0s autopkgtest [09:43:00]: starting date and time: 2024-11-13 09:43:00+0000 0s autopkgtest [09:43:00]: git checkout: 0acbae0a WIP show VirtSubproc stderr in real-time 0s autopkgtest [09:43:00]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.7oxe3axx/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 nibabel --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-8.secgroup --name adt-plucky-arm64-nibabel-20241113-094300-juju-7f2275-prod-proposed-migration-environment-2-e53f8932-e7b3-4d71-a227-f52292d52838 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 93s autopkgtest [09:44:33]: testbed dpkg architecture: arm64 94s autopkgtest [09:44:34]: testbed apt version: 2.9.8 94s autopkgtest [09:44:34]: @@@@@@@@@@@@@@@@@@@@ test bed setup 95s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 95s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 95s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 95s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 95s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 95s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [104 kB] 95s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB] 95s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [601 kB] 95s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [17.1 kB] 95s Fetched 1794 kB in 1s (2050 kB/s) 95s Reading package lists... 98s Reading package lists... 98s Building dependency tree... 98s Reading state information... 99s Calculating upgrade... 99s The following NEW packages will be installed: 99s python3.13-gdbm 99s The following packages will be upgraded: 99s libpython3-stdlib python3 python3-gdbm python3-minimal 100s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 100s Need to get 101 kB of archives. 100s After this operation, 141 kB of additional disk space will be used. 100s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-minimal arm64 3.12.7-1 [27.4 kB] 100s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3 arm64 3.12.7-1 [24.0 kB] 100s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-stdlib arm64 3.12.7-1 [10.0 kB] 100s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-gdbm arm64 3.13.0-2 [30.7 kB] 100s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-gdbm arm64 3.12.7-1 [8642 B] 100s Fetched 101 kB in 0s (274 kB/s) 101s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 79924 files and directories currently installed.) 101s Preparing to unpack .../python3-minimal_3.12.7-1_arm64.deb ... 101s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 101s Setting up python3-minimal (3.12.7-1) ... 101s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 79924 files and directories currently installed.) 101s Preparing to unpack .../python3_3.12.7-1_arm64.deb ... 101s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 101s Preparing to unpack .../libpython3-stdlib_3.12.7-1_arm64.deb ... 101s Unpacking libpython3-stdlib:arm64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 101s Selecting previously unselected package python3.13-gdbm. 101s Preparing to unpack .../python3.13-gdbm_3.13.0-2_arm64.deb ... 101s Unpacking python3.13-gdbm (3.13.0-2) ... 101s Preparing to unpack .../python3-gdbm_3.12.7-1_arm64.deb ... 101s Unpacking python3-gdbm:arm64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 101s Setting up python3.13-gdbm (3.13.0-2) ... 101s Setting up libpython3-stdlib:arm64 (3.12.7-1) ... 101s Setting up python3 (3.12.7-1) ... 101s Setting up python3-gdbm:arm64 (3.12.7-1) ... 101s Processing triggers for man-db (2.12.1-3) ... 102s Reading package lists... 103s Building dependency tree... 103s Reading state information... 103s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 104s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 104s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 104s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 104s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 105s Reading package lists... 105s Reading package lists... 105s Building dependency tree... 105s Reading state information... 106s Calculating upgrade... 107s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 107s Reading package lists... 107s Building dependency tree... 107s Reading state information... 108s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 110s autopkgtest [09:44:50]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024 111s autopkgtest [09:44:51]: @@@@@@@@@@@@@@@@@@@@ apt-source nibabel 115s Get:1 http://ftpmaster.internal/ubuntu plucky/universe nibabel 5.2.1-2 (dsc) [2651 B] 115s Get:2 http://ftpmaster.internal/ubuntu plucky/universe nibabel 5.2.1-2 (tar) [4529 kB] 115s Get:3 http://ftpmaster.internal/ubuntu plucky/universe nibabel 5.2.1-2 (diff) [12.8 kB] 115s gpgv: Signature made Tue May 28 20:10:08 2024 UTC 115s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 115s gpgv: issuer "emollier@debian.org" 115s gpgv: Can't check signature: No public key 115s dpkg-source: warning: cannot verify inline signature for ./nibabel_5.2.1-2.dsc: no acceptable signature found 116s autopkgtest [09:44:56]: testing package nibabel version 5.2.1-2 116s autopkgtest [09:44:56]: build not needed 119s autopkgtest [09:44:59]: test run-unit-test: preparing testbed 120s Reading package lists... 121s Building dependency tree... 121s Reading state information... 121s Starting pkgProblemResolver with broken count: 0 121s Starting 2 pkgProblemResolver with broken count: 0 121s Done 122s The following additional packages will be installed: 122s fonts-mathjax libblas3 libgfortran5 libjs-jquery libjs-mathjax liblapack3 122s liblbfgsb0 libpython3.13-minimal libpython3.13-stdlib python-nibabel-doc 122s python3-all python3-decorator python3-iniconfig python3-nibabel 122s python3-numpy python3-packaging python3-pluggy python3-pytest 122s python3-pytest-httpserver python3-scipy python3-werkzeug python3.13 122s python3.13-minimal 122s Suggested packages: 122s fonts-mathjax-extras fonts-stix libjs-mathjax-doc gcc gfortran 122s python-numpy-doc python3-dev python-scipy-doc ipython3 python-werkzeug-doc 122s python3-lxml python3-watchdog python3.13-venv python3.13-doc binfmt-support 122s Recommended packages: 122s javascript-common python3-pydicom python3-fuse g++ | c++-compiler 122s python3-pil python3-pyinotify 122s The following NEW packages will be installed: 122s autopkgtest-satdep fonts-mathjax libblas3 libgfortran5 libjs-jquery 122s libjs-mathjax liblapack3 liblbfgsb0 libpython3.13-minimal 122s libpython3.13-stdlib python-nibabel-doc python3-all python3-decorator 122s python3-iniconfig python3-nibabel python3-numpy python3-packaging 122s python3-pluggy python3-pytest python3-pytest-httpserver python3-scipy 122s python3-werkzeug python3.13 python3.13-minimal 122s 0 upgraded, 24 newly installed, 0 to remove and 0 not upgraded. 122s Need to get 41.7 MB/41.7 MB of archives. 122s After this operation, 190 MB of additional disk space will be used. 122s Get:1 /tmp/autopkgtest.Q4vItP/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [756 B] 122s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-minimal arm64 3.13.0-2 [877 kB] 123s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-minimal arm64 3.13.0-2 [2100 kB] 124s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 126s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB] 126s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-8ubuntu1 [438 kB] 126s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 126s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB] 128s Get:9 http://ftpmaster.internal/ubuntu plucky/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1build1 [27.7 kB] 128s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-stdlib arm64 3.13.0-2 [2073 kB] 129s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13 arm64 3.13.0-2 [719 kB] 129s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all arm64 3.12.7-1 [890 B] 129s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-decorator all 5.1.1-5 [10.1 kB] 129s Get:14 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] 129s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11build1 [3654 kB] 130s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.1-1 [41.4 kB] 130s Get:17 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB] 130s Get:18 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest all 8.3.3-1 [251 kB] 130s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-werkzeug all 3.0.4-1ubuntu1 [171 kB] 130s Get:20 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest-httpserver all 1.1.0-1 [18.6 kB] 130s Get:21 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-scipy arm64 1.13.1-5 [16.3 MB] 132s Get:22 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-nibabel all 5.2.1-2 [2696 kB] 133s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 133s Get:24 http://ftpmaster.internal/ubuntu plucky/universe arm64 python-nibabel-doc all 5.2.1-2 [1665 kB] 134s Fetched 41.7 MB in 12s (3567 kB/s) 134s Selecting previously unselected package libpython3.13-minimal:arm64. 134s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 79931 files and directories currently installed.) 134s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_arm64.deb ... 134s Unpacking libpython3.13-minimal:arm64 (3.13.0-2) ... 134s Selecting previously unselected package python3.13-minimal. 134s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_arm64.deb ... 134s Unpacking python3.13-minimal (3.13.0-2) ... 134s Selecting previously unselected package fonts-mathjax. 134s Preparing to unpack .../02-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 134s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 134s Selecting previously unselected package libblas3:arm64. 134s Preparing to unpack .../03-libblas3_3.12.0-3build2_arm64.deb ... 134s Unpacking libblas3:arm64 (3.12.0-3build2) ... 134s Selecting previously unselected package libgfortran5:arm64. 134s Preparing to unpack .../04-libgfortran5_14.2.0-8ubuntu1_arm64.deb ... 134s Unpacking libgfortran5:arm64 (14.2.0-8ubuntu1) ... 134s Selecting previously unselected package libjs-jquery. 134s Preparing to unpack .../05-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 134s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 135s Selecting previously unselected package liblapack3:arm64. 135s Preparing to unpack .../06-liblapack3_3.12.0-3build2_arm64.deb ... 135s Unpacking liblapack3:arm64 (3.12.0-3build2) ... 135s Selecting previously unselected package liblbfgsb0:arm64. 135s Preparing to unpack .../07-liblbfgsb0_3.0+dfsg.4-1build1_arm64.deb ... 135s Unpacking liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 135s Selecting previously unselected package libpython3.13-stdlib:arm64. 135s Preparing to unpack .../08-libpython3.13-stdlib_3.13.0-2_arm64.deb ... 135s Unpacking libpython3.13-stdlib:arm64 (3.13.0-2) ... 135s Selecting previously unselected package python3.13. 135s Preparing to unpack .../09-python3.13_3.13.0-2_arm64.deb ... 135s Unpacking python3.13 (3.13.0-2) ... 135s Selecting previously unselected package python3-all. 135s Preparing to unpack .../10-python3-all_3.12.7-1_arm64.deb ... 135s Unpacking python3-all (3.12.7-1) ... 135s Selecting previously unselected package python3-decorator. 135s Preparing to unpack .../11-python3-decorator_5.1.1-5_all.deb ... 135s Unpacking python3-decorator (5.1.1-5) ... 135s Selecting previously unselected package python3-iniconfig. 135s Preparing to unpack .../12-python3-iniconfig_1.1.1-2_all.deb ... 135s Unpacking python3-iniconfig (1.1.1-2) ... 135s Selecting previously unselected package python3-numpy. 135s Preparing to unpack .../13-python3-numpy_1%3a1.26.4+ds-11build1_arm64.deb ... 135s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 135s Selecting previously unselected package python3-packaging. 135s Preparing to unpack .../14-python3-packaging_24.1-1_all.deb ... 135s Unpacking python3-packaging (24.1-1) ... 135s Selecting previously unselected package python3-pluggy. 135s Preparing to unpack .../15-python3-pluggy_1.5.0-1_all.deb ... 135s Unpacking python3-pluggy (1.5.0-1) ... 135s Selecting previously unselected package python3-pytest. 135s Preparing to unpack .../16-python3-pytest_8.3.3-1_all.deb ... 135s Unpacking python3-pytest (8.3.3-1) ... 135s Selecting previously unselected package python3-werkzeug. 135s Preparing to unpack .../17-python3-werkzeug_3.0.4-1ubuntu1_all.deb ... 135s Unpacking python3-werkzeug (3.0.4-1ubuntu1) ... 135s Selecting previously unselected package python3-pytest-httpserver. 135s Preparing to unpack .../18-python3-pytest-httpserver_1.1.0-1_all.deb ... 135s Unpacking python3-pytest-httpserver (1.1.0-1) ... 135s Selecting previously unselected package python3-scipy. 135s Preparing to unpack .../19-python3-scipy_1.13.1-5_arm64.deb ... 135s Unpacking python3-scipy (1.13.1-5) ... 136s Selecting previously unselected package python3-nibabel. 136s Preparing to unpack .../20-python3-nibabel_5.2.1-2_all.deb ... 136s Unpacking python3-nibabel (5.2.1-2) ... 136s Selecting previously unselected package libjs-mathjax. 136s Preparing to unpack .../21-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 136s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 137s Selecting previously unselected package python-nibabel-doc. 137s Preparing to unpack .../22-python-nibabel-doc_5.2.1-2_all.deb ... 137s Unpacking python-nibabel-doc (5.2.1-2) ... 137s Selecting previously unselected package autopkgtest-satdep. 137s Preparing to unpack .../23-1-autopkgtest-satdep.deb ... 137s Unpacking autopkgtest-satdep (0) ... 137s Setting up python3-iniconfig (1.1.1-2) ... 137s Setting up fonts-mathjax (2.7.9+dfsg-1) ... 137s Setting up libjs-mathjax (2.7.9+dfsg-1) ... 137s Setting up libpython3.13-minimal:arm64 (3.13.0-2) ... 137s Setting up python3-decorator (5.1.1-5) ... 137s Setting up libblas3:arm64 (3.12.0-3build2) ... 137s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 137s Setting up python3-packaging (24.1-1) ... 138s Setting up libgfortran5:arm64 (14.2.0-8ubuntu1) ... 138s Setting up python3-pluggy (1.5.0-1) ... 138s Setting up python3.13-minimal (3.13.0-2) ... 139s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 139s Setting up libpython3.13-stdlib:arm64 (3.13.0-2) ... 139s Setting up liblapack3:arm64 (3.12.0-3build2) ... 139s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 139s Setting up python3.13 (3.13.0-2) ... 140s Setting up python3-pytest (8.3.3-1) ... 141s Setting up python3-all (3.12.7-1) ... 141s Setting up python3-werkzeug (3.0.4-1ubuntu1) ... 141s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 145s Setting up python-nibabel-doc (5.2.1-2) ... 145s Setting up python3-pytest-httpserver (1.1.0-1) ... 146s Setting up liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 146s Setting up python3-scipy (1.13.1-5) ... 153s Setting up python3-nibabel (5.2.1-2) ... 154s Setting up autopkgtest-satdep (0) ... 154s Processing triggers for systemd (256.5-2ubuntu4) ... 154s Processing triggers for man-db (2.12.1-3) ... 155s Processing triggers for libc-bin (2.40-1ubuntu3) ... 159s (Reading database ... 88300 files and directories currently installed.) 159s Removing autopkgtest-satdep (0) ... 160s autopkgtest [09:45:40]: test run-unit-test: [----------------------- 161s ImportError while loading conftest '/tmp/autopkgtest.Q4vItP/build.tY7/src/nibabel/conftest.py'. 161s nibabel/__init__.py:41: in 161s from . import analyze as ana 161s nibabel/analyze.py:86: in 161s import numpy as np 161s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 161s raise ImportError(msg) from e 161s E ImportError: Error importing numpy: you should not try to import numpy from 161s E its source directory; please exit the numpy source tree, and relaunch 161s E your python interpreter from there. 161s autopkgtest [09:45:41]: test run-unit-test: -----------------------] 162s autopkgtest [09:45:42]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 162s run-unit-test FAIL non-zero exit status 4 162s autopkgtest [09:45:42]: @@@@@@@@@@@@@@@@@@@@ summary 162s run-unit-test FAIL non-zero exit status 4 183s virt: nova [W] Skipping flock in bos03-arm64 183s virt: Creating nova instance adt-plucky-arm64-nibabel-20241113-094300-juju-7f2275-prod-proposed-migration-environment-2-e53f8932-e7b3-4d71-a227-f52292d52838 from image adt/ubuntu-plucky-arm64-server-20241113.img (UUID 2d7760e6-2439-4200-89d6-5ed33e5c6330)...