0s autopkgtest [22:03:33]: starting date and time: 2025-02-15 22:03:33+0000 0s autopkgtest [22:03:33]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [22:03:33]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.u7cds1cs/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc,src:iproute2,src:php-twig,src:postgresql-17,src:postgresql-common,src:roundcube --apt-upgrade pymol --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu1 iproute2/6.13.0-1ubuntu1 php-twig/3.19.0-1 postgresql-17/17.3-2 postgresql-common/273 roundcube/1.6.10+dfsg-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-26.secgroup --name adt-plucky-amd64-pymol-20250215-220333-juju-7f2275-prod-proposed-migration-environment-15-c93b9cf4-acf9-4b97-a568-51f0612a5241 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration-amd64 -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 62s autopkgtest [22:04:35]: testbed dpkg architecture: amd64 63s autopkgtest [22:04:36]: testbed apt version: 2.9.28 63s autopkgtest [22:04:36]: @@@@@@@@@@@@@@@@@@@@ test bed setup 63s autopkgtest [22:04:36]: testbed release detected to be: None 64s autopkgtest [22:04:37]: updating testbed package index (apt update) 64s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 64s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 65s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 65s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 65s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.1 kB] 65s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [828 kB] 65s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [74.3 kB] 65s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 65s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [154 kB] 65s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [175 kB] 65s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted i386 Packages [2412 B] 65s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [7984 B] 65s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [403 kB] 65s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [949 kB] 65s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [3520 B] 65s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [10.3 kB] 65s Fetched 2734 kB in 1s (2477 kB/s) 66s Reading package lists... 66s + lsb_release --codename --short 66s + RELEASE=plucky 66s + cat 66s + [ plucky != trusty ] 66s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 66s Reading package lists... 66s Building dependency tree... 66s Reading state information... 67s Calculating upgrade... 67s The following packages will be upgraded: 67s libtasn1-6 67s 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 67s Need to get 51.2 kB of archives. 67s After this operation, 22.5 kB of additional disk space will be used. 67s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libtasn1-6 amd64 4.20.0-2 [51.2 kB] 67s Fetched 51.2 kB in 0s (184 kB/s) 68s (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 ... 108914 files and directories currently installed.) 68s Preparing to unpack .../libtasn1-6_4.20.0-2_amd64.deb ... 68s Unpacking libtasn1-6:amd64 (4.20.0-2) over (4.19.0-3build1) ... 68s Setting up libtasn1-6:amd64 (4.20.0-2) ... 68s Processing triggers for libc-bin (2.40-4ubuntu1) ... 68s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 68s + /usr/lib/apt/apt-helper analyze-pattern ?true 68s + uname -r 68s + sed s/\./\\./g 68s + running_kernel_pattern=^linux-.*6\.12\.0-15-generic.* 68s + apt list ?obsolete 68s + tail -n+2 68s + cut -d/ -f1 68s + grep -v ^linux-.*6\.12\.0-15-generic.* 68s + true 68s + obsolete_pkgs= 68s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove 68s Reading package lists... 68s Building dependency tree... 68s Reading state information... 68s 0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded. 68s + grep -q trusty /etc/lsb-release 68s + [ ! -d /usr/share/doc/unattended-upgrades ] 68s + [ ! -d /usr/share/doc/lxd ] 68s + [ ! -d /usr/share/doc/lxd-client ] 68s + [ ! -d /usr/share/doc/snapd ] 68s + type iptables 68s + cat 68s + chmod 755 /etc/rc.local 68s + . /etc/rc.local 68s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 68s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 68s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 68s + uname -m 68s + [ x86_64 = ppc64le ] 68s + [ -d /run/systemd/system ] 68s + systemd-detect-virt --quiet --vm 68s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 68s + cat 68s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 68s + echo COMPRESS=lz4 69s autopkgtest [22:04:42]: upgrading testbed (apt dist-upgrade and autopurge) 69s Reading package lists... 69s Building dependency tree... 69s Reading state information... 69s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 69s Starting 2 pkgProblemResolver with broken count: 0 69s Done 70s Entering ResolveByKeep 70s 70s The following packages will be upgraded: 70s iproute2 libc-bin libc-dev-bin libc6 libc6-dev locales 71s 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 71s Need to get 11.8 MB of archives. 71s After this operation, 746 kB of additional disk space will be used. 71s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-dev-bin amd64 2.41-1ubuntu1 [24.7 kB] 71s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6-dev amd64 2.41-1ubuntu1 [2182 kB] 72s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 locales all 2.41-1ubuntu1 [4246 kB] 72s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6 amd64 2.41-1ubuntu1 [3327 kB] 72s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-bin amd64 2.41-1ubuntu1 [701 kB] 72s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 iproute2 amd64 6.13.0-1ubuntu1 [1277 kB] 72s Preconfiguring packages ... 73s Fetched 11.8 MB in 2s (5901 kB/s) 73s (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 ... 108914 files and directories currently installed.) 73s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu1_amd64.deb ... 73s Unpacking libc-dev-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 73s Preparing to unpack .../libc6-dev_2.41-1ubuntu1_amd64.deb ... 73s Unpacking libc6-dev:amd64 (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 73s Preparing to unpack .../locales_2.41-1ubuntu1_all.deb ... 73s Unpacking locales (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 73s Preparing to unpack .../libc6_2.41-1ubuntu1_amd64.deb ... 73s Checking for services that may need to be restarted... 73s Checking init scripts... 73s Checking for services that may need to be restarted... 73s Checking init scripts... 73s Stopping some services possibly affected by the upgrade (will be restarted later): 73s cron: stopping...done. 73s 73s Unpacking libc6:amd64 (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 73s Setting up libc6:amd64 (2.41-1ubuntu1) ... 74s Checking for services that may need to be restarted... 74s Checking init scripts... 74s Restarting services possibly affected by the upgrade: 74s cron: restarting...done. 74s 74s Services restarted successfully. 74s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 108915 files and directories currently installed.) 74s Preparing to unpack .../libc-bin_2.41-1ubuntu1_amd64.deb ... 74s Unpacking libc-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 74s Setting up libc-bin (2.41-1ubuntu1) ... 74s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 108915 files and directories currently installed.) 74s Preparing to unpack .../iproute2_6.13.0-1ubuntu1_amd64.deb ... 74s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 74s Setting up iproute2 (6.13.0-1ubuntu1) ... 74s Setting up locales (2.41-1ubuntu1) ... 74s Installing new version of config file /etc/locale.alias ... 75s Generating locales (this might take a while)... 76s en_US.UTF-8... done 76s Generation complete. 76s Setting up libc-dev-bin (2.41-1ubuntu1) ... 76s Setting up libc6-dev:amd64 (2.41-1ubuntu1) ... 76s Processing triggers for man-db (2.13.0-1) ... 77s Processing triggers for systemd (257.2-3ubuntu1) ... 78s Reading package lists... 79s Building dependency tree... 79s Reading state information... 79s Starting pkgProblemResolver with broken count: 0 79s Starting 2 pkgProblemResolver with broken count: 0 79s Done 79s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 82s autopkgtest [22:04:55]: testbed running kernel: Linux 6.12.0-15-generic #15-Ubuntu SMP PREEMPT_DYNAMIC Tue Feb 4 16:02:16 UTC 2025 82s autopkgtest [22:04:55]: @@@@@@@@@@@@@@@@@@@@ apt-source pymol 87s Get:1 http://ftpmaster.internal/ubuntu plucky/universe pymol 3.0.0+dfsg-3 (dsc) [2325 B] 87s Get:2 http://ftpmaster.internal/ubuntu plucky/universe pymol 3.0.0+dfsg-3 (tar) [22.0 MB] 87s Get:3 http://ftpmaster.internal/ubuntu plucky/universe pymol 3.0.0+dfsg-3 (diff) [57.7 kB] 87s gpgv: Signature made Mon Feb 3 00:17:56 2025 UTC 87s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 87s gpgv: issuer "tchet@debian.org" 87s gpgv: Can't check signature: No public key 87s dpkg-source: warning: cannot verify inline signature for ./pymol_3.0.0+dfsg-3.dsc: no acceptable signature found 88s autopkgtest [22:05:01]: testing package pymol version 3.0.0+dfsg-3 89s autopkgtest [22:05:02]: build not needed 92s autopkgtest [22:05:05]: test command1: preparing testbed 92s Reading package lists... 92s Building dependency tree... 92s Reading state information... 93s Starting pkgProblemResolver with broken count: 0 93s Starting 2 pkgProblemResolver with broken count: 0 93s Done 93s The following NEW packages will be installed: 93s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libaec0 93s libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libcups2t64 93s libdouble-conversion3 libdrm-intel1 libdrm-radeon1 libegl-mesa0 libegl1 93s libfontconfig1 libgbm1 libgfortran5 libgl1 libgl1-mesa-dri libglapi-mesa 93s libglew2.2 libglu1-mesa libglvnd0 libglx-mesa0 libglx0 libgomp1 93s libgraphite2-3 libharfbuzz0b libhdf5-310 libhdf5-hl-310 libice6 libinput-bin 93s libinput10 libjpeg-turbo8 libjpeg8 liblapack3 libmd4c0 libmtdev1t64 93s libnetcdf19t64 libopengl0 libpciaccess0 libpcre2-16-0 libqt5core5t64 93s libqt5dbus5t64 libqt5designer5 libqt5gui5t64 libqt5help5 libqt5network5t64 93s libqt5opengl5t64 libqt5printsupport5t64 libqt5sql5t64 libqt5test5t64 93s libqt5widgets5t64 libqt5xml5t64 libsm6 libsz2 libvulkan1 libwacom-common 93s libwacom9 libwayland-client0 libwayland-server0 libx11-xcb1 libxcb-dri3-0 93s libxcb-glx0 libxcb-icccm4 libxcb-image0 libxcb-keysyms1 libxcb-present0 93s libxcb-randr0 libxcb-render-util0 libxcb-render0 libxcb-shape0 libxcb-shm0 93s libxcb-sync1 libxcb-util1 libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 93s libxcb-xkb1 libxkbcommon-x11-0 libxrender1 libxshmfence1 libxxf86vm1 93s mesa-libgallium pymol pymol-data python3-legacy-cgi python3-numpy 93s python3-opengl python3-pymol python3-pyqt5 python3-pyqt5.qtopengl 93s python3-pyqt5.sip x11-common 93s 0 upgraded, 95 newly installed, 0 to remove and 0 not upgraded. 93s Need to get 55.0 MB of archives. 93s After this operation, 221 MB of additional disk space will be used. 93s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 94s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 94s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 94s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 94s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig amd64 2.15.0-1.1ubuntu2 [180 kB] 94s Get:6 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 94s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-common-data amd64 0.8-14ubuntu1 [30.5 kB] 94s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-common3 amd64 0.8-14ubuntu1 [23.3 kB] 94s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-client3 amd64 0.8-14ubuntu1 [27.5 kB] 94s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB] 94s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libcups2t64 amd64 2.4.11-0ubuntu2 [292 kB] 94s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 libdouble-conversion3 amd64 3.3.0-1build1 [40.3 kB] 94s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libpciaccess0 amd64 0.17-3build1 [18.6 kB] 94s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libdrm-intel1 amd64 2.4.123-1 [68.8 kB] 94s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libdrm-radeon1 amd64 2.4.123-1 [25.3 kB] 94s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-server0 amd64 1.23.1-1 [36.6 kB] 94s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libglapi-mesa amd64 24.3.4-3ubuntu1 [42.9 kB] 94s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libx11-xcb1 amd64 2:1.8.10-2 [7944 B] 94s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-dri3-0 amd64 1.17.0-2 [7508 B] 94s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-present0 amd64 1.17.0-2 [6064 B] 94s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-randr0 amd64 1.17.0-2 [17.9 kB] 94s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-sync1 amd64 1.17.0-2 [9312 B] 94s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-xfixes0 amd64 1.17.0-2 [10.2 kB] 94s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libxshmfence1 amd64 1.3-1build5 [4764 B] 94s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 mesa-libgallium amd64 24.3.4-3ubuntu1 [11.9 MB] 95s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libgbm1 amd64 24.3.4-3ubuntu1 [33.3 kB] 95s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-client0 amd64 1.23.1-1 [29.1 kB] 95s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 95s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libegl-mesa0 amd64 24.3.4-3ubuntu1 [136 kB] 95s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-17ubuntu1 [910 kB] 95s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libvulkan1 amd64 1.4.304.0-1 [147 kB] 95s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libgl1-mesa-dri amd64 24.3.4-3ubuntu1 [34.7 kB] 95s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libglvnd0 amd64 1.7.0-1build1 [69.6 kB] 95s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-glx0 amd64 1.17.0-2 [24.8 kB] 95s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libxxf86vm1 amd64 1:1.1.4-1build4 [9282 B] 95s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libglx-mesa0 amd64 24.3.4-3ubuntu1 [146 kB] 95s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libglx0 amd64 1.7.0-1build1 [38.6 kB] 95s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libgl1 amd64 1.7.0-1build1 [102 kB] 95s Get:39 http://ftpmaster.internal/ubuntu plucky/universe amd64 libglew2.2 amd64 2.2.0-4build1 [187 kB] 95s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-17ubuntu1 [148 kB] 95s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 95s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB] 95s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 95s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-310 amd64 1.14.5+repack-3 [1519 kB] 95s Get:45 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [62.6 kB] 95s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 95s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB] 95s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libwacom-common all 2.14.0-1 [103 kB] 95s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libwacom9 amd64 2.14.0-1 [27.3 kB] 95s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libinput-bin amd64 1.27.1-1 [23.4 kB] 95s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libmtdev1t64 amd64 1.1.7-1 [16.3 kB] 95s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libinput10 amd64 1.27.1-1 [155 kB] 95s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB] 95s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 95s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB] 96s Get:56 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmd4c0 amd64 0.5.2-2 [50.1 kB] 96s Get:57 http://ftpmaster.internal/ubuntu plucky/universe amd64 libnetcdf19t64 amd64 1:4.9.2-6ubuntu2 [531 kB] 96s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-16-0 amd64 10.42-4ubuntu3 [214 kB] 96s Get:59 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5core5t64 amd64 5.15.15+dfsg-1ubuntu2 [2037 kB] 96s Get:60 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5dbus5t64 amd64 5.15.15+dfsg-1ubuntu2 [221 kB] 96s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libegl1 amd64 1.7.0-1build1 [28.7 kB] 96s Get:62 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5network5t64 amd64 5.15.15+dfsg-1ubuntu2 [724 kB] 96s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB] 96s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-icccm4 amd64 0.4.2-1 [11.1 kB] 96s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-util1 amd64 0.4.1-1 [11.2 kB] 96s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-image0 amd64 0.4.0-2build1 [10.8 kB] 96s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-keysyms1 amd64 0.4.1-1 [8738 B] 96s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 96s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render-util0 amd64 0.3.10-1 [10.8 kB] 96s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shape0 amd64 1.17.0-2 [6092 B] 96s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-xinerama0 amd64 1.17.0-2 [5412 B] 96s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-xinput0 amd64 1.17.0-2 [33.2 kB] 96s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-xkb1 amd64 1.17.0-2 [32.3 kB] 96s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libxkbcommon-x11-0 amd64 1.7.0-2 [15.2 kB] 96s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 96s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5gui5t64 amd64 5.15.15+dfsg-1ubuntu2 [3790 kB] 96s Get:77 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5widgets5t64 amd64 5.15.15+dfsg-1ubuntu2 [2560 kB] 96s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5xml5t64 amd64 5.15.15+dfsg-1ubuntu2 [124 kB] 96s Get:79 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5designer5 amd64 5.15.15-6 [2827 kB] 96s Get:80 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5sql5t64 amd64 5.15.15+dfsg-1ubuntu2 [122 kB] 96s Get:81 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5help5 amd64 5.15.15-6 [162 kB] 96s Get:82 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5opengl5t64 amd64 5.15.15+dfsg-1ubuntu2 [150 kB] 96s Get:83 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5printsupport5t64 amd64 5.15.15+dfsg-1ubuntu2 [208 kB] 96s Get:84 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqt5test5t64 amd64 5.15.15+dfsg-1ubuntu2 [149 kB] 96s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-legacy-cgi all 2.6.1-2 [16.3 kB] 96s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-13 [5319 kB] 97s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 libopengl0 amd64 1.7.0-1build1 [32.8 kB] 97s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 libglu1-mesa amd64 9.0.2-1.1build1 [152 kB] 97s Get:89 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-opengl all 3.1.7+dfsg-1 [612 kB] 97s Get:90 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyqt5.sip amd64 12.17.0-1 [78.3 kB] 97s Get:91 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyqt5 amd64 5.15.11+dfsg-1build2 [2725 kB] 97s Get:92 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyqt5.qtopengl amd64 5.15.11+dfsg-1build2 [128 kB] 97s Get:93 http://ftpmaster.internal/ubuntu plucky/universe amd64 pymol-data all 3.0.0+dfsg-3 [1394 kB] 97s Get:94 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pymol amd64 3.0.0+dfsg-3 [7711 kB] 97s Get:95 http://ftpmaster.internal/ubuntu plucky/universe amd64 pymol all 3.0.0+dfsg-3 [126 kB] 98s Fetched 55.0 MB in 4s (12.8 MB/s) 98s Selecting previously unselected package fonts-dejavu-mono. 98s (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 ... 108916 files and directories currently installed.) 98s Preparing to unpack .../00-fonts-dejavu-mono_2.37-8_all.deb ... 98s Unpacking fonts-dejavu-mono (2.37-8) ... 98s Selecting previously unselected package fonts-dejavu-core. 98s Preparing to unpack .../01-fonts-dejavu-core_2.37-8_all.deb ... 98s Unpacking fonts-dejavu-core (2.37-8) ... 98s Selecting previously unselected package fontconfig-config. 98s Preparing to unpack .../02-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 98s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 98s Selecting previously unselected package libfontconfig1:amd64. 98s Preparing to unpack .../03-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 98s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 98s Selecting previously unselected package fontconfig. 98s Preparing to unpack .../04-fontconfig_2.15.0-1.1ubuntu2_amd64.deb ... 98s Unpacking fontconfig (2.15.0-1.1ubuntu2) ... 98s Selecting previously unselected package libaec0:amd64. 98s Preparing to unpack .../05-libaec0_1.1.3-1_amd64.deb ... 98s Unpacking libaec0:amd64 (1.1.3-1) ... 98s Selecting previously unselected package libavahi-common-data:amd64. 98s Preparing to unpack .../06-libavahi-common-data_0.8-14ubuntu1_amd64.deb ... 98s Unpacking libavahi-common-data:amd64 (0.8-14ubuntu1) ... 98s Selecting previously unselected package libavahi-common3:amd64. 98s Preparing to unpack .../07-libavahi-common3_0.8-14ubuntu1_amd64.deb ... 98s Unpacking libavahi-common3:amd64 (0.8-14ubuntu1) ... 98s Selecting previously unselected package libavahi-client3:amd64. 98s Preparing to unpack .../08-libavahi-client3_0.8-14ubuntu1_amd64.deb ... 98s Unpacking libavahi-client3:amd64 (0.8-14ubuntu1) ... 98s Selecting previously unselected package libblas3:amd64. 98s Preparing to unpack .../09-libblas3_3.12.1-2_amd64.deb ... 98s Unpacking libblas3:amd64 (3.12.1-2) ... 98s Selecting previously unselected package libcups2t64:amd64. 98s Preparing to unpack .../10-libcups2t64_2.4.11-0ubuntu2_amd64.deb ... 98s Unpacking libcups2t64:amd64 (2.4.11-0ubuntu2) ... 98s Selecting previously unselected package libdouble-conversion3:amd64. 98s Preparing to unpack .../11-libdouble-conversion3_3.3.0-1build1_amd64.deb ... 98s Unpacking libdouble-conversion3:amd64 (3.3.0-1build1) ... 98s Selecting previously unselected package libpciaccess0:amd64. 98s Preparing to unpack .../12-libpciaccess0_0.17-3build1_amd64.deb ... 98s Unpacking libpciaccess0:amd64 (0.17-3build1) ... 98s Selecting previously unselected package libdrm-intel1:amd64. 98s Preparing to unpack .../13-libdrm-intel1_2.4.123-1_amd64.deb ... 98s Unpacking libdrm-intel1:amd64 (2.4.123-1) ... 98s Selecting previously unselected package libdrm-radeon1:amd64. 98s Preparing to unpack .../14-libdrm-radeon1_2.4.123-1_amd64.deb ... 98s Unpacking libdrm-radeon1:amd64 (2.4.123-1) ... 98s Selecting previously unselected package libwayland-server0:amd64. 98s Preparing to unpack .../15-libwayland-server0_1.23.1-1_amd64.deb ... 98s Unpacking libwayland-server0:amd64 (1.23.1-1) ... 98s Selecting previously unselected package libglapi-mesa:amd64. 98s Preparing to unpack .../16-libglapi-mesa_24.3.4-3ubuntu1_amd64.deb ... 98s Unpacking libglapi-mesa:amd64 (24.3.4-3ubuntu1) ... 98s Selecting previously unselected package libx11-xcb1:amd64. 98s Preparing to unpack .../17-libx11-xcb1_2%3a1.8.10-2_amd64.deb ... 98s Unpacking libx11-xcb1:amd64 (2:1.8.10-2) ... 98s Selecting previously unselected package libxcb-dri3-0:amd64. 98s Preparing to unpack .../18-libxcb-dri3-0_1.17.0-2_amd64.deb ... 98s Unpacking libxcb-dri3-0:amd64 (1.17.0-2) ... 99s Selecting previously unselected package libxcb-present0:amd64. 99s Preparing to unpack .../19-libxcb-present0_1.17.0-2_amd64.deb ... 99s Unpacking libxcb-present0:amd64 (1.17.0-2) ... 99s Selecting previously unselected package libxcb-randr0:amd64. 99s Preparing to unpack .../20-libxcb-randr0_1.17.0-2_amd64.deb ... 99s Unpacking libxcb-randr0:amd64 (1.17.0-2) ... 99s Selecting previously unselected package libxcb-sync1:amd64. 99s Preparing to unpack .../21-libxcb-sync1_1.17.0-2_amd64.deb ... 99s Unpacking libxcb-sync1:amd64 (1.17.0-2) ... 99s Selecting previously unselected package libxcb-xfixes0:amd64. 99s Preparing to unpack .../22-libxcb-xfixes0_1.17.0-2_amd64.deb ... 99s Unpacking libxcb-xfixes0:amd64 (1.17.0-2) ... 99s Selecting previously unselected package libxshmfence1:amd64. 99s Preparing to unpack .../23-libxshmfence1_1.3-1build5_amd64.deb ... 99s Unpacking libxshmfence1:amd64 (1.3-1build5) ... 99s Selecting previously unselected package mesa-libgallium:amd64. 99s Preparing to unpack .../24-mesa-libgallium_24.3.4-3ubuntu1_amd64.deb ... 99s Unpacking mesa-libgallium:amd64 (24.3.4-3ubuntu1) ... 99s Selecting previously unselected package libgbm1:amd64. 99s Preparing to unpack .../25-libgbm1_24.3.4-3ubuntu1_amd64.deb ... 99s Unpacking libgbm1:amd64 (24.3.4-3ubuntu1) ... 99s Selecting previously unselected package libwayland-client0:amd64. 99s Preparing to unpack .../26-libwayland-client0_1.23.1-1_amd64.deb ... 99s Unpacking libwayland-client0:amd64 (1.23.1-1) ... 99s Selecting previously unselected package libxcb-shm0:amd64. 99s Preparing to unpack .../27-libxcb-shm0_1.17.0-2_amd64.deb ... 99s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 99s Selecting previously unselected package libegl-mesa0:amd64. 99s Preparing to unpack .../28-libegl-mesa0_24.3.4-3ubuntu1_amd64.deb ... 99s Unpacking libegl-mesa0:amd64 (24.3.4-3ubuntu1) ... 99s Selecting previously unselected package libgfortran5:amd64. 99s Preparing to unpack .../29-libgfortran5_14.2.0-17ubuntu1_amd64.deb ... 99s Unpacking libgfortran5:amd64 (14.2.0-17ubuntu1) ... 99s Selecting previously unselected package libvulkan1:amd64. 99s Preparing to unpack .../30-libvulkan1_1.4.304.0-1_amd64.deb ... 99s Unpacking libvulkan1:amd64 (1.4.304.0-1) ... 99s Selecting previously unselected package libgl1-mesa-dri:amd64. 99s Preparing to unpack .../31-libgl1-mesa-dri_24.3.4-3ubuntu1_amd64.deb ... 99s Unpacking libgl1-mesa-dri:amd64 (24.3.4-3ubuntu1) ... 99s Selecting previously unselected package libglvnd0:amd64. 99s Preparing to unpack .../32-libglvnd0_1.7.0-1build1_amd64.deb ... 99s Unpacking libglvnd0:amd64 (1.7.0-1build1) ... 99s Selecting previously unselected package libxcb-glx0:amd64. 99s Preparing to unpack .../33-libxcb-glx0_1.17.0-2_amd64.deb ... 99s Unpacking libxcb-glx0:amd64 (1.17.0-2) ... 99s Selecting previously unselected package libxxf86vm1:amd64. 99s Preparing to unpack .../34-libxxf86vm1_1%3a1.1.4-1build4_amd64.deb ... 99s Unpacking libxxf86vm1:amd64 (1:1.1.4-1build4) ... 99s Selecting previously unselected package libglx-mesa0:amd64. 99s Preparing to unpack .../35-libglx-mesa0_24.3.4-3ubuntu1_amd64.deb ... 99s Unpacking libglx-mesa0:amd64 (24.3.4-3ubuntu1) ... 99s Selecting previously unselected package libglx0:amd64. 99s Preparing to unpack .../36-libglx0_1.7.0-1build1_amd64.deb ... 99s Unpacking libglx0:amd64 (1.7.0-1build1) ... 99s Selecting previously unselected package libgl1:amd64. 99s Preparing to unpack .../37-libgl1_1.7.0-1build1_amd64.deb ... 99s Unpacking libgl1:amd64 (1.7.0-1build1) ... 99s Selecting previously unselected package libglew2.2:amd64. 99s Preparing to unpack .../38-libglew2.2_2.2.0-4build1_amd64.deb ... 99s Unpacking libglew2.2:amd64 (2.2.0-4build1) ... 99s Selecting previously unselected package libgomp1:amd64. 99s Preparing to unpack .../39-libgomp1_14.2.0-17ubuntu1_amd64.deb ... 99s Unpacking libgomp1:amd64 (14.2.0-17ubuntu1) ... 99s Selecting previously unselected package libgraphite2-3:amd64. 99s Preparing to unpack .../40-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 99s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 99s Selecting previously unselected package libharfbuzz0b:amd64. 99s Preparing to unpack .../41-libharfbuzz0b_10.2.0-1_amd64.deb ... 99s Unpacking libharfbuzz0b:amd64 (10.2.0-1) ... 99s Selecting previously unselected package libsz2:amd64. 99s Preparing to unpack .../42-libsz2_1.1.3-1_amd64.deb ... 99s Unpacking libsz2:amd64 (1.1.3-1) ... 99s Selecting previously unselected package libhdf5-310:amd64. 99s Preparing to unpack .../43-libhdf5-310_1.14.5+repack-3_amd64.deb ... 99s Unpacking libhdf5-310:amd64 (1.14.5+repack-3) ... 99s Selecting previously unselected package libhdf5-hl-310:amd64. 99s Preparing to unpack .../44-libhdf5-hl-310_1.14.5+repack-3_amd64.deb ... 99s Unpacking libhdf5-hl-310:amd64 (1.14.5+repack-3) ... 99s Selecting previously unselected package x11-common. 99s Preparing to unpack .../45-x11-common_1%3a7.7+23ubuntu3_all.deb ... 99s Unpacking x11-common (1:7.7+23ubuntu3) ... 100s Selecting previously unselected package libice6:amd64. 100s Preparing to unpack .../46-libice6_2%3a1.1.1-1_amd64.deb ... 100s Unpacking libice6:amd64 (2:1.1.1-1) ... 100s Selecting previously unselected package libwacom-common. 100s Preparing to unpack .../47-libwacom-common_2.14.0-1_all.deb ... 100s Unpacking libwacom-common (2.14.0-1) ... 100s Selecting previously unselected package libwacom9:amd64. 100s Preparing to unpack .../48-libwacom9_2.14.0-1_amd64.deb ... 100s Unpacking libwacom9:amd64 (2.14.0-1) ... 100s Selecting previously unselected package libinput-bin. 100s Preparing to unpack .../49-libinput-bin_1.27.1-1_amd64.deb ... 100s Unpacking libinput-bin (1.27.1-1) ... 100s Selecting previously unselected package libmtdev1t64:amd64. 100s Preparing to unpack .../50-libmtdev1t64_1.1.7-1_amd64.deb ... 100s Unpacking libmtdev1t64:amd64 (1.1.7-1) ... 100s Selecting previously unselected package libinput10:amd64. 100s Preparing to unpack .../51-libinput10_1.27.1-1_amd64.deb ... 100s Unpacking libinput10:amd64 (1.27.1-1) ... 100s Selecting previously unselected package libjpeg-turbo8:amd64. 100s Preparing to unpack .../52-libjpeg-turbo8_2.1.5-3ubuntu2_amd64.deb ... 100s Unpacking libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ... 100s Selecting previously unselected package libjpeg8:amd64. 100s Preparing to unpack .../53-libjpeg8_8c-2ubuntu11_amd64.deb ... 100s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 100s Selecting previously unselected package liblapack3:amd64. 100s Preparing to unpack .../54-liblapack3_3.12.1-2_amd64.deb ... 100s Unpacking liblapack3:amd64 (3.12.1-2) ... 100s Selecting previously unselected package libmd4c0:amd64. 100s Preparing to unpack .../55-libmd4c0_0.5.2-2_amd64.deb ... 100s Unpacking libmd4c0:amd64 (0.5.2-2) ... 100s Selecting previously unselected package libnetcdf19t64:amd64. 100s Preparing to unpack .../56-libnetcdf19t64_1%3a4.9.2-6ubuntu2_amd64.deb ... 100s Unpacking libnetcdf19t64:amd64 (1:4.9.2-6ubuntu2) ... 100s Selecting previously unselected package libpcre2-16-0:amd64. 100s Preparing to unpack .../57-libpcre2-16-0_10.42-4ubuntu3_amd64.deb ... 100s Unpacking libpcre2-16-0:amd64 (10.42-4ubuntu3) ... 100s Selecting previously unselected package libqt5core5t64:amd64. 100s Preparing to unpack .../58-libqt5core5t64_5.15.15+dfsg-1ubuntu2_amd64.deb ... 100s Unpacking libqt5core5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 100s Selecting previously unselected package libqt5dbus5t64:amd64. 100s Preparing to unpack .../59-libqt5dbus5t64_5.15.15+dfsg-1ubuntu2_amd64.deb ... 100s Unpacking libqt5dbus5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 100s Selecting previously unselected package libegl1:amd64. 100s Preparing to unpack .../60-libegl1_1.7.0-1build1_amd64.deb ... 100s Unpacking libegl1:amd64 (1.7.0-1build1) ... 100s Selecting previously unselected package libqt5network5t64:amd64. 100s Preparing to unpack .../61-libqt5network5t64_5.15.15+dfsg-1ubuntu2_amd64.deb ... 100s Unpacking libqt5network5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 100s Selecting previously unselected package libsm6:amd64. 100s Preparing to unpack .../62-libsm6_2%3a1.2.4-1_amd64.deb ... 100s Unpacking libsm6:amd64 (2:1.2.4-1) ... 100s Selecting previously unselected package libxcb-icccm4:amd64. 100s Preparing to unpack .../63-libxcb-icccm4_0.4.2-1_amd64.deb ... 100s Unpacking libxcb-icccm4:amd64 (0.4.2-1) ... 100s Selecting previously unselected package libxcb-util1:amd64. 100s Preparing to unpack .../64-libxcb-util1_0.4.1-1_amd64.deb ... 100s Unpacking libxcb-util1:amd64 (0.4.1-1) ... 100s Selecting previously unselected package libxcb-image0:amd64. 100s Preparing to unpack .../65-libxcb-image0_0.4.0-2build1_amd64.deb ... 100s Unpacking libxcb-image0:amd64 (0.4.0-2build1) ... 100s Selecting previously unselected package libxcb-keysyms1:amd64. 100s Preparing to unpack .../66-libxcb-keysyms1_0.4.1-1_amd64.deb ... 100s Unpacking libxcb-keysyms1:amd64 (0.4.1-1) ... 100s Selecting previously unselected package libxcb-render0:amd64. 100s Preparing to unpack .../67-libxcb-render0_1.17.0-2_amd64.deb ... 100s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 100s Selecting previously unselected package libxcb-render-util0:amd64. 100s Preparing to unpack .../68-libxcb-render-util0_0.3.10-1_amd64.deb ... 100s Unpacking libxcb-render-util0:amd64 (0.3.10-1) ... 100s Selecting previously unselected package libxcb-shape0:amd64. 100s Preparing to unpack .../69-libxcb-shape0_1.17.0-2_amd64.deb ... 100s Unpacking libxcb-shape0:amd64 (1.17.0-2) ... 100s Selecting previously unselected package libxcb-xinerama0:amd64. 100s Preparing to unpack .../70-libxcb-xinerama0_1.17.0-2_amd64.deb ... 100s Unpacking libxcb-xinerama0:amd64 (1.17.0-2) ... 100s Selecting previously unselected package libxcb-xinput0:amd64. 100s Preparing to unpack .../71-libxcb-xinput0_1.17.0-2_amd64.deb ... 100s Unpacking libxcb-xinput0:amd64 (1.17.0-2) ... 100s Selecting previously unselected package libxcb-xkb1:amd64. 100s Preparing to unpack .../72-libxcb-xkb1_1.17.0-2_amd64.deb ... 100s Unpacking libxcb-xkb1:amd64 (1.17.0-2) ... 100s Selecting previously unselected package libxkbcommon-x11-0:amd64. 100s Preparing to unpack .../73-libxkbcommon-x11-0_1.7.0-2_amd64.deb ... 100s Unpacking libxkbcommon-x11-0:amd64 (1.7.0-2) ... 100s Selecting previously unselected package libxrender1:amd64. 100s Preparing to unpack .../74-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 100s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 100s Selecting previously unselected package libqt5gui5t64:amd64. 100s Preparing to unpack .../75-libqt5gui5t64_5.15.15+dfsg-1ubuntu2_amd64.deb ... 100s Unpacking libqt5gui5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 101s Selecting previously unselected package libqt5widgets5t64:amd64. 101s Preparing to unpack .../76-libqt5widgets5t64_5.15.15+dfsg-1ubuntu2_amd64.deb ... 101s Unpacking libqt5widgets5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 101s Selecting previously unselected package libqt5xml5t64:amd64. 101s Preparing to unpack .../77-libqt5xml5t64_5.15.15+dfsg-1ubuntu2_amd64.deb ... 101s Unpacking libqt5xml5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 101s Selecting previously unselected package libqt5designer5:amd64. 101s Preparing to unpack .../78-libqt5designer5_5.15.15-6_amd64.deb ... 101s Unpacking libqt5designer5:amd64 (5.15.15-6) ... 101s Selecting previously unselected package libqt5sql5t64:amd64. 101s Preparing to unpack .../79-libqt5sql5t64_5.15.15+dfsg-1ubuntu2_amd64.deb ... 101s Unpacking libqt5sql5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 101s Selecting previously unselected package libqt5help5:amd64. 101s Preparing to unpack .../80-libqt5help5_5.15.15-6_amd64.deb ... 101s Unpacking libqt5help5:amd64 (5.15.15-6) 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101s Unpacking python3-numpy (1:1.26.4+ds-13) ... 101s Selecting previously unselected package libopengl0:amd64. 101s Preparing to unpack .../86-libopengl0_1.7.0-1build1_amd64.deb ... 101s Unpacking libopengl0:amd64 (1.7.0-1build1) ... 101s Selecting previously unselected package libglu1-mesa:amd64. 101s Preparing to unpack .../87-libglu1-mesa_9.0.2-1.1build1_amd64.deb ... 101s Unpacking libglu1-mesa:amd64 (9.0.2-1.1build1) ... 101s Selecting previously unselected package python3-opengl. 101s Preparing to unpack .../88-python3-opengl_3.1.7+dfsg-1_all.deb ... 101s Unpacking python3-opengl (3.1.7+dfsg-1) ... 101s Selecting previously unselected package python3-pyqt5.sip. 101s Preparing to unpack .../89-python3-pyqt5.sip_12.17.0-1_amd64.deb ... 101s Unpacking python3-pyqt5.sip (12.17.0-1) ... 101s Selecting previously unselected package python3-pyqt5. 101s Preparing to unpack .../90-python3-pyqt5_5.15.11+dfsg-1build2_amd64.deb ... 101s Unpacking python3-pyqt5 (5.15.11+dfsg-1build2) ... 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... 102s Setting up libdouble-conversion3:amd64 (3.3.0-1build1) ... 102s Setting up libxcb-xfixes0:amd64 (1.17.0-2) ... 102s Setting up libxcb-xinput0:amd64 (1.17.0-2) ... 102s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 102s Setting up libxcb-render0:amd64 (1.17.0-2) ... 102s Setting up libdrm-radeon1:amd64 (2.4.123-1) ... 102s Setting up libglvnd0:amd64 (1.7.0-1build1) ... 102s Setting up libxcb-glx0:amd64 (1.17.0-2) ... 102s Setting up libdrm-intel1:amd64 (2.4.123-1) ... 102s Setting up libxcb-keysyms1:amd64 (0.4.1-1) ... 102s Setting up libxcb-shape0:amd64 (1.17.0-2) ... 102s Setting up x11-common (1:7.7+23ubuntu3) ... 102s Setting up libxcb-render-util0:amd64 (0.3.10-1) ... 102s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 102s Setting up libxcb-icccm4:amd64 (0.4.2-1) ... 102s Setting up libgomp1:amd64 (14.2.0-17ubuntu1) ... 102s Setting up libpcre2-16-0:amd64 (10.42-4ubuntu3) ... 102s Setting up libaec0:amd64 (1.1.3-1) ... 102s Setting up libopengl0:amd64 (1.7.0-1build1) ... 102s Setting up libxcb-util1:amd64 (0.4.1-1) ... 102s Setting up libxxf86vm1:amd64 (1:1.1.4-1build4) ... 102s Setting up libxcb-xkb1:amd64 (1.17.0-2) ... 102s Setting up libxcb-image0:amd64 (0.4.0-2build1) ... 102s Setting up libxcb-present0:amd64 (1.17.0-2) ... 102s Setting up libqt5core5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 102s Setting up libblas3:amd64 (3.12.1-2) ... 102s 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 102s Setting up libxcb-xinerama0:amd64 (1.17.0-2) ... 102s Setting up libxcb-sync1:amd64 (1.17.0-2) ... 102s Setting up libavahi-common-data:amd64 (0.8-14ubuntu1) ... 102s Setting up pymol-data (3.0.0+dfsg-3) ... 102s Setting up libxkbcommon-x11-0:amd64 (1.7.0-2) ... 102s Setting up fonts-dejavu-mono (2.37-8) ... 102s Setting up fonts-dejavu-core (2.37-8) ... 102s Setting up libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ... 102s Setting up libglapi-mesa:amd64 (24.3.4-3ubuntu1) ... 102s Setting up libgfortran5:amd64 (14.2.0-17ubuntu1) ... 102s Setting up libvulkan1:amd64 (1.4.304.0-1) ... 102s Setting up python3-legacy-cgi (2.6.1-2) ... 102s Setting up python3-pyqt5.sip (12.17.0-1) ... 102s Setting up libmtdev1t64:amd64 (1.1.7-1) ... 102s Setting up libxshmfence1:amd64 (1.3-1build5) ... 102s Setting up libxcb-randr0:amd64 (1.17.0-2) ... 102s Setting up libqt5sql5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 102s Setting up libmd4c0:amd64 (0.5.2-2) ... 102s Setting up libharfbuzz0b:amd64 (10.2.0-1) ... 102s Setting up libglu1-mesa:amd64 (9.0.2-1.1build1) ... 102s Setting up libsz2:amd64 (1.1.3-1) ... 102s Setting up libwacom-common (2.14.0-1) ... 102s Setting up libwayland-client0:amd64 (1.23.1-1) ... 102s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 102s Setting up libice6:amd64 (2:1.1.1-1) ... 102s Setting up mesa-libgallium:amd64 (24.3.4-3ubuntu1) ... 102s Setting up liblapack3:amd64 (3.12.1-2) ... 102s 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 102s Setting up libqt5dbus5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 102s Setting up libgbm1:amd64 (24.3.4-3ubuntu1) ... 102s Setting up libwacom9:amd64 (2.14.0-1) ... 102s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 103s Setting up libgl1-mesa-dri:amd64 (24.3.4-3ubuntu1) ... 103s Setting up libqt5network5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 103s Setting up libavahi-common3:amd64 (0.8-14ubuntu1) ... 103s Setting up libqt5xml5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 103s Setting up libqt5test5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 103s Setting up libinput-bin (1.27.1-1) ... 103s Setting up libegl-mesa0:amd64 (24.3.4-3ubuntu1) ... 103s Setting up python3-numpy (1:1.26.4+ds-13) ... 104s Setting up libhdf5-310:amd64 (1.14.5+repack-3) ... 104s Setting up libegl1:amd64 (1.7.0-1build1) ... 104s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 104s Setting up libsm6:amd64 (2:1.2.4-1) ... 104s Setting up libavahi-client3:amd64 (0.8-14ubuntu1) ... 104s Setting up libinput10:amd64 (1.27.1-1) ... 104s Setting up libhdf5-hl-310:amd64 (1.14.5+repack-3) ... 104s Setting up fontconfig (2.15.0-1.1ubuntu2) ... 106s Regenerating fonts cache... done. 106s Setting up libnetcdf19t64:amd64 (1:4.9.2-6ubuntu2) ... 106s Setting up libglx-mesa0:amd64 (24.3.4-3ubuntu1) ... 106s Setting up libglx0:amd64 (1.7.0-1build1) ... 106s Setting up libgl1:amd64 (1.7.0-1build1) ... 106s Setting up libglew2.2:amd64 (2.2.0-4build1) ... 106s Setting up libcups2t64:amd64 (2.4.11-0ubuntu2) ... 106s Setting up python3-opengl (3.1.7+dfsg-1) ... 106s /usr/lib/python3/dist-packages/OpenGL/GL/AMD/vertex_shader_tessellator.py:1: SyntaxWarning: invalid escape sequence '\ ' 106s '''OpenGL extension AMD.vertex_shader_tessellator 107s Setting up libqt5gui5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 107s Setting up libqt5widgets5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 107s Setting up libqt5help5:amd64 (5.15.15-6) ... 107s Setting up libqt5opengl5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 107s Setting up libqt5printsupport5t64:amd64 (5.15.15+dfsg-1ubuntu2) ... 107s Setting up libqt5designer5:amd64 (5.15.15-6) ... 107s Setting up python3-pyqt5 (5.15.11+dfsg-1build2) ... 107s Setting up python3-pyqt5.qtopengl (5.15.11+dfsg-1build2) ... 107s Setting up python3-pymol (3.0.0+dfsg-3) ... 108s Setting up pymol (3.0.0+dfsg-3) ... 108s Processing triggers for libc-bin (2.41-1ubuntu1) ... 108s Processing triggers for man-db (2.13.0-1) ... 108s Processing triggers for udev (257.2-3ubuntu1) ... 110s autopkgtest [22:05:23]: 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)" 110s autopkgtest [22:05:23]: test command1: [----------------------- 110s Search pymol scripts in /tmp/autopkgtest.RQiadP/build.h55/src/examples... 110s Processing new directory /tmp/autopkgtest.RQiadP/build.h55/src/examples 110s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/chempy/generate_amber.py'... 110s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/chempy/generate_mmff.py'... 110s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/area_diff.pml'... 111s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/build_peptide.py'... 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/contact.pml 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/dali.py 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/density.pml 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/groel_es.pml 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/multiclip_ray.pml 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/packing.pml 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/packsurf.pml 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/ref_frame.pml 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/ribosome.pml 111s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/scenes2movie.pml 111s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/seq_match_sele.pml'... 116s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/ss_xfer.pml 116s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/symsph.py'... 116s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/brick01.py'... 116s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo01.py'... 116s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo02.py'... 119s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo03.py'... 122s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo04.py'... 122s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo05.py'... 123s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo06.py'... 126s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo07.py'... 126s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo08.py'... 126s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo_3Dtext01.py'... 126s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo_axes.py'... 126s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo_label_hack.py'... 130s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo_plane.py'... 130s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/chempy_model01.py'... 130s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/chempy_model02.py'... 130s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/chempy_model03.py'... 133s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/click_ordered_list.py'... 134s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/count_molecules.py'... 134s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/extend_demo01.py'... 134s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/gl01.py'... 134s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/gl02.py'... 134s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/gl03.py'... 138s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/importing.py 138s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/link_demo.py'... 138s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/membrane.py'... 138s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/mutate01.pml'... 138s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/mutate02.py'... 139s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/my_ext_gui.py'... 140s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/particle01.py'... 140s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/particle02.py'... 140s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/pick_wiz.py'... 140s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/povray01.py 140s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/scenes_to_movie01.pml'... 141s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/sd_annotate.pml 141s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/sele_wiz.py'... 141s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/start_pymol.py 141s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/syncmol.py'... 141s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/tkwindow.py 141s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/webgui01.py'... 141s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/webgui02.py'... 141s /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/webgui02.py:161: SyntaxWarning: invalid escape sequence '\=' 141s mo = re.search("molid\=([A-Z0-9]+)",self.path) 141s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/xmlrpc01.py 141s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/xmlrpc02.py'... 142s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/launching/launch_demo.py'... 142s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/launching/launch_viewer1.py'... 142s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/launching/launch_viewer2.py'... 142s Processing new directory /tmp/autopkgtest.RQiadP/build.h55/src/examples/chempy 142s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/chempy/generate_amber.py'... 142s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/chempy/generate_mmff.py'... 142s Processing new directory /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook 142s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/area_diff.pml'... 143s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/build_peptide.py'... 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/contact.pml 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/dali.py 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/density.pml 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/groel_es.pml 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/multiclip_ray.pml 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/packing.pml 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/packsurf.pml 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/ref_frame.pml 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/ribosome.pml 143s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/scenes2movie.pml 143s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/seq_match_sele.pml'... 145s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/ss_xfer.pml 145s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/cookbook/symsph.py'... 145s Processing new directory /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel 145s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/brick01.py'... 145s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo01.py'... 145s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo02.py'... 148s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo03.py'... 152s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo04.py'... 152s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo05.py'... 152s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo06.py'... 153s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo07.py'... 153s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo08.py'... 153s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo_3Dtext01.py'... 153s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo_axes.py'... 154s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo_label_hack.py'... 157s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/cgo_plane.py'... 157s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/chempy_model01.py'... 157s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/chempy_model02.py'... 157s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/chempy_model03.py'... 161s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/click_ordered_list.py'... 161s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/count_molecules.py'... 161s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/extend_demo01.py'... 161s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/gl01.py'... 161s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/gl02.py'... 161s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/gl03.py'... 165s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/importing.py 165s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/link_demo.py'... 165s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/membrane.py'... 165s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/mutate01.pml'... 165s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/mutate02.py'... 166s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/my_ext_gui.py'... 167s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/particle01.py'... 167s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/particle02.py'... 167s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/pick_wiz.py'... 167s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/povray01.py 167s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/scenes_to_movie01.pml'... 168s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/sd_annotate.pml 168s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/sele_wiz.py'... 168s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/start_pymol.py 168s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/syncmol.py'... 168s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/tkwindow.py 168s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/webgui01.py'... 168s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/webgui02.py'... 168s /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/webgui02.py:161: SyntaxWarning: invalid escape sequence '\=' 168s mo = re.search("molid\=([A-Z0-9]+)",self.path) 168s Skip /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/xmlrpc01.py 168s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/devel/xmlrpc02.py'... 168s Processing new directory /tmp/autopkgtest.RQiadP/build.h55/src/examples/launching 168s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/launching/launch_demo.py'... 168s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/launching/launch_viewer1.py'... 168s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/examples/launching/launch_viewer2.py'... 169s autopkgtest [22:06:22]: test command1: -----------------------] 170s command1 PASS (superficial) 170s autopkgtest [22:06:23]: test command1: - - - - - - - - - - results - - - - - - - - - - 170s autopkgtest [22:06:23]: test command2: preparing testbed 170s Reading package lists... 171s Building dependency tree... 171s Reading state information... 171s Starting pkgProblemResolver with broken count: 0 171s Starting 2 pkgProblemResolver with broken count: 0 171s Done 171s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 172s autopkgtest [22:06:25]: test command2: sh debian/tests/call-pymol-scripts data/demo 172s autopkgtest [22:06:25]: test command2: [----------------------- 172s Search pymol scripts in /tmp/autopkgtest.RQiadP/build.h55/src/data/demo... 172s Processing new directory /tmp/autopkgtest.RQiadP/build.h55/src/data/demo 172s Run 'pymol -c /tmp/autopkgtest.RQiadP/build.h55/src/data/demo/cgo03.py'... 176s autopkgtest [22:06:29]: test command2: -----------------------] 176s command2 PASS (superficial) 176s autopkgtest [22:06:29]: test command2: - - - - - - - - - - results - - - - - - - - - - 177s autopkgtest [22:06:30]: test command3: preparing testbed 177s Reading package lists... 177s Building dependency tree... 177s Reading state information... 177s Starting pkgProblemResolver with broken count: 0 177s Starting 2 pkgProblemResolver with broken count: 0 177s Done 178s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 179s autopkgtest [22:06:32]: test command3: sh debian/tests/call-pymol-scripts /usr/share/pymol/examples \ "(cookbook/)|(xmlrpc01)|(sd_annotate)|(povray01)|(tkwindow)|(importing)" 179s autopkgtest [22:06:32]: test command3: [----------------------- 179s Search pymol scripts in /usr/share/pymol/examples... 179s Processing new directory /usr/share/pymol/examples 179s Run 'pymol -c /usr/share/pymol/examples/chempy/generate_amber.py'... 179s Run 'pymol -c /usr/share/pymol/examples/chempy/generate_mmff.py'... 179s Skip /usr/share/pymol/examples/cookbook/area_diff.pml 179s Skip /usr/share/pymol/examples/cookbook/contact.pml 179s Skip /usr/share/pymol/examples/cookbook/multiclip_ray.pml 179s Skip /usr/share/pymol/examples/cookbook/packing.pml 179s Skip /usr/share/pymol/examples/cookbook/packsurf.pml 179s Skip /usr/share/pymol/examples/cookbook/ref_frame.pml 179s Skip /usr/share/pymol/examples/cookbook/scenes2movie.pml 179s Skip /usr/share/pymol/examples/cookbook/seq_match_sele.pml 179s Skip /usr/share/pymol/examples/cookbook/ss_xfer.pml 179s Run 'pymol -c /usr/share/pymol/examples/devel/brick01.py'... 179s Run 'pymol -c /usr/share/pymol/examples/devel/cgo01.py'... 179s Run 'pymol -c /usr/share/pymol/examples/devel/cgo02.py'... 183s Run 'pymol -c /usr/share/pymol/examples/devel/cgo03.py'... 186s Run 'pymol -c /usr/share/pymol/examples/devel/cgo04.py'... 186s Run 'pymol -c /usr/share/pymol/examples/devel/cgo05.py'... 186s Run 'pymol -c /usr/share/pymol/examples/devel/cgo06.py'... 187s Run 'pymol -c /usr/share/pymol/examples/devel/cgo07.py'... 187s Run 'pymol -c /usr/share/pymol/examples/devel/cgo08.py'... 187s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_3Dtext01.py'... 187s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_axes.py'... 188s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_label_hack.py'... 191s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_plane.py'... 191s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model01.py'... 191s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model02.py'... 191s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model03.py'... 194s Run 'pymol -c /usr/share/pymol/examples/devel/click_ordered_list.py'... 194s Run 'pymol -c /usr/share/pymol/examples/devel/count_molecules.py'... 195s Run 'pymol -c /usr/share/pymol/examples/devel/extend_demo01.py'... 195s Run 'pymol -c /usr/share/pymol/examples/devel/gl01.py'... 195s Run 'pymol -c /usr/share/pymol/examples/devel/gl02.py'... 195s Run 'pymol -c /usr/share/pymol/examples/devel/gl03.py'... 199s Skip /usr/share/pymol/examples/devel/importing.py 199s Run 'pymol -c /usr/share/pymol/examples/devel/link_demo.py'... 199s Run 'pymol -c /usr/share/pymol/examples/devel/membrane.py'... 199s Run 'pymol -c /usr/share/pymol/examples/devel/mutate01.pml'... 199s Run 'pymol -c /usr/share/pymol/examples/devel/mutate02.py'... 201s Run 'pymol -c /usr/share/pymol/examples/devel/my_ext_gui.py'... 201s Run 'pymol -c /usr/share/pymol/examples/devel/particle01.py'... 201s Run 'pymol -c /usr/share/pymol/examples/devel/particle02.py'... 201s Run 'pymol -c /usr/share/pymol/examples/devel/pick_wiz.py'... 201s Run 'pymol -c /usr/share/pymol/examples/devel/scenes_to_movie01.pml'... 202s Skip /usr/share/pymol/examples/devel/sd_annotate.pml 202s Run 'pymol -c /usr/share/pymol/examples/devel/sele_wiz.py'... 202s Run 'pymol -c /usr/share/pymol/examples/devel/syncmol.py'... 202s Skip /usr/share/pymol/examples/devel/tkwindow.py 202s Run 'pymol -c /usr/share/pymol/examples/devel/webgui01.py'... 202s Run 'pymol -c /usr/share/pymol/examples/devel/webgui02.py'... 202s /usr/share/pymol/examples/devel/webgui02.py:161: SyntaxWarning: invalid escape sequence '\=' 202s mo = re.search("molid\=([A-Z0-9]+)",self.path) 202s Skip /usr/share/pymol/examples/devel/xmlrpc01.py 202s Run 'pymol -c /usr/share/pymol/examples/devel/xmlrpc02.py'... 202s Run 'pymol -c /usr/share/pymol/examples/launching/launch_demo.py'... 202s Run 'pymol -c /usr/share/pymol/examples/launching/launch_viewer1.py'... 203s Run 'pymol -c /usr/share/pymol/examples/launching/launch_viewer2.py'... 203s Processing new directory /usr/share/pymol/examples/chempy 203s Run 'pymol -c /usr/share/pymol/examples/chempy/generate_amber.py'... 203s Run 'pymol -c /usr/share/pymol/examples/chempy/generate_mmff.py'... 203s Processing new directory /usr/share/pymol/examples/cookbook 203s Skip /usr/share/pymol/examples/cookbook/area_diff.pml 203s Skip /usr/share/pymol/examples/cookbook/contact.pml 203s Skip /usr/share/pymol/examples/cookbook/multiclip_ray.pml 203s Skip /usr/share/pymol/examples/cookbook/packing.pml 203s Skip /usr/share/pymol/examples/cookbook/packsurf.pml 203s Skip /usr/share/pymol/examples/cookbook/ref_frame.pml 203s Skip /usr/share/pymol/examples/cookbook/scenes2movie.pml 203s Skip /usr/share/pymol/examples/cookbook/seq_match_sele.pml 203s Skip /usr/share/pymol/examples/cookbook/ss_xfer.pml 203s Processing new directory /usr/share/pymol/examples/devel 203s Run 'pymol -c /usr/share/pymol/examples/devel/brick01.py'... 203s Run 'pymol -c /usr/share/pymol/examples/devel/cgo01.py'... 203s Run 'pymol -c /usr/share/pymol/examples/devel/cgo02.py'... 207s Run 'pymol -c /usr/share/pymol/examples/devel/cgo03.py'... 210s Run 'pymol -c /usr/share/pymol/examples/devel/cgo04.py'... 210s Run 'pymol -c /usr/share/pymol/examples/devel/cgo05.py'... 210s Run 'pymol -c /usr/share/pymol/examples/devel/cgo06.py'... 211s Run 'pymol -c /usr/share/pymol/examples/devel/cgo07.py'... 211s Run 'pymol -c /usr/share/pymol/examples/devel/cgo08.py'... 212s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_3Dtext01.py'... 212s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_axes.py'... 212s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_label_hack.py'... 215s Run 'pymol -c /usr/share/pymol/examples/devel/cgo_plane.py'... 215s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model01.py'... 215s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model02.py'... 216s Run 'pymol -c /usr/share/pymol/examples/devel/chempy_model03.py'... 219s Run 'pymol -c /usr/share/pymol/examples/devel/click_ordered_list.py'... 219s Run 'pymol -c /usr/share/pymol/examples/devel/count_molecules.py'... 219s Run 'pymol -c /usr/share/pymol/examples/devel/extend_demo01.py'... 219s Run 'pymol -c /usr/share/pymol/examples/devel/gl01.py'... 220s Run 'pymol -c /usr/share/pymol/examples/devel/gl02.py'... 220s Run 'pymol -c /usr/share/pymol/examples/devel/gl03.py'... 223s Skip /usr/share/pymol/examples/devel/importing.py 223s Run 'pymol -c /usr/share/pymol/examples/devel/link_demo.py'... 223s Run 'pymol -c /usr/share/pymol/examples/devel/membrane.py'... 224s Run 'pymol -c /usr/share/pymol/examples/devel/mutate01.pml'... 224s Run 'pymol -c /usr/share/pymol/examples/devel/mutate02.py'... 225s Run 'pymol -c /usr/share/pymol/examples/devel/my_ext_gui.py'... 225s Run 'pymol -c /usr/share/pymol/examples/devel/particle01.py'... 225s Run 'pymol -c /usr/share/pymol/examples/devel/particle02.py'... 226s Run 'pymol -c /usr/share/pymol/examples/devel/pick_wiz.py'... 226s Run 'pymol -c /usr/share/pymol/examples/devel/scenes_to_movie01.pml'... 227s Skip /usr/share/pymol/examples/devel/sd_annotate.pml 227s Run 'pymol -c /usr/share/pymol/examples/devel/sele_wiz.py'... 227s Run 'pymol -c /usr/share/pymol/examples/devel/syncmol.py'... 227s Skip /usr/share/pymol/examples/devel/tkwindow.py 227s Run 'pymol -c /usr/share/pymol/examples/devel/webgui01.py'... 227s Run 'pymol -c /usr/share/pymol/examples/devel/webgui02.py'... 227s Skip /usr/share/pymol/examples/devel/xmlrpc01.py 227s Run 'pymol -c /usr/share/pymol/examples/devel/xmlrpc02.py'... 227s Processing new directory /usr/share/pymol/examples/launching 227s Run 'pymol -c /usr/share/pymol/examples/launching/launch_demo.py'... 227s Run 'pymol -c /usr/share/pymol/examples/launching/launch_viewer1.py'... 227s /usr/share/pymol/examples/devel/webgui02.py:161: SyntaxWarning: invalid escape sequence '\=' 227s mo = re.search("molid\=([A-Z0-9]+)",self.path) 227s Run 'pymol -c /usr/share/pymol/examples/launching/launch_viewer2.py'... 228s autopkgtest [22:07:21]: test command3: -----------------------] 228s autopkgtest [22:07:21]: test command3: - - - - - - - - - - results - - - - - - - - - - 228s command3 PASS (superficial) 228s autopkgtest [22:07:21]: test command4: preparing testbed 229s Reading package lists... 229s Building dependency tree... 229s Reading state information... 229s Starting pkgProblemResolver with broken count: 0 229s Starting 2 pkgProblemResolver with broken count: 0 229s Done 229s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 230s autopkgtest [22:07:23]: test command4: sh debian/tests/call-pymol-scripts /usr/share/pymol/examples/cookbook multiclip_ray 230s autopkgtest [22:07:23]: test command4: [----------------------- 230s Search pymol scripts in /usr/share/pymol/examples/cookbook... 230s Processing new directory /usr/share/pymol/examples/cookbook 230s Run 'pymol -c /usr/share/pymol/examples/cookbook/area_diff.pml'... 231s Run 'pymol -c /usr/share/pymol/examples/cookbook/contact.pml'... 234s Skip /usr/share/pymol/examples/cookbook/multiclip_ray.pml 234s Run 'pymol -c /usr/share/pymol/examples/cookbook/packing.pml'... 235s Run 'pymol -c /usr/share/pymol/examples/cookbook/packsurf.pml'... 257s Run 'pymol -c /usr/share/pymol/examples/cookbook/ref_frame.pml'... 262s Run 'pymol -c /usr/share/pymol/examples/cookbook/scenes2movie.pml'... 262s Run 'pymol -c /usr/share/pymol/examples/cookbook/seq_match_sele.pml'... 264s Run 'pymol -c /usr/share/pymol/examples/cookbook/ss_xfer.pml'... 266s autopkgtest [22:07:59]: test command4: -----------------------] 267s autopkgtest [22:08:00]: test command4: - - - - - - - - - - results - - - - - - - - - - 267s command4 PASS (superficial) 267s autopkgtest [22:08:00]: test command5: preparing testbed 267s Reading package lists... 268s Building dependency tree... 268s Reading state information... 268s Starting pkgProblemResolver with broken count: 0 268s Starting 2 pkgProblemResolver with broken count: 0 268s Done 268s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 269s autopkgtest [22:08:02]: test command5: (cd /usr/share/pymol/examples/devel/ && pymol -c sd_annotate.pml) 269s autopkgtest [22:08:02]: test command5: [----------------------- 269s PyMOL(TM) Molecular Graphics System, Version 3.0.0. 269s Copyright (c) Schrodinger, LLC. 269s All Rights Reserved. 269s 269s Created by Warren L. DeLano, Ph.D. 269s 269s PyMOL is user-supported open-source software. Although some versions 269s are freely available, PyMOL is not in the public domain. 269s 269s If PyMOL is helpful in your work or study, then please volunteer 269s support for our ongoing efforts to create open and affordable scientific 269s software by purchasing a PyMOL Maintenance and/or Support subscription. 269s 269s More information can be found at "http://www.pymol.org". 269s 269s Enter "help" for a list of commands. 269s Enter "help " for information on a specific command. 269s 269s Hit ESC anytime to toggle between text and graphics. 269s 269s Setting: wizard_prompt_mode set to 3. 269s Detected 2 CPU cores. Enabled multithreaded rendering. 269s PyMOL>from pymol.wizard.annotation import load_annotated_sdf 269s PyMOL>cmd.extend('load_annotated_sdf',load_annotated_sdf) 269s PyMOL>wizard annotation 269s PyMOL>set wizard_prompt_mode,3 269s PyMOL>load_annotated_sdf demo.sdf 269s HBA ['[1, 25, 26, 34]\n'] 269s HBD ['[20]\n'] 269s ACD_NUMBER ['MFCD02681585\n'] 269s SCORE ['-222.044\n'] 269s MOLID ['MFCD02681585\n'] 269s HBA ['[1, 21]\n'] 269s HBD ['[]\n'] 269s ACD_NUMBER ['MFCD01567969\n'] 269s SCORE ['-219.984\n'] 269s MOLID ['MFCD01567969\n'] 269s HBA ['[1, 24]\n'] 269s HBD ['[10, 22]\n'] 269s ACD_NUMBER ['MFCD00023789\n'] 269s SCORE ['-219.911\n'] 269s MOLID ['MFCD00023789\n'] 269s HBA ['[1, 11]\n'] 269s HBD ['[3]\n'] 269s ACD_NUMBER ['MFCD02579443\n'] 269s SCORE ['-219.769\n'] 269s MOLID ['MFCD02579443\n'] 269s HBA ['[1, 11]\n'] 269s HBD ['[9]\n'] 269s ACD_NUMBER ['MFCD02579410\n'] 269s SCORE ['-214.809\n'] 269s MOLID ['MFCD02579410\n'] 269s HBA ['[1, 20, 22, 27, 32]\n'] 269s HBD ['[10, 20]\n'] 269s ACD_NUMBER ['MFCD02579135\n'] 269s SCORE ['-213.630\n'] 269s MOLID ['MFCD02579135\n'] 269s HBA ['[1, 11, 14, 21]\n'] 269s HBD ['[]\n'] 269s ACD_NUMBER ['MFCD02681468\n'] 269s SCORE ['-213.462\n'] 269s MOLID ['MFCD02681468\n'] 269s HBA ['[1, 13, 14, 29]\n'] 269s HBD ['[]\n'] 269s ACD_NUMBER ['MFCD00141070\n'] 269s SCORE ['-213.240\n'] 269s MOLID ['MFCD00141070\n'] 269s HBA ['[1, 8]\n'] 269s HBD ['[]\n'] 269s ACD_NUMBER ['MFCD02983625\n'] 269s SCORE ['-211.422\n'] 269s MOLID ['MFCD02983625\n'] 269s HBA ['[1, 11]\n'] 269s HBD ['[3, 12]\n'] 269s ACD_NUMBER ['MFCD00115818\n'] 269s SCORE ['-210.482\n'] 269s MOLID ['MFCD00115818\n'] 270s autopkgtest [22:08:03]: test command5: -----------------------] 270s autopkgtest [22:08:03]: test command5: - - - - - - - - - - results - - - - - - - - - - 270s command5 PASS (superficial) 271s autopkgtest [22:08:04]: @@@@@@@@@@@@@@@@@@@@ summary 271s command1 PASS (superficial) 271s command2 PASS (superficial) 271s command3 PASS (superficial) 271s command4 PASS (superficial) 271s command5 PASS (superficial) 288s nova [W] Skipping flock for amd64 288s Creating nova instance adt-plucky-amd64-pymol-20250215-220333-juju-7f2275-prod-proposed-migration-environment-15-c93b9cf4-acf9-4b97-a568-51f0612a5241 from image adt/ubuntu-plucky-amd64-server-20250215.img (UUID d1f7bb98-7df8-4026-816e-9f6798166d8b)... 288s nova [W] Timed out waiting for 4ada29de-45c6-40fd-9b23-b69ef7e22930 to get deleted.