, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s __________________ ERROR collecting tests/test_gene_names.py ___________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_gene_names.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_gene_names.py:6: in 99s from pyensembl import genome_for_reference_name 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _________________ ERROR collecting tests/test_gene_objects.py __________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_gene_objects.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_gene_objects.py:1: in 99s from .common import eq_ 99s tests/common.py:3: in 99s from pyensembl import genome_for_reference_name, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ___________________ ERROR collecting tests/test_id_length.py ___________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_id_length.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_id_length.py:1: in 99s from .common import major_releases 99s tests/common.py:3: in 99s from pyensembl import genome_for_reference_name, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _____________________ ERROR collecting tests/test_locus.py _____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_locus.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_locus.py:1: in 99s from pyensembl.locus import Locus 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ____________ ERROR collecting tests/test_missing_genome_sources.py _____________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_missing_genome_sources.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_missing_genome_sources.py:1: in 99s from pyensembl import Genome 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _____________________ ERROR collecting tests/test_mouse.py _____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_mouse.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_mouse.py:1: in 99s from .common import eq_ 99s tests/common.py:3: in 99s from pyensembl import genome_for_reference_name, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _______________ ERROR collecting tests/test_release_versions.py ________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_release_versions.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_release_versions.py:1: in 99s from pyensembl import EnsemblRelease, MAX_ENSEMBL_RELEASE 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ____________________ ERROR collecting tests/test_search.py _____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_search.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_search.py:1: in 99s from pyensembl import find_nearest_locus 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _________________ ERROR collecting tests/test_sequence_data.py _________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_sequence_data.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_sequence_data.py:8: in 99s from pyensembl import SequenceData 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _________________ ERROR collecting tests/test_serialization.py _________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_serialization.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_serialization.py:15: in 99s from pyensembl import Genome, Transcript, Gene, Exon 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _____________________ ERROR collecting tests/test_shell.py _____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_shell.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_shell.py:1: in 99s from pyensembl.shell import parser, all_combinations_of_ensembl_genomes 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _____________ ERROR collecting tests/test_string_representation.py _____________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_string_representation.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_string_representation.py:1: in 99s from pyensembl import Locus, Gene, ensembl_grch37, Transcript, Exon 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ____________________ ERROR collecting tests/test_timings.py ____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_timings.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_timings.py:1: in 99s from pyensembl import genome_for_reference_name 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ________________ ERROR collecting tests/test_transcript_ids.py _________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_transcript_ids.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_transcript_ids.py:7: in 99s from pyensembl import genome_for_reference_name 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ______________ ERROR collecting tests/test_transcript_objects.py _______________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_transcript_objects.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_transcript_objects.py:1: in 99s from pyensembl import Locus, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s _____________ ERROR collecting tests/test_transcript_sequences.py ______________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_transcript_sequences.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_transcript_sequences.py:7: in 99s from .common import eq_ 99s tests/common.py:3: in 99s from pyensembl import genome_for_reference_name, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ___________ ERROR collecting tests/test_transcript_support_level.py ____________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_transcript_support_level.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_transcript_support_level.py:7: in 99s from .common import eq_ 99s tests/common.py:3: in 99s from pyensembl import genome_for_reference_name, cached_release 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s ___________________ ERROR collecting tests/test_ucsc_gtf.py ____________________ 99s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_ucsc_gtf.py'. 99s Hint: make sure your test modules/packages have valid Python names. 99s Traceback: 99s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 99s return _bootstrap._gcd_import(name[level:], package, level) 99s tests/test_ucsc_gtf.py:1: in 99s from pyensembl import Genome, Database 99s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 99s from .database import Database 99s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 99s import datacache 99s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 99s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 99s /usr/lib/python3/dist-packages/datacache/download.py:24: in 99s import pandas as pd 99s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 99s raise ImportError( 99s E ImportError: Unable to import required dependencies: 99s E numpy: Error importing numpy: you should not try to import numpy from 99s E its source directory; please exit the numpy source tree, and relaunch 99s E your python interpreter from there. 99s =========================== short test summary info ============================ 99s ERROR tests/test_contigs.py 99s ERROR tests/test_download_cache.py 99s ERROR tests/test_ensembl_gtf.py 99s ERROR tests/test_ensembl_object_properties.py 99s ERROR tests/test_exon_id.py 99s ERROR tests/test_exon_object.py 99s ERROR tests/test_gene_ids.py 99s ERROR tests/test_gene_names.py 99s ERROR tests/test_gene_objects.py 99s ERROR tests/test_id_length.py 99s ERROR tests/test_locus.py 99s ERROR tests/test_missing_genome_sources.py 99s ERROR tests/test_mouse.py 99s ERROR tests/test_release_versions.py 99s ERROR tests/test_search.py 99s ERROR tests/test_sequence_data.py 99s ERROR tests/test_serialization.py 99s ERROR tests/test_shell.py 99s ERROR tests/test_string_representation.py 99s ERROR tests/test_timings.py 99s ERROR tests/test_transcript_ids.py 99s ERROR tests/test_transcript_objects.py 99s ERROR tests/test_transcript_sequences.py 99s ERROR tests/test_transcript_support_level.py 99s ERROR tests/test_ucsc_gtf.py 99s !!!!!!!!!!!!!!!!!!! Interrupted: 25 errors during collection !!!!!!!!!!!!!!!!!!! 99s ============================== 25 errors in 0.82s ============================== 99s E: pybuild pybuild:389: test: plugin distutils failed with: exit code=2: cd /tmp/autopkgtest.7HZlzt/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' 99s I: pybuild base:311: cd /tmp/autopkgtest.7HZlzt/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' 99s ============================= test session starts ============================== 99s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.12 99s cachedir: .pytest_cache 99s rootdir: /tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build 99s plugins: typeguard-4.4.1 100s collecting ... collected 125 items / 1 error / 97 deselected / 28 selected 100s 100s ==================================== ERRORS ==================================== 100s ____________________ ERROR collecting tests/test_contigs.py ____________________ 100s ImportError while importing test module '/tmp/autopkgtest.7HZlzt/autopkgtest_tmp/build/tests/test_contigs.py'. 100s Hint: make sure your test modules/packages have valid Python names. 100s Traceback: 100s /usr/lib/python3.12/importlib/__init__.py:90: in import_module 100s return _bootstrap._gcd_import(name[level:], package, level) 100s tests/test_contigs.py:1: in 100s from pyensembl import genome_for_reference_name 100s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 100s from .database import Database 100s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 100s import datacache 100s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 100s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 100s /usr/lib/python3/dist-packages/datacache/download.py:24: in 100s import pandas as pd 100s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 100s raise ImportError( 100s E ImportError: Unable to import required dependencies: 100s E pytz: No module named '_sysconfigdata__i386-linux-gnu' 100s =============================== warnings summary =============================== 100s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:43 100s /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 100s import pkg_resources 100s 100s ../../../../usr/lib/python3/dist-packages/pkg_resources/__init__.py:3154 100s /usr/lib/python3/dist-packages/pkg_resources/__init__.py:3154: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('logilab')`. 100s 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 100s declare_namespace(pkg) 100s 100s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:74 100s /usr/lib/python3/dist-packages/pyensembl/shell.py:74: DeprecationWarning: Nesting argument groups is deprecated. 100s release_group = root_group.add_argument_group() 100s 100s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:96 100s /usr/lib/python3/dist-packages/pyensembl/shell.py:96: DeprecationWarning: Nesting argument groups is deprecated. 100s path_group = root_group.add_argument_group() 100s 100s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 100s =========================== short test summary info ============================ 100s ERROR tests/test_contigs.py 100s !!!!!!!!!!!!!!!!!!!! Interrupted: 1 error during collection !!!!!!!!!!!!!!!!!!!! 100s ================= 97 deselected, 4 warnings, 1 error in 0.64s ================== 100s E: pybuild pybuild:389: test: plugin distutils failed with: exit code=2: cd /tmp/autopkgtest.7HZlzt/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' 100s pybuild-autopkgtest: error: pybuild --autopkgtest --test-pytest -i python{version} -p "3.13 3.12" returned exit code 13 100s make: *** [/tmp/qln4kjl_mt/run:4: pybuild-autopkgtest] Error 25 100s pybuild-autopkgtest: error: /tmp/qln4kjl_mt/run pybuild-autopkgtest returned exit code 2 100s autopkgtest [22:18:57]: test pybuild-autopkgtest: -----------------------] 101s autopkgtest [22:18:58]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 101s pybuild-autopkgtest FAIL non-zero exit status 25 101s autopkgtest [22:18:58]: @@@@@@@@@@@@@@@@@@@@ summary 101s run-unit-test FAIL non-zero exit status 2 101s pybuild-autopkgtest FAIL non-zero exit status 25 105s nova [W] Skipping flock for amd64 105s Creating nova instance adt-plucky-i386-pyensembl-20241114-221717-juju-7f2275-prod-proposed-migration-environment-20-e0fd23f2-3db9-4f4f-8069-138aa4da80a2 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)...