0s autopkgtest [09:07:37]: starting date and time: 2024-11-13 09:07:37+0000 0s autopkgtest [09:07:37]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [09:07:37]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.7nhyk23_/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade openbabel --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-28.secgroup --name adt-plucky-amd64-openbabel-20241113-090737-juju-7f2275-prod-proposed-migration-environment-15-90168750-c1da-4ff2-9a53-a7582bab7c2c --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/ 370s autopkgtest [09:13:47]: testbed dpkg architecture: amd64 370s autopkgtest [09:13:47]: testbed apt version: 2.9.8 370s autopkgtest [09:13:47]: @@@@@@@@@@@@@@@@@@@@ test bed setup 371s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 371s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 372s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 372s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 372s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 372s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [65.2 kB] 372s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB] 372s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 372s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [255 kB] 373s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [637 kB] 374s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [37.7 kB] 374s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [13.0 kB] 374s Fetched 2173 kB in 3s (647 kB/s) 374s Reading package lists... 376s Reading package lists... 376s Building dependency tree... 376s Reading state information... 377s Calculating upgrade... 377s The following NEW packages will be installed: 377s python3.13-gdbm 377s The following packages will be upgraded: 377s libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal 377s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 377s Need to get 253 kB of archives. 377s After this operation, 147 kB of additional disk space will be used. 377s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB] 377s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB] 377s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB] 377s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB] 377s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B] 377s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.23.2-5ubuntu4 [152 kB] 378s Fetched 253 kB in 1s (385 kB/s) 378s (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 ... 75541 files and directories currently installed.) 378s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ... 378s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 378s Setting up python3-minimal (3.12.7-1) ... 378s (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 ... 75541 files and directories currently installed.) 378s Preparing to unpack .../python3_3.12.7-1_amd64.deb ... 378s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 378s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ... 378s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 378s Selecting previously unselected package python3.13-gdbm. 378s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ... 378s Unpacking python3.13-gdbm (3.13.0-2) ... 378s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ... 378s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 378s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_amd64.deb ... 378s Unpacking libgpgme11t64:amd64 (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ... 378s Setting up libgpgme11t64:amd64 (1.23.2-5ubuntu4) ... 378s Setting up python3.13-gdbm (3.13.0-2) ... 378s Setting up libpython3-stdlib:amd64 (3.12.7-1) ... 378s Setting up python3 (3.12.7-1) ... 378s Setting up python3-gdbm:amd64 (3.12.7-1) ... 378s Processing triggers for man-db (2.12.1-3) ... 379s Processing triggers for libc-bin (2.40-1ubuntu3) ... 379s Reading package lists... 379s Building dependency tree... 379s Reading state information... 379s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 380s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 380s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 380s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 380s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 381s Reading package lists... 381s Reading package lists... 381s Building dependency tree... 381s Reading state information... 381s Calculating upgrade... 381s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 381s Reading package lists... 382s Building dependency tree... 382s Reading state information... 382s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 385s autopkgtest [09:14:02]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 385s autopkgtest [09:14:02]: @@@@@@@@@@@@@@@@@@@@ apt-source openbabel 423s Get:1 http://ftpmaster.internal/ubuntu plucky/universe openbabel 3.1.1+dfsg-11ubuntu1 (dsc) [2896 B] 423s Get:2 http://ftpmaster.internal/ubuntu plucky/universe openbabel 3.1.1+dfsg-11ubuntu1 (tar) [21.8 MB] 423s Get:3 http://ftpmaster.internal/ubuntu plucky/universe openbabel 3.1.1+dfsg-11ubuntu1 (diff) [22.0 kB] 423s gpgv: Signature made Mon Oct 21 10:43:56 2024 UTC 423s gpgv: using RSA key 568BF22A66337CBFC9A6B9B72C83DBC8E9BD0E37 423s gpgv: Can't check signature: No public key 423s dpkg-source: warning: cannot verify inline signature for ./openbabel_3.1.1+dfsg-11ubuntu1.dsc: no acceptable signature found 426s dpkg-source: warning: diff 'src/debian/patches/2315.patch' patches file src/src/CMakeLists.txt more than once 426s dpkg-source: warning: diff 'src/debian/patches/2315.patch' patches file src/CMakeLists.txt more than once 426s dpkg-source: warning: diff 'src/debian/patches/2315.patch' patches file src/OpenBabel3Config.cmake.in more than once 426s autopkgtest [09:14:43]: testing package openbabel version 3.1.1+dfsg-11ubuntu1 426s autopkgtest [09:14:43]: build not needed 439s autopkgtest [09:14:56]: test python3: preparing testbed 448s Reading package lists... 449s Building dependency tree... 449s Reading state information... 449s Starting pkgProblemResolver with broken count: 0 449s Starting 2 pkgProblemResolver with broken count: 0 449s Done 449s The following additional packages will be installed: 449s adwaita-icon-theme at-spi2-common dconf-gsettings-backend dconf-service 449s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 449s gtk-update-icon-cache hicolor-icon-theme humanity-icon-theme 449s libatk-bridge2.0-0t64 libatk1.0-0t64 libatspi2.0-0t64 libavahi-client3 449s libavahi-common-data libavahi-common3 libboost-iostreams1.83.0 449s libcairo-gobject2 libcairo2 libchemistry-openbabel-perl libcolord2 449s libcups2t64 libdatrie1 libdconf1 libdeflate0 libepoxy0 libfontconfig1 449s libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgomp1 libgraphite2-3 449s libgtk-3-0t64 libgtk-3-common libharfbuzz0b libice6 libinchi1 libjbig0 449s libjpeg-turbo8 libjpeg8 libjs-jquery liblcms2-2 liblerc4 libmaeparser1 449s libnotify4 libopenbabel-dev libopenbabel-doc libopenbabel7 libpango-1.0-0 449s libpangocairo-1.0-0 libpangoft2-1.0-0 libpcre2-32-0 libpixman-1-0 449s libsharpyuv0 libsm6 libthai-data libthai0 libtiff6 libwayland-client0 449s libwayland-cursor0 libwayland-egl1 libwebp7 libwxbase3.2-1t64 449s libwxgtk3.2-1t64 libxcb-render0 libxcb-shm0 libxcomposite1 libxcursor1 449s libxdamage1 libxfixes3 libxi6 libxinerama1 libxrandr2 libxrender1 libxtst6 449s openbabel openbabel-gui python3-openbabel ubuntu-mono x11-common 449s Suggested packages: 449s adwaita-icon-theme-legacy colord cups-common gvfs liblcms2-utils 449s notification-daemon 449s Recommended packages: 449s librsvg2-common at-spi2-core libgdk-pixbuf2.0-bin libgtk-3-bin 449s javascript-common 449s The following NEW packages will be installed: 449s adwaita-icon-theme at-spi2-common autopkgtest-satdep dconf-gsettings-backend 449s dconf-service fontconfig fontconfig-config fonts-dejavu-core 449s fonts-dejavu-mono gtk-update-icon-cache hicolor-icon-theme 449s humanity-icon-theme libatk-bridge2.0-0t64 libatk1.0-0t64 libatspi2.0-0t64 449s libavahi-client3 libavahi-common-data libavahi-common3 449s libboost-iostreams1.83.0 libcairo-gobject2 libcairo2 449s libchemistry-openbabel-perl libcolord2 libcups2t64 libdatrie1 libdconf1 449s libdeflate0 libepoxy0 libfontconfig1 libgdk-pixbuf-2.0-0 449s libgdk-pixbuf2.0-common libgomp1 libgraphite2-3 libgtk-3-0t64 449s libgtk-3-common libharfbuzz0b libice6 libinchi1 libjbig0 libjpeg-turbo8 449s libjpeg8 libjs-jquery liblcms2-2 liblerc4 libmaeparser1 libnotify4 449s libopenbabel-dev libopenbabel-doc libopenbabel7 libpango-1.0-0 449s libpangocairo-1.0-0 libpangoft2-1.0-0 libpcre2-32-0 libpixman-1-0 449s libsharpyuv0 libsm6 libthai-data libthai0 libtiff6 libwayland-client0 449s libwayland-cursor0 libwayland-egl1 libwebp7 libwxbase3.2-1t64 449s libwxgtk3.2-1t64 libxcb-render0 libxcb-shm0 libxcomposite1 libxcursor1 449s libxdamage1 libxfixes3 libxi6 libxinerama1 libxrandr2 libxrender1 libxtst6 449s openbabel openbabel-gui python3-openbabel ubuntu-mono x11-common 449s 0 upgraded, 81 newly installed, 0 to remove and 0 not upgraded. 449s Need to get 30.3 MB/30.3 MB of archives. 449s After this operation, 150 MB of additional disk space will be used. 449s Get:1 /tmp/autopkgtest.IlLEnT/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [748 B] 449s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [7888 B] 450s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu2 [150 kB] 450s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 450s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.22-1 [64.5 kB] 450s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 450s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu2 [179 kB] 450s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [17.5 kB] 450s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.4.0-0.1 [231 kB] 450s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 451s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-1 [147 kB] 451s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 gtk-update-icon-cache amd64 4.16.5+ds-1 [52.4 kB] 451s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 hicolor-icon-theme all 0.18-1 [13.5 kB] 451s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 humanity-icon-theme all 0.6.16 [1282 kB] 452s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-mono all 24.04-0ubuntu1 [151 kB] 453s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 adwaita-icon-theme all 47.0-2 [525 kB] 453s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 at-spi2-common all 2.54.0-1 [8774 B] 453s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libdconf1 amd64 0.40.0-4build2 [39.4 kB] 453s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 dconf-service amd64 0.40.0-4build2 [27.5 kB] 453s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 dconf-gsettings-backend amd64 0.40.0-4build2 [22.1 kB] 453s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 454s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 455s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-1.1ubuntu2 [37.3 kB] 455s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-1.1ubuntu2 [139 kB] 455s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig amd64 2.15.0-1.1ubuntu2 [180 kB] 456s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libatk1.0-0t64 amd64 2.54.0-1 [55.1 kB] 456s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libxi6 amd64 2:1.8.2-1 [32.4 kB] 456s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libatspi2.0-0t64 amd64 2.54.0-1 [79.6 kB] 456s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libatk-bridge2.0-0t64 amd64 2.54.0-1 [66.3 kB] 456s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-common-data amd64 0.8-13ubuntu6 [29.7 kB] 456s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-common3 amd64 0.8-13ubuntu6 [23.3 kB] 456s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libavahi-client3 amd64 0.8-13ubuntu6 [26.8 kB] 456s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost-iostreams1.83.0 amd64 1.83.0-3.2ubuntu2 [260 kB] 456s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 457s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 457s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 457s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 457s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 458s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo-gobject2 amd64 1.18.2-2 [127 kB] 458s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 458s Get:41 http://ftpmaster.internal/ubuntu plucky/universe amd64 libinchi1 amd64 1.03+dfsg-4build1 [463 kB] 459s Get:42 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmaeparser1 amd64 1.3.1-1build1 [90.2 kB] 459s Get:43 http://ftpmaster.internal/ubuntu plucky/universe amd64 libopenbabel7 amd64 3.1.1+dfsg-11ubuntu1 [3333 kB] 463s Get:44 http://ftpmaster.internal/ubuntu plucky/universe amd64 libchemistry-openbabel-perl amd64 3.1.1+dfsg-11ubuntu1 [760 kB] 464s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 465s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libcolord2 amd64 1.4.7-1build2 [149 kB] 465s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libcups2t64 amd64 2.4.10-1ubuntu2 [271 kB] 465s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB] 465s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libepoxy0 amd64 1.5.10-2 [218 kB] 466s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 466s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.0.1-1 [540 kB] 466s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai-data all 0.1.29-2build1 [158 kB] 467s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB] 467s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libpango-1.0-0 amd64 1.54.0+ds-3 [252 kB] 467s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-3 [51.6 kB] 467s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-3 [29.1 kB] 467s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-client0 amd64 1.23.0-1 [27.1 kB] 467s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-cursor0 amd64 1.23.0-1 [10.8 kB] 467s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libwayland-egl1 amd64 1.23.0-1 [5662 B] 467s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcomposite1 amd64 1:0.4.6-1 [6642 B] 467s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libxfixes3 amd64 1:6.0.0-2build1 [10.8 kB] 467s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcursor1 amd64 1:1.2.2-1 [20.9 kB] 467s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libxdamage1 amd64 1:1.1.6-1build1 [6150 B] 467s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libxinerama1 amd64 2:1.1.4-3build1 [6396 B] 467s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrandr2 amd64 2:1.5.4-1 [19.6 kB] 467s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libgtk-3-common all 3.24.43-3ubuntu2 [1202 kB] 469s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libgtk-3-0t64 amd64 3.24.43-3ubuntu2 [2927 kB] 472s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 472s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB] 472s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 474s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libnotify4 amd64 0.8.3-1build2 [25.6 kB] 474s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 libopenbabel-dev amd64 3.1.1+dfsg-11ubuntu1 [181 kB] 474s Get:73 http://ftpmaster.internal/ubuntu plucky/universe amd64 libopenbabel-doc all 3.1.1+dfsg-11ubuntu1 [5610 kB] 481s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-32-0 amd64 10.42-4ubuntu3 [201 kB] 481s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB] 481s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 libwxbase3.2-1t64 amd64 3.2.5+dfsg-1 [903 kB] 483s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libxtst6 amd64 2:1.2.3-1.1build1 [12.6 kB] 483s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 libwxgtk3.2-1t64 amd64 3.2.5+dfsg-1 [4537 kB] 488s Get:79 http://ftpmaster.internal/ubuntu plucky/universe amd64 openbabel amd64 3.1.1+dfsg-11ubuntu1 [130 kB] 488s Get:80 http://ftpmaster.internal/ubuntu plucky/universe amd64 openbabel-gui amd64 3.1.1+dfsg-11ubuntu1 [89.4 kB] 488s Get:81 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-openbabel amd64 3.1.1+dfsg-11ubuntu1 [609 kB] 489s Fetched 30.3 MB in 40s (764 kB/s) 489s Selecting previously unselected package libgdk-pixbuf2.0-common. 489s (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 ... 75548 files and directories currently installed.) 489s Preparing to unpack .../00-libgdk-pixbuf2.0-common_2.42.12+dfsg-1_all.deb ... 489s Unpacking libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... 489s Selecting previously unselected package libjpeg-turbo8:amd64. 489s Preparing to unpack .../01-libjpeg-turbo8_2.1.5-2ubuntu2_amd64.deb ... 489s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 489s Selecting previously unselected package libjpeg8:amd64. 489s Preparing to unpack .../02-libjpeg8_8c-2ubuntu11_amd64.deb ... 489s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 489s Selecting previously unselected package libdeflate0:amd64. 489s Preparing to unpack .../03-libdeflate0_1.22-1_amd64.deb ... 489s Unpacking libdeflate0:amd64 (1.22-1) ... 489s Selecting previously unselected package libjbig0:amd64. 489s Preparing to unpack .../04-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 489s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 489s Selecting previously unselected package liblerc4:amd64. 489s Preparing to unpack .../05-liblerc4_4.0.0+ds-4ubuntu2_amd64.deb ... 489s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu2) ... 489s Selecting previously unselected package libsharpyuv0:amd64. 489s Preparing to unpack .../06-libsharpyuv0_1.4.0-0.1_amd64.deb ... 489s Unpacking libsharpyuv0:amd64 (1.4.0-0.1) ... 489s Selecting previously unselected package libwebp7:amd64. 489s Preparing to unpack .../07-libwebp7_1.4.0-0.1_amd64.deb ... 489s Unpacking libwebp7:amd64 (1.4.0-0.1) ... 489s Selecting previously unselected package libtiff6:amd64. 489s Preparing to unpack .../08-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 489s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 489s Selecting previously unselected package libgdk-pixbuf-2.0-0:amd64. 489s Preparing to unpack .../09-libgdk-pixbuf-2.0-0_2.42.12+dfsg-1_amd64.deb ... 489s Unpacking libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1) ... 489s Selecting previously unselected package gtk-update-icon-cache. 489s Preparing to unpack .../10-gtk-update-icon-cache_4.16.5+ds-1_amd64.deb ... 489s No diversion 'diversion of /usr/sbin/update-icon-caches to /usr/sbin/update-icon-caches.gtk2 by libgtk-3-bin', none removed. 489s 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. 489s Unpacking gtk-update-icon-cache (4.16.5+ds-1) ... 489s Selecting previously unselected package hicolor-icon-theme. 490s Preparing to unpack .../11-hicolor-icon-theme_0.18-1_all.deb ... 490s Unpacking hicolor-icon-theme (0.18-1) ... 490s Selecting previously unselected package humanity-icon-theme. 490s Preparing to unpack .../12-humanity-icon-theme_0.6.16_all.deb ... 490s Unpacking humanity-icon-theme (0.6.16) ... 490s Selecting previously unselected package ubuntu-mono. 490s Preparing to unpack .../13-ubuntu-mono_24.04-0ubuntu1_all.deb ... 490s Unpacking ubuntu-mono (24.04-0ubuntu1) ... 491s Selecting previously unselected package adwaita-icon-theme. 491s Preparing to unpack .../14-adwaita-icon-theme_47.0-2_all.deb ... 491s Unpacking adwaita-icon-theme (47.0-2) ... 491s Selecting previously unselected package at-spi2-common. 491s Preparing to unpack .../15-at-spi2-common_2.54.0-1_all.deb ... 491s Unpacking at-spi2-common (2.54.0-1) ... 491s Selecting previously unselected package libdconf1:amd64. 491s Preparing to unpack .../16-libdconf1_0.40.0-4build2_amd64.deb ... 491s Unpacking libdconf1:amd64 (0.40.0-4build2) ... 491s Selecting previously unselected package dconf-service. 491s Preparing to unpack .../17-dconf-service_0.40.0-4build2_amd64.deb ... 491s Unpacking dconf-service (0.40.0-4build2) ... 491s Selecting previously unselected package dconf-gsettings-backend:amd64. 491s Preparing to unpack .../18-dconf-gsettings-backend_0.40.0-4build2_amd64.deb ... 491s Unpacking dconf-gsettings-backend:amd64 (0.40.0-4build2) ... 491s Selecting previously unselected package fonts-dejavu-mono. 491s Preparing to unpack .../19-fonts-dejavu-mono_2.37-8_all.deb ... 491s Unpacking fonts-dejavu-mono (2.37-8) ... 491s Selecting previously unselected package fonts-dejavu-core. 491s Preparing to unpack .../20-fonts-dejavu-core_2.37-8_all.deb ... 491s Unpacking fonts-dejavu-core (2.37-8) ... 491s Selecting previously unselected package fontconfig-config. 491s Preparing to unpack .../21-fontconfig-config_2.15.0-1.1ubuntu2_amd64.deb ... 491s Unpacking fontconfig-config (2.15.0-1.1ubuntu2) ... 491s Selecting previously unselected package libfontconfig1:amd64. 491s Preparing to unpack .../22-libfontconfig1_2.15.0-1.1ubuntu2_amd64.deb ... 491s Unpacking libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 491s Selecting previously unselected package fontconfig. 491s Preparing to unpack .../23-fontconfig_2.15.0-1.1ubuntu2_amd64.deb ... 491s Unpacking fontconfig (2.15.0-1.1ubuntu2) ... 491s Selecting previously unselected package libatk1.0-0t64:amd64. 491s Preparing to unpack .../24-libatk1.0-0t64_2.54.0-1_amd64.deb ... 491s Unpacking libatk1.0-0t64:amd64 (2.54.0-1) ... 491s Selecting previously unselected package libxi6:amd64. 491s Preparing to unpack .../25-libxi6_2%3a1.8.2-1_amd64.deb ... 491s Unpacking libxi6:amd64 (2:1.8.2-1) ... 491s Selecting previously unselected package libatspi2.0-0t64:amd64. 491s Preparing to unpack .../26-libatspi2.0-0t64_2.54.0-1_amd64.deb ... 491s Unpacking libatspi2.0-0t64:amd64 (2.54.0-1) ... 491s Selecting previously unselected package libatk-bridge2.0-0t64:amd64. 491s Preparing to unpack .../27-libatk-bridge2.0-0t64_2.54.0-1_amd64.deb ... 491s Unpacking libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... 491s Selecting previously unselected package libavahi-common-data:amd64. 491s Preparing to unpack .../28-libavahi-common-data_0.8-13ubuntu6_amd64.deb ... 491s Unpacking libavahi-common-data:amd64 (0.8-13ubuntu6) ... 491s Selecting previously unselected package libavahi-common3:amd64. 491s Preparing to unpack .../29-libavahi-common3_0.8-13ubuntu6_amd64.deb ... 491s Unpacking libavahi-common3:amd64 (0.8-13ubuntu6) ... 491s Selecting previously unselected package libavahi-client3:amd64. 491s Preparing to unpack .../30-libavahi-client3_0.8-13ubuntu6_amd64.deb ... 491s Unpacking libavahi-client3:amd64 (0.8-13ubuntu6) ... 491s Selecting previously unselected package libboost-iostreams1.83.0:amd64. 491s Preparing to unpack .../31-libboost-iostreams1.83.0_1.83.0-3.2ubuntu2_amd64.deb ... 491s Unpacking libboost-iostreams1.83.0:amd64 (1.83.0-3.2ubuntu2) ... 494s Selecting previously unselected package libpixman-1-0:amd64. 494s Preparing to unpack .../32-libpixman-1-0_0.44.0-3_amd64.deb ... 494s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 494s Selecting previously unselected package libxcb-render0:amd64. 494s Preparing to unpack .../33-libxcb-render0_1.17.0-2_amd64.deb ... 494s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 494s Selecting previously unselected package libxcb-shm0:amd64. 494s Preparing to unpack .../34-libxcb-shm0_1.17.0-2_amd64.deb ... 494s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 494s Selecting previously unselected package libxrender1:amd64. 494s Preparing to unpack .../35-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 494s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 494s Selecting previously unselected package libcairo2:amd64. 494s Preparing to unpack .../36-libcairo2_1.18.2-2_amd64.deb ... 494s Unpacking libcairo2:amd64 (1.18.2-2) ... 494s Selecting previously unselected package libcairo-gobject2:amd64. 494s Preparing to unpack .../37-libcairo-gobject2_1.18.2-2_amd64.deb ... 494s Unpacking libcairo-gobject2:amd64 (1.18.2-2) ... 494s Selecting previously unselected package libgomp1:amd64. 494s Preparing to unpack .../38-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 494s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 494s Selecting previously unselected package libinchi1. 494s Preparing to unpack .../39-libinchi1_1.03+dfsg-4build1_amd64.deb ... 494s Unpacking libinchi1 (1.03+dfsg-4build1) ... 494s Selecting previously unselected package libmaeparser1:amd64. 494s Preparing to unpack .../40-libmaeparser1_1.3.1-1build1_amd64.deb ... 494s Unpacking libmaeparser1:amd64 (1.3.1-1build1) ... 494s Selecting previously unselected package libopenbabel7. 494s Preparing to unpack .../41-libopenbabel7_3.1.1+dfsg-11ubuntu1_amd64.deb ... 494s Unpacking libopenbabel7 (3.1.1+dfsg-11ubuntu1) ... 494s Selecting previously unselected package libchemistry-openbabel-perl. 494s Preparing to unpack .../42-libchemistry-openbabel-perl_3.1.1+dfsg-11ubuntu1_amd64.deb ... 494s Unpacking libchemistry-openbabel-perl (3.1.1+dfsg-11ubuntu1) ... 494s Selecting previously unselected package liblcms2-2:amd64. 494s Preparing to unpack .../43-liblcms2-2_2.16-2_amd64.deb ... 494s Unpacking liblcms2-2:amd64 (2.16-2) ... 494s Selecting previously unselected package libcolord2:amd64. 494s Preparing to unpack .../44-libcolord2_1.4.7-1build2_amd64.deb ... 494s Unpacking libcolord2:amd64 (1.4.7-1build2) ... 494s Selecting previously unselected package libcups2t64:amd64. 494s Preparing to unpack .../45-libcups2t64_2.4.10-1ubuntu2_amd64.deb ... 494s Unpacking libcups2t64:amd64 (2.4.10-1ubuntu2) ... 494s Selecting previously unselected package libdatrie1:amd64. 494s Preparing to unpack .../46-libdatrie1_0.2.13-3build1_amd64.deb ... 494s Unpacking libdatrie1:amd64 (0.2.13-3build1) ... 494s Selecting previously unselected package libepoxy0:amd64. 494s Preparing to unpack .../47-libepoxy0_1.5.10-2_amd64.deb ... 494s Unpacking libepoxy0:amd64 (1.5.10-2) ... 494s Selecting previously unselected package libgraphite2-3:amd64. 494s Preparing to unpack .../48-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 494s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 494s Selecting previously unselected package libharfbuzz0b:amd64. 494s Preparing to unpack .../49-libharfbuzz0b_10.0.1-1_amd64.deb ... 494s Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... 494s Selecting previously unselected package libthai-data. 494s Preparing to unpack .../50-libthai-data_0.1.29-2build1_all.deb ... 494s Unpacking libthai-data (0.1.29-2build1) ... 494s Selecting previously unselected package libthai0:amd64. 494s Preparing to unpack .../51-libthai0_0.1.29-2build1_amd64.deb ... 494s Unpacking libthai0:amd64 (0.1.29-2build1) ... 494s Selecting previously unselected package libpango-1.0-0:amd64. 494s Preparing to unpack .../52-libpango-1.0-0_1.54.0+ds-3_amd64.deb ... 494s Unpacking libpango-1.0-0:amd64 (1.54.0+ds-3) ... 494s Selecting previously unselected package libpangoft2-1.0-0:amd64. 494s Preparing to unpack .../53-libpangoft2-1.0-0_1.54.0+ds-3_amd64.deb ... 494s Unpacking libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... 494s Selecting previously unselected package libpangocairo-1.0-0:amd64. 494s Preparing to unpack .../54-libpangocairo-1.0-0_1.54.0+ds-3_amd64.deb ... 494s Unpacking libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... 494s Selecting previously unselected package libwayland-client0:amd64. 494s Preparing to unpack .../55-libwayland-client0_1.23.0-1_amd64.deb ... 494s Unpacking libwayland-client0:amd64 (1.23.0-1) ... 494s Selecting previously unselected package libwayland-cursor0:amd64. 494s Preparing to unpack .../56-libwayland-cursor0_1.23.0-1_amd64.deb ... 494s Unpacking libwayland-cursor0:amd64 (1.23.0-1) ... 494s Selecting previously unselected package libwayland-egl1:amd64. 494s Preparing to unpack .../57-libwayland-egl1_1.23.0-1_amd64.deb ... 494s Unpacking libwayland-egl1:amd64 (1.23.0-1) ... 494s Selecting previously unselected package libxcomposite1:amd64. 494s Preparing to unpack .../58-libxcomposite1_1%3a0.4.6-1_amd64.deb ... 494s Unpacking libxcomposite1:amd64 (1:0.4.6-1) ... 494s Selecting previously unselected package libxfixes3:amd64. 494s Preparing to unpack .../59-libxfixes3_1%3a6.0.0-2build1_amd64.deb ... 494s Unpacking libxfixes3:amd64 (1:6.0.0-2build1) ... 494s Selecting previously unselected package libxcursor1:amd64. 494s Preparing to unpack .../60-libxcursor1_1%3a1.2.2-1_amd64.deb ... 494s Unpacking libxcursor1:amd64 (1:1.2.2-1) ... 494s Selecting previously unselected package libxdamage1:amd64. 494s Preparing to unpack .../61-libxdamage1_1%3a1.1.6-1build1_amd64.deb ... 494s Unpacking libxdamage1:amd64 (1:1.1.6-1build1) ... 494s Selecting previously unselected package libxinerama1:amd64. 494s Preparing to unpack .../62-libxinerama1_2%3a1.1.4-3build1_amd64.deb ... 494s Unpacking libxinerama1:amd64 (2:1.1.4-3build1) ... 494s Selecting previously unselected package libxrandr2:amd64. 494s Preparing to unpack .../63-libxrandr2_2%3a1.5.4-1_amd64.deb ... 494s Unpacking libxrandr2:amd64 (2:1.5.4-1) ... 494s Selecting previously unselected package libgtk-3-common. 494s Preparing to unpack .../64-libgtk-3-common_3.24.43-3ubuntu2_all.deb ... 494s Unpacking libgtk-3-common (3.24.43-3ubuntu2) ... 494s Selecting previously unselected package libgtk-3-0t64:amd64. 494s Preparing to unpack .../65-libgtk-3-0t64_3.24.43-3ubuntu2_amd64.deb ... 494s Unpacking libgtk-3-0t64:amd64 (3.24.43-3ubuntu2) ... 494s Selecting previously unselected package x11-common. 494s Preparing to unpack .../66-x11-common_1%3a7.7+23ubuntu3_all.deb ... 494s Unpacking x11-common (1:7.7+23ubuntu3) ... 494s Selecting previously unselected package libice6:amd64. 494s Preparing to unpack .../67-libice6_2%3a1.1.1-1_amd64.deb ... 494s Unpacking libice6:amd64 (2:1.1.1-1) ... 494s Selecting previously unselected package 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494s Preparing to unpack .../73-libsm6_2%3a1.2.4-1_amd64.deb ... 494s Unpacking libsm6:amd64 (2:1.2.4-1) ... 494s Selecting previously unselected package libwxbase3.2-1t64:amd64. 494s Preparing to unpack .../74-libwxbase3.2-1t64_3.2.5+dfsg-1_amd64.deb ... 494s Unpacking libwxbase3.2-1t64:amd64 (3.2.5+dfsg-1) ... 494s Selecting previously unselected package libxtst6:amd64. 494s Preparing to unpack .../75-libxtst6_2%3a1.2.3-1.1build1_amd64.deb ... 494s Unpacking libxtst6:amd64 (2:1.2.3-1.1build1) ... 494s Selecting previously unselected package libwxgtk3.2-1t64:amd64. 494s Preparing to unpack .../76-libwxgtk3.2-1t64_3.2.5+dfsg-1_amd64.deb ... 494s Unpacking libwxgtk3.2-1t64:amd64 (3.2.5+dfsg-1) ... 494s Selecting previously unselected package openbabel. 494s Preparing to unpack .../77-openbabel_3.1.1+dfsg-11ubuntu1_amd64.deb ... 494s Unpacking openbabel (3.1.1+dfsg-11ubuntu1) ... 494s Selecting previously unselected package openbabel-gui. 494s Preparing to unpack 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(0.2.13-3build1) ... 494s Setting up libxcb-render0:amd64 (1.17.0-2) ... 494s Setting up libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... 494s Setting up x11-common (1:7.7+23ubuntu3) ... 494s Setting up libdeflate0:amd64 (1.22-1) ... 494s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 494s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 494s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 494s Setting up libcolord2:amd64 (1.4.7-1build2) ... 494s Setting up libdconf1:amd64 (0.40.0-4build2) ... 494s Setting up libpcre2-32-0:amd64 (10.42-4ubuntu3) ... 494s Setting up libepoxy0:amd64 (1.5.10-2) ... 494s Setting up libxfixes3:amd64 (1:6.0.0-2build1) ... 494s Setting up libboost-iostreams1.83.0:amd64 (1.83.0-3.2ubuntu2) ... 494s Setting up libavahi-common-data:amd64 (0.8-13ubuntu6) ... 494s Setting up libatspi2.0-0t64:amd64 (2.54.0-1) ... 494s Setting up libxinerama1:amd64 (2:1.1.4-3build1) ... 494s Setting up fonts-dejavu-mono (2.37-8) ... 494s Setting up libxrandr2:amd64 (2:1.5.4-1) ... 494s Setting up fonts-dejavu-core (2.37-8) ... 494s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu2) ... 494s Setting up libwebp7:amd64 (1.4.0-0.1) ... 494s Setting up at-spi2-common (2.54.0-1) ... 494s Setting up libharfbuzz0b:amd64 (10.0.1-1) ... 494s Setting up libthai-data (0.1.29-2build1) ... 494s Setting up libwayland-egl1:amd64 (1.23.0-1) ... 494s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 494s Setting up libwxbase3.2-1t64:amd64 (3.2.5+dfsg-1) ... 494s Setting up libxcomposite1:amd64 (1:0.4.6-1) ... 494s Setting up libinchi1 (1.03+dfsg-4build1) ... 494s Setting up libwayland-client0:amd64 (1.23.0-1) ... 494s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 494s Setting up libice6:amd64 (2:1.1.1-1) ... 494s Setting up libatk1.0-0t64:amd64 (2.54.0-1) ... 494s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... 494s Setting up libxtst6:amd64 (2:1.2.3-1.1build1) ... 494s Setting up libxcursor1:amd64 (1:1.2.2-1) ... 494s Setting up libavahi-common3:amd64 (0.8-13ubuntu6) ... 494s Setting up dconf-service (0.40.0-4build2) ... 494s Setting up libopenbabel-doc (3.1.1+dfsg-11ubuntu1) ... 494s Setting up libmaeparser1:amd64 (1.3.1-1build1) ... 494s Setting up libthai0:amd64 (0.1.29-2build1) ... 494s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 494s Setting up libwayland-cursor0:amd64 (1.23.0-1) ... 494s Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1) ... 494s Setting up libfontconfig1:amd64 (2.15.0-1.1ubuntu2) ... 494s Setting up libsm6:amd64 (2:1.2.4-1) ... 494s Setting up libavahi-client3:amd64 (0.8-13ubuntu6) ... 494s Setting up libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... 494s Setting up gtk-update-icon-cache (4.16.5+ds-1) ... 494s Setting up fontconfig (2.15.0-1.1ubuntu2) ... 496s Regenerating fonts cache... done. 496s Setting up dconf-gsettings-backend:amd64 (0.40.0-4build2) ... 496s Setting up libpango-1.0-0:amd64 (1.54.0+ds-3) ... 496s Setting up libcairo2:amd64 (1.18.2-2) ... 496s Setting up libnotify4:amd64 (0.8.3-1build2) ... 496s Setting up libcairo-gobject2:amd64 (1.18.2-2) ... 496s Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... 496s Setting up libcups2t64:amd64 (2.4.10-1ubuntu2) ... 496s Setting up libgtk-3-common (3.24.43-3ubuntu2) ... 496s Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... 496s Setting up libopenbabel7 (3.1.1+dfsg-11ubuntu1) ... 496s Setting up libopenbabel-dev (3.1.1+dfsg-11ubuntu1) ... 496s Setting up libchemistry-openbabel-perl (3.1.1+dfsg-11ubuntu1) ... 496s Setting up python3-openbabel (3.1.1+dfsg-11ubuntu1) ... 496s Setting up openbabel (3.1.1+dfsg-11ubuntu1) ... 496s Setting up adwaita-icon-theme (47.0-2) ... 496s update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode 496s Setting up humanity-icon-theme (0.6.16) ... 496s Setting up ubuntu-mono (24.04-0ubuntu1) ... 496s Processing triggers for man-db (2.12.1-3) ... 497s Processing triggers for libglib2.0-0t64:amd64 (2.82.1-0ubuntu1) ... 497s Setting up libgtk-3-0t64:amd64 (3.24.43-3ubuntu2) ... 497s Setting up libwxgtk3.2-1t64:amd64 (3.2.5+dfsg-1) ... 497s Processing triggers for libc-bin (2.40-1ubuntu3) ... 497s Setting up openbabel-gui (3.1.1+dfsg-11ubuntu1) ... 497s Setting up autopkgtest-satdep (0) ... 504s (Reading database ... 90963 files and directories currently installed.) 504s Removing autopkgtest-satdep (0) ... 507s autopkgtest [09:16:04]: test python3: [----------------------- 508s Running test/testRInChI.py ... 508s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testRInChI.py:1: SyntaxWarning: invalid escape sequence '\P' 508s """Test OpenBabel executables from Python 508s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testbabel.py:1: SyntaxWarning: invalid escape sequence '\P' 508s """Test OpenBabel executables from Python 508s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testbabel.py:101: SyntaxWarning: invalid escape sequence '\d' 508s pat = "(-?\d.*) molecule(?:s?) converted" 509s .. 509s ---------------------------------------------------------------------- 509s Ran 2 tests in 0.763s 509s 509s OK 509s Running test/test_pybel.py ... 509s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/test_pybel.py:1: SyntaxWarning: invalid escape sequence '\P' 509s """Test OpenBabel Python bindings 509s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testbindings.py:1: SyntaxWarning: invalid escape sequence '\P' 509s """Test OpenBabel Python bindings 509s .........................============================== 509s *** Open Babel Warning in WriteMolecule 509s 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. 509s .....============================== 509s *** Open Babel Error in SMARTSError 509s SMARTS Error: 509s [#NOEL][#NOEL] 509s ^ 509s 509s .... 509s ---------------------------------------------------------------------- 509s Ran 34 tests in 0.242s 509s 509s OK 509s Running test/testbabel.py ... 509s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testbabel.py:1: SyntaxWarning: invalid escape sequence '\P' 509s """Test OpenBabel executables from Python 509s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testbabel.py:101: SyntaxWarning: invalid escape sequence '\d' 509s pat = "(-?\d.*) molecule(?:s?) converted" 510s ......./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 510s self.stdin = io.open(p2cwrite, 'wb', bufsize) 510s /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 510s self.stdout = io.open(c2pread, 'rb', bufsize) 510s /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 510s self.stderr = io.open(errread, 'rb', bufsize) 511s ...... 511s ---------------------------------------------------------------------- 511s Ran 13 tests in 2.228s 511s 511s OK 511s Running test/testbindings.py ... 511s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testbindings.py:1: SyntaxWarning: invalid escape sequence '\P' 511s """Test OpenBabel Python bindings 511s ...============================== 511s *** Open Babel Warning in WriteMolecule 511s 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. 511s ....============================== 511s *** Open Babel Warning in ParseSmiles 511s Too many greater-than signs in SMILES string 511s 511s ============================== 511s *** Open Babel Warning in ParseSmiles 511s Too many greater-than signs in SMILES string 511s 511s ============================== 511s *** Open Babel Warning in ParseSmiles 511s Too many greater-than signs in SMILES string 511s 511s ============================== 511s *** Open Babel Warning in ParseSmiles 511s Invalid reaction SMILES string: only a single '>' sign found (two required to be valid). 511s ============================== 511s *** Open Babel Warning in ParseSmiles 511s Invalid reaction SMILES string: only a single '>' sign found (two required to be valid). 511s ============================== 511s *** Open Babel Warning in ParseSmiles 511s Invalid reaction SMILES string: only a single '>' sign found (two required to be valid). 511s ..============================== 511s *** Open Babel Warning in IsValid 511s The molecule is not marked as a reaction. Use SetIsReaction(). 511s ============================== 511s *** Open Babel Warning in IsValid 511s Reaction roles should be in the range 0 to 3 inclusive. 511s ============================== 511s *** Open Babel Warning in IsValid 511s Reaction component Ids should all be non-zero positive integers. 511s ============================== 511s *** Open Babel Warning in IsValid 511s The molecule contains an atom that is missing a reaction component Id. Use SetComponentId(). 511s ============================== 511s *** Open Babel Warning in IsValid 511s A reaction component Id has been stored using a data type that is not an OBPairInteger. 511s ============================== 511s *** Open Babel Warning in IsValid 511s 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. 511s ============================== 511s *** Open Babel Warning in IsValid 511s 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. 511s ...........============================== 511s *** Open Babel Warning in ReadMolecule 511s WARNING: Problem interpreting the valence field of an atom 511s The valence field specifies a valence 0 that is 511s less than the observed explicit valence 1. 511s 511s .============================== 511s *** Open Babel Warning in WriteMolecule 511s 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. 511s ..........============================== 511s *** Open Babel Error in ParseComplex 511s SMILES string contains a character '#' which is invalid 511s ============================== 511s *** Open Babel Error in ParseComplex 511s Element number must be <= 255) 511s ============================== 511s *** Open Babel Error in ParseComplex 511s SMILES string contains a character '#' which is invalid 511s ..============================== 511s *** Open Babel Warning in ParseRingBond 511s Warning: Tetrahedral stereo specified for atom with more than 4 connections. 511s ============================== 511s *** Open Babel Warning in ParseSmiles 511s Failed to kekulize aromatic SMILES 511s 511s ....============================== 511s *** Open Babel Error in ParseSimple 511s SMILES string contains a character ',' which is invalid 511s ============================== 511s *** Open Babel Error in ParseSimple 511s SMILES string contains a character ',' which is invalid 511s ============================== 511s *** Open Babel Error in ParseComplex 511s SMILES string contains a character ',' which is invalid 511s ============================== 511s *** Open Babel Error in ParseComplex 511s SMILES string contains a character ',' which is invalid 511s ============================== 511s *** Open Babel Warning in ParseComplex 511s The atom class following : must be a number 511s ============================== 511s *** Open Babel Error in ParseSimple 511s SMILES string contains a character ',' which is invalid 511s ============================== 511s *** Open Babel Warning in ParseRingBond 511s Two digits expected after % 511s ============================== 511s *** Open Babel Warning in ParseRingBond 511s Matching close parenthesis not found for ring closure number 511s ============================== 511s *** Open Babel Error in ParseSimple 511s SMILES string contains a character ',' which is invalid 511s ..........============================== 511s *** Open Babel Warning in ParseComplex 511s Charge can only be specified once 511s ============================== 511s *** Open Babel Warning in ParseComplex 511s Charge can only be specified once 511s ============================== 511s *** Open Babel Warning in ParseComplex 511s Charge can only be specified once 511s ============================== 511s *** Open Babel Warning in ParseComplex 511s Charge can only be specified once 511s ...============================== 511s *** Open Babel Warning in ReadMolecule 511s Ignoring mass difference field for explicit hydrogen isotope. 511s 0.0000 0.0000 0.0000 D 1 0 0 0 0 0 0 0 0 0 0 0 511s ============================== 511s *** Open Babel Warning in ReadMolecule 511s Ignoring mass difference field for explicit hydrogen isotope. 511s 0.0000 0.0000 0.0000 T 1 0 0 0 0 0 0 0 0 0 0 0 511s ============================== 511s *** Open Babel Warning in ReadMolecule 511s Invalid value for mass difference. It should be between -3 and 4. 511s 0.0000 0.0000 0.0000 C 5 0 0 0 0 0 0 0 0 0 0 0 511s ============================== 511s *** Open Babel Warning in ReadMolecule 511s Invalid value for mass difference. It should be between -3 and 4. 511s 0.0000 0.0000 0.0000 C -4 0 0 0 0 0 0 0 0 0 0 0 511s ..============================== 511s *** Open Babel Warning in WriteMolecule 511s 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. 511s ...============================== 511s *** Open Babel Warning in GetSmilesElement 511s Isotope value larger than 9999. Ignoring value. 511s ..============================== 511s *** Open Babel Warning in ParseComplex 511s Square planar stereochemistry must be one of SP1, SP2 or SP3 511s ============================== 511s *** Open Babel Warning in ParseComplex 511s Square planar stereochemistry must be one of SP1, SP2 or SP3 511s ============================== 511s *** Open Babel Warning in InsertSquarePlanarRef 511s Warning: Square planar stereo specified for atom with more than 4 connections. 511s ============================== 511s *** Open Babel Warning in InsertSquarePlanarRef 511s Warning: Square planar stereo specified for atom with more than 4 connections. 511s ..... 511s ---------------------------------------------------------------------- 511s Ran 62 tests in 0.182s 511s 511s OK 511s Running test/testcdjsonformat.py ... 511s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testcdjsonformat.py:1: SyntaxWarning: invalid escape sequence '\P' 511s """Test ChemDoodle JSON format using the OpenBabel Python bindings 511s .......... 511s ---------------------------------------------------------------------- 511s Ran 10 tests in 0.003s 511s 511s OK 512s Skipping test/testdistgeom.py ... 512s Running test/testexample.py ... 512s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testexample.py:1: SyntaxWarning: invalid escape sequence '\P' 512s """Example test that uses the OpenBabel Python bindings 512s .. 512s ---------------------------------------------------------------------- 512s Ran 2 tests in 0.001s 512s 512s OK 512s Running test/testfastsearch.py ... 512s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testfastsearch.py:1: SyntaxWarning: invalid escape sequence '\P' 512s """Test OpenBabel executables from Python 512s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testfastsearch.py:30: SyntaxWarning: invalid escape sequence '\C' 512s smiles = """C12(C(N(C(=O)C)c3c2cccc3)=O)Nc2c(ccc(c2N1)OCCCC)OCCCC 512s . 512s ---------------------------------------------------------------------- 512s Ran 1 test in 0.057s 512s 512s OK 512s Running test/testkekule.py ... 512s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testkekule.py:1: SyntaxWarning: invalid escape sequence '\P' 512s """Test OpenBabel executables from Python 512s /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 512s self.stdin = io.open(p2cwrite, 'wb', bufsize) 512s /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 512s self.stdout = io.open(c2pread, 'rb', bufsize) 512s /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 512s self.stderr = io.open(errread, 'rb', bufsize) 512s ... 512s ---------------------------------------------------------------------- 512s Ran 3 tests in 0.411s 512s 512s OK 512s Running test/testobconv_writers.py ... 512s ............................................................................................................................................. 512s ---------------------------------------------------------------------- 512s Ran 141 tests in 0.082s 512s 512s OK 512s Running test/testpcjsonformat.py ... 512s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testpcjsonformat.py:1: SyntaxWarning: invalid escape sequence '\P' 512s """Test PubChem JSON format using the OpenBabel Python bindings 512s ................. 512s ---------------------------------------------------------------------- 512s Ran 17 tests in 0.009s 512s 512s OK 512s Running test/testpdbformat.py ... 512s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testpdbformat.py:1: SyntaxWarning: invalid escape sequence '\P' 512s """Test OpenBabel executables from Python 512s /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 512s self.stdin = io.open(p2cwrite, 'wb', bufsize) 512s /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 512s self.stdout = io.open(c2pread, 'rb', bufsize) 512s /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 512s self.stderr = io.open(errread, 'rb', bufsize) 512s . 512s ---------------------------------------------------------------------- 512s Ran 1 test in 0.025s 512s 512s OK 512s Skipping test/testroundtrip.py ... 512s Running test/testsmartssym.py ... 513s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testsmartssym.py:1: SyntaxWarning: invalid escape sequence '\P' 513s """Test OpenBabel executables from Python 513s /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 513s self.stdin = io.open(p2cwrite, 'wb', bufsize) 513s /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 513s self.stdout = io.open(c2pread, 'rb', bufsize) 513s /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 513s self.stderr = io.open(errread, 'rb', bufsize) 513s .... 513s ---------------------------------------------------------------------- 513s Ran 4 tests in 0.736s 513s 513s OK 513s Skipping test/testsym.py ... 513s Running test/testunique.py ... 513s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testunique.py:1: SyntaxWarning: invalid escape sequence '\P' 513s """Test OpenBabel executables from Python 513s /tmp/autopkgtest.IlLEnT/build.3A3/src/test/testunique.py:26: SyntaxWarning: invalid escape sequence '\F' 513s self.smiles = """C methane 513s /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 513s self.stdin = io.open(p2cwrite, 'wb', bufsize) 513s /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 513s self.stdout = io.open(c2pread, 'rb', bufsize) 513s /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 513s self.stderr = io.open(errread, 'rb', bufsize) 514s . 514s ---------------------------------------------------------------------- 514s Ran 1 test in 0.191s 514s 514s OK 514s autopkgtest [09:16:11]: test python3: -----------------------] 515s autopkgtest [09:16:12]: test python3: - - - - - - - - - - results - - - - - - - - - - 515s python3 PASS 516s autopkgtest [09:16:13]: @@@@@@@@@@@@@@@@@@@@ summary 516s python3 PASS 529s nova [W] Skipping flock for amd64 529s Creating nova instance adt-plucky-amd64-openbabel-20241113-090737-juju-7f2275-prod-proposed-migration-environment-15-90168750-c1da-4ff2-9a53-a7582bab7c2c from image adt/ubuntu-plucky-amd64-server-20241113.img (UUID 62c21ac4-2290-4c8d-8313-dddd18eacff4)... 529s nova [W] nova quota exceeded (attempt #0)