0s autopkgtest [01:18:03]: starting date and time: 2025-03-16 01:18:03+0000 0s autopkgtest [01:18:03]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [01:18:03]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.bd3hj55p/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_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,radosgw.ps5.canonical.com\n" >> /etc/environment' --apt-pocket=proposed=src:libpng1.6 --apt-upgrade pymol --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=libpng1.6/1.6.47-1.1 -- lxd -r lxd-armhf-10.145.243.197 lxd-armhf-10.145.243.197:autopkgtest/ubuntu/plucky/armhf 36s autopkgtest [01:18:39]: testbed dpkg architecture: armhf 39s autopkgtest [01:18:42]: testbed apt version: 2.9.33 45s autopkgtest [01:18:48]: @@@@@@@@@@@@@@@@@@@@ test bed setup 48s autopkgtest [01:18:51]: testbed release detected to be: None 56s autopkgtest [01:18:59]: updating testbed package index (apt update) 58s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 58s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 59s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 59s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 59s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [17.7 kB] 59s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [41.4 kB] 59s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [365 kB] 60s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [74.9 kB] 60s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1792 B] 60s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 60s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [290 kB] 60s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [10.5 kB] 60s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [4168 B] 60s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [240 B] 60s Get:15 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 75s Get:16 http://ftpmaster.internal/ubuntu plucky/main Sources [1389 kB] 75s Get:17 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 76s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 76s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.5 kB] 76s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 76s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.3 MB] 87s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 89s Fetched 41.1 MB in 30s (1352 kB/s) 90s Reading package lists... 102s autopkgtest [01:19:45]: upgrading testbed (apt dist-upgrade and autopurge) 104s Reading package lists... 104s Building dependency tree... 104s Reading state information... 105s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 105s Starting 2 pkgProblemResolver with broken count: 0 105s Done 106s Entering ResolveByKeep 106s 106s Calculating upgrade... 107s The following packages will be upgraded: 107s libpng16-16t64 pinentry-curses python3-jinja2 sos strace 107s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 107s Need to get 1128 kB of archives. 107s After this operation, 23.6 kB of additional disk space will be used. 107s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libpng16-16t64 armhf 1.6.47-1.1 [168 kB] 108s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 108s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf pinentry-curses armhf 1.3.1-2ubuntu3 [40.6 kB] 108s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 108s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 109s Fetched 1128 kB in 1s (785 kB/s) 109s (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 ... 64655 files and directories currently installed.) 109s Preparing to unpack .../libpng16-16t64_1.6.47-1.1_armhf.deb ... 109s Unpacking libpng16-16t64:armhf (1.6.47-1.1) over (1.6.47-1) ... 109s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 109s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 109s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_armhf.deb ... 109s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 109s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 109s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 109s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 110s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 110s Setting up sos (4.9.0-5) ... 110s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 110s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 111s Setting up strace (6.13+ds-1ubuntu1) ... 111s Setting up libpng16-16t64:armhf (1.6.47-1.1) ... 111s Processing triggers for man-db (2.13.0-1) ... 111s Processing triggers for libc-bin (2.41-1ubuntu1) ... 114s Reading package lists... 114s Building dependency tree... 114s Reading state information... 114s Starting pkgProblemResolver with broken count: 0 115s Starting 2 pkgProblemResolver with broken count: 0 115s Done 115s Solving dependencies... 116s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 118s autopkgtest [01:20:01]: rebooting testbed after setup commands that affected boot 182s autopkgtest [01:21:05]: testbed running kernel: Linux 6.8.0-52-generic #53~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jan 15 18:10:51 UTC 2 226s autopkgtest [01:21:49]: @@@@@@@@@@@@@@@@@@@@ apt-source pymol 268s Get:1 http://ftpmaster.internal/ubuntu plucky/universe pymol 3.0.0+dfsg-3build2 (dsc) [2324 B] 268s Get:2 http://ftpmaster.internal/ubuntu plucky/universe pymol 3.0.0+dfsg-3build2 (tar) [22.0 MB] 268s Get:3 http://ftpmaster.internal/ubuntu plucky/universe pymol 3.0.0+dfsg-3build2 (diff) [57.8 kB] 268s gpgv: Signature made Tue Mar 4 18:06:31 2025 UTC 268s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 268s gpgv: Can't check signature: No public key 268s dpkg-source: warning: cannot verify inline signature for ./pymol_3.0.0+dfsg-3build2.dsc: no acceptable signature found 270s autopkgtest [01:22:33]: testing package pymol version 3.0.0+dfsg-3build2 272s autopkgtest [01:22:35]: build not needed 280s autopkgtest [01:22:43]: test command1: preparing testbed 282s Reading package lists... 282s Building dependency tree... 282s Reading state information... 283s Starting pkgProblemResolver with broken count: 0 285s Starting 2 pkgProblemResolver with broken count: 0 285s Done 285s The following NEW packages will be installed: 285s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libaec0 285s libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libcups2t64 285s libdouble-conversion3 libegl-mesa0 libegl1 libfontconfig1 libfreetype6 285s libgbm1 libgfortran5 libgl1 libgl1-mesa-dri libgles2 libglew2.2 libglu1-mesa 285s libglvnd0 libglx-mesa0 libglx0 libgomp1 libgraphite2-3 libharfbuzz0b 285s libhdf5-310 libhdf5-hl-310 libice6 libinput-bin libinput10 libjpeg-turbo8 285s libjpeg8 liblapack3 libllvm19 libmd4c0 libmtdev1t64 libnetcdf22 libopengl0 285s libpcre2-16-0 libpython3.13 libqt5core5t64 libqt5dbus5t64 libqt5designer5 285s libqt5gui5t64 libqt5help5 libqt5network5t64 libqt5opengl5t64 285s libqt5printsupport5t64 libqt5sql5t64 libqt5test5t64 libqt5widgets5t64 285s libqt5xml5t64 libsm6 libsz2 libvulkan1 libwacom-common libwacom9 285s libwayland-client0 libwayland-server0 libx11-xcb1 libxcb-dri3-0 libxcb-glx0 285s libxcb-icccm4 libxcb-image0 libxcb-keysyms1 libxcb-present0 libxcb-randr0 285s libxcb-render-util0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 285s libxcb-util1 libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 285s libxkbcommon-x11-0 libxrender1 libxshmfence1 libxxf86vm1 mesa-libgallium 285s pymol pymol-data python3-legacy-cgi python3-numpy python3-numpy-dev 285s python3-opengl python3-pymol python3-pyqt5 python3-pyqt5.qtopengl 285s python3-pyqt5.sip x11-common 285s 0 upgraded, 96 newly installed, 0 to remove and 0 not upgraded. 285s Need to get 71.2 MB of archives. 285s After this operation, 261 MB of additional disk space will be used. 285s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy-dev armhf 1:2.2.3+ds-5 [141 kB] 285s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.1-2 [132 kB] 285s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 15-20250222-0ubuntu1 [330 kB] 285s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.1-2 [2091 kB] 287s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy armhf 1:2.2.3+ds-5 [3725 kB] 290s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [330 kB] 291s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-mono all 2.37-8 [502 kB] 291s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-core all 2.37-8 [835 kB] 292s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf fontconfig-config armhf 2.15.0-2ubuntu1 [37.5 kB] 292s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libfontconfig1 armhf 2.15.0-2ubuntu1 [114 kB] 292s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf fontconfig armhf 2.15.0-2ubuntu1 [190 kB] 292s Get:12 http://ftpmaster.internal/ubuntu plucky/universe armhf libaec0 armhf 1.1.3-1 [20.8 kB] 292s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libavahi-common-data armhf 0.8-16ubuntu1 [30.9 kB] 292s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libavahi-common3 armhf 0.8-16ubuntu1 [20.2 kB] 292s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libavahi-client3 armhf 0.8-16ubuntu1 [24.1 kB] 292s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libcups2t64 armhf 2.4.11-0ubuntu2 [243 kB] 292s Get:17 http://ftpmaster.internal/ubuntu plucky/universe armhf libdouble-conversion3 armhf 3.3.1-1 [39.1 kB] 292s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libwayland-server0 armhf 1.23.1-3 [30.3 kB] 292s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libllvm19 armhf 1:19.1.7-1ubuntu2 [27.8 MB] 314s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libx11-xcb1 armhf 2:1.8.10-2 [7902 B] 314s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-dri3-0 armhf 1.17.0-2 [7120 B] 314s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-present0 armhf 1.17.0-2 [5940 B] 314s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-randr0 armhf 1.17.0-2 [17.0 kB] 314s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-sync1 armhf 1.17.0-2 [8732 B] 314s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-xfixes0 armhf 1.17.0-2 [10.0 kB] 314s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libxshmfence1 armhf 1.3-1build5 [4464 B] 314s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf mesa-libgallium armhf 25.0.1-2ubuntu1 [8255 kB] 320s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf libgbm1 armhf 25.0.1-2ubuntu1 [29.1 kB] 320s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf libwayland-client0 armhf 1.23.1-3 [23.3 kB] 321s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-shm0 armhf 1.17.0-2 [5774 B] 321s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf libegl-mesa0 armhf 25.0.1-2ubuntu1 [100 kB] 321s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf libvulkan1 armhf 1.4.304.0-1 [127 kB] 321s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libgl1-mesa-dri armhf 25.0.1-2ubuntu1 [31.9 kB] 321s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libglvnd0 armhf 1.7.0-1build1 [83.7 kB] 321s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-glx0 armhf 1.17.0-2 [22.6 kB] 321s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libxxf86vm1 armhf 1:1.1.4-1build4 [8068 B] 321s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libglx-mesa0 armhf 25.0.1-2ubuntu1 [120 kB] 321s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libglx0 armhf 1.7.0-1build1 [39.3 kB] 321s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf libgl1 armhf 1.7.0-1build1 [105 kB] 321s Get:40 http://ftpmaster.internal/ubuntu plucky/universe armhf libglew2.2 armhf 2.2.0-4build1 [197 kB] 321s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libgomp1 armhf 15-20250222-0ubuntu1 [128 kB] 322s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf libgraphite2-3 armhf 1.3.14-2ubuntu1 [64.8 kB] 322s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf libharfbuzz0b armhf 10.2.0-1 [464 kB] 322s Get:44 http://ftpmaster.internal/ubuntu plucky/universe armhf libsz2 armhf 1.1.3-1 [5302 B] 322s Get:45 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-310 armhf 1.14.5+repack-3 [1410 kB] 323s Get:46 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-hl-310 armhf 1.14.5+repack-3 [58.8 kB] 323s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf x11-common all 1:7.7+23ubuntu3 [21.7 kB] 323s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf libice6 armhf 2:1.1.1-1 [36.5 kB] 323s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf libwacom-common all 2.14.0-1 [103 kB] 323s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf libwacom9 armhf 2.14.0-1 [23.6 kB] 323s Get:51 http://ftpmaster.internal/ubuntu plucky/main armhf libinput-bin armhf 1.27.1-1 [25.9 kB] 323s Get:52 http://ftpmaster.internal/ubuntu plucky/main armhf libmtdev1t64 armhf 1.1.7-1 [13.0 kB] 323s Get:53 http://ftpmaster.internal/ubuntu plucky/main armhf libinput10 armhf 1.27.1-1 [124 kB] 324s Get:54 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-turbo8 armhf 2.1.5-3ubuntu2 [127 kB] 324s Get:55 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg8 armhf 8c-2ubuntu11 [2148 B] 324s Get:56 http://ftpmaster.internal/ubuntu plucky/universe armhf libmd4c0 armhf 0.5.2-2 [38.2 kB] 324s Get:57 http://ftpmaster.internal/ubuntu plucky/universe armhf libnetcdf22 armhf 1:4.9.3-1 [459 kB] 324s Get:58 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-16-0 armhf 10.45-1 [207 kB] 324s Get:59 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.13 armhf 3.13.2-2 [2079 kB] 326s Get:60 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5core5t64 armhf 5.15.15+dfsg-4ubuntu1 [1768 kB] 328s Get:61 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5dbus5t64 armhf 5.15.15+dfsg-4ubuntu1 [198 kB] 328s Get:62 http://ftpmaster.internal/ubuntu plucky/main armhf libegl1 armhf 1.7.0-1build1 [29.8 kB] 328s Get:63 http://ftpmaster.internal/ubuntu plucky/main armhf libgles2 armhf 1.7.0-1build1 [18.0 kB] 329s Get:64 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5network5t64 armhf 5.15.15+dfsg-4ubuntu1 [653 kB] 329s Get:65 http://ftpmaster.internal/ubuntu plucky/main armhf libsm6 armhf 2:1.2.4-1 [15.1 kB] 329s Get:66 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-icccm4 armhf 0.4.2-1 [9840 B] 329s Get:67 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-util1 armhf 0.4.1-1 [9468 B] 329s Get:68 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-image0 armhf 0.4.0-2build1 [9680 B] 329s Get:69 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-keysyms1 armhf 0.4.1-1 [8076 B] 329s Get:70 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-render0 armhf 1.17.0-2 [15.3 kB] 329s Get:71 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-render-util0 armhf 0.3.10-1 [9444 B] 329s Get:72 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-shape0 armhf 1.17.0-2 [6030 B] 329s Get:73 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-xinerama0 armhf 1.17.0-2 [5212 B] 329s Get:74 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-xinput0 armhf 1.17.0-2 [29.5 kB] 329s Get:75 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-xkb1 armhf 1.17.0-2 [28.8 kB] 330s Get:76 http://ftpmaster.internal/ubuntu plucky/main armhf libxkbcommon-x11-0 armhf 1.7.0-2 [13.6 kB] 330s Get:77 http://ftpmaster.internal/ubuntu plucky/main armhf libxrender1 armhf 1:0.9.10-1.1build1 [16.0 kB] 330s Get:78 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5gui5t64 armhf 5.15.15+dfsg-4ubuntu1 [2968 kB] 333s Get:79 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5widgets5t64 armhf 5.15.15+dfsg-4ubuntu1 [2261 kB] 335s Get:80 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5xml5t64 armhf 5.15.15+dfsg-4ubuntu1 [108 kB] 335s Get:81 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5designer5 armhf 5.15.15-6build1 [2726 kB] 338s Get:82 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5sql5t64 armhf 5.15.15+dfsg-4ubuntu1 [108 kB] 338s Get:83 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5help5 armhf 5.15.15-6build1 [144 kB] 338s Get:84 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5opengl5t64 armhf 5.15.15+dfsg-4ubuntu1 [126 kB] 338s Get:85 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5printsupport5t64 armhf 5.15.15+dfsg-4ubuntu1 [192 kB] 338s Get:86 http://ftpmaster.internal/ubuntu plucky/universe armhf libqt5test5t64 armhf 5.15.15+dfsg-4ubuntu1 [136 kB] 338s Get:87 http://ftpmaster.internal/ubuntu plucky/main armhf python3-legacy-cgi all 2.6.2-1 [16.6 kB] 338s Get:88 http://ftpmaster.internal/ubuntu plucky/main armhf libopengl0 armhf 1.7.0-1build1 [36.2 kB] 338s Get:89 http://ftpmaster.internal/ubuntu plucky/main armhf libglu1-mesa armhf 9.0.2-1.1build1 [153 kB] 338s Get:90 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-opengl all 3.1.7+dfsg-1 [612 kB] 339s Get:91 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pyqt5.sip armhf 12.17.0-1build1 [55.1 kB] 339s Get:92 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pyqt5 armhf 5.15.11+dfsg-2 [2199 kB] 341s Get:93 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pyqt5.qtopengl armhf 5.15.11+dfsg-2 [47.4 kB] 341s Get:94 http://ftpmaster.internal/ubuntu plucky/universe armhf pymol-data all 3.0.0+dfsg-3build2 [1394 kB] 343s Get:95 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pymol armhf 3.0.0+dfsg-3build2 [3762 kB] 346s Get:96 http://ftpmaster.internal/ubuntu plucky/universe armhf pymol all 3.0.0+dfsg-3build2 [126 kB] 347s Fetched 71.2 MB in 1min 3s (1137 kB/s) 347s Selecting previously unselected package python3-numpy-dev:armhf. 347s (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 ... 64655 files and directories currently installed.) 347s Preparing to unpack .../00-python3-numpy-dev_1%3a2.2.3+ds-5_armhf.deb ... 347s Unpacking python3-numpy-dev:armhf (1:2.2.3+ds-5) ... 347s Selecting previously unselected package libblas3:armhf. 347s Preparing to unpack .../01-libblas3_3.12.1-2_armhf.deb ... 347s Unpacking libblas3:armhf (3.12.1-2) ... 347s Selecting previously unselected package libgfortran5:armhf. 347s Preparing to unpack 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libgraphite2-3:armhf (1.3.14-2ubuntu1) ... 355s Setting up libxcb-dri3-0:armhf (1.17.0-2) ... 355s Setting up libllvm19:armhf (1:19.1.7-1ubuntu2) ... 355s Setting up libwayland-server0:armhf (1.23.1-3) ... 355s Setting up libx11-xcb1:armhf (2:1.8.10-2) ... 355s Setting up libdouble-conversion3:armhf (3.3.1-1) ... 355s Setting up libxcb-xfixes0:armhf (1.17.0-2) ... 355s Setting up libxcb-xinput0:armhf (1.17.0-2) ... 355s Setting up libxrender1:armhf (1:0.9.10-1.1build1) ... 355s Setting up libxcb-render0:armhf (1.17.0-2) ... 355s Setting up libglvnd0:armhf (1.7.0-1build1) ... 355s Setting up libxcb-glx0:armhf (1.17.0-2) ... 355s Setting up libxcb-keysyms1:armhf (0.4.1-1) ... 355s Setting up libxcb-shape0:armhf (1.17.0-2) ... 355s Setting up x11-common (1:7.7+23ubuntu3) ... 355s Setting up libxcb-render-util0:armhf (0.3.10-1) ... 355s Setting up libxcb-shm0:armhf (1.17.0-2) ... 355s Setting up libxcb-icccm4:armhf (0.4.2-1) ... 355s Setting up libgomp1:armhf (15-20250222-0ubuntu1) ... 355s Setting up libpcre2-16-0:armhf (10.45-1) ... 355s Setting up libaec0:armhf (1.1.3-1) ... 355s Setting up libopengl0:armhf (1.7.0-1build1) ... 355s Setting up libxcb-util1:armhf (0.4.1-1) ... 355s Setting up libxxf86vm1:armhf (1:1.1.4-1build4) ... 355s Setting up libxcb-xkb1:armhf (1.17.0-2) ... 355s Setting up libxcb-image0:armhf (0.4.0-2build1) ... 355s Setting up libxcb-present0:armhf (1.17.0-2) ... 355s Setting up libqt5core5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 355s Setting up libblas3:armhf (3.12.1-2) ... 355s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 355s Setting up libxcb-xinerama0:armhf (1.17.0-2) ... 355s Setting up libgles2:armhf (1.7.0-1build1) ... 355s Setting up libfreetype6:armhf (2.13.3+dfsg-1) ... 355s Setting up libxcb-sync1:armhf (1.17.0-2) ... 355s Setting up libavahi-common-data:armhf (0.8-16ubuntu1) ... 355s Setting up pymol-data (3.0.0+dfsg-3build2) ... 355s Setting up libxkbcommon-x11-0:armhf (1.7.0-2) ... 355s Setting up fonts-dejavu-mono (2.37-8) ... 355s Setting up python3-numpy-dev:armhf (1:2.2.3+ds-5) ... 355s Setting up fonts-dejavu-core (2.37-8) ... 355s Setting up libjpeg-turbo8:armhf (2.1.5-3ubuntu2) ... 355s Setting up libgfortran5:armhf (15-20250222-0ubuntu1) ... 355s Setting up libvulkan1:armhf (1.4.304.0-1) ... 355s Setting up python3-legacy-cgi (2.6.2-1) ... 356s Setting up python3-pyqt5.sip (12.17.0-1build1) ... 356s Setting up libmtdev1t64:armhf (1.1.7-1) ... 356s Setting up libxshmfence1:armhf (1.3-1build5) ... 356s Setting up libxcb-randr0:armhf (1.17.0-2) ... 356s Setting up libqt5sql5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 356s Setting up libmd4c0:armhf (0.5.2-2) ... 356s Setting up libharfbuzz0b:armhf (10.2.0-1) ... 356s Setting up libglu1-mesa:armhf (9.0.2-1.1build1) ... 356s Setting up libsz2:armhf (1.1.3-1) ... 356s Setting up libwacom-common (2.14.0-1) ... 356s Setting up libwayland-client0:armhf (1.23.1-3) ... 356s Setting up libjpeg8:armhf (8c-2ubuntu11) ... 356s Setting up libice6:armhf (2:1.1.1-1) ... 356s Setting up mesa-libgallium:armhf (25.0.1-2ubuntu1) ... 356s Setting up liblapack3:armhf (3.12.1-2) ... 356s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 356s Setting up libqt5dbus5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 356s Setting up libgbm1:armhf (25.0.1-2ubuntu1) ... 356s Setting up libwacom9:armhf (2.14.0-1) ... 356s Setting up fontconfig-config (2.15.0-2ubuntu1) ... 356s Setting up libgl1-mesa-dri:armhf (25.0.1-2ubuntu1) ... 356s Setting up libqt5network5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 356s Setting up libavahi-common3:armhf (0.8-16ubuntu1) ... 356s Setting up libqt5xml5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 356s Setting up libqt5test5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 356s Setting up libinput-bin (1.27.1-1) ... 356s Setting up libegl-mesa0:armhf (25.0.1-2ubuntu1) ... 356s Setting up python3-numpy (1:2.2.3+ds-5) ... 358s Setting up libhdf5-310:armhf (1.14.5+repack-3) ... 358s Setting up libegl1:armhf (1.7.0-1build1) ... 358s Setting up libfontconfig1:armhf (2.15.0-2ubuntu1) ... 358s Setting up libsm6:armhf (2:1.2.4-1) ... 358s Setting up libavahi-client3:armhf (0.8-16ubuntu1) ... 358s Setting up libinput10:armhf (1.27.1-1) ... 358s Setting up libhdf5-hl-310:armhf (1.14.5+repack-3) ... 358s Setting up fontconfig (2.15.0-2ubuntu1) ... 360s Regenerating fonts cache... done. 360s Setting up libglx-mesa0:armhf (25.0.1-2ubuntu1) ... 360s Setting up libglx0:armhf (1.7.0-1build1) ... 360s Setting up libnetcdf22:armhf (1:4.9.3-1) ... 360s Setting up libqt5gui5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 360s Setting up libgl1:armhf (1.7.0-1build1) ... 360s Setting up libglew2.2:armhf (2.2.0-4build1) ... 360s Setting up libcups2t64:armhf (2.4.11-0ubuntu2) ... 360s Setting up libqt5widgets5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 360s Setting up python3-opengl (3.1.7+dfsg-1) ... 361s /usr/lib/python3/dist-packages/OpenGL/GL/AMD/vertex_shader_tessellator.py:30: SyntaxWarning: invalid escape sequence '\ ' 361s |\ |\ 362s Setting up libqt5help5:armhf (5.15.15-6build1) ... 362s Setting up libqt5opengl5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 362s Setting up libqt5printsupport5t64:armhf (5.15.15+dfsg-4ubuntu1) ... 362s Setting up libqt5designer5:armhf (5.15.15-6build1) ... 362s Setting up python3-pyqt5 (5.15.11+dfsg-2) ... 362s Setting up python3-pyqt5.qtopengl (5.15.11+dfsg-2) ... 362s Setting up python3-pymol (3.0.0+dfsg-3build2) ... 363s Setting up pymol (3.0.0+dfsg-3build2) ... 363s Processing triggers for libc-bin (2.41-1ubuntu1) ... 363s Processing triggers for man-db (2.13.0-1) ... 364s Processing triggers for udev (257.3-1ubuntu3) ... 374s autopkgtest [01:24:17]: test command1: sh debian/tests/call-pymol-scripts examples/ \ "(start_pymol)|(xmlrpc01)|(sd_annotate)|(povray01)|(contact)|(dali)|(density)|(groel_es)|(packing)|(packsurf)|(ref_frame)|(ribosome)|(scenes2movie)|(ss_xfer)|(multiclip_ray)|(tkwindow)|(importing)" 374s autopkgtest [01:24:17]: test command1: [----------------------- 377s Search pymol scripts in /tmp/autopkgtest.rF94wi/build.duZ/src/examples... 377s Processing new directory /tmp/autopkgtest.rF94wi/build.duZ/src/examples 377s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/chempy/generate_amber.py'... 377s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/chempy/generate_mmff.py'... 377s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/area_diff.pml'... 378s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/build_peptide.py'... 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/contact.pml 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/dali.py 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/density.pml 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/groel_es.pml 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/multiclip_ray.pml 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/packing.pml 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/packsurf.pml 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/ref_frame.pml 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/ribosome.pml 378s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/scenes2movie.pml 378s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/seq_match_sele.pml'... 383s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/ss_xfer.pml 383s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/symsph.py'... 383s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/brick01.py'... 384s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo01.py'... 386s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo02.py'... 387s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo03.py'... 391s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo04.py'... 391s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo05.py'... 391s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo06.py'... 394s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo07.py'... 395s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo08.py'... 395s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo_3Dtext01.py'... 395s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo_axes.py'... 395s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo_label_hack.py'... 398s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo_plane.py'... 398s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/chempy_model01.py'... 399s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/chempy_model02.py'... 399s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/chempy_model03.py'... 404s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/click_ordered_list.py'... 404s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/count_molecules.py'... 404s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/extend_demo01.py'... 404s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/gl01.py'... 404s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/gl02.py'... 404s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/gl03.py'... 407s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/importing.py 407s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/link_demo.py'... 408s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/membrane.py'... 408s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/mutate01.pml'... 409s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/mutate02.py'... 410s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/my_ext_gui.py'... 411s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/particle01.py'... 411s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/particle02.py'... 412s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/pick_wiz.py'... 412s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/povray01.py 412s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/scenes_to_movie01.pml'... 412s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/sd_annotate.pml 412s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/sele_wiz.py'... 412s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/start_pymol.py 412s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/syncmol.py'... 412s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/tkwindow.py 412s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/webgui01.py'... 413s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/webgui02.py'... 413s /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/webgui02.py:161: SyntaxWarning: invalid escape sequence '\=' 413s mo = re.search("molid\=([A-Z0-9]+)",self.path) 413s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/xmlrpc01.py 413s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/xmlrpc02.py'... 413s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/launching/launch_demo.py'... 413s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/launching/launch_viewer1.py'... 414s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/launching/launch_viewer2.py'... 414s Processing new directory /tmp/autopkgtest.rF94wi/build.duZ/src/examples/chempy 414s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/chempy/generate_amber.py'... 416s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/chempy/generate_mmff.py'... 416s Processing new directory /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook 416s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/area_diff.pml'... 416s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/build_peptide.py'... 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/contact.pml 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/dali.py 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/density.pml 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/groel_es.pml 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/multiclip_ray.pml 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/packing.pml 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/packsurf.pml 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/ref_frame.pml 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/ribosome.pml 416s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/scenes2movie.pml 416s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/seq_match_sele.pml'... 417s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/ss_xfer.pml 417s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/cookbook/symsph.py'... 417s Processing new directory /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel 417s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/brick01.py'... 417s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo01.py'... 418s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo02.py'... 421s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo03.py'... 425s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo04.py'... 425s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo05.py'... 425s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo06.py'... 426s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo07.py'... 426s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo08.py'... 426s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo_3Dtext01.py'... 426s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo_axes.py'... 427s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo_label_hack.py'... 430s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/cgo_plane.py'... 430s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/chempy_model01.py'... 430s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/chempy_model02.py'... 430s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/chempy_model03.py'... 434s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/click_ordered_list.py'... 434s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/count_molecules.py'... 434s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/extend_demo01.py'... 434s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/gl01.py'... 435s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/gl02.py'... 435s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/gl03.py'... 439s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/importing.py 439s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/link_demo.py'... 439s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/membrane.py'... 439s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/mutate01.pml'... 440s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/mutate02.py'... 442s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/my_ext_gui.py'... 442s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/particle01.py'... 442s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/particle02.py'... 443s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/pick_wiz.py'... 443s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/povray01.py 443s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/scenes_to_movie01.pml'... 443s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/sd_annotate.pml 443s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/sele_wiz.py'... 443s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/start_pymol.py 443s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/syncmol.py'... 444s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/tkwindow.py 444s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/webgui01.py'... 444s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/webgui02.py'... 445s /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/webgui02.py:161: SyntaxWarning: invalid escape sequence '\=' 445s mo = re.search("molid\=([A-Z0-9]+)",self.path) 445s Skip /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/xmlrpc01.py 445s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/devel/xmlrpc02.py'... 445s Processing new directory /tmp/autopkgtest.rF94wi/build.duZ/src/examples/launching 445s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/launching/launch_demo.py'... 445s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/launching/launch_viewer1.py'... 445s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/examples/launching/launch_viewer2.py'... 445s autopkgtest [01:25:28]: test command1: -----------------------] 450s autopkgtest [01:25:33]: test command1: - - - - - - - - - - results - - - - - - - - - - 450s command1 PASS (superficial) 455s autopkgtest [01:25:38]: test command2: preparing testbed 457s Reading package lists... 457s Building dependency tree... 457s Reading state information... 457s Starting pkgProblemResolver with broken count: 0 458s Starting 2 pkgProblemResolver with broken count: 0 458s Done 458s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 467s autopkgtest [01:25:50]: test command2: sh debian/tests/call-pymol-scripts data/demo 467s autopkgtest [01:25:50]: test command2: [----------------------- 469s Search pymol scripts in /tmp/autopkgtest.rF94wi/build.duZ/src/data/demo... 469s Processing new directory /tmp/autopkgtest.rF94wi/build.duZ/src/data/demo 469s Run 'pymol -c /tmp/autopkgtest.rF94wi/build.duZ/src/data/demo/cgo03.py'... 473s autopkgtest [01:25:56]: test command2: -----------------------] 477s autopkgtest [01:26:00]: test command2: - - - - - - - - - - results - - - - - - - - - - 477s command2 PASS (superficial) 483s autopkgtest [01:26:06]: test command3: preparing testbed 485s Reading package lists... 485s Building dependency tree... 485s Reading state information... 485s Starting pkgProblemResolver with broken count: 0 485s Starting 2 pkgProblemResolver with broken count: 0 485s Done 486s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 495s autopkgtest [01:26:18]: test command3: sh debian/tests/call-pymol-scripts /usr/share/pymol/examples \ "(cookbook/)|(xmlrpc01)|(sd_annotate)|(povray01)|(tkwindow)|(importing)" 495s autopkgtest [01:26:18]: test command3: [----------------------- 497s Search pymol scripts in /usr/share/pymol/examples... 497s Processing new directory /usr/share/pymol/examples 497s Run 'pymol -c /usr/share/pymol/examples/chempy/generate_amber.py'... 497s Run 'pymol -c /usr/share/pymol/examples/chempy/generate_mmff.py'... 497s Skip /usr/share/pymol/examples/cookbook/area_diff.pml 497s Skip /usr/share/pymol/examples/cookbook/contact.pml 497s Skip /usr/share/pymol/examples/cookbook/multiclip_ray.pml 497s Skip /usr/share/pymol/examples/cookbook/packing.pml 497s Skip /usr/share/pymol/examples/cookbook/packsurf.pml 497s Skip /usr/share/pymol/examples/cookbook/ref_frame.pml 497s Skip /usr/share/pymol/examples/cookbook/scenes2movie.pml 497s Skip /usr/share/pymol/examples/cookbook/seq_match_sele.pml 497s Skip /usr/share/pymol/examples/cookbook/ss_xfer.pml 497s Run 'pymol -c /usr/share/pymol/examples/devel/brick01.py'... 498s Run 'pymol -c /usr/share/pymol/examples/devel/cgo01.py'... 498s Run 'pymol -c /usr/share/pymol/examples/devel/cgo02.py'... 501s Run 'pymol -c /usr/share/pymol/examples/devel/cgo03.py'... 505s Run 'pymol -c /usr/share/pymol/examples/devel/cgo04.py'... 505s Run 'pymol -c /usr/share/pymol/examples/devel/cgo05.py'... 506s Run 'pymol -c /usr/share/pymol/examples/devel/cgo06.py'... 506s Run 'pymol -c /usr/share/pymol/examples/devel/cgo07.py'... 506s Run 'pymol -c /usr/share/pymol/examples/devel/cgo08.py'... 506s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_3Dtext01.py'... 507s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_axes.py'... 507s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_label_hack.py'... 510s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_plane.py'... 510s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model01.py'... 511s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model02.py'... 511s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model03.py'... 514s Run 'pymol -c /usr/share/pymol/examples/devel/click_ordered_list.py'... 514s Run 'pymol -c /usr/share/pymol/examples/devel/count_molecules.py'... 515s Run 'pymol -c /usr/share/pymol/examples/devel/extend_demo01.py'... 515s Run 'pymol -c /usr/share/pymol/examples/devel/gl01.py'... 515s Run 'pymol -c /usr/share/pymol/examples/devel/gl02.py'... 516s Run 'pymol -c /usr/share/pymol/examples/devel/gl03.py'... 519s Skip /usr/share/pymol/examples/devel/importing.py 519s Run 'pymol -c /usr/share/pymol/examples/devel/link_demo.py'... 519s Run 'pymol -c /usr/share/pymol/examples/devel/membrane.py'... 520s Run 'pymol -c /usr/share/pymol/examples/devel/mutate01.pml'... 520s Run 'pymol -c /usr/share/pymol/examples/devel/mutate02.py'... 522s Run 'pymol -c /usr/share/pymol/examples/devel/my_ext_gui.py'... 522s Run 'pymol -c /usr/share/pymol/examples/devel/particle01.py'... 523s Run 'pymol -c /usr/share/pymol/examples/devel/particle02.py'... 523s Run 'pymol -c /usr/share/pymol/examples/devel/pick_wiz.py'... 523s Run 'pymol -c /usr/share/pymol/examples/devel/scenes_to_movie01.pml'... 524s Skip /usr/share/pymol/examples/devel/sd_annotate.pml 524s Run 'pymol -c /usr/share/pymol/examples/devel/sele_wiz.py'... 524s Run 'pymol -c /usr/share/pymol/examples/devel/syncmol.py'... 524s Skip /usr/share/pymol/examples/devel/tkwindow.py 524s Run 'pymol -c /usr/share/pymol/examples/devel/webgui01.py'... 524s Run 'pymol -c /usr/share/pymol/examples/devel/webgui02.py'... 524s /usr/share/pymol/examples/devel/webgui02.py:161: SyntaxWarning: invalid escape sequence '\=' 524s mo = re.search("molid\=([A-Z0-9]+)",self.path) 524s Skip /usr/share/pymol/examples/devel/xmlrpc01.py 524s Run 'pymol -c /usr/share/pymol/examples/devel/xmlrpc02.py'... 525s Run 'pymol -c /usr/share/pymol/examples/launching/launch_demo.py'... 525s Run 'pymol -c /usr/share/pymol/examples/launching/launch_viewer1.py'... 525s Run 'pymol -c /usr/share/pymol/examples/launching/launch_viewer2.py'... 526s Processing new directory /usr/share/pymol/examples/chempy 526s Run 'pymol -c /usr/share/pymol/examples/chempy/generate_amber.py'... 526s Run 'pymol -c /usr/share/pymol/examples/chempy/generate_mmff.py'... 526s Processing new directory /usr/share/pymol/examples/cookbook 526s Skip /usr/share/pymol/examples/cookbook/area_diff.pml 526s Skip /usr/share/pymol/examples/cookbook/contact.pml 526s Skip /usr/share/pymol/examples/cookbook/multiclip_ray.pml 526s Skip /usr/share/pymol/examples/cookbook/packing.pml 526s Skip /usr/share/pymol/examples/cookbook/packsurf.pml 526s Skip /usr/share/pymol/examples/cookbook/ref_frame.pml 526s Skip /usr/share/pymol/examples/cookbook/scenes2movie.pml 526s Skip /usr/share/pymol/examples/cookbook/seq_match_sele.pml 526s Skip /usr/share/pymol/examples/cookbook/ss_xfer.pml 526s Processing new directory /usr/share/pymol/examples/devel 526s Run 'pymol -c /usr/share/pymol/examples/devel/brick01.py'... 526s Run 'pymol -c /usr/share/pymol/examples/devel/cgo01.py'... 527s Run 'pymol -c /usr/share/pymol/examples/devel/cgo02.py'... 530s Run 'pymol -c /usr/share/pymol/examples/devel/cgo03.py'... 533s Run 'pymol -c /usr/share/pymol/examples/devel/cgo04.py'... 534s Run 'pymol -c /usr/share/pymol/examples/devel/cgo05.py'... 534s Run 'pymol -c /usr/share/pymol/examples/devel/cgo06.py'... 535s Run 'pymol -c /usr/share/pymol/examples/devel/cgo07.py'... 535s Run 'pymol -c /usr/share/pymol/examples/devel/cgo08.py'... 535s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_3Dtext01.py'... 536s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_axes.py'... 536s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_label_hack.py'... 539s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_plane.py'... 539s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model01.py'... 539s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model02.py'... 540s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model03.py'... 543s Run 'pymol -c /usr/share/pymol/examples/devel/click_ordered_list.py'... 543s Run 'pymol -c /usr/share/pymol/examples/devel/count_molecules.py'... 543s Run 'pymol -c /usr/share/pymol/examples/devel/extend_demo01.py'... 544s Run 'pymol -c /usr/share/pymol/examples/devel/gl01.py'... 544s Run 'pymol -c /usr/share/pymol/examples/devel/gl02.py'... 545s Run 'pymol -c /usr/share/pymol/examples/devel/gl03.py'... 548s Skip /usr/share/pymol/examples/devel/importing.py 548s Run 'pymol -c /usr/share/pymol/examples/devel/link_demo.py'... 549s Run 'pymol -c /usr/share/pymol/examples/devel/membrane.py'... 549s Run 'pymol -c /usr/share/pymol/examples/devel/mutate01.pml'... 550s Run 'pymol -c /usr/share/pymol/examples/devel/mutate02.py'... 551s Run 'pymol -c /usr/share/pymol/examples/devel/my_ext_gui.py'... 552s Run 'pymol -c /usr/share/pymol/examples/devel/particle01.py'... 552s Run 'pymol -c /usr/share/pymol/examples/devel/particle02.py'... 552s Run 'pymol -c /usr/share/pymol/examples/devel/pick_wiz.py'... 553s Run 'pymol -c /usr/share/pymol/examples/devel/scenes_to_movie01.pml'... 553s Skip /usr/share/pymol/examples/devel/sd_annotate.pml 553s Run 'pymol -c /usr/share/pymol/examples/devel/sele_wiz.py'... 553s Run 'pymol -c /usr/share/pymol/examples/devel/syncmol.py'... 553s Skip /usr/share/pymol/examples/devel/tkwindow.py 553s Run 'pymol -c /usr/share/pymol/examples/devel/webgui01.py'... 553s Run 'pymol -c /usr/share/pymol/examples/devel/webgui02.py'... 554s /usr/share/pymol/examples/devel/webgui02.py:161: SyntaxWarning: invalid escape sequence '\=' 554s mo = re.search("molid\=([A-Z0-9]+)",self.path) 554s Skip /usr/share/pymol/examples/devel/xmlrpc01.py 554s Run 'pymol -c /usr/share/pymol/examples/devel/xmlrpc02.py'... 554s Processing new directory /usr/share/pymol/examples/launching 554s Run 'pymol -c /usr/share/pymol/examples/launching/launch_demo.py'... 554s Run 'pymol -c /usr/share/pymol/examples/launching/launch_viewer1.py'... 554s Run 'pymol -c /usr/share/pymol/examples/launching/launch_viewer2.py'... 555s autopkgtest [01:27:18]: test command3: -----------------------] 559s autopkgtest [01:27:22]: test command3: - - - - - - - - - - results - - - - - - - - - - 559s command3 PASS (superficial) 563s autopkgtest [01:27:26]: test command4: preparing testbed 565s Reading package lists... 566s Building dependency tree... 566s Reading state information... 566s Starting pkgProblemResolver with broken count: 0 566s Starting 2 pkgProblemResolver with broken count: 0 566s Done 567s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 576s autopkgtest [01:27:39]: test command4: sh debian/tests/call-pymol-scripts /usr/share/pymol/examples/cookbook multiclip_ray 576s autopkgtest [01:27:39]: test command4: [----------------------- 578s Search pymol scripts in /usr/share/pymol/examples/cookbook... 578s Processing new directory /usr/share/pymol/examples/cookbook 578s Run 'pymol -c /usr/share/pymol/examples/cookbook/area_diff.pml'... 578s Run 'pymol -c /usr/share/pymol/examples/cookbook/contact.pml'... 579s Skip /usr/share/pymol/examples/cookbook/multiclip_ray.pml 579s Run 'pymol -c /usr/share/pymol/examples/cookbook/packing.pml'... 580s Run 'pymol -c /usr/share/pymol/examples/cookbook/packsurf.pml'... 598s Run 'pymol -c /usr/share/pymol/examples/cookbook/ref_frame.pml'... 601s Run 'pymol -c /usr/share/pymol/examples/cookbook/scenes2movie.pml'... 602s Run 'pymol -c /usr/share/pymol/examples/cookbook/seq_match_sele.pml'... 603s Run 'pymol -c /usr/share/pymol/examples/cookbook/ss_xfer.pml'... 605s autopkgtest [01:28:08]: test command4: -----------------------] 610s command4 PASS (superficial) 610s autopkgtest [01:28:13]: test command4: - - - - - - - - - - results - - - - - - - - - - 614s autopkgtest [01:28:17]: test command5: preparing testbed 617s Reading package lists... 617s Building dependency tree... 617s Reading state information... 617s Starting pkgProblemResolver with broken count: 0 617s Starting 2 pkgProblemResolver with broken count: 0 617s Done 618s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 627s autopkgtest [01:28:30]: test command5: (cd /usr/share/pymol/examples/devel/ && pymol -c sd_annotate.pml) 627s autopkgtest [01:28:30]: test command5: [----------------------- 629s PyMOL(TM) Molecular Graphics System, Version 3.0.0. 629s Copyright (c) Schrodinger, LLC. 629s All Rights Reserved. 629s 629s Created by Warren L. DeLano, Ph.D. 629s 629s PyMOL is user-supported open-source software. Although some versions 629s are freely available, PyMOL is not in the public domain. 629s 629s If PyMOL is helpful in your work or study, then please volunteer 629s support for our ongoing efforts to create open and affordable scientific 629s software by purchasing a PyMOL Maintenance and/or Support subscription. 629s 629s More information can be found at "http://www.pymol.org". 629s 629s Enter "help" for a list of commands. 629s Enter "help " for information on a specific command. 629s 629s Hit ESC anytime to toggle between text and graphics. 629s 629s Setting: wizard_prompt_mode set to 3. 629s Detected 8 CPU cores. Enabled multithreaded rendering. 629s PyMOL>from pymol.wizard.annotation import load_annotated_sdf 629s PyMOL>cmd.extend('load_annotated_sdf',load_annotated_sdf) 629s PyMOL>wizard annotation 629s PyMOL>set wizard_prompt_mode,3 629s PyMOL>load_annotated_sdf demo.sdf 629s HBA ['[1, 25, 26, 34]\n'] 629s HBD ['[20]\n'] 629s ACD_NUMBER ['MFCD02681585\n'] 629s SCORE ['-222.044\n'] 629s MOLID ['MFCD02681585\n'] 629s HBA ['[1, 21]\n'] 629s HBD ['[]\n'] 629s ACD_NUMBER ['MFCD01567969\n'] 629s SCORE ['-219.984\n'] 629s MOLID ['MFCD01567969\n'] 629s HBA ['[1, 24]\n'] 629s HBD ['[10, 22]\n'] 629s ACD_NUMBER ['MFCD00023789\n'] 629s SCORE ['-219.911\n'] 629s MOLID ['MFCD00023789\n'] 629s HBA ['[1, 11]\n'] 629s HBD ['[3]\n'] 629s ACD_NUMBER ['MFCD02579443\n'] 629s SCORE ['-219.769\n'] 629s MOLID ['MFCD02579443\n'] 629s HBA ['[1, 11]\n'] 629s HBD ['[9]\n'] 629s ACD_NUMBER ['MFCD02579410\n'] 629s SCORE ['-214.809\n'] 629s MOLID ['MFCD02579410\n'] 629s HBA ['[1, 20, 22, 27, 32]\n'] 629s HBD ['[10, 20]\n'] 629s ACD_NUMBER ['MFCD02579135\n'] 629s SCORE ['-213.630\n'] 629s MOLID ['MFCD02579135\n'] 629s HBA ['[1, 11, 14, 21]\n'] 629s HBD ['[]\n'] 629s ACD_NUMBER ['MFCD02681468\n'] 629s SCORE ['-213.462\n'] 629s MOLID ['MFCD02681468\n'] 629s HBA ['[1, 13, 14, 29]\n'] 629s HBD ['[]\n'] 629s ACD_NUMBER ['MFCD00141070\n'] 629s SCORE ['-213.240\n'] 629s MOLID ['MFCD00141070\n'] 629s HBA ['[1, 8]\n'] 629s HBD ['[]\n'] 629s ACD_NUMBER ['MFCD02983625\n'] 629s SCORE ['-211.422\n'] 629s MOLID ['MFCD02983625\n'] 629s HBA ['[1, 11]\n'] 629s HBD ['[3, 12]\n'] 629s ACD_NUMBER ['MFCD00115818\n'] 629s SCORE ['-210.482\n'] 629s MOLID ['MFCD00115818\n'] 629s autopkgtest [01:28:32]: test command5: -----------------------] 634s autopkgtest [01:28:37]: test command5: - - - - - - - - - - results - - - - - - - - - - 634s command5 PASS (superficial) 638s autopkgtest [01:28:41]: @@@@@@@@@@@@@@@@@@@@ summary 638s command1 PASS (superficial) 638s command2 PASS (superficial) 638s command3 PASS (superficial) 638s command4 PASS (superficial) 638s command5 PASS (superficial)