0s autopkgtest [21:06:08]: starting date and time: 2026-02-06 21:06:08+0000 0s autopkgtest [21:06:08]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [21:06:08]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.5_l6cwpc/out --timeout-copy=6000 --needs-internet=try --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade openmm --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.42-2ubuntu5 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-amd64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@sto01-8.secgroup --name adt-resolute-amd64-openmm-20260206-210607-juju-7f2275-prod-proposed-migration-environment-15-6c6df334-5aa3-4924-b57a-f8403ec67dd4 --image adt/ubuntu-resolute-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-autopkgtest-workers-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 3s Creating nova instance adt-resolute-amd64-openmm-20260206-210607-juju-7f2275-prod-proposed-migration-environment-15-6c6df334-5aa3-4924-b57a-f8403ec67dd4 from image adt/ubuntu-resolute-amd64-server-20260204.img (UUID fedf54b4-458b-493e-8072-6425c19717b4)... 72s autopkgtest [21:07:20]: testbed dpkg architecture: amd64 72s autopkgtest [21:07:20]: testbed apt version: 3.1.14 72s autopkgtest [21:07:20]: @@@@@@@@@@@@@@@@@@@@ test bed setup 72s autopkgtest [21:07:20]: testbed release detected to be: None 73s autopkgtest [21:07:21]: updating testbed package index (apt update) 73s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB] 73s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 73s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 73s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 73s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [32.7 kB] 73s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1547 kB] 74s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [201 kB] 74s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [10.7 kB] 74s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [266 kB] 74s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [189 kB] 74s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 c-n-f Metadata [6500 B] 74s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted i386 Packages [3692 B] 74s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 Packages [80.4 kB] 74s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 c-n-f Metadata [336 B] 74s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [550 kB] 74s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [1433 kB] 74s Get:17 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 c-n-f Metadata [36.8 kB] 74s Get:18 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [28.2 kB] 74s Get:19 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [4892 B] 74s Get:20 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 c-n-f Metadata [1104 B] 75s Fetched 4516 kB in 1s (4626 kB/s) 75s Reading package lists... 76s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 76s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 76s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 76s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 76s Reading package lists... 76s Reading package lists... 77s Building dependency tree... 77s Reading state information... 77s Calculating upgrade... 77s The following packages will be upgraded: 77s amd64-microcode apt busybox-initramfs busybox-static dmsetup findutils less 77s libapt-pkg7.0 libattr1 libc-bin libc-gconv-modules-extra libc6 77s libdevmapper1.02.1 libdrm-amdgpu1 libdrm-common libdrm2 libgpm2 libkeyutils1 77s libmaxminddb0 libnpth0t64 libsensors-config libsensors5 locales mawk patch 77s pollinate python3-linkify-it python3-markdown-it python3-referencing sed tar 77s 31 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 77s Need to get 14.4 MB of archives. 77s After this operation, 270 kB disk space will be freed. 77s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 findutils amd64 4.10.0-3build2 [307 kB] 77s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 sed amd64 4.9-2build3 [195 kB] 77s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 tar amd64 1.35+dfsg-3.1build2 [257 kB] 77s Get:4 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 libc-gconv-modules-extra amd64 2.42-2ubuntu5 [1394 kB] 77s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 libc6 amd64 2.42-2ubuntu5 [2041 kB] 77s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 libc-bin amd64 2.42-2ubuntu5 [702 kB] 77s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 libattr1 amd64 1:2.5.2-3build2 [11.4 kB] 77s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 mawk amd64 1.3.4.20260129-1 [133 kB] 77s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 libapt-pkg7.0 amd64 3.1.15 [1151 kB] 77s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 apt amd64 3.1.15 [1479 kB] 77s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 libdevmapper1.02.1 amd64 2:1.02.205-2ubuntu3 [142 kB] 77s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 dmsetup amd64 2:1.02.205-2ubuntu3 [79.4 kB] 77s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 less amd64 668-1build1 [172 kB] 77s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 libkeyutils1 amd64 1.6.3-6ubuntu3 [10.6 kB] 78s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 locales all 2.42-2ubuntu5 [4255 kB] 78s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-linkify-it all 2.0.3-1ubuntu3 [19.4 kB] 78s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-markdown-it all 3.0.0-3build1 [54.4 kB] 78s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-static amd64 1:1.37.0-7ubuntu1 [1034 kB] 78s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-common all 2.4.131-1 [9774 B] 78s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm2 amd64 2.4.131-1 [42.3 kB] 78s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libgpm2 amd64 1.20.7-12build1 [14.4 kB] 78s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 libmaxminddb0 amd64 1.12.2-1build2 [18.9 kB] 78s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors-config all 1:3.6.2-2build1 [6862 B] 78s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors5 amd64 1:3.6.2-2build1 [28.9 kB] 78s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-initramfs amd64 1:1.37.0-7ubuntu1 [191 kB] 78s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-amdgpu1 amd64 2.4.131-1 [23.2 kB] 78s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 libnpth0t64 amd64 1.8-3build1 [9302 B] 78s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 patch amd64 2.8-2build1 [95.7 kB] 78s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 pollinate all 4.33-4ubuntu5 [14.0 kB] 78s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-referencing all 0.36.2-1ubuntu2 [22.2 kB] 78s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 amd64-microcode amd64 3.20251202.1ubuntu1 [459 kB] 78s dpkg-preconfigure: unable to re-open stdin: No such file or directory 78s Fetched 14.4 MB in 1s (14.8 MB/s) 78s (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 ... 83957 files and directories currently installed.) 78s Preparing to unpack .../findutils_4.10.0-3build2_amd64.deb ... 78s Unpacking findutils (4.10.0-3build2) over (4.10.0-3build1) ... 78s Setting up findutils (4.10.0-3build2) ... 78s (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 ... 83957 files and directories currently installed.) 78s Preparing to unpack .../sed_4.9-2build3_amd64.deb ... 78s Unpacking sed (4.9-2build3) over (4.9-2build2) ... 78s Setting up sed (4.9-2build3) ... 78s (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 ... 83957 files and directories currently installed.) 78s Preparing to unpack .../tar_1.35+dfsg-3.1build2_amd64.deb ... 78s Unpacking tar (1.35+dfsg-3.1build2) over (1.35+dfsg-3.1build1) ... 78s Setting up tar (1.35+dfsg-3.1build2) ... 78s (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 ... 83957 files and directories currently installed.) 78s Preparing to unpack .../libc-gconv-modules-extra_2.42-2ubuntu5_amd64.deb ... 78s Unpacking libc-gconv-modules-extra:amd64 (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 78s Setting up libc-gconv-modules-extra:amd64 (2.42-2ubuntu5) ... 79s (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 ... 83957 files and directories currently installed.) 79s Preparing to unpack .../libc6_2.42-2ubuntu5_amd64.deb ... 79s Unpacking libc6:amd64 (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 79s Setting up libc6:amd64 (2.42-2ubuntu5) ... 79s (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 ... 83957 files and directories currently installed.) 79s Preparing to unpack .../libc-bin_2.42-2ubuntu5_amd64.deb ... 79s Unpacking libc-bin (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 79s Setting up libc-bin (2.42-2ubuntu5) ... 79s (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 ... 83957 files and directories currently installed.) 79s Preparing to unpack .../libattr1_1%3a2.5.2-3build2_amd64.deb ... 79s Unpacking libattr1:amd64 (1:2.5.2-3build2) over (1:2.5.2-3build1) ... 79s Setting up libattr1:amd64 (1:2.5.2-3build2) ... 79s (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 ... 83957 files and directories currently installed.) 79s Preparing to unpack .../00-mawk_1.3.4.20260129-1_amd64.deb ... 79s Unpacking mawk (1.3.4.20260129-1) over (1.3.4.20250131-2) ... 79s Preparing to unpack .../01-libapt-pkg7.0_3.1.15_amd64.deb ... 79s Unpacking libapt-pkg7.0:amd64 (3.1.15) over (3.1.14) ... 79s Preparing to unpack .../02-apt_3.1.15_amd64.deb ... 79s Unpacking apt (3.1.15) over (3.1.14) ... 79s Preparing to unpack .../03-libdevmapper1.02.1_2%3a1.02.205-2ubuntu3_amd64.deb ... 79s Unpacking libdevmapper1.02.1:amd64 (2:1.02.205-2ubuntu3) over (2:1.02.205-2ubuntu2) ... 79s Preparing to unpack .../04-dmsetup_2%3a1.02.205-2ubuntu3_amd64.deb ... 79s Unpacking dmsetup (2:1.02.205-2ubuntu3) over (2:1.02.205-2ubuntu2) ... 79s Preparing to unpack .../05-less_668-1build1_amd64.deb ... 79s Unpacking less (668-1build1) over (668-1) ... 79s Preparing to unpack .../06-libkeyutils1_1.6.3-6ubuntu3_amd64.deb ... 79s Unpacking libkeyutils1:amd64 (1.6.3-6ubuntu3) over (1.6.3-6ubuntu2) ... 79s Preparing to unpack .../07-locales_2.42-2ubuntu5_all.deb ... 79s Unpacking locales (2.42-2ubuntu5) over (2.42-2ubuntu4) ... 79s Preparing to unpack .../08-python3-linkify-it_2.0.3-1ubuntu3_all.deb ... 80s Unpacking python3-linkify-it (2.0.3-1ubuntu3) over (2.0.3-1ubuntu2) ... 80s Preparing to unpack .../09-python3-markdown-it_3.0.0-3build1_all.deb ... 80s Unpacking python3-markdown-it (3.0.0-3build1) over (3.0.0-3) ... 80s Preparing to unpack .../10-busybox-static_1%3a1.37.0-7ubuntu1_amd64.deb ... 80s Unpacking busybox-static (1:1.37.0-7ubuntu1) over (1:1.37.0-4ubuntu1) ... 80s Preparing to unpack .../11-libdrm-common_2.4.131-1_all.deb ... 80s Unpacking libdrm-common (2.4.131-1) over (2.4.129-1) ... 80s Preparing to unpack .../12-libdrm2_2.4.131-1_amd64.deb ... 80s Unpacking libdrm2:amd64 (2.4.131-1) over (2.4.129-1) ... 80s Preparing to unpack .../13-libgpm2_1.20.7-12build1_amd64.deb ... 80s Unpacking libgpm2:amd64 (1.20.7-12build1) over (1.20.7-12) ... 80s Preparing to unpack .../14-libmaxminddb0_1.12.2-1build2_amd64.deb ... 80s Unpacking libmaxminddb0:amd64 (1.12.2-1build2) over (1.12.2-1build1) ... 80s Preparing to unpack .../15-libsensors-config_1%3a3.6.2-2build1_all.deb ... 80s Unpacking libsensors-config (1:3.6.2-2build1) over (1:3.6.2-2) ... 80s Preparing to unpack .../16-libsensors5_1%3a3.6.2-2build1_amd64.deb ... 80s Unpacking libsensors5:amd64 (1:3.6.2-2build1) over (1:3.6.2-2) ... 80s Preparing to unpack .../17-busybox-initramfs_1%3a1.37.0-7ubuntu1_amd64.deb ... 80s Unpacking busybox-initramfs (1:1.37.0-7ubuntu1) over (1:1.37.0-4ubuntu1) ... 80s Preparing to unpack .../18-libdrm-amdgpu1_2.4.131-1_amd64.deb ... 80s Unpacking libdrm-amdgpu1:amd64 (2.4.131-1) over (2.4.129-1) ... 80s Preparing to unpack .../19-libnpth0t64_1.8-3build1_amd64.deb ... 80s Unpacking libnpth0t64:amd64 (1.8-3build1) over (1.8-3) ... 80s Preparing to unpack .../20-patch_2.8-2build1_amd64.deb ... 80s Unpacking patch (2.8-2build1) over (2.8-2) ... 80s Preparing to unpack .../21-pollinate_4.33-4ubuntu5_all.deb ... 80s Unpacking pollinate (4.33-4ubuntu5) over (4.33-4ubuntu4) ... 80s Preparing to unpack .../22-python3-referencing_0.36.2-1ubuntu2_all.deb ... 80s Unpacking python3-referencing (0.36.2-1ubuntu2) over (0.36.2-1ubuntu1) ... 80s Preparing to unpack .../23-amd64-microcode_3.20251202.1ubuntu1_amd64.deb ... 80s Unpacking amd64-microcode (3.20251202.1ubuntu1) over (3.20250708.1ubuntu1) ... 80s Setting up libnpth0t64:amd64 (1.8-3build1) ... 80s Setting up libkeyutils1:amd64 (1.6.3-6ubuntu3) ... 80s Setting up libgpm2:amd64 (1.20.7-12build1) ... 80s Setting up libmaxminddb0:amd64 (1.12.2-1build2) ... 80s Setting up libsensors-config (1:3.6.2-2build1) ... 80s Setting up less (668-1build1) ... 80s Setting up amd64-microcode (3.20251202.1ubuntu1) ... 80s amd64-microcode: microcode will be updated at next boot 80s Setting up locales (2.42-2ubuntu5) ... 81s Generating locales (this might take a while)... 81s en_US.UTF-8... done 81s Generation complete. 81s Setting up pollinate (4.33-4ubuntu5) ... 92s Setting up busybox-static (1:1.37.0-7ubuntu1) ... 92s Setting up patch (2.8-2build1) ... 92s Setting up libsensors5:amd64 (1:3.6.2-2build1) ... 92s Setting up busybox-initramfs (1:1.37.0-7ubuntu1) ... 92s Setting up libdevmapper1.02.1:amd64 (2:1.02.205-2ubuntu3) ... 92s Setting up dmsetup (2:1.02.205-2ubuntu3) ... 92s Setting up python3-linkify-it (2.0.3-1ubuntu3) ... 92s Setting up mawk (1.3.4.20260129-1) ... 92s Setting up libapt-pkg7.0:amd64 (3.1.15) ... 92s Setting up libdrm-common (2.4.131-1) ... 92s Setting up python3-referencing (0.36.2-1ubuntu2) ... 92s Setting up apt (3.1.15) ... 92s Setting up python3-markdown-it (3.0.0-3build1) ... 92s Setting up libdrm2:amd64 (2.4.131-1) ... 92s Setting up libdrm-amdgpu1:amd64 (2.4.131-1) ... 92s Processing triggers for libc-bin (2.42-2ubuntu5) ... 93s Processing triggers for systemd (259-1ubuntu3) ... 93s Processing triggers for man-db (2.13.1-1) ... 94s Processing triggers for install-info (7.2-5) ... 94s Processing triggers for initramfs-tools (0.150ubuntu7) ... 94s update-initramfs: Generating /boot/initrd.img-6.18.0-9-generic 99s autopkgtest [21:07:47]: upgrading testbed (apt dist-upgrade and autopurge) 100s Reading package lists... 100s Building dependency tree... 100s Reading state information... 100s Calculating upgrade... 100s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 100s Reading package lists... 100s Building dependency tree... 100s Reading state information... 100s Solving dependencies... 100s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 100s autopkgtest [21:07:48]: rebooting testbed after setup commands that affected boot 134s autopkgtest [21:08:22]: testbed running kernel: Linux 6.18.0-9-generic #9-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 12 16:49:02 UTC 2026 136s autopkgtest [21:08:24]: @@@@@@@@@@@@@@@@@@@@ apt-source openmm 138s Get:1 http://ftpmaster.internal/ubuntu resolute/universe openmm 8.1.2+dfsg-12 (dsc) [2579 B] 138s Get:2 http://ftpmaster.internal/ubuntu resolute/universe openmm 8.1.2+dfsg-12 (tar) [11.5 MB] 138s Get:3 http://ftpmaster.internal/ubuntu resolute/universe openmm 8.1.2+dfsg-12 (diff) [23.7 kB] 138s gpgv: Signature made Mon Sep 29 08:59:53 2025 UTC 138s gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287 138s gpgv: issuer "merkys@debian.org" 138s gpgv: Can't check signature: No public key 138s dpkg-source: warning: cannot verify inline signature for ./openmm_8.1.2+dfsg-12.dsc: no acceptable signature found 139s dpkg-source: warning: diff 'src/debian/patches/4602.patch' patches file src/wrappers/python/openmm/app/internal/amber_file_parser.py more than once 139s autopkgtest [21:08:27]: testing package openmm version 8.1.2+dfsg-12 139s autopkgtest [21:08:27]: build not needed 145s autopkgtest [21:08:33]: test test-python: preparing testbed 146s Reading package lists... 146s Building dependency tree... 146s Reading state information... 146s Solving dependencies... 146s The following NEW packages will be installed: 146s cpp cpp-15 cpp-15-x86-64-linux-gnu cpp-x86-64-linux-gnu gcc gcc-15 146s gcc-15-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libblas3 libcc1-0 146s libgcc-15-dev libgfortran5 libgomp1 libhwasan0 libisl23 libitm1 liblapack3 146s liblsan0 libmpc3 libopenmm-dev libopenmm8.1 libpython3.14-minimal 146s libpython3.14-stdlib libquadmath0 libtsan2 libubsan1 python3-all 146s python3-iniconfig python3-numpy python3-numpy-dev python3-openmm 146s python3-pluggy python3-pytest python3.14 python3.14-minimal 146s 0 upgraded, 36 newly installed, 0 to remove and 0 not upgraded. 146s Need to get 81.2 MB of archives. 146s After this operation, 345 MB of additional disk space will be used. 146s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-numpy-dev amd64 1:2.3.5+ds-3 [147 kB] 146s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-7ubuntu1 [260 kB] 146s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 15.2.0-12ubuntu1 [939 kB] 146s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-7ubuntu1 [2739 kB] 147s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-numpy amd64 1:2.3.5+ds-3 [8129 kB] 147s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-minimal amd64 3.14.2-1 [920 kB] 147s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 python3.14-minimal amd64 3.14.2-1 [2563 kB] 147s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 libisl23 amd64 0.27-1build1 [691 kB] 147s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 libmpc3 amd64 1.3.1-2 [54.8 kB] 147s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [12.9 MB] 148s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15 amd64 15.2.0-12ubuntu1 [1034 B] 148s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [5746 B] 148s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp amd64 4:15.2.0-4ubuntu1 [22.4 kB] 148s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 libcc1-0 amd64 15.2.0-12ubuntu1 [47.4 kB] 148s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 15.2.0-12ubuntu1 [151 kB] 148s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 libitm1 amd64 15.2.0-12ubuntu1 [29.5 kB] 148s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 libasan8 amd64 15.2.0-12ubuntu1 [3070 kB] 148s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsan0 amd64 15.2.0-12ubuntu1 [1360 kB] 148s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 libtsan2 amd64 15.2.0-12ubuntu1 [2757 kB] 148s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libubsan1 amd64 15.2.0-12ubuntu1 [1210 kB] 148s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libhwasan0 amd64 15.2.0-12ubuntu1 [1685 kB] 148s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 libquadmath0 amd64 15.2.0-12ubuntu1 [153 kB] 148s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 libgcc-15-dev amd64 15.2.0-12ubuntu1 [2866 kB] 148s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [25.4 MB] 149s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15 amd64 15.2.0-12ubuntu1 [530 kB] 149s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1208 B] 149s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc amd64 4:15.2.0-4ubuntu1 [5024 B] 149s Get:28 http://ftpmaster.internal/ubuntu resolute/universe amd64 libopenmm8.1 amd64 8.1.2+dfsg-12 [1045 kB] 149s Get:29 http://ftpmaster.internal/ubuntu resolute/universe amd64 libopenmm-dev amd64 8.1.2+dfsg-12 [342 kB] 149s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-stdlib amd64 3.14.2-1 [2398 kB] 149s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 python3.14 amd64 3.14.2-1 [816 kB] 149s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-all amd64 3.13.9-3 [890 B] 149s Get:33 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-iniconfig all 2.1.0-2 [6962 B] 149s Get:34 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-openmm amd64 8.1.2+dfsg-12 [7685 kB] 150s Get:35 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pluggy all 1.6.0-2 [21.1 kB] 150s Get:36 http://ftpmaster.internal/ubuntu resolute/universe amd64 python3-pytest all 9.0.2-2 [277 kB] 150s Fetched 81.2 MB in 4s (21.6 MB/s) 150s Selecting previously unselected package python3-numpy-dev:amd64. 150s (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 ... 83962 files and directories currently installed.) 150s Preparing to unpack .../00-python3-numpy-dev_1%3a2.3.5+ds-3_amd64.deb ... 150s Unpacking python3-numpy-dev:amd64 (1:2.3.5+ds-3) ... 150s Selecting previously unselected package libblas3:amd64. 150s Preparing to unpack .../01-libblas3_3.12.1-7ubuntu1_amd64.deb ... 150s Unpacking libblas3:amd64 (3.12.1-7ubuntu1) ... 150s Selecting previously unselected package libgfortran5:amd64. 150s Preparing to unpack .../02-libgfortran5_15.2.0-12ubuntu1_amd64.deb ... 150s Unpacking libgfortran5:amd64 (15.2.0-12ubuntu1) ... 150s Selecting previously unselected package liblapack3:amd64. 150s Preparing to unpack .../03-liblapack3_3.12.1-7ubuntu1_amd64.deb ... 150s Unpacking liblapack3:amd64 (3.12.1-7ubuntu1) ... 150s Selecting previously unselected package python3-numpy. 150s Preparing to unpack .../04-python3-numpy_1%3a2.3.5+ds-3_amd64.deb ... 150s Unpacking python3-numpy (1:2.3.5+ds-3) ... 150s Selecting previously unselected package libpython3.14-minimal:amd64. 150s Preparing to unpack .../05-libpython3.14-minimal_3.14.2-1_amd64.deb ... 150s Unpacking libpython3.14-minimal:amd64 (3.14.2-1) ... 150s Selecting previously unselected package python3.14-minimal. 150s Preparing to unpack .../06-python3.14-minimal_3.14.2-1_amd64.deb ... 150s Unpacking python3.14-minimal (3.14.2-1) ... 150s Selecting previously unselected package libisl23:amd64. 150s Preparing to unpack .../07-libisl23_0.27-1build1_amd64.deb ... 150s Unpacking libisl23:amd64 (0.27-1build1) ... 150s Selecting previously unselected package libmpc3:amd64. 150s Preparing to unpack .../08-libmpc3_1.3.1-2_amd64.deb ... 150s Unpacking libmpc3:amd64 (1.3.1-2) ... 150s Selecting previously unselected package cpp-15-x86-64-linux-gnu. 150s Preparing to unpack .../09-cpp-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ... 150s Unpacking cpp-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ... 150s Selecting previously unselected package cpp-15. 150s Preparing to unpack .../10-cpp-15_15.2.0-12ubuntu1_amd64.deb ... 150s Unpacking cpp-15 (15.2.0-12ubuntu1) ... 150s Selecting previously unselected package cpp-x86-64-linux-gnu. 150s Preparing to unpack .../11-cpp-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ... 150s Unpacking cpp-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ... 150s Selecting previously unselected package cpp. 150s Preparing to unpack .../12-cpp_4%3a15.2.0-4ubuntu1_amd64.deb ... 150s Unpacking cpp (4:15.2.0-4ubuntu1) ... 150s Selecting previously unselected package libcc1-0:amd64. 150s Preparing to unpack .../13-libcc1-0_15.2.0-12ubuntu1_amd64.deb ... 150s Unpacking libcc1-0:amd64 (15.2.0-12ubuntu1) ... 150s Selecting previously unselected package libgomp1:amd64. 150s Preparing to unpack .../14-libgomp1_15.2.0-12ubuntu1_amd64.deb ... 150s Unpacking libgomp1:amd64 (15.2.0-12ubuntu1) ... 150s Selecting previously unselected package libitm1:amd64. 150s Preparing to unpack .../15-libitm1_15.2.0-12ubuntu1_amd64.deb ... 150s Unpacking libitm1:amd64 (15.2.0-12ubuntu1) ... 150s Selecting previously unselected package libasan8:amd64. 150s Preparing to unpack .../16-libasan8_15.2.0-12ubuntu1_amd64.deb ... 150s Unpacking libasan8:amd64 (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package liblsan0:amd64. 151s Preparing to unpack .../17-liblsan0_15.2.0-12ubuntu1_amd64.deb ... 151s Unpacking liblsan0:amd64 (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package libtsan2:amd64. 151s Preparing to unpack .../18-libtsan2_15.2.0-12ubuntu1_amd64.deb ... 151s Unpacking libtsan2:amd64 (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package libubsan1:amd64. 151s Preparing to unpack .../19-libubsan1_15.2.0-12ubuntu1_amd64.deb ... 151s Unpacking libubsan1:amd64 (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package libhwasan0:amd64. 151s Preparing to unpack .../20-libhwasan0_15.2.0-12ubuntu1_amd64.deb ... 151s Unpacking libhwasan0:amd64 (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package libquadmath0:amd64. 151s Preparing to unpack .../21-libquadmath0_15.2.0-12ubuntu1_amd64.deb ... 151s Unpacking libquadmath0:amd64 (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package libgcc-15-dev:amd64. 151s Preparing to unpack .../22-libgcc-15-dev_15.2.0-12ubuntu1_amd64.deb ... 151s Unpacking libgcc-15-dev:amd64 (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package gcc-15-x86-64-linux-gnu. 151s Preparing to unpack .../23-gcc-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ... 151s Unpacking gcc-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package gcc-15. 151s Preparing to unpack .../24-gcc-15_15.2.0-12ubuntu1_amd64.deb ... 151s Unpacking gcc-15 (15.2.0-12ubuntu1) ... 151s Selecting previously unselected package gcc-x86-64-linux-gnu. 151s Preparing to unpack .../25-gcc-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ... 151s Unpacking gcc-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ... 151s Selecting previously unselected package gcc. 151s Preparing to unpack .../26-gcc_4%3a15.2.0-4ubuntu1_amd64.deb ... 151s Unpacking gcc (4:15.2.0-4ubuntu1) ... 151s Selecting previously unselected package libopenmm8.1. 151s Preparing to unpack .../27-libopenmm8.1_8.1.2+dfsg-12_amd64.deb ... 151s Unpacking libopenmm8.1 (8.1.2+dfsg-12) ... 151s Selecting previously unselected package libopenmm-dev. 151s Preparing to unpack .../28-libopenmm-dev_8.1.2+dfsg-12_amd64.deb ... 151s Unpacking libopenmm-dev (8.1.2+dfsg-12) ... 151s Selecting previously unselected package libpython3.14-stdlib:amd64. 151s Preparing to unpack .../29-libpython3.14-stdlib_3.14.2-1_amd64.deb ... 151s Unpacking libpython3.14-stdlib:amd64 (3.14.2-1) ... 151s Selecting previously unselected package python3.14. 151s Preparing to unpack .../30-python3.14_3.14.2-1_amd64.deb ... 151s Unpacking python3.14 (3.14.2-1) ... 151s Selecting previously unselected package python3-all. 151s Preparing to unpack .../31-python3-all_3.13.9-3_amd64.deb ... 151s Unpacking python3-all (3.13.9-3) ... 151s Selecting previously unselected package python3-iniconfig. 151s Preparing to unpack .../32-python3-iniconfig_2.1.0-2_all.deb ... 151s Unpacking python3-iniconfig (2.1.0-2) ... 151s Selecting previously unselected package python3-openmm. 151s Preparing to unpack .../33-python3-openmm_8.1.2+dfsg-12_amd64.deb ... 151s Unpacking python3-openmm (8.1.2+dfsg-12) ... 151s Selecting previously unselected package python3-pluggy. 151s Preparing to unpack .../34-python3-pluggy_1.6.0-2_all.deb ... 151s Unpacking python3-pluggy (1.6.0-2) ... 151s Selecting previously unselected package python3-pytest. 151s Preparing to unpack .../35-python3-pytest_9.0.2-2_all.deb ... 151s Unpacking python3-pytest (9.0.2-2) ... 151s Setting up python3-iniconfig (2.1.0-2) ... 152s Setting up libpython3.14-minimal:amd64 (3.14.2-1) ... 152s Setting up libgomp1:amd64 (15.2.0-12ubuntu1) ... 152s Setting up libblas3:amd64 (3.12.1-7ubuntu1) ... 152s 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 152s Setting up libquadmath0:amd64 (15.2.0-12ubuntu1) ... 152s Setting up libmpc3:amd64 (1.3.1-2) ... 152s Setting up python3-numpy-dev:amd64 (1:2.3.5+ds-3) ... 152s Setting up libgfortran5:amd64 (15.2.0-12ubuntu1) ... 152s Setting up python3-pluggy (1.6.0-2) ... 152s Setting up libubsan1:amd64 (15.2.0-12ubuntu1) ... 152s Setting up libhwasan0:amd64 (15.2.0-12ubuntu1) ... 152s Setting up libasan8:amd64 (15.2.0-12ubuntu1) ... 152s Setting up libtsan2:amd64 (15.2.0-12ubuntu1) ... 152s Setting up libisl23:amd64 (0.27-1build1) ... 152s Setting up libopenmm8.1 (8.1.2+dfsg-12) ... 152s Setting up python3.14-minimal (3.14.2-1) ... 152s Setting up libcc1-0:amd64 (15.2.0-12ubuntu1) ... 152s Setting up liblsan0:amd64 (15.2.0-12ubuntu1) ... 152s Setting up libitm1:amd64 (15.2.0-12ubuntu1) ... 152s Setting up liblapack3:amd64 (3.12.1-7ubuntu1) ... 152s 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 152s Setting up libgcc-15-dev:amd64 (15.2.0-12ubuntu1) ... 152s Setting up libpython3.14-stdlib:amd64 (3.14.2-1) ... 152s Setting up python3-pytest (9.0.2-2) ... 153s Setting up cpp-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ... 153s Setting up libopenmm-dev (8.1.2+dfsg-12) ... 153s Setting up gcc-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ... 153s Setting up python3-numpy (1:2.3.5+ds-3) ... 155s Setting up python3-openmm (8.1.2+dfsg-12) ... 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:426: SyntaxWarning: invalid escape sequence '\S' 155s r"(?:_(.+?)[.](\S+))" "|" # _category.attribute 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:444: SyntaxWarning: invalid escape sequence '\S' 155s "(?:_(.+?)[.](\S+))" "|" # _category.attribute 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:446: SyntaxWarning: invalid escape sequence '\s' 155s "(?:['\"](.*?)(?:['\"]\s|['\"]$))" "|" # quoted strings 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:448: SyntaxWarning: invalid escape sequence '\s' 155s "(?:\s*#.*$)" "|" # comments (dumped) 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:450: SyntaxWarning: invalid escape sequence '\S' 155s "(\S+)" # unquoted words 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:426: SyntaxWarning: "\S" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\S"? A raw string is also an option. 155s r"(?:_(.+?)[.](\S+))" "|" # _category.attribute 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:444: SyntaxWarning: "\S" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\S"? A raw string is also an option. 155s "(?:_(.+?)[.](\S+))" "|" # _category.attribute 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:446: SyntaxWarning: "\s" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\s"? A raw string is also an option. 155s "(?:['\"](.*?)(?:['\"]\s|['\"]$))" "|" # quoted strings 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:448: SyntaxWarning: "\s" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\s"? A raw string is also an option. 155s "(?:\s*#.*$)" "|" # comments (dumped) 155s /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:450: SyntaxWarning: "\S" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\S"? A raw string is also an option. 155s "(\S+)" # unquoted words 155s Setting up cpp-15 (15.2.0-12ubuntu1) ... 155s Setting up python3.14 (3.14.2-1) ... 156s Setting up cpp-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ... 156s Setting up gcc-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ... 156s Setting up python3-all (3.13.9-3) ... 156s Setting up gcc-15 (15.2.0-12ubuntu1) ... 156s Setting up cpp (4:15.2.0-4ubuntu1) ... 156s Setting up gcc (4:15.2.0-4ubuntu1) ... 156s Processing triggers for systemd (259-1ubuntu3) ... 156s Processing triggers for man-db (2.13.1-1) ... 156s Processing triggers for libc-bin (2.42-2ubuntu5) ... 157s autopkgtest [21:08:45]: test test-python: [----------------------- 158s ============================= test session starts ============================== 158s platform linux -- Python 3.14.2, pytest-9.0.2, pluggy-1.6.0 158s rootdir: /tmp/autopkgtest.P7jnBN/build.IXA/src/wrappers/python/tests 158s configfile: pytest.ini 158s plugins: typeguard-4.4.4 158s collected 327 items 158s 158s TestAPIUnits.py .................................. [ 10%] 158s TestATMForce.py . [ 10%] 158s TestAmberInpcrdFile.py .....s [ 12%] 163s TestAmberPrmtopFile.py ....................... [ 19%] 163s TestBytes.py . [ 19%] 176s TestCharmmFiles.py ....s..........s......... [ 27%] 176s TestCheckpointReporter.py . [ 27%] 176s TestDcdFile.py ... [ 28%] 177s TestDesmondDMSFile.py ....... [ 30%] 177s TestElement.py .... [ 32%] 187s TestForceField.py s........................................ss..s.. [ 46%] 187s TestForceGroups.py ... [ 47%] 188s TestGenerators.py .. [ 48%] 188s TestGromacsGroFile.py . [ 48%] 188s TestGromacsTopFile.py sssssssssssss [ 52%] 620s TestIntegrators.py .s..... [ 54%] 621s TestMetadynamics.py . [ 55%] 640s TestModeller.py .............s............. [ 63%] 641s TestNumpyCompatibility.py ......... [ 66%] 641s TestPatches.py ..... [ 67%] 643s TestPdbFile.py ...... [ 69%] 646s TestPdbReporter.py ........ [ 71%] 647s TestPdbxFile.py ....... [ 74%] 648s TestPickle.py ... [ 74%] 649s TestSimulatedTempering.py .. [ 75%] 679s TestSimulation.py ....... [ 77%] 679s TestStateDataReporter.py . [ 77%] 679s TestSwigWrappers.py . [ 78%] 679s TestTopology.py ... [ 79%] 679s TestUnitCell.py .. [ 79%] 679s TestUnits.py ...................................................... [ 96%] 679s TestVec3.py ....... [ 98%] 679s TestXtcFile.py ..... [100%] 679s 679s =============================== warnings summary =============================== 679s TestAmberPrmtopFile.py::TestAmberPrmtopFile::testNucleicGBParametes 679s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolvent 679s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventForces 679s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventParameters 679s /usr/lib/python3/dist-packages/openmm/app/internal/amber_file_parser.py:1168: UserWarning: Non-optimal GB parameters detected for GB model GBn 679s warnings.warn( 679s 679s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolvent 679s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventForces 679s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventParameters 679s /usr/lib/python3/dist-packages/openmm/app/internal/amber_file_parser.py:1168: UserWarning: Non-optimal GB parameters detected for GB model HCT 679s warnings.warn( 679s 679s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 679s =========== 305 passed, 22 skipped, 7 warnings in 521.31s (0:08:41) ============ 680s ============================= test session starts ============================== 680s platform linux -- Python 3.13.11, pytest-9.0.2, pluggy-1.6.0 680s rootdir: /tmp/autopkgtest.P7jnBN/build.IXA/src/wrappers/python/tests 680s configfile: pytest.ini 680s plugins: typeguard-4.4.4 680s collected 327 items 680s 680s TestAPIUnits.py .................................. [ 10%] 680s TestATMForce.py . [ 10%] 680s TestAmberInpcrdFile.py .....s [ 12%] 685s TestAmberPrmtopFile.py ....................... [ 19%] 685s TestBytes.py . [ 19%] 703s TestCharmmFiles.py ....s..........s......... [ 27%] 703s TestCheckpointReporter.py . [ 27%] 703s TestDcdFile.py ... [ 28%] 704s TestDesmondDMSFile.py ....... [ 30%] 705s TestElement.py .... [ 32%] 717s TestForceField.py s........................................ss..s.. [ 46%] 717s TestForceGroups.py ... [ 47%] 717s TestGenerators.py .. [ 48%] 717s TestGromacsGroFile.py . [ 48%] 717s TestGromacsTopFile.py sssssssssssss [ 52%] 1148s TestIntegrators.py .s..... [ 54%] 1149s TestMetadynamics.py . [ 55%] 1170s TestModeller.py .............s............. [ 63%] 1170s TestNumpyCompatibility.py ......... [ 66%] 1170s TestPatches.py ..... [ 67%] 1176s TestPdbFile.py ...... [ 69%] 1177s TestPdbReporter.py ........ [ 71%] 1178s TestPdbxFile.py ....... [ 74%] 1179s TestPickle.py ... [ 74%] 1180s TestSimulatedTempering.py .. [ 75%] 1210s TestSimulation.py ....... [ 77%] 1210s TestStateDataReporter.py . [ 77%] 1210s TestSwigWrappers.py . [ 78%] 1210s TestTopology.py ... [ 79%] 1210s TestUnitCell.py .. [ 79%] 1210s TestUnits.py ...................................................... [ 96%] 1210s TestVec3.py ....... [ 98%] 1210s TestXtcFile.py ..... [100%] 1210s 1210s =============================== warnings summary =============================== 1210s TestAmberPrmtopFile.py::TestAmberPrmtopFile::testNucleicGBParametes 1210s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolvent 1210s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventForces 1210s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventParameters 1210s /usr/lib/python3/dist-packages/openmm/app/internal/amber_file_parser.py:1168: UserWarning: Non-optimal GB parameters detected for GB model GBn 1210s warnings.warn( 1210s 1210s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolvent 1210s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventForces 1210s TestAmberPrmtopFile.py::TestAmberPrmtopFile::test_ImplicitSolventParameters 1210s /usr/lib/python3/dist-packages/openmm/app/internal/amber_file_parser.py:1168: UserWarning: Non-optimal GB parameters detected for GB model HCT 1210s warnings.warn( 1210s 1210s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 1210s =========== 305 passed, 22 skipped, 7 warnings in 530.65s (0:08:50) ============ 1211s autopkgtest [21:26:19]: test test-python: -----------------------] 1211s test-python PASS 1211s autopkgtest [21:26:19]: test test-python: - - - - - - - - - - results - - - - - - - - - - 1211s autopkgtest [21:26:19]: @@@@@@@@@@@@@@@@@@@@ summary 1211s test-python PASS