0s autopkgtest [00:30:44]: starting date and time: 2025-10-22 00:30:44+0000 0s autopkgtest [00:30:44]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [00:30:44]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.yrk95k7i/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:pytest,src:python-pluggy --apt-upgrade openmm --timeout-short=300 --timeout-copy=20000 --timeout-test=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=pytest/8.4.2-1 python-pluggy/1.6.0-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-big-ppc64el --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-ppc64el-4.secgroup --name adt-resolute-ppc64el-openmm-20251022-003044-juju-7f2275-prod-proposed-migration-environment-20-34622333-b463-45b6-9e3a-ba03e72dcb29 --image adt/ubuntu-resolute-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-ppc64el -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 3s Creating nova instance adt-resolute-ppc64el-openmm-20251022-003044-juju-7f2275-prod-proposed-migration-environment-20-34622333-b463-45b6-9e3a-ba03e72dcb29 from image adt/ubuntu-resolute-ppc64el-server-20251021.img (UUID c177abc7-cbc1-4b1f-967f-196ea722a402)... 55s autopkgtest [00:31:39]: testbed dpkg architecture: ppc64el 56s autopkgtest [00:31:40]: testbed apt version: 3.1.8ubuntu1 56s autopkgtest [00:31:40]: @@@@@@@@@@@@@@@@@@@@ test bed setup 56s autopkgtest [00:31:40]: testbed release detected to be: None 57s autopkgtest [00:31:41]: updating testbed package index (apt update) 57s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [83.3 kB] 58s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 58s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 58s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 58s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [15.0 kB] 58s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [5028 B] 58s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [57.6 kB] 58s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [599 kB] 58s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main ppc64el Packages [121 kB] 58s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/restricted ppc64el Packages [940 B] 58s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/universe ppc64el Packages [397 kB] 58s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse ppc64el Packages [4596 B] 58s Fetched 1283 kB in 1s (1066 kB/s) 59s Reading package lists... 60s Failed to check for VM: Permission denied 60s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 60s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 60s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 60s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 61s Reading package lists... 61s Reading package lists... 61s Building dependency tree... 61s Reading state information... 61s Calculating upgrade... 62s The following packages will be upgraded: 62s dracut-install 62s 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 62s Need to get 49.5 kB of archives. 62s After this operation, 1024 B of additional disk space will be used. 62s Get:1 http://ftpmaster.internal/ubuntu resolute/main ppc64el dracut-install ppc64el 108-8ubuntu1 [49.5 kB] 62s dpkg-preconfigure: unable to re-open stdin: No such file or directory 62s Fetched 49.5 kB in 0s (176 kB/s) 63s (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 ... 76480 files and directories currently installed.) 63s Preparing to unpack .../dracut-install_108-8ubuntu1_ppc64el.deb ... 63s Unpacking dracut-install (108-8ubuntu1) over (108-3ubuntu3) ... 63s Setting up dracut-install (108-8ubuntu1) ... 63s autopkgtest [00:31:47]: upgrading testbed (apt dist-upgrade and autopurge) 63s Reading package lists... 63s Building dependency tree... 63s Reading state information... 64s Calculating upgrade... 64s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 64s Reading package lists... 64s Building dependency tree... 64s Reading state information... 64s Solving dependencies... 64s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 67s autopkgtest [00:31:51]: testbed running kernel: Linux 6.17.0-5-generic #5-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 22 10:02:41 UTC 2025 67s autopkgtest [00:31:51]: @@@@@@@@@@@@@@@@@@@@ apt-source openmm 72s Get:1 http://ftpmaster.internal/ubuntu resolute/universe openmm 8.1.2+dfsg-11 (dsc) [2584 B] 72s Get:2 http://ftpmaster.internal/ubuntu resolute/universe openmm 8.1.2+dfsg-11 (tar) [11.5 MB] 72s Get:3 http://ftpmaster.internal/ubuntu resolute/universe openmm 8.1.2+dfsg-11 (diff) [23.3 kB] 72s gpgv: Signature made Fri Mar 21 00:11:20 2025 UTC 72s gpgv: using RSA key 23C9A93E585819E9126D0A36573EF1E4BD5A01FA 72s gpgv: issuer "dparsons@debian.org" 72s gpgv: Can't check signature: No public key 72s dpkg-source: warning: cannot verify inline signature for ./openmm_8.1.2+dfsg-11.dsc: no acceptable signature found 73s dpkg-source: warning: diff 'src/debian/patches/4602.patch' patches file src/wrappers/python/openmm/app/internal/amber_file_parser.py more than once 73s autopkgtest [00:31:57]: testing package openmm version 8.1.2+dfsg-11 73s autopkgtest [00:31:57]: build not needed 88s autopkgtest [00:32:12]: test test-python: preparing testbed 88s Reading package lists... 89s Building dependency tree... 89s Reading state information... 89s Solving dependencies... 89s The following NEW packages will be installed: 89s cpp cpp-15 cpp-15-powerpc64le-linux-gnu cpp-powerpc64le-linux-gnu gcc gcc-15 89s gcc-15-powerpc64le-linux-gnu gcc-powerpc64le-linux-gnu libasan8 libblas3 89s libcc1-0 libgcc-15-dev libgfortran5 libgomp1 libisl23 libitm1 liblapack3 89s liblsan0 libmpc3 libopenmm-dev libopenmm8.1 libquadmath0 libtsan2 libubsan1 89s python3-all python3-iniconfig python3-numpy python3-numpy-dev python3-openmm 89s python3-packaging python3-pluggy python3-pytest 89s 0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded. 89s Need to get 63.7 MB of archives. 89s After this operation, 285 MB of additional disk space will be used. 89s Get:1 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3-numpy-dev ppc64el 1:2.2.4+ds-1ubuntu1 [153 kB] 89s Get:2 http://ftpmaster.internal/ubuntu resolute/main ppc64el libblas3 ppc64el 3.12.1-6build1 [291 kB] 89s Get:3 http://ftpmaster.internal/ubuntu resolute/main ppc64el libgfortran5 ppc64el 15.2.0-5ubuntu1 [620 kB] 90s Get:4 http://ftpmaster.internal/ubuntu resolute/main ppc64el liblapack3 ppc64el 3.12.1-6build1 [2960 kB] 90s Get:5 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3-numpy ppc64el 1:2.2.4+ds-1ubuntu1 [4887 kB] 90s Get:6 http://ftpmaster.internal/ubuntu resolute/main ppc64el libisl23 ppc64el 0.27-1 [882 kB] 90s Get:7 http://ftpmaster.internal/ubuntu resolute/main ppc64el libmpc3 ppc64el 1.3.1-1build3 [62.6 kB] 90s Get:8 http://ftpmaster.internal/ubuntu resolute/main ppc64el cpp-15-powerpc64le-linux-gnu ppc64el 15.2.0-5ubuntu1 [11.4 MB] 91s Get:9 http://ftpmaster.internal/ubuntu resolute/main ppc64el cpp-15 ppc64el 15.2.0-5ubuntu1 [1036 B] 91s Get:10 http://ftpmaster.internal/ubuntu resolute/main ppc64el cpp-powerpc64le-linux-gnu ppc64el 4:15.2.0-4ubuntu1 [5746 B] 91s Get:11 http://ftpmaster.internal/ubuntu resolute/main ppc64el cpp ppc64el 4:15.2.0-4ubuntu1 [22.4 kB] 91s Get:12 http://ftpmaster.internal/ubuntu resolute/main ppc64el libcc1-0 ppc64el 15.2.0-5ubuntu1 [49.0 kB] 91s Get:13 http://ftpmaster.internal/ubuntu resolute/main ppc64el libgomp1 ppc64el 15.2.0-5ubuntu1 [169 kB] 91s Get:14 http://ftpmaster.internal/ubuntu resolute/main ppc64el libitm1 ppc64el 15.2.0-5ubuntu1 [32.3 kB] 91s Get:15 http://ftpmaster.internal/ubuntu resolute/main ppc64el libasan8 ppc64el 15.2.0-5ubuntu1 [3006 kB] 91s Get:16 http://ftpmaster.internal/ubuntu resolute/main ppc64el liblsan0 ppc64el 15.2.0-5ubuntu1 [1374 kB] 91s Get:17 http://ftpmaster.internal/ubuntu resolute/main ppc64el libtsan2 ppc64el 15.2.0-5ubuntu1 [2729 kB] 91s Get:18 http://ftpmaster.internal/ubuntu resolute/main ppc64el libubsan1 ppc64el 15.2.0-5ubuntu1 [1231 kB] 91s Get:19 http://ftpmaster.internal/ubuntu resolute/main ppc64el libquadmath0 ppc64el 15.2.0-5ubuntu1 [160 kB] 91s Get:20 http://ftpmaster.internal/ubuntu resolute/main ppc64el libgcc-15-dev ppc64el 15.2.0-5ubuntu1 [1670 kB] 91s Get:21 http://ftpmaster.internal/ubuntu resolute/main ppc64el gcc-15-powerpc64le-linux-gnu ppc64el 15.2.0-5ubuntu1 [22.4 MB] 92s Get:22 http://ftpmaster.internal/ubuntu resolute/main ppc64el gcc-15 ppc64el 15.2.0-5ubuntu1 [523 kB] 92s Get:23 http://ftpmaster.internal/ubuntu resolute/main ppc64el gcc-powerpc64le-linux-gnu ppc64el 4:15.2.0-4ubuntu1 [1220 B] 92s Get:24 http://ftpmaster.internal/ubuntu resolute/main ppc64el gcc ppc64el 4:15.2.0-4ubuntu1 [5032 B] 92s Get:25 http://ftpmaster.internal/ubuntu resolute/universe ppc64el libopenmm8.1 ppc64el 8.1.2+dfsg-11 [922 kB] 92s Get:26 http://ftpmaster.internal/ubuntu resolute/universe ppc64el libopenmm-dev ppc64el 8.1.2+dfsg-11 [353 kB] 92s Get:27 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3-all ppc64el 3.13.7-1 [884 B] 92s Get:28 http://ftpmaster.internal/ubuntu resolute/universe ppc64el python3-iniconfig all 1.1.1-2 [6024 B] 92s Get:29 http://ftpmaster.internal/ubuntu resolute/universe ppc64el python3-openmm ppc64el 8.1.2+dfsg-11 [7485 kB] 93s Get:30 http://ftpmaster.internal/ubuntu resolute/main ppc64el python3-packaging all 25.0-1 [52.8 kB] 93s Get:31 http://ftpmaster.internal/ubuntu resolute/universe ppc64el python3-pluggy all 1.6.0-1 [21.0 kB] 93s Get:32 http://ftpmaster.internal/ubuntu resolute-proposed/universe ppc64el python3-pytest all 8.4.2-1 [268 kB] 93s Fetched 63.7 MB in 4s (14.8 MB/s) 93s Selecting previously unselected package python3-numpy-dev:ppc64el. 93s (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 ... 76480 files and directories currently installed.) 93s Preparing to unpack .../00-python3-numpy-dev_1%3a2.2.4+ds-1ubuntu1_ppc64el.deb ... 93s Unpacking python3-numpy-dev:ppc64el (1:2.2.4+ds-1ubuntu1) ... 93s Selecting previously unselected package libblas3:ppc64el. 93s Preparing to unpack .../01-libblas3_3.12.1-6build1_ppc64el.deb ... 93s Unpacking libblas3:ppc64el (3.12.1-6build1) ... 93s Selecting previously unselected package libgfortran5:ppc64el. 93s Preparing to unpack .../02-libgfortran5_15.2.0-5ubuntu1_ppc64el.deb ... 93s Unpacking libgfortran5:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package liblapack3:ppc64el. 94s Preparing to unpack .../03-liblapack3_3.12.1-6build1_ppc64el.deb ... 94s Unpacking liblapack3:ppc64el (3.12.1-6build1) ... 94s Selecting previously unselected package python3-numpy. 94s Preparing to unpack .../04-python3-numpy_1%3a2.2.4+ds-1ubuntu1_ppc64el.deb ... 94s Unpacking python3-numpy (1:2.2.4+ds-1ubuntu1) ... 94s Selecting previously unselected package libisl23:ppc64el. 94s Preparing to unpack .../05-libisl23_0.27-1_ppc64el.deb ... 94s Unpacking libisl23:ppc64el (0.27-1) ... 94s Selecting previously unselected package libmpc3:ppc64el. 94s Preparing to unpack .../06-libmpc3_1.3.1-1build3_ppc64el.deb ... 94s Unpacking libmpc3:ppc64el (1.3.1-1build3) ... 94s Selecting previously unselected package cpp-15-powerpc64le-linux-gnu. 94s Preparing to unpack .../07-cpp-15-powerpc64le-linux-gnu_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking cpp-15-powerpc64le-linux-gnu (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package cpp-15. 94s Preparing to unpack .../08-cpp-15_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking cpp-15 (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package cpp-powerpc64le-linux-gnu. 94s Preparing to unpack .../09-cpp-powerpc64le-linux-gnu_4%3a15.2.0-4ubuntu1_ppc64el.deb ... 94s Unpacking cpp-powerpc64le-linux-gnu (4:15.2.0-4ubuntu1) ... 94s Selecting previously unselected package cpp. 94s Preparing to unpack .../10-cpp_4%3a15.2.0-4ubuntu1_ppc64el.deb ... 94s Unpacking cpp (4:15.2.0-4ubuntu1) ... 94s Selecting previously unselected package libcc1-0:ppc64el. 94s Preparing to unpack .../11-libcc1-0_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking libcc1-0:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package libgomp1:ppc64el. 94s Preparing to unpack .../12-libgomp1_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking libgomp1:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package libitm1:ppc64el. 94s Preparing to unpack .../13-libitm1_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking libitm1:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package libasan8:ppc64el. 94s Preparing to unpack .../14-libasan8_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking libasan8:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package liblsan0:ppc64el. 94s Preparing to unpack .../15-liblsan0_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking liblsan0:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package libtsan2:ppc64el. 94s Preparing to unpack .../16-libtsan2_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking libtsan2:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package libubsan1:ppc64el. 94s Preparing to unpack .../17-libubsan1_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking libubsan1:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package libquadmath0:ppc64el. 94s Preparing to unpack .../18-libquadmath0_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking libquadmath0:ppc64el (15.2.0-5ubuntu1) ... 94s Selecting previously unselected package libgcc-15-dev:ppc64el. 94s Preparing to unpack .../19-libgcc-15-dev_15.2.0-5ubuntu1_ppc64el.deb ... 94s Unpacking libgcc-15-dev:ppc64el (15.2.0-5ubuntu1) ... 95s Selecting previously unselected package gcc-15-powerpc64le-linux-gnu. 95s Preparing to unpack .../20-gcc-15-powerpc64le-linux-gnu_15.2.0-5ubuntu1_ppc64el.deb ... 95s Unpacking gcc-15-powerpc64le-linux-gnu (15.2.0-5ubuntu1) ... 95s Selecting previously unselected package gcc-15. 95s Preparing to unpack .../21-gcc-15_15.2.0-5ubuntu1_ppc64el.deb ... 95s Unpacking gcc-15 (15.2.0-5ubuntu1) ... 95s Selecting previously unselected package gcc-powerpc64le-linux-gnu. 95s Preparing to unpack .../22-gcc-powerpc64le-linux-gnu_4%3a15.2.0-4ubuntu1_ppc64el.deb ... 95s Unpacking gcc-powerpc64le-linux-gnu (4:15.2.0-4ubuntu1) ... 95s Selecting previously unselected package gcc. 95s Preparing to unpack .../23-gcc_4%3a15.2.0-4ubuntu1_ppc64el.deb ... 95s Unpacking gcc (4:15.2.0-4ubuntu1) ... 95s Selecting previously unselected package libopenmm8.1. 95s Preparing to unpack .../24-libopenmm8.1_8.1.2+dfsg-11_ppc64el.deb ... 95s Unpacking libopenmm8.1 (8.1.2+dfsg-11) ... 95s Selecting previously unselected package libopenmm-dev. 95s Preparing to unpack .../25-libopenmm-dev_8.1.2+dfsg-11_ppc64el.deb ... 95s Unpacking libopenmm-dev (8.1.2+dfsg-11) ... 95s Selecting previously unselected package python3-all. 95s Preparing to unpack .../26-python3-all_3.13.7-1_ppc64el.deb ... 95s Unpacking python3-all (3.13.7-1) ... 95s Selecting previously unselected package python3-iniconfig. 95s Preparing to unpack .../27-python3-iniconfig_1.1.1-2_all.deb ... 95s Unpacking python3-iniconfig (1.1.1-2) ... 95s Selecting previously unselected package python3-openmm. 95s Preparing to unpack .../28-python3-openmm_8.1.2+dfsg-11_ppc64el.deb ... 95s Unpacking python3-openmm (8.1.2+dfsg-11) ... 95s Selecting previously unselected package python3-packaging. 95s Preparing to unpack .../29-python3-packaging_25.0-1_all.deb ... 95s Unpacking python3-packaging (25.0-1) ... 95s Selecting previously unselected package python3-pluggy. 95s Preparing to unpack .../30-python3-pluggy_1.6.0-1_all.deb ... 95s Unpacking python3-pluggy (1.6.0-1) ... 95s Selecting previously unselected package python3-pytest. 96s Preparing to unpack .../31-python3-pytest_8.4.2-1_all.deb ... 96s Unpacking python3-pytest (8.4.2-1) ... 96s Setting up python3-iniconfig (1.1.1-2) ... 96s Setting up python3-all (3.13.7-1) ... 96s Setting up libgomp1:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up libblas3:ppc64el (3.12.1-6build1) ... 96s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 96s Setting up python3-packaging (25.0-1) ... 96s Setting up libquadmath0:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up libmpc3:ppc64el (1.3.1-1build3) ... 96s Setting up python3-numpy-dev:ppc64el (1:2.2.4+ds-1ubuntu1) ... 96s Setting up libgfortran5:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up python3-pluggy (1.6.0-1) ... 96s Setting up libubsan1:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up libasan8:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up libtsan2:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up libisl23:ppc64el (0.27-1) ... 96s Setting up libopenmm8.1 (8.1.2+dfsg-11) ... 96s Setting up libcc1-0:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up liblsan0:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up libitm1:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up liblapack3:ppc64el (3.12.1-6build1) ... 96s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 96s Setting up libgcc-15-dev:ppc64el (15.2.0-5ubuntu1) ... 96s Setting up python3-pytest (8.4.2-1) ... 96s Setting up libopenmm-dev (8.1.2+dfsg-11) ... 96s Setting up cpp-15-powerpc64le-linux-gnu (15.2.0-5ubuntu1) ... 96s Setting up python3-numpy (1:2.2.4+ds-1ubuntu1) ... 98s Setting up python3-openmm (8.1.2+dfsg-11) ... 99s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:426: SyntaxWarning: invalid escape sequence '\S' 99s r"(?:_(.+?)[.](\S+))" "|" # _category.attribute 99s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:444: SyntaxWarning: invalid escape sequence '\S' 99s "(?:_(.+?)[.](\S+))" "|" # _category.attribute 99s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:446: SyntaxWarning: invalid escape sequence '\s' 99s "(?:['\"](.*?)(?:['\"]\s|['\"]$))" "|" # quoted strings 99s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:448: SyntaxWarning: invalid escape sequence '\s' 99s "(?:\s*#.*$)" "|" # comments (dumped) 99s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:450: SyntaxWarning: invalid escape sequence '\S' 99s "(\S+)" # unquoted words 99s Setting up cpp-15 (15.2.0-5ubuntu1) ... 99s Setting up cpp-powerpc64le-linux-gnu (4:15.2.0-4ubuntu1) ... 99s Setting up gcc-15-powerpc64le-linux-gnu (15.2.0-5ubuntu1) ... 99s Setting up gcc-15 (15.2.0-5ubuntu1) ... 99s Setting up gcc-powerpc64le-linux-gnu (4:15.2.0-4ubuntu1) ... 99s Setting up cpp (4:15.2.0-4ubuntu1) ... 99s Setting up gcc (4:15.2.0-4ubuntu1) ... 99s Processing triggers for man-db (2.13.1-1) ... 100s Processing triggers for libc-bin (2.42-0ubuntu3) ... 101s autopkgtest [00:32:25]: test test-python: [----------------------- 103s ============================= test session starts ============================== 103s platform linux -- Python 3.13.9, pytest-8.4.2, pluggy-1.6.0 103s rootdir: /tmp/autopkgtest.yXuiJy/build.Gfh/src/wrappers/python/tests 103s configfile: pytest.ini 103s plugins: typeguard-4.4.2 103s collected 327 items 103s 103s TestAPIUnits.py .................................. [ 10%] 103s TestATMForce.py . [ 10%] 103s TestAmberInpcrdFile.py .....s [ 12%] 117s TestAmberPrmtopFile.py ....................... [ 19%] 117s TestBytes.py . [ 19%] 151s TestCharmmFiles.py ....s..........s......... [ 27%] 151s TestCheckpointReporter.py . [ 27%] 151s TestDcdFile.py ... [ 28%] 154s TestDesmondDMSFile.py ....... [ 30%] 154s TestElement.py .... [ 32%] 181s TestForceField.py s........................................ss..s.. [ 46%] 181s TestForceGroups.py ... [ 47%] 181s TestGenerators.py .. [ 48%] 181s TestGromacsGroFile.py . [ 48%] 181s TestGromacsTopFile.py sssssssssssss [ 52%] 871s TestIntegrators.py .s..... [ 54%] 873s TestMetadynamics.py . [ 55%] 922s TestModeller.py .............s............. [ 63%] 922s TestNumpyCompatibility.py ......... [ 66%] 923s TestPatches.py ..... [ 67%] 931s TestPdbFile.py ...... [ 69%] 938s TestPdbReporter.py ........ [ 71%] 940s TestPdbxFile.py ....... [ 74%] 941s TestPickle.py ... [ 74%] 946s TestSimulatedTempering.py .. [ 75%] 990s TestSimulation.py ....... [ 77%] 990s TestStateDataReporter.py . [ 77%] 990s TestSwigWrappers.py . [ 78%] 990s TestTopology.py ... [ 79%] 990s TestUnitCell.py .. [ 79%] 990s TestUnits.py ...................................................... [ 96%] 990s TestVec3.py ....... [ 98%] 990s TestXtcFile.py ..... [100%] 990s 990s =============================== warnings summary =============================== 990s :488 990s :488: DeprecationWarning: builtin type SwigPyPacked has no __module__ attribute 990s 990s :488 990s :488: DeprecationWarning: builtin type SwigPyObject has no __module__ attribute 990s 990s :488 990s :488: DeprecationWarning: builtin type swigvarlink has no __module__ attribute 990s 990s TestAmberPrmtopFile.py::TestAmberPrmtopFile::testNucleicGBParametes 990s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolvent 990s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventForces 990s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventParameters 990s /usr/lib/python3/dist-packages/openmm/app/internal/amber_file_parser.py:1168: UserWarning: Non-optimal GB parameters detected for GB model GBn 990s warnings.warn( 990s 990s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolvent 990s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventForces 990s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventParameters 990s /usr/lib/python3/dist-packages/openmm/app/internal/amber_file_parser.py:1168: UserWarning: Non-optimal GB parameters detected for GB model HCT 990s warnings.warn( 990s 990s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 990s =========== 305 passed, 22 skipped, 10 warnings in 888.24s (0:14:48) =========== 991s autopkgtest [00:47:15]: test test-python: -----------------------] 991s test-python PASS 991s autopkgtest [00:47:15]: test test-python: - - - - - - - - - - results - - - - - - - - - - 991s autopkgtest [00:47:15]: @@@@@@@@@@@@@@@@@@@@ summary 991s test-python PASS