0s autopkgtest [04:04:07]: starting date and time: 2024-11-15 04:04:07+0000 0s autopkgtest [04:04:07]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [04:04:07]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.ot_x32tz/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:libxml2 --apt-upgrade openbabel --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=libxml2/2.12.7+dfsg+really2.9.14-0.2build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-18.secgroup --name adt-plucky-amd64-openbabel-20241115-040407-juju-7f2275-prod-proposed-migration-environment-15-4aa22034-05d1-4318-8b69-68467714aed4 --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'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 44s autopkgtest [04:04:51]: testbed dpkg architecture: amd64 44s autopkgtest [04:04:51]: testbed apt version: 2.9.8 44s autopkgtest [04:04:51]: @@@@@@@@@@@@@@@@@@@@ test bed setup 45s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 45s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1027 kB] 45s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 45s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 45s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.3 kB] 45s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [131 kB] 45s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [202 kB] 45s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 45s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [810 kB] 45s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [296 kB] 45s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9128 B] 45s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 46s Fetched 2705 kB in 1s (3292 kB/s) 46s Reading package lists... 48s Reading package lists... 48s Building dependency tree... 48s Reading state information... 48s Calculating upgrade... 48s The following packages will be upgraded: 48s firmware-sof-signed libcap-ng0 libexpat1 libxml2 lxd-installer man-db 48s pastebinit python3-systemd xfsprogs 49s 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 49s Need to get 10.3 MB of archives. 49s After this operation, 844 kB of additional disk space will be used. 49s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 firmware-sof-signed all 2024.06-1ubuntu2 [7083 kB] 50s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-3build1 [15.6 kB] 50s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1 amd64 2.6.4-1 [94.9 kB] 50s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2build1 [772 kB] 50s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 man-db amd64 2.13.0-1 [1352 kB] 50s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 9 [5084 B] 50s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 pastebinit all 1.7.1-1 [14.9 kB] 50s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build5 [45.7 kB] 50s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 xfsprogs amd64 6.8.0-2.2ubuntu2 [926 kB] 50s Preconfiguring packages ... 50s Fetched 10.3 MB in 1s (6980 kB/s) 50s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75542 files and directories currently installed.) 50s Preparing to unpack .../firmware-sof-signed_2024.06-1ubuntu2_all.deb ... 50s Unpacking firmware-sof-signed (2024.06-1ubuntu2) over (2024.06-1ubuntu1) ... 51s Preparing to unpack .../libcap-ng0_0.8.5-3build1_amd64.deb ... 51s Unpacking libcap-ng0:amd64 (0.8.5-3build1) over (0.8.5-1) ... 51s Setting up libcap-ng0:amd64 (0.8.5-3build1) ... 51s (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 ... 75568 files and directories currently installed.) 51s Preparing to unpack .../0-libexpat1_2.6.4-1_amd64.deb ... 51s Unpacking libexpat1:amd64 (2.6.4-1) over (2.6.2-2) ... 51s Preparing to unpack .../1-libxml2_2.12.7+dfsg+really2.9.14-0.2build1_amd64.deb ... 51s Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2build1) over (2.12.7+dfsg-3) ... 51s Preparing to unpack .../2-man-db_2.13.0-1_amd64.deb ... 51s Unpacking man-db (2.13.0-1) over (2.12.1-3) ... 51s Preparing to unpack .../3-lxd-installer_9_all.deb ... 51s Unpacking lxd-installer (9) over (8) ... 51s Preparing to unpack .../4-pastebinit_1.7.1-1_all.deb ... 51s Unpacking pastebinit (1.7.1-1) over (1.7.0-1) ... 51s Preparing to unpack .../5-python3-systemd_235-1build5_amd64.deb ... 51s Unpacking python3-systemd (235-1build5) over (235-1build4) ... 51s Preparing to unpack .../6-xfsprogs_6.8.0-2.2ubuntu2_amd64.deb ... 51s Unpacking xfsprogs (6.8.0-2.2ubuntu2) over (6.8.0-2.2ubuntu1) ... 51s Setting up libexpat1:amd64 (2.6.4-1) ... 51s Setting up firmware-sof-signed (2024.06-1ubuntu2) ... 51s Setting up pastebinit (1.7.1-1) ... 51s Setting up man-db (2.13.0-1) ... 51s Updating database of manual pages ... 53s man-db.service is a disabled or a static unit not running, not starting it. 53s Setting up xfsprogs (6.8.0-2.2ubuntu2) ... 53s update-initramfs: deferring update (trigger activated) 53s Setting up lxd-installer (9) ... 54s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2build1) ... 54s Setting up python3-systemd (235-1build5) ... 54s Processing triggers for libc-bin (2.40-1ubuntu3) ... 54s Processing triggers for initramfs-tools (0.142ubuntu34) ... 54s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic 54s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 61s Reading package lists... 62s Building dependency tree... 62s Reading state information... 62s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 62s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 62s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 62s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 62s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 63s Reading package lists... 63s Reading package lists... 64s Building dependency tree... 64s Reading state information... 64s Calculating upgrade... 64s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 64s Reading package lists... 64s Building dependency tree... 64s Reading state information... 64s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 64s autopkgtest [04:05:11]: rebooting testbed after setup commands that affected boot 68s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 82s autopkgtest [04:05:29]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 84s autopkgtest [04:05:31]: @@@@@@@@@@@@@@@@@@@@ apt-source openbabel 90s Get:1 http://ftpmaster.internal/ubuntu plucky/universe openbabel 3.1.1+dfsg-11ubuntu1 (dsc) [2896 B] 90s Get:2 http://ftpmaster.internal/ubuntu plucky/universe openbabel 3.1.1+dfsg-11ubuntu1 (tar) [21.8 MB] 90s Get:3 http://ftpmaster.internal/ubuntu plucky/universe openbabel 3.1.1+dfsg-11ubuntu1 (diff) [22.0 kB] 90s gpgv: Signature made Mon Oct 21 10:43:56 2024 UTC 90s gpgv: using RSA key 568BF22A66337CBFC9A6B9B72C83DBC8E9BD0E37 90s gpgv: Can't check signature: No public key 90s dpkg-source: warning: cannot verify inline signature for ./openbabel_3.1.1+dfsg-11ubuntu1.dsc: no acceptable signature found 93s dpkg-source: warning: diff 'src/debian/patches/2315.patch' patches file src/src/CMakeLists.txt more than once 93s dpkg-source: warning: diff 'src/debian/patches/2315.patch' patches file src/CMakeLists.txt more than once 93s dpkg-source: warning: diff 'src/debian/patches/2315.patch' patches file src/OpenBabel3Config.cmake.in more than once 93s autopkgtest [04:05:40]: testing package openbabel version 3.1.1+dfsg-11ubuntu1 93s autopkgtest [04:05:40]: build not needed 101s autopkgtest [04:05:48]: test python3: preparing testbed 105s Reading package lists... 105s Building dependency tree... 105s Reading state information... 105s Starting pkgProblemResolver with broken count: 0 105s Starting 2 pkgProblemResolver with broken count: 0 105s Done 106s The following additional packages will be installed: 106s adwaita-icon-theme at-spi2-common dconf-gsettings-backend dconf-service 106s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 106s gtk-update-icon-cache hicolor-icon-theme humanity-icon-theme 106s libatk-bridge2.0-0t64 libatk1.0-0t64 libatspi2.0-0t64 libavahi-client3 106s libavahi-common-data libavahi-common3 libboost-iostreams1.83.0 106s libcairo-gobject2 libcairo2 libchemistry-openbabel-perl libcolord2 106s libcups2t64 libdatrie1 libdconf1 libdeflate0 libepoxy0 libfontconfig1 106s libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgomp1 libgraphite2-3 106s libgtk-3-0t64 libgtk-3-common libharfbuzz0b libice6 libinchi1 libjbig0 106s libjpeg-turbo8 libjpeg8 libjs-jquery liblcms2-2 liblerc4 libmaeparser1 106s libnotify4 libopenbabel-dev libopenbabel-doc libopenbabel7 libpango-1.0-0 106s libpangocairo-1.0-0 libpangoft2-1.0-0 libpcre2-32-0 libpixman-1-0 106s libsharpyuv0 libsm6 libthai-data libthai0 libtiff6 libwayland-client0 106s libwayland-cursor0 libwayland-egl1 libwebp7 libwxbase3.2-1t64 106s libwxgtk3.2-1t64 libxcb-render0 libxcb-shm0 libxcomposite1 libxcursor1 106s libxdamage1 libxfixes3 libxi6 libxinerama1 libxrandr2 libxrender1 libxtst6 106s openbabel openbabel-gui python3-openbabel ubuntu-mono x11-common 106s Suggested packages: 106s adwaita-icon-theme-legacy colord cups-common gvfs liblcms2-utils 106s notification-daemon 106s Recommended packages: 106s librsvg2-common at-spi2-core libgdk-pixbuf2.0-bin libgtk-3-bin 106s javascript-common 106s The following NEW packages will be installed: 106s adwaita-icon-theme at-spi2-common autopkgtest-satdep dconf-gsettings-backend 106s dconf-service fontconfig fontconfig-config fonts-dejavu-core 106s fonts-dejavu-mono gtk-update-icon-cache hicolor-icon-theme 106s humanity-icon-theme libatk-bridge2.0-0t64 libatk1.0-0t64 libatspi2.0-0t64 106s libavahi-client3 libavahi-common-data libavahi-common3 106s libboost-iostreams1.83.0 libcairo-gobject2 libcairo2 106s libchemistry-openbabel-perl libcolord2 libcups2t64 libdatrie1 libdconf1 106s libdeflate0 libepoxy0 libfontconfig1 libgdk-pixbuf-2.0-0 106s libgdk-pixbuf2.0-common libgomp1 libgraphite2-3 libgtk-3-0t64 106s libgtk-3-common libharfbuzz0b libice6 libinchi1 libjbig0 libjpeg-turbo8 106s libjpeg8 libjs-jquery liblcms2-2 liblerc4 libmaeparser1 libnotify4 106s libopenbabel-dev libopenbabel-doc libopenbabel7 libpango-1.0-0 106s libpangocairo-1.0-0 libpangoft2-1.0-0 libpcre2-32-0 libpixman-1-0 106s libsharpyuv0 libsm6 libthai-data libthai0 libtiff6 libwayland-client0 106s libwayland-cursor0 libwayland-egl1 libwebp7 libwxbase3.2-1t64 106s libwxgtk3.2-1t64 libxcb-render0 libxcb-shm0 libxcomposite1 libxcursor1 106s libxdamage1 libxfixes3 libxi6 libxinerama1 libxrandr2 libxrender1 libxtst6 106s openbabel openbabel-gui python3-openbabel ubuntu-mono x11-common 106s 0 upgraded, 81 newly installed, 0 to remove and 0 not upgraded. 106s Need to get 30.3 MB/30.3 MB of archives. 106s After this operation, 150 MB of additional disk space will be used. 106s Get:1 /tmp/autopkgtest.oKRBQF/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [748 B] 106s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [7888 B] 106s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 106s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 106s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 106s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 106s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 106s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 106s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 106s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 106s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-1 [147 kB] 106s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 gtk-update-icon-cache amd64 4.16.5+ds-1 [52.4 kB] 106s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 hicolor-icon-theme all 0.18-1 [13.5 kB] 106s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 humanity-icon-theme all 0.6.16 [1282 kB] 106s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-mono all 24.04-0ubuntu1 [151 kB] 106s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 adwaita-icon-theme all 47.0-2 [525 kB] 106s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 at-spi2-common all 2.54.0-1 [8774 B] 106s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libdconf1 amd64 0.40.0-4build2 [39.4 kB] 106s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 dconf-service amd64 0.40.0-4build2 [27.5 kB] 106s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 dconf-gsettings-backend amd64 0.40.0-4build2 [22.1 kB] 106s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 107s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 107s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 107s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 107s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig amd64 2.15.0-1.1ubuntu2 [180 kB] 107s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libatk1.0-0t64 amd64 2.54.0-1 [55.1 kB] 107s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libxi6 amd64 2:1.8.2-1 [32.4 kB] 107s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libatspi2.0-0t64 amd64 2.54.0-1 [79.6 kB] 107s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libatk-bridge2.0-0t64 amd64 2.54.0-1 [66.3 kB] 107s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-common-data amd64 0.8-13ubuntu6 [29.7 kB] 107s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-common3 amd64 0.8-13ubuntu6 [23.3 kB] 107s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-client3 amd64 0.8-13ubuntu6 [26.8 kB] 107s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost-iostreams1.83.0 amd64 1.83.0-3.2ubuntu2 [260 kB] 107s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 107s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 107s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 107s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 107s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 107s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo-gobject2 amd64 1.18.2-2 [127 kB] 107s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 107s Get:41 http://ftpmaster.internal/ubuntu plucky/universe amd64 libinchi1 amd64 1.03+dfsg-4build1 [463 kB] 107s Get:42 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmaeparser1 amd64 1.3.1-1build1 [90.2 kB] 107s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 libopenbabel7 amd64 3.1.1+dfsg-11ubuntu1 [3333 kB] 107s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 libchemistry-openbabel-perl amd64 3.1.1+dfsg-11ubuntu1 [760 kB] 107s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 107s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libcolord2 amd64 1.4.7-1build2 [149 kB] 107s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libcups2t64 amd64 2.4.10-1ubuntu2 [271 kB] 107s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB] 107s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libepoxy0 amd64 1.5.10-2 [218 kB] 107s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 107s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 107s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai-data all 0.1.29-2build1 [158 kB] 107s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB] 107s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libpango-1.0-0 amd64 1.54.0+ds-3 [252 kB] 107s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-3 [51.6 kB] 107s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-3 [29.1 kB] 107s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-client0 amd64 1.23.0-1 [27.1 kB] 107s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-cursor0 amd64 1.23.0-1 [10.8 kB] 107s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-egl1 amd64 1.23.0-1 [5662 B] 107s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcomposite1 amd64 1:0.4.6-1 [6642 B] 107s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libxfixes3 amd64 1:6.0.0-2build1 [10.8 kB] 107s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcursor1 amd64 1:1.2.2-1 [20.9 kB] 107s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libxdamage1 amd64 1:1.1.6-1build1 [6150 B] 107s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libxinerama1 amd64 2:1.1.4-3build1 [6396 B] 107s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrandr2 amd64 2:1.5.4-1 [19.6 kB] 107s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libgtk-3-common all 3.24.43-3ubuntu2 [1202 kB] 107s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libgtk-3-0t64 amd64 3.24.43-3ubuntu2 [2927 kB] 107s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 107s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB] 107s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 108s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libnotify4 amd64 0.8.3-1build2 [25.6 kB] 108s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 libopenbabel-dev amd64 3.1.1+dfsg-11ubuntu1 [181 kB] 108s Get:73 http://ftpmaster.internal/ubuntu plucky/universe amd64 libopenbabel-doc all 3.1.1+dfsg-11ubuntu1 [5610 kB] 108s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-32-0 amd64 10.42-4ubuntu3 [201 kB] 108s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB] 108s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 libwxbase3.2-1t64 amd64 3.2.5+dfsg-1 [903 kB] 108s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libxtst6 amd64 2:1.2.3-1.1build1 [12.6 kB] 108s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 libwxgtk3.2-1t64 amd64 3.2.5+dfsg-1 [4537 kB] 108s Get:79 http://ftpmaster.internal/ubuntu plucky/universe amd64 openbabel amd64 3.1.1+dfsg-11ubuntu1 [130 kB] 108s Get:80 http://ftpmaster.internal/ubuntu plucky/universe amd64 openbabel-gui amd64 3.1.1+dfsg-11ubuntu1 [89.4 kB] 108s Get:81 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-openbabel amd64 3.1.1+dfsg-11ubuntu1 [609 kB] 108s Fetched 30.3 MB in 2s (13.3 MB/s) 108s Selecting previously unselected package libgdk-pixbuf2.0-common. 108s (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 ... 75574 files and directories currently installed.) 108s Preparing to unpack .../00-libgdk-pixbuf2.0-common_2.42.12+dfsg-1_all.deb ... 108s Unpacking libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... 108s Selecting previously unselected package libjpeg-turbo8:amd64. 108s Preparing to unpack .../01-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 108s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 109s Selecting previously unselected package libjpeg8:amd64. 109s Preparing to unpack .../02-libjpeg8_8c-2ubuntu11_amd64.deb ... 109s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 109s Selecting previously unselected package libdeflate0:amd64. 109s Preparing to unpack .../03-libdeflate0_1.22-1_amd64.deb ... 109s Unpacking libdeflate0:amd64 (1.22-1) ... 109s Selecting previously unselected package libjbig0:amd64. 109s Preparing to unpack .../04-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 109s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 109s Selecting previously unselected package liblerc4:amd64. 109s Preparing to unpack .../05-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 109s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 109s Selecting previously unselected package libsharpyuv0:amd64. 109s Preparing to unpack .../06-libsharpyuv0_1.4.0-0.1_amd64.deb ... 109s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 109s Selecting previously unselected package libwebp7:amd64. 109s Preparing to unpack .../07-libwebp7_1.4.0-0.1_amd64.deb ... 109s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 109s Selecting previously unselected package libtiff6:amd64. 109s Preparing to unpack .../08-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 109s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 109s Selecting previously unselected package libgdk-pixbuf-2.0-0:amd64. 109s Preparing to unpack .../09-libgdk-pixbuf-2.0-0_2.42.12+dfsg-1_amd64.deb ... 109s Unpacking libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1) ... 109s Selecting previously unselected package gtk-update-icon-cache. 109s Preparing to unpack .../10-gtk-update-icon-cache_4.16.5+ds-1_amd64.deb ... 109s No diversion 'diversion of /usr/sbin/update-icon-caches to /usr/sbin/update-icon-caches.gtk2 by libgtk-3-bin', none removed. 109s No diversion 'diversion of /usr/share/man/man8/update-icon-caches.8.gz to /usr/share/man/man8/update-icon-caches.gtk2.8.gz by libgtk-3-bin', none removed. 109s Unpacking gtk-update-icon-cache (4.16.5+ds-1) ... 109s Selecting previously unselected package hicolor-icon-theme. 109s Preparing to unpack .../11-hicolor-icon-theme_0.18-1_all.deb ... 109s Unpacking hicolor-icon-theme (0.18-1) ... 109s Selecting previously unselected package humanity-icon-theme. 109s Preparing to unpack .../12-humanity-icon-theme_0.6.16_all.deb ... 109s Unpacking humanity-icon-theme (0.6.16) ... 110s Selecting previously unselected package ubuntu-mono. 110s Preparing to unpack .../13-ubuntu-mono_24.04-0ubuntu1_all.deb ... 110s Unpacking ubuntu-mono (24.04-0ubuntu1) ... 110s Selecting previously unselected package adwaita-icon-theme. 110s Preparing to unpack .../14-adwaita-icon-theme_47.0-2_all.deb ... 110s Unpacking adwaita-icon-theme (47.0-2) ... 110s Selecting previously unselected package at-spi2-common. 110s Preparing to unpack .../15-at-spi2-common_2.54.0-1_all.deb ... 110s Unpacking at-spi2-common (2.54.0-1) ... 110s Selecting previously unselected package libdconf1:amd64. 110s Preparing to unpack .../16-libdconf1_0.40.0-4build2_amd64.deb ... 110s Unpacking libdconf1:amd64 (0.40.0-4build2) ... 110s Selecting previously unselected package dconf-service. 110s Preparing to unpack .../17-dconf-service_0.40.0-4build2_amd64.deb ... 110s Unpacking dconf-service (0.40.0-4build2) ... 110s Selecting previously unselected package dconf-gsettings-backend:amd64. 110s Preparing to unpack .../18-dconf-gsettings-backend_0.40.0-4build2_amd64.deb ... 110s Unpacking dconf-gsettings-backend:amd64 (0.40.0-4build2) ... 110s Selecting previously unselected package fonts-dejavu-mono. 110s Preparing to unpack .../19-fonts-dejavu-mono_2.37-8_all.deb ... 110s Unpacking fonts-dejavu-mono (2.37-8) ... 110s Selecting previously unselected package fonts-dejavu-core. 110s Preparing to unpack .../20-fonts-dejavu-core_2.37-8_all.deb ... 110s Unpacking fonts-dejavu-core (2.37-8) ... 110s Selecting previously unselected package fontconfig-config. 110s Preparing to unpack .../21-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 111s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 111s Selecting previously unselected package libfontconfig1:amd64. 111s Preparing to unpack .../22-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 111s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 111s Selecting previously unselected package fontconfig. 111s Preparing to unpack .../23-fontconfig_2.15.0-1.1ubuntu2_amd64.deb ... 111s Unpacking fontconfig (2.15.0-1.1ubuntu2) ... 111s Selecting previously unselected package libatk1.0-0t64:amd64. 111s Preparing to unpack .../24-libatk1.0-0t64_2.54.0-1_amd64.deb ... 111s Unpacking libatk1.0-0t64:amd64 (2.54.0-1) ... 111s Selecting previously unselected package libxi6:amd64. 111s Preparing to unpack .../25-libxi6_2%3a1.8.2-1_amd64.deb ... 111s Unpacking libxi6:amd64 (2:1.8.2-1) ... 111s Selecting previously unselected package libatspi2.0-0t64:amd64. 111s Preparing to unpack .../26-libatspi2.0-0t64_2.54.0-1_amd64.deb ... 111s Unpacking libatspi2.0-0t64:amd64 (2.54.0-1) ... 111s Selecting previously unselected package libatk-bridge2.0-0t64:amd64. 111s Preparing to unpack .../27-libatk-bridge2.0-0t64_2.54.0-1_amd64.deb ... 111s Unpacking libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... 111s Selecting previously unselected package libavahi-common-data:amd64. 111s Preparing to unpack .../28-libavahi-common-data_0.8-13ubuntu6_amd64.deb ... 111s Unpacking libavahi-common-data:amd64 (0.8-13ubuntu6) ... 111s Selecting previously unselected package libavahi-common3:amd64. 111s Preparing to unpack .../29-libavahi-common3_0.8-13ubuntu6_amd64.deb ... 111s Unpacking libavahi-common3:amd64 (0.8-13ubuntu6) ... 111s Selecting previously unselected package libavahi-client3:amd64. 111s Preparing to unpack .../30-libavahi-client3_0.8-13ubuntu6_amd64.deb ... 111s Unpacking libavahi-client3:amd64 (0.8-13ubuntu6) ... 111s Selecting previously unselected package libboost-iostreams1.83.0:amd64. 111s Preparing to unpack .../31-libboost-iostreams1.83.0_1.83.0-3.2ubuntu2_amd64.deb ... 111s Unpacking libboost-iostreams1.83.0:amd64 (1.83.0-3.2ubuntu2) ... 111s Selecting previously unselected package libpixman-1-0:amd64. 111s Preparing to unpack .../32-libpixman-1-0_0.44.0-3_amd64.deb ... 111s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 111s Selecting previously unselected package libxcb-render0:amd64. 111s Preparing to unpack .../33-libxcb-render0_1.17.0-2_amd64.deb ... 111s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 111s Selecting previously unselected package libxcb-shm0:amd64. 111s Preparing to unpack .../34-libxcb-shm0_1.17.0-2_amd64.deb ... 111s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 111s Selecting previously unselected package libxrender1:amd64. 111s Preparing to unpack .../35-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 111s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 111s Selecting previously unselected package libcairo2:amd64. 111s Preparing to unpack .../36-libcairo2_1.18.2-2_amd64.deb ... 111s Unpacking libcairo2:amd64 (1.18.2-2) ... 111s Selecting previously unselected package libcairo-gobject2:amd64. 111s Preparing to unpack .../37-libcairo-gobject2_1.18.2-2_amd64.deb ... 111s Unpacking libcairo-gobject2:amd64 (1.18.2-2) ... 111s Selecting previously unselected package libgomp1:amd64. 111s Preparing to unpack .../38-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 111s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 111s Selecting previously unselected package libinchi1. 111s Preparing to unpack .../39-libinchi1_1.03+dfsg-4build1_amd64.deb ... 111s Unpacking libinchi1 (1.03+dfsg-4build1) ... 111s Selecting previously unselected package libmaeparser1:amd64. 111s Preparing to unpack .../40-libmaeparser1_1.3.1-1build1_amd64.deb ... 111s Unpacking libmaeparser1:amd64 (1.3.1-1build1) ... 111s Selecting previously unselected package libopenbabel7. 111s Preparing to unpack .../41-libopenbabel7_3.1.1+dfsg-11ubuntu1_amd64.deb ... 111s Unpacking libopenbabel7 (3.1.1+dfsg-11ubuntu1) ... 111s Selecting previously unselected package libchemistry-openbabel-perl. 111s Preparing to unpack .../42-libchemistry-openbabel-perl_3.1.1+dfsg-11ubuntu1_amd64.deb ... 111s Unpacking libchemistry-openbabel-perl (3.1.1+dfsg-11ubuntu1) ... 111s Selecting previously unselected package liblcms2-2:amd64. 111s Preparing to unpack .../43-liblcms2-2_2.16-2_amd64.deb ... 111s Unpacking liblcms2-2:amd64 (2.16-2) ... 111s Selecting previously unselected package libcolord2:amd64. 111s Preparing to unpack .../44-libcolord2_1.4.7-1build2_amd64.deb ... 111s Unpacking libcolord2:amd64 (1.4.7-1build2) ... 111s Selecting previously unselected package libcups2t64:amd64. 111s Preparing to unpack .../45-libcups2t64_2.4.10-1ubuntu2_amd64.deb ... 111s Unpacking libcups2t64:amd64 (2.4.10-1ubuntu2) ... 111s Selecting previously unselected package libdatrie1:amd64. 111s Preparing to unpack .../46-libdatrie1_0.2.13-3build1_amd64.deb ... 111s Unpacking libdatrie1:amd64 (0.2.13-3build1) ... 111s Selecting previously unselected package libepoxy0:amd64. 111s Preparing to unpack .../47-libepoxy0_1.5.10-2_amd64.deb ... 111s Unpacking libepoxy0:amd64 (1.5.10-2) ... 111s Selecting previously unselected package libgraphite2-3:amd64. 111s Preparing to unpack .../48-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 111s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 111s Selecting previously unselected package libharfbuzz0b:amd64. 111s Preparing to unpack .../49-libharfbuzz0b_10.0.1-1_amd64.deb ... 111s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 111s Selecting previously unselected package libthai-data. 111s Preparing to unpack .../50-libthai-data_0.1.29-2build1_all.deb ... 111s Unpacking libthai-data (0.1.29-2build1) ... 111s Selecting previously unselected package libthai0:amd64. 111s Preparing to unpack .../51-libthai0_0.1.29-2build1_amd64.deb ... 111s Unpacking libthai0:amd64 (0.1.29-2build1) ... 111s Selecting previously unselected package libpango-1.0-0:amd64. 111s Preparing to unpack .../52-libpango-1.0-0_1.54.0+ds-3_amd64.deb ... 111s Unpacking libpango-1.0-0:amd64 (1.54.0+ds-3) ... 111s Selecting previously unselected package libpangoft2-1.0-0:amd64. 111s Preparing to unpack .../53-libpangoft2-1.0-0_1.54.0+ds-3_amd64.deb ... 111s Unpacking libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... 111s Selecting previously unselected package libpangocairo-1.0-0:amd64. 111s Preparing to unpack .../54-libpangocairo-1.0-0_1.54.0+ds-3_amd64.deb ... 111s Unpacking libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... 112s Selecting previously unselected package libwayland-client0:amd64. 112s Preparing to unpack .../55-libwayland-client0_1.23.0-1_amd64.deb ... 112s Unpacking libwayland-client0:amd64 (1.23.0-1) ... 112s Selecting previously unselected package libwayland-cursor0:amd64. 112s Preparing to unpack .../56-libwayland-cursor0_1.23.0-1_amd64.deb ... 112s Unpacking libwayland-cursor0:amd64 (1.23.0-1) ... 112s Selecting previously unselected package libwayland-egl1:amd64. 112s Preparing to unpack .../57-libwayland-egl1_1.23.0-1_amd64.deb ... 112s Unpacking libwayland-egl1:amd64 (1.23.0-1) ... 112s Selecting previously unselected package libxcomposite1:amd64. 112s Preparing to unpack .../58-libxcomposite1_1%3a0.4.6-1_amd64.deb ... 112s Unpacking libxcomposite1:amd64 (1:0.4.6-1) ... 112s Selecting previously unselected package libxfixes3:amd64. 112s Preparing to unpack .../59-libxfixes3_1%3a6.0.0-2build1_amd64.deb ... 112s Unpacking libxfixes3:amd64 (1:6.0.0-2build1) ... 112s Selecting previously unselected package libxcursor1:amd64. 112s Preparing to unpack .../60-libxcursor1_1%3a1.2.2-1_amd64.deb ... 112s Unpacking libxcursor1:amd64 (1:1.2.2-1) ... 112s Selecting previously unselected package libxdamage1:amd64. 112s Preparing to unpack .../61-libxdamage1_1%3a1.1.6-1build1_amd64.deb ... 112s Unpacking libxdamage1:amd64 (1:1.1.6-1build1) ... 112s Selecting previously unselected package libxinerama1:amd64. 112s Preparing to unpack .../62-libxinerama1_2%3a1.1.4-3build1_amd64.deb ... 112s Unpacking libxinerama1:amd64 (2:1.1.4-3build1) ... 112s Selecting previously unselected package libxrandr2:amd64. 112s Preparing to unpack .../63-libxrandr2_2%3a1.5.4-1_amd64.deb ... 112s Unpacking libxrandr2:amd64 (2:1.5.4-1) ... 112s Selecting previously unselected package libgtk-3-common. 112s Preparing to unpack .../64-libgtk-3-common_3.24.43-3ubuntu2_all.deb ... 112s Unpacking libgtk-3-common (3.24.43-3ubuntu2) ... 112s Selecting previously unselected package libgtk-3-0t64:amd64. 112s Preparing to unpack .../65-libgtk-3-0t64_3.24.43-3ubuntu2_amd64.deb ... 112s Unpacking libgtk-3-0t64:amd64 (3.24.43-3ubuntu2) ... 112s Selecting previously unselected package x11-common. 112s Preparing to unpack .../66-x11-common_1%3a7.7+23ubuntu3_all.deb ... 112s Unpacking x11-common (1:7.7+23ubuntu3) ... 112s Selecting previously unselected package libice6:amd64. 112s Preparing to unpack .../67-libice6_2%3a1.1.1-1_amd64.deb ... 112s Unpacking libice6:amd64 (2:1.1.1-1) ... 112s Selecting previously unselected package libjs-jquery. 112s Preparing to unpack .../68-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 112s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 112s Selecting previously unselected package libnotify4:amd64. 112s Preparing to unpack .../69-libnotify4_0.8.3-1build2_amd64.deb ... 112s Unpacking libnotify4:amd64 (0.8.3-1build2) ... 112s Selecting previously unselected package libopenbabel-dev. 112s Preparing to unpack .../70-libopenbabel-dev_3.1.1+dfsg-11ubuntu1_amd64.deb ... 112s Unpacking libopenbabel-dev (3.1.1+dfsg-11ubuntu1) ... 112s Selecting previously unselected package libopenbabel-doc. 112s Preparing to unpack .../71-libopenbabel-doc_3.1.1+dfsg-11ubuntu1_all.deb ... 112s Unpacking libopenbabel-doc (3.1.1+dfsg-11ubuntu1) ... 112s Selecting previously unselected package libpcre2-32-0:amd64. 112s Preparing to unpack .../72-libpcre2-32-0_10.42-4ubuntu3_amd64.deb ... 112s Unpacking libpcre2-32-0:amd64 (10.42-4ubuntu3) ... 112s Selecting previously unselected package libsm6:amd64. 112s Preparing to unpack .../73-libsm6_2%3a1.2.4-1_amd64.deb ... 112s Unpacking libsm6:amd64 (2:1.2.4-1) ... 112s Selecting previously unselected package libwxbase3.2-1t64:amd64. 112s Preparing to unpack .../74-libwxbase3.2-1t64_3.2.5+dfsg-1_amd64.deb ... 112s Unpacking libwxbase3.2-1t64:amd64 (3.2.5+dfsg-1) ... 112s Selecting previously unselected package libxtst6:amd64. 112s Preparing to unpack .../75-libxtst6_2%3a1.2.3-1.1build1_amd64.deb ... 112s Unpacking libxtst6:amd64 (2:1.2.3-1.1build1) ... 113s Selecting previously unselected package libwxgtk3.2-1t64:amd64. 113s Preparing to unpack .../76-libwxgtk3.2-1t64_3.2.5+dfsg-1_amd64.deb ... 113s Unpacking libwxgtk3.2-1t64:amd64 (3.2.5+dfsg-1) ... 113s Selecting previously unselected package openbabel. 113s Preparing to unpack .../77-openbabel_3.1.1+dfsg-11ubuntu1_amd64.deb ... 113s Unpacking openbabel (3.1.1+dfsg-11ubuntu1) ... 113s Selecting previously unselected package openbabel-gui. 113s Preparing to unpack .../78-openbabel-gui_3.1.1+dfsg-11ubuntu1_amd64.deb ... 113s Unpacking openbabel-gui (3.1.1+dfsg-11ubuntu1) ... 113s Selecting previously unselected package python3-openbabel. 113s Preparing to unpack .../79-python3-openbabel_3.1.1+dfsg-11ubuntu1_amd64.deb ... 113s Unpacking python3-openbabel (3.1.1+dfsg-11ubuntu1) ... 113s Selecting previously unselected package autopkgtest-satdep. 113s Preparing to unpack .../80-1-autopkgtest-satdep.deb ... 113s Unpacking autopkgtest-satdep (0) ... 113s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 113s Setting up liblcms2-2:amd64 (2.16-2) ... 113s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 113s Setting up libsharpyuv0:amd64 (1.4.0-0.1) ... 113s Setting up libxdamage1:amd64 (1:1.1.6-1build1) ... 113s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 113s Setting up hicolor-icon-theme (0.18-1) ... 113s Setting up libxi6:amd64 (2:1.8.2-1) ... 113s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 113s Setting up libdatrie1:amd64 (0.2.13-3build1) ... 113s Setting up libxcb-render0:amd64 (1.17.0-2) ... 113s Setting up libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... 113s Setting up x11-common (1:7.7+23ubuntu3) ... 113s Setting up libdeflate0:amd64 (1.22-1) ... 113s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 113s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 113s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 113s Setting up libcolord2:amd64 (1.4.7-1build2) ... 113s Setting up libdconf1:amd64 (0.40.0-4build2) ... 113s Setting up libpcre2-32-0:amd64 (10.42-4ubuntu3) ... 113s Setting up libepoxy0:amd64 (1.5.10-2) ... 113s Setting up libxfixes3:amd64 (1:6.0.0-2build1) ... 113s Setting up libboost-iostreams1.83.0:amd64 (1.83.0-3.2ubuntu2) ... 113s Setting up libavahi-common-data:amd64 (0.8-13ubuntu6) ... 113s Setting up libatspi2.0-0t64:amd64 (2.54.0-1) ... 113s Setting up libxinerama1:amd64 (2:1.1.4-3build1) ... 113s Setting up fonts-dejavu-mono (2.37-8) ... 113s Setting up libxrandr2:amd64 (2:1.5.4-1) ... 113s Setting up fonts-dejavu-core (2.37-8) ... 113s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 113s Setting up libwebp7:amd64 (1.4.0-0.1) ... 113s Setting up at-spi2-common (2.54.0-1) ... 113s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 113s Setting up libthai-data (0.1.29-2build1) ... 113s Setting up libwayland-egl1:amd64 (1.23.0-1) ... 113s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 113s Setting up libwxbase3.2-1t64:amd64 (3.2.5+dfsg-1) ... 113s Setting up libxcomposite1:amd64 (1:0.4.6-1) ... 113s Setting up libinchi1 (1.03+dfsg-4build1) ... 113s Setting up libwayland-client0:amd64 (1.23.0-1) ... 113s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 113s Setting up libice6:amd64 (2:1.1.1-1) ... 113s Setting up libatk1.0-0t64:amd64 (2.54.0-1) ... 113s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 113s Setting up libxtst6:amd64 (2:1.2.3-1.1build1) ... 113s Setting up libxcursor1:amd64 (1:1.2.2-1) ... 113s Setting up libavahi-common3:amd64 (0.8-13ubuntu6) ... 113s Setting up dconf-service (0.40.0-4build2) ... 113s Setting up libopenbabel-doc (3.1.1+dfsg-11ubuntu1) ... 113s Setting up libmaeparser1:amd64 (1.3.1-1build1) ... 113s Setting up libthai0:amd64 (0.1.29-2build1) ... 113s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 113s Setting up libwayland-cursor0:amd64 (1.23.0-1) ... 113s Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1) ... 113s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 113s Setting up libsm6:amd64 (2:1.2.4-1) ... 113s Setting up libavahi-client3:amd64 (0.8-13ubuntu6) ... 113s Setting up libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... 113s Setting up gtk-update-icon-cache (4.16.5+ds-1) ... 113s Setting up fontconfig (2.15.0-1.1ubuntu2) ... 115s Regenerating fonts cache... done. 115s Setting up dconf-gsettings-backend:amd64 (0.40.0-4build2) ... 115s Setting up libpango-1.0-0:amd64 (1.54.0+ds-3) ... 115s Setting up libcairo2:amd64 (1.18.2-2) ... 115s Setting up libnotify4:amd64 (0.8.3-1build2) ... 115s Setting up libcairo-gobject2:amd64 (1.18.2-2) ... 115s Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... 115s Setting up libcups2t64:amd64 (2.4.10-1ubuntu2) ... 115s Setting up libgtk-3-common (3.24.43-3ubuntu2) ... 115s Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... 115s Setting up libopenbabel7 (3.1.1+dfsg-11ubuntu1) ... 115s Setting up libopenbabel-dev (3.1.1+dfsg-11ubuntu1) ... 115s Setting up libchemistry-openbabel-perl (3.1.1+dfsg-11ubuntu1) ... 115s Setting up python3-openbabel (3.1.1+dfsg-11ubuntu1) ... 116s Setting up openbabel (3.1.1+dfsg-11ubuntu1) ... 116s Setting up adwaita-icon-theme (47.0-2) ... 116s update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode 116s Setting up humanity-icon-theme (0.6.16) ... 116s Setting up ubuntu-mono (24.04-0ubuntu1) ... 116s Processing triggers for man-db (2.13.0-1) ... 117s Processing triggers for libglib2.0-0t64:amd64 (2.82.1-0ubuntu1) ... 117s Setting up libgtk-3-0t64:amd64 (3.24.43-3ubuntu2) ... 117s Setting up libwxgtk3.2-1t64:amd64 (3.2.5+dfsg-1) ... 117s Processing triggers for libc-bin (2.40-1ubuntu3) ... 117s Setting up openbabel-gui (3.1.1+dfsg-11ubuntu1) ... 117s Setting up autopkgtest-satdep (0) ... 121s (Reading database ... 90989 files and directories currently installed.) 121s Removing autopkgtest-satdep (0) ... 122s autopkgtest [04:06:09]: test python3: [----------------------- 122s Running test/testRInChI.py ... 122s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testRInChI.py:1: SyntaxWarning: invalid escape sequence '\P' 122s """Test OpenBabel executables from Python 122s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testbabel.py:1: SyntaxWarning: invalid escape sequence '\P' 122s """Test OpenBabel executables from Python 122s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testbabel.py:101: SyntaxWarning: invalid escape sequence '\d' 122s pat = "(-?\d.*) molecule(?:s?) converted" 123s .. 123s ---------------------------------------------------------------------- 123s Ran 2 tests in 0.715s 123s 123s OK 123s Running test/test_pybel.py ... 123s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/test_pybel.py:1: SyntaxWarning: invalid escape sequence '\P' 123s """Test OpenBabel Python bindings 123s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testbindings.py:1: SyntaxWarning: invalid escape sequence '\P' 123s """Test OpenBabel Python bindings 123s .........................============================== 123s *** Open Babel Warning in WriteMolecule 123s No 2D or 3D coordinates exist. Stereochemical information will be stored using an Open Babel extension. To generate 2D or 3D coordinates instead use --gen2D or --gen3D. 123s .....============================== 123s *** Open Babel Error in SMARTSError 123s SMARTS Error: 123s [#NOEL][#NOEL] 123s ^ 123s 123s .... 123s ---------------------------------------------------------------------- 123s Ran 34 tests in 0.199s 123s 123s OK 123s Running test/testbabel.py ... 123s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testbabel.py:1: SyntaxWarning: invalid escape sequence '\P' 123s """Test OpenBabel executables from Python 123s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testbabel.py:101: SyntaxWarning: invalid escape sequence '\d' 123s pat = "(-?\d.*) molecule(?:s?) converted" 125s ......./usr/lib/python3.12/subprocess.py:1010: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 125s self.stdin = io.open(p2cwrite, 'wb', bufsize) 125s /usr/lib/python3.12/subprocess.py:1016: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 125s self.stdout = io.open(c2pread, 'rb', bufsize) 125s /usr/lib/python3.12/subprocess.py:1021: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 125s self.stderr = io.open(errread, 'rb', bufsize) 126s ...... 126s ---------------------------------------------------------------------- 126s Ran 13 tests in 2.169s 126s 126s OK 126s Running test/testbindings.py ... 126s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testbindings.py:1: SyntaxWarning: invalid escape sequence '\P' 126s """Test OpenBabel Python bindings 126s ...============================== 126s *** Open Babel Warning in WriteMolecule 126s No 2D or 3D coordinates exist. Stereochemical information will be stored using an Open Babel extension. To generate 2D or 3D coordinates instead use --gen2D or --gen3D. 126s ....============================== 126s *** Open Babel Warning in ParseSmiles 126s Too many greater-than signs in SMILES string 126s 126s ============================== 126s *** Open Babel Warning in ParseSmiles 126s Too many greater-than signs in SMILES string 126s 126s ============================== 126s *** Open Babel Warning in ParseSmiles 126s Too many greater-than signs in SMILES string 126s 126s ============================== 126s *** Open Babel Warning in ParseSmiles 126s Invalid reaction SMILES string: only a single '>' sign found (two required to be valid). 126s ============================== 126s *** Open Babel Warning in ParseSmiles 126s Invalid reaction SMILES string: only a single '>' sign found (two required to be valid). 126s ============================== 126s *** Open Babel Warning in ParseSmiles 126s Invalid reaction SMILES string: only a single '>' sign found (two required to be valid). 126s ..============================== 126s *** Open Babel Warning in IsValid 126s The molecule is not marked as a reaction. Use SetIsReaction(). 126s ============================== 126s *** Open Babel Warning in IsValid 126s Reaction roles should be in the range 0 to 3 inclusive. 126s ============================== 126s *** Open Babel Warning in IsValid 126s Reaction component Ids should all be non-zero positive integers. 126s ============================== 126s *** Open Babel Warning in IsValid 126s The molecule contains an atom that is missing a reaction component Id. Use SetComponentId(). 126s ============================== 126s *** Open Babel Warning in IsValid 126s A reaction component Id has been stored using a data type that is not an OBPairInteger. 126s ============================== 126s *** Open Babel Warning in IsValid 126s The molecule contains a connected component that contains atoms with different reaction component Ids. All atoms in a particular connected component should have the same value. 126s ============================== 126s *** Open Babel Warning in IsValid 126s The molecule contains a connected component that contains atoms with different reaction roles. All atoms in a particular connected component should have the same role. 126s ...........============================== 126s *** Open Babel Warning in ReadMolecule 126s WARNING: Problem interpreting the valence field of an atom 126s The valence field specifies a valence 0 that is 126s less than the observed explicit valence 1. 126s 126s .============================== 126s *** Open Babel Warning in WriteMolecule 126s No 2D or 3D coordinates exist. Stereochemical information will be stored using an Open Babel extension. To generate 2D or 3D coordinates instead use --gen2D or --gen3D. 126s ..........============================== 126s *** Open Babel Error in ParseComplex 126s SMILES string contains a character '#' which is invalid 126s ============================== 126s *** Open Babel Error in ParseComplex 126s Element number must be <= 255) 126s ============================== 126s *** Open Babel Error in ParseComplex 126s SMILES string contains a character '#' which is invalid 126s ..============================== 126s *** Open Babel Warning in ParseRingBond 126s Warning: Tetrahedral stereo specified for atom with more than 4 connections. 126s ============================== 126s *** Open Babel Warning in ParseSmiles 126s Failed to kekulize aromatic SMILES 126s 126s ....============================== 126s *** Open Babel Error in ParseSimple 126s SMILES string contains a character ',' which is invalid 126s ============================== 126s *** Open Babel Error in ParseSimple 126s SMILES string contains a character ',' which is invalid 126s ============================== 126s *** Open Babel Error in ParseComplex 126s SMILES string contains a character ',' which is invalid 126s ============================== 126s *** Open Babel Error in ParseComplex 126s SMILES string contains a character ',' which is invalid 126s ============================== 126s *** Open Babel Warning in ParseComplex 126s The atom class following : must be a number 126s ============================== 126s *** Open Babel Error in ParseSimple 126s SMILES string contains a character ',' which is invalid 126s ============================== 126s *** Open Babel Warning in ParseRingBond 126s Two digits expected after % 126s ============================== 126s *** Open Babel Warning in ParseRingBond 126s Matching close parenthesis not found for ring closure number 126s ============================== 126s *** Open Babel Error in ParseSimple 126s SMILES string contains a character ',' which is invalid 126s ..........============================== 126s *** Open Babel Warning in ParseComplex 126s Charge can only be specified once 126s ============================== 126s *** Open Babel Warning in ParseComplex 126s Charge can only be specified once 126s ============================== 126s *** Open Babel Warning in ParseComplex 126s Charge can only be specified once 126s ============================== 126s *** Open Babel Warning in ParseComplex 126s Charge can only be specified once 126s ...============================== 126s *** Open Babel Warning in ReadMolecule 126s Ignoring mass difference field for explicit hydrogen isotope. 126s 0.0000 0.0000 0.0000 D 1 0 0 0 0 0 0 0 0 0 0 0 126s ============================== 126s *** Open Babel Warning in ReadMolecule 126s Ignoring mass difference field for explicit hydrogen isotope. 126s 0.0000 0.0000 0.0000 T 1 0 0 0 0 0 0 0 0 0 0 0 126s ============================== 126s *** Open Babel Warning in ReadMolecule 126s Invalid value for mass difference. It should be between -3 and 4. 126s 0.0000 0.0000 0.0000 C 5 0 0 0 0 0 0 0 0 0 0 0 126s ============================== 126s *** Open Babel Warning in ReadMolecule 126s Invalid value for mass difference. It should be between -3 and 4. 126s 0.0000 0.0000 0.0000 C -4 0 0 0 0 0 0 0 0 0 0 0 126s ..============================== 126s *** Open Babel Warning in WriteMolecule 126s No 2D or 3D coordinates exist. Stereochemical information will be stored using an Open Babel extension. To generate 2D or 3D coordinates instead use --gen2D or --gen3D. 126s ...============================== 126s *** Open Babel Warning in GetSmilesElement 126s Isotope value larger than 9999. Ignoring value. 126s ..============================== 126s *** Open Babel Warning in ParseComplex 126s Square planar stereochemistry must be one of SP1, SP2 or SP3 126s ============================== 126s *** Open Babel Warning in ParseComplex 126s Square planar stereochemistry must be one of SP1, SP2 or SP3 126s ============================== 126s *** Open Babel Warning in InsertSquarePlanarRef 126s Warning: Square planar stereo specified for atom with more than 4 connections. 126s ============================== 126s *** Open Babel Warning in InsertSquarePlanarRef 126s Warning: Square planar stereo specified for atom with more than 4 connections. 126s ..... 126s ---------------------------------------------------------------------- 126s Ran 62 tests in 0.166s 126s 126s OK 126s Running test/testcdjsonformat.py ... 126s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testcdjsonformat.py:1: SyntaxWarning: invalid escape sequence '\P' 126s """Test ChemDoodle JSON format using the OpenBabel Python bindings 126s .......... 126s ---------------------------------------------------------------------- 126s Ran 10 tests in 0.002s 126s 126s OK 126s Skipping test/testdistgeom.py ... 126s Running test/testexample.py ... 126s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testexample.py:1: SyntaxWarning: invalid escape sequence '\P' 126s """Example test that uses the OpenBabel Python bindings 126s .. 126s ---------------------------------------------------------------------- 126s Ran 2 tests in 0.000s 126s 126s OK 126s Running test/testfastsearch.py ... 126s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testfastsearch.py:1: SyntaxWarning: invalid escape sequence '\P' 126s """Test OpenBabel executables from Python 126s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testfastsearch.py:30: SyntaxWarning: invalid escape sequence '\C' 126s smiles = """C12(C(N(C(=O)C)c3c2cccc3)=O)Nc2c(ccc(c2N1)OCCCC)OCCCC 126s . 126s ---------------------------------------------------------------------- 126s Ran 1 test in 0.077s 126s 126s OK 126s Running test/testkekule.py ... 126s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testkekule.py:1: SyntaxWarning: invalid escape sequence '\P' 126s """Test OpenBabel executables from Python 126s /usr/lib/python3.12/subprocess.py:1010: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 126s self.stdin = io.open(p2cwrite, 'wb', bufsize) 126s /usr/lib/python3.12/subprocess.py:1016: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 126s self.stdout = io.open(c2pread, 'rb', bufsize) 126s /usr/lib/python3.12/subprocess.py:1021: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 126s self.stderr = io.open(errread, 'rb', bufsize) 127s ... 127s ---------------------------------------------------------------------- 127s Ran 3 tests in 0.377s 127s 127s OK 127s Running test/testobconv_writers.py ... 127s ............................................................................................................................................. 127s ---------------------------------------------------------------------- 127s Ran 141 tests in 0.083s 127s 127s OK 127s Running test/testpcjsonformat.py ... 127s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testpcjsonformat.py:1: SyntaxWarning: invalid escape sequence '\P' 127s """Test PubChem JSON format using the OpenBabel Python bindings 127s ................. 127s ---------------------------------------------------------------------- 127s Ran 17 tests in 0.008s 127s 127s OK 127s Running test/testpdbformat.py ... 127s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testpdbformat.py:1: SyntaxWarning: invalid escape sequence '\P' 127s """Test OpenBabel executables from Python 127s /usr/lib/python3.12/subprocess.py:1010: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 127s self.stdin = io.open(p2cwrite, 'wb', bufsize) 127s /usr/lib/python3.12/subprocess.py:1016: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 127s self.stdout = io.open(c2pread, 'rb', bufsize) 127s /usr/lib/python3.12/subprocess.py:1021: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 127s self.stderr = io.open(errread, 'rb', bufsize) 127s . 127s ---------------------------------------------------------------------- 127s Ran 1 test in 0.019s 127s 127s OK 127s Skipping test/testroundtrip.py ... 127s Running test/testsmartssym.py ... 127s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testsmartssym.py:1: SyntaxWarning: invalid escape sequence '\P' 127s """Test OpenBabel executables from Python 127s /usr/lib/python3.12/subprocess.py:1010: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 127s self.stdin = io.open(p2cwrite, 'wb', bufsize) 127s /usr/lib/python3.12/subprocess.py:1016: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 127s self.stdout = io.open(c2pread, 'rb', bufsize) 127s /usr/lib/python3.12/subprocess.py:1021: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 127s self.stderr = io.open(errread, 'rb', bufsize) 128s .... 128s ---------------------------------------------------------------------- 128s Ran 4 tests in 0.694s 128s 128s OK 128s Skipping test/testsym.py ... 128s Running test/testunique.py ... 128s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testunique.py:1: SyntaxWarning: invalid escape sequence '\P' 128s """Test OpenBabel executables from Python 128s /tmp/autopkgtest.oKRBQF/build.Z8H/src/test/testunique.py:26: SyntaxWarning: invalid escape sequence '\F' 128s self.smiles = """C methane 128s /usr/lib/python3.12/subprocess.py:1010: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 128s self.stdin = io.open(p2cwrite, 'wb', bufsize) 128s /usr/lib/python3.12/subprocess.py:1016: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 128s self.stdout = io.open(c2pread, 'rb', bufsize) 128s /usr/lib/python3.12/subprocess.py:1021: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used 128s self.stderr = io.open(errread, 'rb', bufsize) 128s . 128s ---------------------------------------------------------------------- 128s Ran 1 test in 0.172s 128s 128s OK 128s autopkgtest [04:06:15]: test python3: -----------------------] 129s autopkgtest [04:06:16]: test python3: - - - - - - - - - - results - - - - - - - - - - 129s python3 PASS 129s autopkgtest [04:06:16]: @@@@@@@@@@@@@@@@@@@@ summary 129s python3 PASS 141s nova [W] Skipping flock for amd64 141s Creating nova instance adt-plucky-amd64-openbabel-20241115-040407-juju-7f2275-prod-proposed-migration-environment-15-4aa22034-05d1-4318-8b69-68467714aed4 from image adt/ubuntu-plucky-amd64-server-20241114.img (UUID 79d80331-8736-463c-82c6-8c9e13c0a4ca)...