0s autopkgtest [11:52:15]: starting date and time: 2024-11-14 11:52:15+0000 0s autopkgtest [11:52:15]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [11:52:15]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.a0uf8ghc/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 xraydb --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@bos03-11.secgroup --name adt-plucky-amd64-xraydb-20241114-115215-juju-7f2275-prod-proposed-migration-environment-20-1c4ff45d-5b80-4eac-a9f2-4314f83f5e78 --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/ 46s autopkgtest [11:53:01]: testbed dpkg architecture: amd64 46s autopkgtest [11:53:01]: testbed apt version: 2.9.8 46s autopkgtest [11:53:01]: @@@@@@@@@@@@@@@@@@@@ test bed setup 47s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 48s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.3 kB] 48s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 48s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [991 kB] 48s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 48s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [135 kB] 48s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [76.1 kB] 48s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 48s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [761 kB] 48s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [288 kB] 48s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [1084 B] 48s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9252 B] 48s Fetched 2489 kB in 1s (2916 kB/s) 48s Reading package lists... 51s Reading package lists... 51s Building dependency tree... 51s Reading state information... 51s Calculating upgrade... 51s The following NEW packages will be installed: 51s python3.13-gdbm 51s The following packages will be upgraded: 51s libpython3-stdlib python3 python3-gdbm python3-minimal 52s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 52s Need to get 101 kB of archives. 52s After this operation, 100 kB of additional disk space will be used. 52s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 52s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 52s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 52s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 52s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 52s Fetched 101 kB in 0s (299 kB/s) 52s (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.) 52s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 52s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 52s Setting up python3-minimal (3.12.7-1) ... 52s (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.) 52s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 52s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 52s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 52s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 53s Selecting previously unselected package python3.13-gdbm. 53s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 53s Unpacking python3.13-gdbm (3.13.0-2) ... 53s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 53s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 53s Setting up python3.13-gdbm (3.13.0-2) ... 53s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 53s Setting up python3 (3.12.7-1) ... 53s Setting up python3-gdbm:amd64 (3.12.7-1) ... 53s Processing triggers for man-db (2.12.1-3) ... 53s Reading package lists... 54s Building dependency tree... 54s Reading state information... 54s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 54s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 54s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 54s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 55s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 55s Reading package lists... 55s Reading package lists... 56s Building dependency tree... 56s Reading state information... 56s Calculating upgrade... 56s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 56s Reading package lists... 56s Building dependency tree... 56s Reading state information... 57s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 59s autopkgtest [11:53:14]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 59s autopkgtest [11:53:14]: @@@@@@@@@@@@@@@@@@@@ apt-source xraydb 64s Get:1 http://ftpmaster.internal/ubuntu plucky/universe xraydb 4.5.3-2 (dsc) [2672 B] 64s Get:2 http://ftpmaster.internal/ubuntu plucky/universe xraydb 4.5.3-2 (tar) [12.3 MB] 64s Get:3 http://ftpmaster.internal/ubuntu plucky/universe xraydb 4.5.3-2 (diff) [4548 B] 64s gpgv: Signature made Wed Dec 20 16:47:54 2023 UTC 64s gpgv: using RSA key D9B453B799B8830D945E6A0A5BF54E5E12B900BB 64s gpgv: issuer "picca@debian.org" 64s gpgv: Can't check signature: No public key 64s dpkg-source: warning: cannot verify inline signature for ./xraydb_4.5.3-2.dsc: no acceptable signature found 65s autopkgtest [11:53:20]: testing package xraydb version 4.5.3-2 65s autopkgtest [11:53:20]: build not needed 67s autopkgtest [11:53:22]: test testsuite: preparing testbed 70s Reading package lists... 70s Building dependency tree... 70s Reading state information... 70s Starting pkgProblemResolver with broken count: 0 70s Starting 2 pkgProblemResolver with broken count: 0 70s Done 71s The following additional packages will be installed: 71s libblas3 libgfortran5 liblapack3 liblbfgsb0 libpython3.13-minimal 71s libpython3.13-stdlib python3-all python3-decorator python3-greenlet 71s python3-iniconfig python3-numpy python3-packaging python3-platformdirs 71s python3-pluggy python3-pytest python3-scipy python3-sqlalchemy 71s python3-xraydb python3.13 python3.13-minimal 71s Suggested packages: 71s python-greenlet-dev python-greenlet-doc gcc gfortran python-numpy-doc 71s python3-dev python-scipy-doc python-sqlalchemy-doc python3-asyncpg 71s python3-pg8000 python3-psycopg2 python3-psycopg2cffi python3-aiosqlite 71s python3-mariadb-connector python3-mysqldb python3-mysql.connector 71s python3-pyodbc python3-pymssql python3-cx-oracle python3-oracledb 71s python-xraydb-doc python3.13-venv python3.13-doc binfmt-support 71s Recommended packages: 71s g++ | c++-compiler python3-pil python3-sqlalchemy-ext 71s The following NEW packages will be installed: 71s autopkgtest-satdep libblas3 libgfortran5 liblapack3 liblbfgsb0 71s libpython3.13-minimal libpython3.13-stdlib python3-all python3-decorator 71s python3-greenlet python3-iniconfig python3-numpy python3-packaging 71s python3-platformdirs python3-pluggy python3-pytest python3-scipy 71s python3-sqlalchemy python3-xraydb python3.13 python3.13-minimal 71s 0 upgraded, 21 newly installed, 0 to remove and 0 not upgraded. 71s Need to get 37.6 MB/37.6 MB of archives. 71s After this operation, 152 MB of additional disk space will be used. 71s Get:1 /tmp/autopkgtest.ddJL9i/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [724 B] 71s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 71s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 72s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 72s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 72s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 72s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 72s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 72s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 72s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 72s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 72s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 72s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 73s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 73s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-platformdirs all 4.3.6-1 [16.8 kB] 73s Get:16 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 73s Get:17 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.3-1 [251 kB] 73s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-greenlet amd64 3.0.3-0ubuntu6 [155 kB] 73s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-sqlalchemy all 2.0.32+ds1-1ubuntu1 [1206 kB] 73s Get:20 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 74s Get:21 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-xraydb all 4.5.3-2 [3461 kB] 74s Fetched 37.6 MB in 3s (11.3 MB/s) 74s Selecting previously unselected package libpython3.13-minimal:amd64. 74s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75549 files and directories currently installed.) 74s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 74s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 74s Selecting previously unselected package python3.13-minimal. 74s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 74s Unpacking python3.13-minimal (3.13.0-2) ... 74s Selecting previously unselected package libblas3:amd64. 74s Preparing to unpack .../02-libblas3_3.12.0-3build2_amd64.deb ... 74s Unpacking libblas3:amd64 (3.12.0-3build2) ... 74s Selecting previously unselected package libgfortran5:amd64. 74s Preparing to unpack .../03-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 74s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 74s Selecting previously unselected package liblapack3:amd64. 74s Preparing to unpack .../04-liblapack3_3.12.0-3build2_amd64.deb ... 74s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 74s Selecting previously unselected package liblbfgsb0:amd64. 74s Preparing to unpack .../05-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 74s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 75s Selecting previously unselected package libpython3.13-stdlib:amd64. 75s Preparing to unpack .../06-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 75s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 75s Selecting previously unselected package python3.13. 75s Preparing to unpack .../07-python3.13_3.13.0-2_amd64.deb ... 75s Unpacking python3.13 (3.13.0-2) ... 75s Selecting previously unselected package python3-all. 75s Preparing to unpack .../08-python3-all_3.12.7-1_amd64.deb ... 75s Unpacking python3-all (3.12.7-1) ... 75s Selecting previously unselected package python3-decorator. 75s Preparing to unpack .../09-python3-decorator_5.1.1-5_all.deb ... 75s Unpacking python3-decorator (5.1.1-5) ... 75s Selecting previously unselected package python3-iniconfig. 75s Preparing to unpack .../10-python3-iniconfig_1.1.1-2_all.deb ... 75s Unpacking python3-iniconfig (1.1.1-2) ... 75s Selecting previously unselected package python3-numpy. 75s Preparing to unpack .../11-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 75s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 75s Selecting previously unselected package python3-packaging. 75s Preparing to unpack .../12-python3-packaging_24.1-1_all.deb ... 75s Unpacking python3-packaging (24.1-1) ... 75s Selecting previously unselected package python3-platformdirs. 75s Preparing to unpack .../13-python3-platformdirs_4.3.6-1_all.deb ... 75s Unpacking python3-platformdirs (4.3.6-1) ... 75s Selecting previously unselected package python3-pluggy. 75s Preparing to unpack .../14-python3-pluggy_1.5.0-1_all.deb ... 75s Unpacking python3-pluggy (1.5.0-1) ... 75s Selecting previously unselected package python3-pytest. 75s Preparing to unpack .../15-python3-pytest_8.3.3-1_all.deb ... 75s Unpacking python3-pytest (8.3.3-1) ... 75s Selecting previously unselected package python3-greenlet. 75s Preparing to unpack .../16-python3-greenlet_3.0.3-0ubuntu6_amd64.deb ... 75s Unpacking python3-greenlet (3.0.3-0ubuntu6) ... 75s Selecting previously unselected package python3-sqlalchemy. 75s Preparing to unpack .../17-python3-sqlalchemy_2.0.32+ds1-1ubuntu1_all.deb ... 75s Unpacking python3-sqlalchemy (2.0.32+ds1-1ubuntu1) ... 75s Selecting previously unselected package python3-scipy. 75s Preparing to unpack .../18-python3-scipy_1.13.1-5_amd64.deb ... 75s Unpacking python3-scipy (1.13.1-5) ... 76s Selecting previously unselected package python3-xraydb. 76s Preparing to unpack .../19-python3-xraydb_4.5.3-2_all.deb ... 76s Unpacking python3-xraydb (4.5.3-2) ... 76s Selecting previously unselected package autopkgtest-satdep. 76s Preparing to unpack .../20-1-autopkgtest-satdep.deb ... 76s Unpacking autopkgtest-satdep (0) ... 76s Setting up python3-iniconfig (1.1.1-2) ... 76s Setting up python3-platformdirs (4.3.6-1) ... 76s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 76s Setting up python3-decorator (5.1.1-5) ... 76s Setting up libblas3:amd64 (3.12.0-3build2) ... 76s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 76s Setting up python3-packaging (24.1-1) ... 76s Setting up python3-greenlet (3.0.3-0ubuntu6) ... 76s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 76s Setting up python3-pluggy (1.5.0-1) ... 77s Setting up python3.13-minimal (3.13.0-2) ... 77s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 77s Setting up liblapack3:amd64 (3.12.0-3build2) ... 77s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 77s Setting up python3.13 (3.13.0-2) ... 78s Setting up python3-pytest (8.3.3-1) ... 79s Setting up python3-all (3.12.7-1) ... 79s Setting up python3-sqlalchemy (2.0.32+ds1-1ubuntu1) ... 81s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 83s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 83s Setting up python3-scipy (1.13.1-5) ... 88s Setting up python3-xraydb (4.5.3-2) ... 89s Setting up autopkgtest-satdep (0) ... 89s Processing triggers for systemd (256.5-2ubuntu4) ... 89s Processing triggers for man-db (2.12.1-3) ... 89s Processing triggers for libc-bin (2.40-1ubuntu3) ... 91s (Reading database ... 79220 files and directories currently installed.) 91s Removing autopkgtest-satdep (0) ... 92s autopkgtest [11:53:47]: test testsuite: [----------------------- 92s 'python/tests' -> '/tmp/autopkgtest.ddJL9i/autopkgtest_tmp/tests' 92s 'python/tests/test_xray.py' -> '/tmp/autopkgtest.ddJL9i/autopkgtest_tmp/tests/test_xray.py' 92s 'python/tests/test_xraydb.py' -> '/tmp/autopkgtest.ddJL9i/autopkgtest_tmp/tests/test_xraydb.py' 92s 'python/tests/test_chem_materials.py' -> '/tmp/autopkgtest.ddJL9i/autopkgtest_tmp/tests/test_chem_materials.py' 92s [*] testing on python3.13: 92s ============================= test session starts ============================== 92s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 92s cachedir: .pytest_cache 92s rootdir: /tmp/autopkgtest.ddJL9i/autopkgtest_tmp 92s plugins: typeguard-4.4.1 92s collecting ... collected 0 items / 1 error 92s 92s ==================================== ERRORS ==================================== 92s ________________ ERROR collecting tests/test_chem_materials.py _________________ 92s ImportError while importing test module '/tmp/autopkgtest.ddJL9i/autopkgtest_tmp/tests/test_chem_materials.py'. 92s Hint: make sure your test modules/packages have valid Python names. 92s Traceback: 92s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 92s from . import multiarray 92s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 92s from . import overrides 92s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 92s from numpy.core._multiarray_umath import ( 92s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 92s 92s During handling of the above exception, another exception occurred: 92s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 92s from numpy.__config__ import show as show_config 92s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 92s from numpy.core._multiarray_umath import ( 92s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 92s raise ImportError(msg) 92s E ImportError: 92s E 92s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 92s E 92s E Importing the numpy C-extensions failed. This error can happen for 92s E many reasons, often due to issues with your setup or how NumPy was 92s E installed. 92s E 92s E We have compiled some common reasons and troubleshooting tips at: 92s E 92s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 92s E 92s E Please note and check the following: 92s E 92s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 92s E * The NumPy version is: "1.26.4" 92s E 92s E and make sure that they are the versions you expect. 92s E Please carefully study the documentation linked above for further help. 92s E 92s E Original error was: No module named 'numpy.core._multiarray_umath' 92s 92s The above exception was the direct cause of the following exception: 92s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 92s return _bootstrap._gcd_import(name[level:], package, level) 92s tests/test_chem_materials.py:7: in 92s import numpy as np 92s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 92s raise ImportError(msg) from e 92s E ImportError: Error importing numpy: you should not try to import numpy from 92s E its source directory; please exit the numpy source tree, and relaunch 92s E your python interpreter from there. 92s !!!!!!!!!!!!!!!!!!!!!!!!!! stopping after 1 failures !!!!!!!!!!!!!!!!!!!!!!!!!!! 92s =============================== 1 error in 0.04s =============================== 92s autopkgtest [11:53:47]: test testsuite: -----------------------] 93s autopkgtest [11:53:48]: test testsuite: - - - - - - - - - - results - - - - - - - - - - 93s testsuite FAIL non-zero exit status 1 93s autopkgtest [11:53:48]: test autodep8-python3: preparing testbed 150s autopkgtest [11:54:45]: testbed dpkg architecture: amd64 150s autopkgtest [11:54:45]: testbed apt version: 2.9.8 150s autopkgtest [11:54:45]: @@@@@@@@@@@@@@@@@@@@ test bed setup 151s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 151s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [991 kB] 152s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 152s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 152s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.3 kB] 152s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [135 kB] 152s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [76.1 kB] 152s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 152s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [761 kB] 152s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [288 kB] 152s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [1084 B] 152s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9252 B] 152s Fetched 2489 kB in 1s (3163 kB/s) 152s Reading package lists... 154s Reading package lists... 154s Building dependency tree... 154s Reading state information... 154s Calculating upgrade... 155s The following NEW packages will be installed: 155s python3.13-gdbm 155s The following packages will be upgraded: 155s libpython3-stdlib python3 python3-gdbm python3-minimal 155s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 155s Need to get 101 kB of archives. 155s After this operation, 100 kB of additional disk space will be used. 155s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 155s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 155s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 155s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 155s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 155s Fetched 101 kB in 0s (301 kB/s) 155s (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.) 155s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 155s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 155s Setting up python3-minimal (3.12.7-1) ... 155s (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.) 155s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 156s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 156s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 156s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 156s Selecting previously unselected package python3.13-gdbm. 156s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 156s Unpacking python3.13-gdbm (3.13.0-2) ... 156s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 156s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 156s Setting up python3.13-gdbm (3.13.0-2) ... 156s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 156s Setting up python3 (3.12.7-1) ... 156s Setting up python3-gdbm:amd64 (3.12.7-1) ... 156s Processing triggers for man-db (2.12.1-3) ... 156s Reading package lists... 157s Building dependency tree... 157s Reading state information... 157s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 157s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 157s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 157s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 157s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 158s Reading package lists... 158s Reading package lists... 158s Building dependency tree... 158s Reading state information... 159s Calculating upgrade... 159s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 159s Reading package lists... 159s Building dependency tree... 159s Reading state information... 159s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 163s Reading package lists... 163s Building dependency tree... 163s Reading state information... 163s Starting pkgProblemResolver with broken count: 0 163s Starting 2 pkgProblemResolver with broken count: 0 163s Done 163s The following additional packages will be installed: 163s libblas3 libgfortran5 liblapack3 liblbfgsb0 libpython3.13-minimal 163s libpython3.13-stdlib python3-all python3-decorator python3-greenlet 163s python3-numpy python3-packaging python3-platformdirs python3-scipy 163s python3-sqlalchemy python3-xraydb python3.13 python3.13-minimal 163s Suggested packages: 163s python-greenlet-dev python-greenlet-doc gcc gfortran python-numpy-doc 163s python3-dev python3-pytest python-scipy-doc python-sqlalchemy-doc 163s python3-asyncpg python3-pg8000 python3-psycopg2 python3-psycopg2cffi 163s python3-aiosqlite python3-mariadb-connector python3-mysqldb 163s python3-mysql.connector python3-pyodbc python3-pymssql python3-cx-oracle 163s python3-oracledb python-xraydb-doc python3.13-venv python3.13-doc 163s binfmt-support 163s Recommended packages: 163s g++ | c++-compiler python3-pil python3-sqlalchemy-ext 163s The following NEW packages will be installed: 163s autopkgtest-satdep libblas3 libgfortran5 liblapack3 liblbfgsb0 163s libpython3.13-minimal libpython3.13-stdlib python3-all python3-decorator 163s python3-greenlet python3-numpy python3-packaging python3-platformdirs 163s python3-scipy python3-sqlalchemy python3-xraydb python3.13 163s python3.13-minimal 163s 0 upgraded, 18 newly installed, 0 to remove and 0 not upgraded. 163s Need to get 37.3 MB/37.3 MB of archives. 163s After this operation, 151 MB of additional disk space will be used. 163s Get:1 /tmp/autopkgtest.ddJL9i/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [716 B] 164s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.0-2 [879 kB] 164s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.0-2 [2188 kB] 164s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 164s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 164s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 164s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 164s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [2107 kB] 164s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.0-2 [719 kB] 164s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-all amd64 3.12.7-1 [890 B] 164s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 164s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 165s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.1-1 [41.4 kB] 165s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-platformdirs all 4.3.6-1 [16.8 kB] 165s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-greenlet amd64 3.0.3-0ubuntu6 [155 kB] 165s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-sqlalchemy all 2.0.32+ds1-1ubuntu1 [1206 kB] 165s Get:17 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 165s Get:18 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-xraydb all 4.5.3-2 [3461 kB] 166s Fetched 37.3 MB in 2s (18.2 MB/s) 166s Selecting previously unselected package libpython3.13-minimal:amd64. 166s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75549 files and directories currently installed.) 166s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_amd64.deb ... 166s Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... 166s Selecting previously unselected package python3.13-minimal. 166s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_amd64.deb ... 166s Unpacking python3.13-minimal (3.13.0-2) ... 166s Selecting previously unselected package libblas3:amd64. 166s Preparing to unpack .../02-libblas3_3.12.0-3build2_amd64.deb ... 166s Unpacking libblas3:amd64 (3.12.0-3build2) ... 166s Selecting previously unselected package libgfortran5:amd64. 166s Preparing to unpack .../03-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 166s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 166s Selecting previously unselected package liblapack3:amd64. 166s Preparing to unpack .../04-liblapack3_3.12.0-3build2_amd64.deb ... 166s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 166s Selecting previously unselected package liblbfgsb0:amd64. 166s Preparing to unpack .../05-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 166s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 166s Selecting previously unselected package libpython3.13-stdlib:amd64. 166s Preparing to unpack .../06-libpython3.13-stdlib_3.13.0-2_amd64.deb ... 166s Unpacking libpython3.13-stdlib:amd64 (3.13.0-2) ... 166s Selecting previously unselected package python3.13. 166s Preparing to unpack .../07-python3.13_3.13.0-2_amd64.deb ... 166s Unpacking python3.13 (3.13.0-2) ... 166s Selecting previously unselected package python3-all. 166s Preparing to unpack .../08-python3-all_3.12.7-1_amd64.deb ... 166s Unpacking python3-all (3.12.7-1) ... 166s Selecting previously unselected package python3-decorator. 166s Preparing to unpack .../09-python3-decorator_5.1.1-5_all.deb ... 166s Unpacking python3-decorator (5.1.1-5) ... 166s Selecting previously unselected package python3-numpy. 166s Preparing to unpack .../10-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 166s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 166s Selecting previously unselected package python3-packaging. 166s Preparing to unpack .../11-python3-packaging_24.1-1_all.deb ... 166s Unpacking python3-packaging (24.1-1) ... 166s Selecting previously unselected package python3-platformdirs. 166s Preparing to unpack .../12-python3-platformdirs_4.3.6-1_all.deb ... 166s Unpacking python3-platformdirs (4.3.6-1) ... 166s Selecting previously unselected package python3-greenlet. 166s Preparing to unpack .../13-python3-greenlet_3.0.3-0ubuntu6_amd64.deb ... 166s Unpacking python3-greenlet (3.0.3-0ubuntu6) ... 166s Selecting previously unselected package python3-sqlalchemy. 166s Preparing to unpack .../14-python3-sqlalchemy_2.0.32+ds1-1ubuntu1_all.deb ... 166s Unpacking python3-sqlalchemy (2.0.32+ds1-1ubuntu1) ... 167s Selecting previously unselected package python3-scipy. 167s Preparing to unpack .../15-python3-scipy_1.13.1-5_amd64.deb ... 167s Unpacking python3-scipy (1.13.1-5) ... 167s Selecting previously unselected package python3-xraydb. 167s Preparing to unpack .../16-python3-xraydb_4.5.3-2_all.deb ... 167s Unpacking python3-xraydb (4.5.3-2) ... 167s Selecting previously unselected package autopkgtest-satdep. 167s Preparing to unpack .../17-2-autopkgtest-satdep.deb ... 167s Unpacking autopkgtest-satdep (0) ... 167s Setting up python3-platformdirs (4.3.6-1) ... 167s Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... 167s Setting up python3-decorator (5.1.1-5) ... 167s Setting up libblas3:amd64 (3.12.0-3build2) ... 167s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 167s Setting up python3-packaging (24.1-1) ... 168s Setting up python3-greenlet (3.0.3-0ubuntu6) ... 168s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 168s Setting up python3.13-minimal (3.13.0-2) ... 168s Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... 168s Setting up liblapack3:amd64 (3.12.0-3build2) ... 168s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 168s Setting up python3.13 (3.13.0-2) ... 169s Setting up python3-all (3.12.7-1) ... 169s Setting up python3-sqlalchemy (2.0.32+ds1-1ubuntu1) ... 171s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 174s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 174s Setting up python3-scipy (1.13.1-5) ... 179s Setting up python3-xraydb (4.5.3-2) ... 179s Setting up autopkgtest-satdep (0) ... 179s Processing triggers for systemd (256.5-2ubuntu4) ... 179s Processing triggers for man-db (2.12.1-3) ... 179s Processing triggers for libc-bin (2.40-1ubuntu3) ... 181s (Reading database ... 79079 files and directories currently installed.) 181s Removing autopkgtest-satdep (0) ... 188s autopkgtest [11:55:23]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import xraydb; print(xraydb)" ; done 188s autopkgtest [11:55:23]: test autodep8-python3: [----------------------- 188s Testing with python3.13: 188s Traceback (most recent call last): 188s File "/usr/lib/python3/dist-packages/numpy/core/__init__.py", line 24, in 188s from . import multiarray 188s File "/usr/lib/python3/dist-packages/numpy/core/multiarray.py", line 10, in 188s from . import overrides 188s File "/usr/lib/python3/dist-packages/numpy/core/overrides.py", line 8, in 188s from numpy.core._multiarray_umath import ( 188s add_docstring, _get_implementing_args, _ArrayFunctionDispatcher) 188s ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 188s 188s During handling of the above exception, another exception occurred: 188s 188s Traceback (most recent call last): 188s File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 130, in 188s from numpy.__config__ import show as show_config 188s File "/usr/lib/python3/dist-packages/numpy/__config__.py", line 4, in 188s from numpy.core._multiarray_umath import ( 188s ...<3 lines>... 188s ) 188s File "/usr/lib/python3/dist-packages/numpy/core/__init__.py", line 50, in 188s raise ImportError(msg) 188s ImportError: 188s 188s IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 188s 188s Importing the numpy C-extensions failed. This error can happen for 188s many reasons, often due to issues with your setup or how NumPy was 188s installed. 188s 188s We have compiled some common reasons and troubleshooting tips at: 188s 188s https://numpy.org/devdocs/user/troubleshooting-importerror.html 188s 188s Please note and check the following: 188s 188s * The Python version is: Python3.13 from "/usr/bin/python3.13" 188s * The NumPy version is: "1.26.4" 188s 188s and make sure that they are the versions you expect. 188s Please carefully study the documentation linked above for further help. 188s 188s Original error was: No module named 'numpy.core._multiarray_umath' 188s 188s 188s The above exception was the direct cause of the following exception: 188s 188s Traceback (most recent call last): 188s File "", line 1, in 188s import xraydb; print(xraydb) 188s ^^^^^^^^^^^^^ 188s File "/usr/lib/python3/dist-packages/xraydb/__init__.py", line 14, in 188s from .xraydb import XrayDB 188s File "/usr/lib/python3/dist-packages/xraydb/xraydb.py", line 12, in 188s import numpy as np 188s File "/usr/lib/python3/dist-packages/numpy/__init__.py", line 135, in 188s raise ImportError(msg) from e 188s ImportError: Error importing numpy: you should not try to import numpy from 188s its source directory; please exit the numpy source tree, and relaunch 188s your python interpreter from there. 188s autopkgtest [11:55:23]: test autodep8-python3: -----------------------] 189s autodep8-python3 FAIL non-zero exit status 1 189s autopkgtest [11:55:24]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 189s autopkgtest [11:55:24]: @@@@@@@@@@@@@@@@@@@@ summary 189s testsuite FAIL non-zero exit status 1 189s autodep8-python3 FAIL non-zero exit status 1 201s nova [W] Skipping flock for amd64 201s Creating nova instance adt-plucky-amd64-xraydb-20241114-115215-juju-7f2275-prod-proposed-migration-environment-20-1c4ff45d-5b80-4eac-a9f2-4314f83f5e78 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)... 201s nova [W] Skipping flock for amd64 201s Creating nova instance adt-plucky-amd64-xraydb-20241114-115215-juju-7f2275-prod-proposed-migration-environment-20-1c4ff45d-5b80-4eac-a9f2-4314f83f5e78 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)...