0s autopkgtest [06:07:19]: starting date: 2024-03-11 0s autopkgtest [06:07:19]: git checkout: d9c0295 adt_testbed.py: supress warnings from apt using a shell pipeline 0s autopkgtest [06:07:19]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.dbrreldr/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:cairo,src:glib2.0,src:libpng1.6,src:wp2latex --apt-upgrade rdkit --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=cairo/1.18.0-1ubuntu1 glib2.0/2.79.3-3ubuntu3 libpng1.6/1.6.43-3 wp2latex/4.4~ds-1build1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos03-arm64-13.secgroup --name adt-noble-arm64-rdkit-20240311-060718-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --net-id=net_prod-proposed-migration -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,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 111s autopkgtest [06:09:10]: @@@@@@@@@@@@@@@@@@@@ test bed setup 112s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 112s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [37.3 kB] 112s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [3976 B] 112s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [2661 kB] 112s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [434 kB] 112s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [581 kB] 112s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 112s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [20.3 kB] 112s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 112s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [2966 kB] 112s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 112s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [39.6 kB] 112s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 114s Fetched 6872 kB in 1s (4806 kB/s) 114s Reading package lists... 117s Reading package lists... 117s Building dependency tree... 117s Reading state information... 117s Calculating upgrade... 118s The following packages will be REMOVED: 118s libglib2.0-0 118s The following NEW packages will be installed: 118s libglib2.0-0t64 xdg-user-dirs 118s The following packages will be upgraded: 118s gir1.2-glib-2.0 libglib2.0-data 118s 2 upgraded, 2 newly installed, 1 to remove and 0 not upgraded. 118s Need to get 1774 kB of archives. 118s After this operation, 138 kB of additional disk space will be used. 118s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 gir1.2-glib-2.0 arm64 2.79.3-3ubuntu5 [182 kB] 118s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libglib2.0-0t64 arm64 2.79.3-3ubuntu5 [1527 kB] 118s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libglib2.0-data all 2.79.3-3ubuntu5 [46.6 kB] 118s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 xdg-user-dirs arm64 0.18-1 [18.1 kB] 119s Fetched 1774 kB in 1s (2810 kB/s) 119s (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 ... 74748 files and directories currently installed.) 119s Preparing to unpack .../gir1.2-glib-2.0_2.79.3-3ubuntu5_arm64.deb ... 119s Unpacking gir1.2-glib-2.0:arm64 (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 120s dpkg: libglib2.0-0:arm64: dependency problems, but removing anyway as you requested: 120s udisks2 depends on libglib2.0-0 (>= 2.77.0). 120s shared-mime-info depends on libglib2.0-0 (>= 2.75.3). 120s python3-gi depends on libglib2.0-0 (>= 2.77.0). 120s python3-dbus depends on libglib2.0-0 (>= 2.16.0). 120s netplan.io depends on libglib2.0-0 (>= 2.70.0). 120s netplan-generator depends on libglib2.0-0 (>= 2.70.0). 120s libxmlb2:arm64 depends on libglib2.0-0 (>= 2.54.0). 120s libvolume-key1:arm64 depends on libglib2.0-0 (>= 2.18.0). 120s libudisks2-0:arm64 depends on libglib2.0-0 (>= 2.75.3). 120s libqrtr-glib0:arm64 depends on libglib2.0-0 (>= 2.56). 120s libqmi-proxy depends on libglib2.0-0 (>= 2.30.0). 120s libqmi-glib5:arm64 depends on libglib2.0-0 (>= 2.54.0). 120s libpolkit-gobject-1-0:arm64 depends on libglib2.0-0 (>= 2.38.0). 120s libpolkit-agent-1-0:arm64 depends on libglib2.0-0 (>= 2.38.0). 120s libnetplan0:arm64 depends on libglib2.0-0 (>= 2.75.3). 120s libmm-glib0:arm64 depends on libglib2.0-0 (>= 2.62.0). 120s libmbim-proxy depends on libglib2.0-0 (>= 2.56). 120s libmbim-glib4:arm64 depends on libglib2.0-0 (>= 2.56). 120s libjson-glib-1.0-0:arm64 depends on libglib2.0-0 (>= 2.75.3). 120s libjcat1:arm64 depends on libglib2.0-0 (>= 2.75.3). 120s libgusb2:arm64 depends on libglib2.0-0 (>= 2.75.3). 120s libgudev-1.0-0:arm64 depends on libglib2.0-0 (>= 2.38.0). 120s libgirepository-1.0-1:arm64 depends on libglib2.0-0 (>= 2.79.0). 120s libfwupd2:arm64 depends on libglib2.0-0 (>= 2.79.0). 120s libblockdev3:arm64 depends on libglib2.0-0 (>= 2.42.2). 120s libblockdev-utils3:arm64 depends on libglib2.0-0 (>= 2.75.3). 120s libblockdev-swap3:arm64 depends on libglib2.0-0 (>= 2.42.2). 120s libblockdev-part3:arm64 depends on libglib2.0-0 (>= 2.42.2). 120s libblockdev-nvme3:arm64 depends on libglib2.0-0 (>= 2.42.2). 120s libblockdev-mdraid3:arm64 depends on libglib2.0-0 (>= 2.42.2). 120s libblockdev-loop3:arm64 depends on libglib2.0-0 (>= 2.42.2). 120s libblockdev-fs3:arm64 depends on libglib2.0-0 (>= 2.42.2). 120s libblockdev-crypto3:arm64 depends on libglib2.0-0 (>= 2.42.2). 120s fwupd depends on libglib2.0-0 (>= 2.79.0). 120s bolt depends on libglib2.0-0 (>= 2.56.0). 120s 120s (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 ... 74748 files and directories currently installed.) 120s Removing libglib2.0-0:arm64 (2.79.2-1~ubuntu1) ... 120s Selecting previously unselected package libglib2.0-0t64:arm64. 120s (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 ... 74723 files and directories currently installed.) 120s Preparing to unpack .../libglib2.0-0t64_2.79.3-3ubuntu5_arm64.deb ... 120s libglib2.0-0t64.preinst: Removing /var/lib/dpkg/info/libglib2.0-0:arm64.postrm to avoid loss of /usr/share/glib-2.0/schemas/gschemas.compiled... 120s removed '/var/lib/dpkg/info/libglib2.0-0:arm64.postrm' 120s Unpacking libglib2.0-0t64:arm64 (2.79.3-3ubuntu5) ... 120s Preparing to unpack .../libglib2.0-data_2.79.3-3ubuntu5_all.deb ... 120s Unpacking libglib2.0-data (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 120s Selecting previously unselected package xdg-user-dirs. 120s Preparing to unpack .../xdg-user-dirs_0.18-1_arm64.deb ... 120s Unpacking xdg-user-dirs (0.18-1) ... 120s Setting up xdg-user-dirs (0.18-1) ... 120s Setting up libglib2.0-0t64:arm64 (2.79.3-3ubuntu5) ... 120s No schema files found: doing nothing. 120s Setting up libglib2.0-data (2.79.3-3ubuntu5) ... 120s Setting up gir1.2-glib-2.0:arm64 (2.79.3-3ubuntu5) ... 120s Processing triggers for man-db (2.12.0-3) ... 121s Processing triggers for libc-bin (2.39-0ubuntu2) ... 121s Reading package lists... 121s Building dependency tree... 121s Reading state information... 122s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 123s sh: Attempting to set up Debian/Ubuntu apt sources automatically 123s sh: Distribution appears to be Ubuntu 124s Reading package lists... 124s Building dependency tree... 124s Reading state information... 125s eatmydata is already the newest version (131-1). 125s dbus is already the newest version (1.14.10-4ubuntu1). 125s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 125s Reading package lists... 125s Building dependency tree... 125s Reading state information... 126s rng-tools-debian is already the newest version (2.4). 126s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 126s Reading package lists... 126s Building dependency tree... 126s Reading state information... 127s haveged is already the newest version (1.9.14-1ubuntu1). 127s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 127s Reading package lists... 127s Building dependency tree... 127s Reading state information... 127s The following packages will be REMOVED: 127s cloud-init* python3-configobj* python3-debconf* 128s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 128s After this operation, 3248 kB disk space will be freed. 128s (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 ... 74762 files and directories currently installed.) 128s Removing cloud-init (24.1-0ubuntu1) ... 128s Removing python3-configobj (5.0.8-3) ... 128s Removing python3-debconf (1.5.86) ... 128s Processing triggers for man-db (2.12.0-3) ... 129s (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 ... 74373 files and directories currently installed.) 129s Purging configuration files for cloud-init (24.1-0ubuntu1) ... 130s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 130s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 130s Reading package lists... 130s Building dependency tree... 130s Reading state information... 131s linux-generic is already the newest version (6.8.0-11.11+1). 131s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 131s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 131s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 131s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 132s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease 133s Reading package lists... 133s Reading package lists... 134s Building dependency tree... 134s Reading state information... 134s Calculating upgrade... 134s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 135s Reading package lists... 135s Building dependency tree... 135s Reading state information... 136s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 137s autopkgtest [06:09:36]: rebooting testbed after setup commands that affected boot 163s autopkgtest [06:10:02]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 163s autopkgtest [06:10:02]: testbed dpkg architecture: arm64 164s autopkgtest [06:10:03]: @@@@@@@@@@@@@@@@@@@@ apt-source rdkit 170s Get:1 http://ftpmaster.internal/ubuntu noble/universe rdkit 202309.3-3 (dsc) [2884 B] 170s Get:2 http://ftpmaster.internal/ubuntu noble/universe rdkit 202309.3-3 (tar) [61.9 MB] 170s Get:3 http://ftpmaster.internal/ubuntu noble/universe rdkit 202309.3-3 (diff) [24.9 kB] 170s gpgv: Signature made Wed Feb 28 09:56:29 2024 UTC 170s gpgv: using RSA key 772292F6F7AC85FAE041D41EE5F43F9C2734F287 170s gpgv: issuer "merkys@debian.org" 170s gpgv: Can't check signature: No public key 170s dpkg-source: warning: cannot verify inline signature for ./rdkit_202309.3-3.dsc: no acceptable signature found 173s autopkgtest [06:10:12]: testing package rdkit version 202309.3-3 173s autopkgtest [06:10:12]: build not needed 181s autopkgtest [06:10:20]: test installcheck: preparing testbed 184s Reading package lists... 184s Building dependency tree... 184s Reading state information... 184s Correcting dependencies...Starting pkgProblemResolver with broken count: 0 184s Starting 2 pkgProblemResolver with broken count: 0 184s Done 185s Done 185s Starting pkgProblemResolver with broken count: 0 185s Starting 2 pkgProblemResolver with broken count: 0 185s Done 186s The following additional packages will be installed: 186s fontconfig-config fonts-freefont-ttf libblas3 libboost-iostreams1.83.0 186s libboost-python1.83.0 libboost-serialization1.83.0 libcairo2 libcoordgen3 186s libfontconfig1 libgfortran5 libjs-jquery libjs-underscore libjson-perl 186s liblapack3 libllvm17 libmaeparser1 libpixman-1-0 libpng16-16t64 libpq5 186s libpython3.11-minimal libpython3.11-stdlib libpython3.12 librdkit-dev 186s librdkit1 libxcb-render0 libxcb-shm0 libxrender1 libxslt1.1 postgresql-16 186s postgresql-16-rdkit postgresql-client-16 postgresql-client-common 186s postgresql-common python3-numpy python3-rdkit python3.11 python3.11-minimal 186s rdkit-data rdkit-doc ssl-cert 186s Suggested packages: 186s postgresql-doc-16 gcc gfortran python3-dev python3-pytest python3.11-venv 186s python3.11-doc binfmt-support 186s Recommended packages: 186s javascript-common libjson-xs-perl 186s The following packages will be REMOVED: 186s libpng16-16 186s The following NEW packages will be installed: 186s fontconfig-config fonts-freefont-ttf libblas3 libboost-iostreams1.83.0 186s libboost-python1.83.0 libboost-serialization1.83.0 libcairo2 libcoordgen3 186s libfontconfig1 libgfortran5 libjs-jquery libjs-underscore libjson-perl 186s liblapack3 libllvm17 libmaeparser1 libpixman-1-0 libpng16-16t64 libpq5 186s libpython3.11-minimal libpython3.11-stdlib libpython3.12 librdkit-dev 186s librdkit1 libxcb-render0 libxcb-shm0 libxrender1 libxslt1.1 postgresql-16 186s postgresql-16-rdkit postgresql-client-16 postgresql-client-common 186s postgresql-common python3-numpy python3-rdkit python3.11 python3.11-minimal 186s rdkit-data rdkit-doc ssl-cert 186s 0 upgraded, 40 newly installed, 1 to remove and 0 not upgraded. 186s 1 not fully installed or removed. 186s Need to get 97.2 MB of archives. 186s After this operation, 469 MB of additional disk space will be used. 186s Get:1 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-freefont-ttf all 20211204+svn4273-2 [5641 kB] 187s Get:2 http://ftpmaster.internal/ubuntu noble/universe arm64 rdkit-data all 202309.3-3 [12.6 MB] 187s Get:3 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.11-minimal arm64 3.11.8-1 [837 kB] 187s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 python3.11-minimal arm64 3.11.8-1 [2150 kB] 188s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.11-stdlib arm64 3.11.8-1 [1913 kB] 188s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 python3.11 arm64 3.11.8-1 [589 kB] 188s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 libblas3 arm64 3.12.0-3 [143 kB] 188s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 libgfortran5 arm64 14-20240303-1ubuntu1 [444 kB] 188s Get:9 http://ftpmaster.internal/ubuntu noble/main arm64 liblapack3 arm64 3.12.0-3 [2241 kB] 188s Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 python3-numpy arm64 1:1.24.2-2 [4525 kB] 188s Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 libboost-python1.83.0 arm64 1.83.0-2ubuntu1 [457 kB] 188s Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 libboost-serialization1.83.0 arm64 1.83.0-2ubuntu1 [434 kB] 188s Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 fontconfig-config arm64 2.15.0-1ubuntu1 [37.0 kB] 188s Get:14 http://ftpmaster.internal/ubuntu noble/main arm64 libfontconfig1 arm64 2.15.0-1ubuntu1 [142 kB] 188s Get:15 http://ftpmaster.internal/ubuntu noble/main arm64 libpixman-1-0 arm64 0.42.2-1 [193 kB] 188s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpng16-16t64 arm64 1.6.43-3 [185 kB] 188s Get:17 http://ftpmaster.internal/ubuntu noble/main arm64 libxcb-render0 arm64 1.15-1 [16.1 kB] 188s Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 libxcb-shm0 arm64 1.15-1 [5780 B] 188s Get:19 http://ftpmaster.internal/ubuntu noble/main arm64 libxrender1 arm64 1:0.9.10-1.1 [19.1 kB] 188s Get:20 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcairo2 arm64 1.18.0-1ubuntu1 [555 kB] 188s Get:21 http://ftpmaster.internal/ubuntu noble/universe arm64 libcoordgen3 arm64 3.0.2-1 [207 kB] 188s Get:22 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.12 arm64 3.12.2-1 [2291 kB] 188s Get:23 http://ftpmaster.internal/ubuntu noble/main arm64 libboost-iostreams1.83.0 arm64 1.83.0-2ubuntu1 [339 kB] 188s Get:24 http://ftpmaster.internal/ubuntu noble/universe arm64 libmaeparser1 arm64 1.3.1-1build1 [84.5 kB] 188s Get:25 http://ftpmaster.internal/ubuntu noble/universe arm64 librdkit1 arm64 202309.3-3 [4841 kB] 188s Get:26 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-rdkit arm64 202309.3-3 [4608 kB] 188s Get:27 http://ftpmaster.internal/ubuntu noble/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 188s Get:28 http://ftpmaster.internal/ubuntu noble/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 188s Get:29 http://ftpmaster.internal/ubuntu noble/universe arm64 rdkit-doc all 202309.3-3 [8435 kB] 189s Get:30 http://ftpmaster.internal/ubuntu noble/universe arm64 librdkit-dev arm64 202309.3-3 [305 kB] 189s Get:31 http://ftpmaster.internal/ubuntu noble/main arm64 libpq5 arm64 16.2-1 [136 kB] 189s Get:32 http://ftpmaster.internal/ubuntu noble/main arm64 postgresql-client-common all 257 [36.2 kB] 189s Get:33 http://ftpmaster.internal/ubuntu noble/main arm64 postgresql-client-16 arm64 16.2-1 [1260 kB] 189s Get:34 http://ftpmaster.internal/ubuntu noble/main arm64 libjson-perl all 4.10000-1 [81.9 kB] 189s Get:35 http://ftpmaster.internal/ubuntu noble/main arm64 ssl-cert all 1.1.2ubuntu1 [17.8 kB] 189s Get:36 http://ftpmaster.internal/ubuntu noble/main arm64 postgresql-common all 257 [162 kB] 189s Get:37 http://ftpmaster.internal/ubuntu noble/main arm64 libllvm17 arm64 1:17.0.6-5build1 [25.0 MB] 189s Get:38 http://ftpmaster.internal/ubuntu noble/main arm64 libxslt1.1 arm64 1.1.35-1 [161 kB] 189s Get:39 http://ftpmaster.internal/ubuntu noble/main arm64 postgresql-16 arm64 16.2-1 [15.2 MB] 190s Get:40 http://ftpmaster.internal/ubuntu noble/universe arm64 postgresql-16-rdkit arm64 202309.3-3 [380 kB] 190s Preconfiguring packages ... 190s Fetched 97.2 MB in 4s (25.5 MB/s) 190s Selecting previously unselected package fonts-freefont-ttf. 190s (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 ... 74318 files and directories currently installed.) 190s Preparing to unpack .../00-fonts-freefont-ttf_20211204+svn4273-2_all.deb ... 190s Unpacking fonts-freefont-ttf (20211204+svn4273-2) ... 191s Selecting previously unselected package rdkit-data. 191s Preparing to unpack .../01-rdkit-data_202309.3-3_all.deb ... 191s Unpacking rdkit-data (202309.3-3) ... 191s Selecting previously unselected package libpython3.11-minimal:arm64. 191s Preparing to unpack .../02-libpython3.11-minimal_3.11.8-1_arm64.deb ... 191s Unpacking libpython3.11-minimal:arm64 (3.11.8-1) ... 191s Selecting previously unselected package python3.11-minimal. 191s Preparing to unpack .../03-python3.11-minimal_3.11.8-1_arm64.deb ... 191s Unpacking python3.11-minimal (3.11.8-1) ... 191s Selecting previously unselected package libpython3.11-stdlib:arm64. 191s Preparing to unpack .../04-libpython3.11-stdlib_3.11.8-1_arm64.deb ... 191s Unpacking libpython3.11-stdlib:arm64 (3.11.8-1) ... 191s Selecting previously unselected package python3.11. 191s Preparing to unpack .../05-python3.11_3.11.8-1_arm64.deb ... 191s Unpacking python3.11 (3.11.8-1) ... 191s Selecting previously unselected package libblas3:arm64. 191s Preparing to unpack .../06-libblas3_3.12.0-3_arm64.deb ... 191s Unpacking libblas3:arm64 (3.12.0-3) ... 191s Selecting previously unselected package libgfortran5:arm64. 191s Preparing to unpack .../07-libgfortran5_14-20240303-1ubuntu1_arm64.deb ... 191s Unpacking libgfortran5:arm64 (14-20240303-1ubuntu1) ... 191s Selecting previously unselected package liblapack3:arm64. 191s Preparing to unpack .../08-liblapack3_3.12.0-3_arm64.deb ... 191s Unpacking liblapack3:arm64 (3.12.0-3) ... 191s Selecting previously unselected package python3-numpy. 191s Preparing to unpack .../09-python3-numpy_1%3a1.24.2-2_arm64.deb ... 191s Unpacking python3-numpy (1:1.24.2-2) ... 192s Selecting previously unselected package libboost-python1.83.0. 192s Preparing to unpack .../10-libboost-python1.83.0_1.83.0-2ubuntu1_arm64.deb ... 192s Unpacking libboost-python1.83.0 (1.83.0-2ubuntu1) ... 192s Selecting previously unselected package libboost-serialization1.83.0:arm64. 192s Preparing to unpack .../11-libboost-serialization1.83.0_1.83.0-2ubuntu1_arm64.deb ... 192s Unpacking libboost-serialization1.83.0:arm64 (1.83.0-2ubuntu1) ... 192s Selecting previously unselected package fontconfig-config. 192s Preparing to unpack .../12-fontconfig-config_2.15.0-1ubuntu1_arm64.deb ... 192s Unpacking fontconfig-config (2.15.0-1ubuntu1) ... 192s Selecting previously unselected package libfontconfig1:arm64. 192s Preparing to unpack .../13-libfontconfig1_2.15.0-1ubuntu1_arm64.deb ... 192s Unpacking libfontconfig1:arm64 (2.15.0-1ubuntu1) ... 192s Selecting previously unselected package libpixman-1-0:arm64. 192s Preparing to unpack .../14-libpixman-1-0_0.42.2-1_arm64.deb ... 192s Unpacking libpixman-1-0:arm64 (0.42.2-1) ... 192s dpkg: libpng16-16:arm64: dependency problems, but removing anyway as you requested: 192s libplymouth5:arm64 depends on libpng16-16 (>= 1.6.2). 192s libfreetype6:arm64 depends on libpng16-16 (>= 1.6.2-1). 192s 192s (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 ... 76412 files and directories currently installed.) 192s Removing libpng16-16:arm64 (1.6.43-1) ... 192s Selecting previously unselected package libpng16-16t64:arm64. 192s (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 ... 76402 files and directories currently installed.) 192s Preparing to unpack .../00-libpng16-16t64_1.6.43-3_arm64.deb ... 192s Unpacking libpng16-16t64:arm64 (1.6.43-3) ... 192s Selecting previously unselected package libxcb-render0:arm64. 192s Preparing to unpack .../01-libxcb-render0_1.15-1_arm64.deb ... 192s Unpacking libxcb-render0:arm64 (1.15-1) ... 192s Selecting previously unselected package libxcb-shm0:arm64. 192s Preparing to unpack .../02-libxcb-shm0_1.15-1_arm64.deb ... 192s Unpacking libxcb-shm0:arm64 (1.15-1) ... 192s Selecting previously unselected package libxrender1:arm64. 192s Preparing to unpack .../03-libxrender1_1%3a0.9.10-1.1_arm64.deb ... 192s Unpacking libxrender1:arm64 (1:0.9.10-1.1) ... 192s Selecting previously unselected package libcairo2:arm64. 192s Preparing to unpack .../04-libcairo2_1.18.0-1ubuntu1_arm64.deb ... 192s Unpacking libcairo2:arm64 (1.18.0-1ubuntu1) ... 192s Selecting previously unselected package libcoordgen3:arm64. 192s Preparing to unpack .../05-libcoordgen3_3.0.2-1_arm64.deb ... 192s Unpacking libcoordgen3:arm64 (3.0.2-1) ... 192s Selecting previously unselected package libpython3.12:arm64. 192s Preparing to unpack .../06-libpython3.12_3.12.2-1_arm64.deb ... 192s Unpacking libpython3.12:arm64 (3.12.2-1) ... 192s Selecting previously unselected package libboost-iostreams1.83.0:arm64. 192s Preparing to unpack .../07-libboost-iostreams1.83.0_1.83.0-2ubuntu1_arm64.deb ... 192s Unpacking libboost-iostreams1.83.0:arm64 (1.83.0-2ubuntu1) ... 192s Selecting previously unselected package libmaeparser1:arm64. 192s Preparing to unpack .../08-libmaeparser1_1.3.1-1build1_arm64.deb ... 192s Unpacking libmaeparser1:arm64 (1.3.1-1build1) ... 192s Selecting previously unselected package librdkit1. 192s Preparing to unpack .../09-librdkit1_202309.3-3_arm64.deb ... 192s Unpacking librdkit1 (202309.3-3) ... 192s Selecting previously unselected package python3-rdkit. 192s Preparing to unpack .../10-python3-rdkit_202309.3-3_arm64.deb ... 192s Unpacking python3-rdkit (202309.3-3) ... 193s Selecting previously unselected package libjs-jquery. 193s Preparing to unpack .../11-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 193s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 193s Selecting previously unselected package libjs-underscore. 193s Preparing to unpack .../12-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 193s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 193s Selecting previously unselected package rdkit-doc. 193s Preparing to unpack .../13-rdkit-doc_202309.3-3_all.deb ... 193s Unpacking rdkit-doc (202309.3-3) ... 193s Selecting previously unselected package librdkit-dev. 193s Preparing to unpack .../14-librdkit-dev_202309.3-3_arm64.deb ... 193s Unpacking librdkit-dev (202309.3-3) ... 193s Selecting previously unselected package libpq5:arm64. 194s Preparing to unpack .../15-libpq5_16.2-1_arm64.deb ... 194s Unpacking libpq5:arm64 (16.2-1) ... 194s Selecting previously unselected package postgresql-client-common. 194s Preparing to unpack .../16-postgresql-client-common_257_all.deb ... 194s Unpacking postgresql-client-common (257) ... 194s Selecting previously unselected package postgresql-client-16. 194s Preparing to unpack .../17-postgresql-client-16_16.2-1_arm64.deb ... 194s Unpacking postgresql-client-16 (16.2-1) ... 194s Selecting previously unselected package libjson-perl. 194s Preparing to unpack .../18-libjson-perl_4.10000-1_all.deb ... 194s Unpacking libjson-perl (4.10000-1) ... 194s Selecting previously unselected package ssl-cert. 194s Preparing to unpack .../19-ssl-cert_1.1.2ubuntu1_all.deb ... 194s Unpacking ssl-cert (1.1.2ubuntu1) ... 194s Selecting previously unselected package postgresql-common. 194s Preparing to unpack .../20-postgresql-common_257_all.deb ... 194s Adding 'diversion of /usr/bin/pg_config to /usr/bin/pg_config.libpq-dev by postgresql-common' 194s Unpacking postgresql-common (257) ... 194s Selecting previously unselected package libllvm17:arm64. 194s Preparing to unpack .../21-libllvm17_1%3a17.0.6-5build1_arm64.deb ... 194s Unpacking libllvm17:arm64 (1:17.0.6-5build1) ... 195s Selecting previously unselected package libxslt1.1:arm64. 195s Preparing to unpack .../22-libxslt1.1_1.1.35-1_arm64.deb ... 195s Unpacking libxslt1.1:arm64 (1.1.35-1) ... 195s Selecting previously unselected package postgresql-16. 195s Preparing to unpack .../23-postgresql-16_16.2-1_arm64.deb ... 195s Unpacking postgresql-16 (16.2-1) ... 196s Selecting previously unselected package postgresql-16-rdkit. 196s Preparing to unpack .../24-postgresql-16-rdkit_202309.3-3_arm64.deb ... 196s Unpacking postgresql-16-rdkit (202309.3-3) ... 196s Setting up postgresql-client-common (257) ... 196s Setting up libboost-python1.83.0 (1.83.0-2ubuntu1) ... 196s Setting up libpixman-1-0:arm64 (0.42.2-1) ... 196s Setting up libxrender1:arm64 (1:0.9.10-1.1) ... 196s Setting up libxcb-render0:arm64 (1.15-1) ... 196s Setting up libpq5:arm64 (16.2-1) ... 196s Setting up fonts-freefont-ttf (20211204+svn4273-2) ... 196s Setting up libxcb-shm0:arm64 (1.15-1) ... 196s Setting up rdkit-data (202309.3-3) ... 196s Setting up libboost-serialization1.83.0:arm64 (1.83.0-2ubuntu1) ... 196s Setting up libblas3:arm64 (3.12.0-3) ... 196s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 196s Setting up ssl-cert (1.1.2ubuntu1) ... 197s Created symlink /etc/systemd/system/multi-user.target.wants/ssl-cert.service → /usr/lib/systemd/system/ssl-cert.service. 197s Setting up libboost-iostreams1.83.0:arm64 (1.83.0-2ubuntu1) ... 197s Setting up libpng16-16t64:arm64 (1.6.43-3) ... 197s Setting up libgfortran5:arm64 (14-20240303-1ubuntu1) ... 197s Setting up libjson-perl (4.10000-1) ... 197s Setting up libxslt1.1:arm64 (1.1.35-1) ... 197s Setting up libpython3.11-minimal:arm64 (3.11.8-1) ... 197s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 197s Setting up libcoordgen3:arm64 (3.0.2-1) ... 197s Setting up libllvm17:arm64 (1:17.0.6-5build1) ... 197s Setting up libpython3.12:arm64 (3.12.2-1) ... 197s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 197s Setting up python3.11-minimal (3.11.8-1) ... 198s Setting up liblapack3:arm64 (3.12.0-3) ... 198s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 198s Setting up fontconfig-config (2.15.0-1ubuntu1) ... 198s Setting up libpython3.11-stdlib:arm64 (3.11.8-1) ... 199s Setting up postgresql-client-16 (16.2-1) ... 199s update-alternatives: using /usr/share/postgresql/16/man/man1/psql.1.gz to provide /usr/share/man/man1/psql.1.gz (psql.1.gz) in auto mode 199s Setting up rdkit-doc (202309.3-3) ... 199s Setting up libmaeparser1:arm64 (1.3.1-1build1) ... 199s Setting up postgresql-common (257) ... 200s 200s Creating config file /etc/postgresql-common/createcluster.conf with new version 200s Building PostgreSQL dictionaries from installed myspell/hunspell packages... 200s Removing obsolete dictionary files: 201s Created symlink /etc/systemd/system/multi-user.target.wants/postgresql.service → /usr/lib/systemd/system/postgresql.service. 201s Setting up libfontconfig1:arm64 (2.15.0-1ubuntu1) ... 201s Setting up python3.11 (3.11.8-1) ... 203s Setting up postgresql-16 (16.2-1) ... 203s Creating new PostgreSQL cluster 16/main ... 203s /usr/lib/postgresql/16/bin/initdb -D /var/lib/postgresql/16/main --auth-local peer --auth-host scram-sha-256 --no-instructions 203s The files belonging to this database system will be owned by user "postgres". 203s This user must also own the server process. 203s 203s The database cluster will be initialized with locale "C.UTF-8". 203s The default database encoding has accordingly been set to "UTF8". 203s The default text search configuration will be set to "english". 203s 203s Data page checksums are disabled. 203s 203s fixing permissions on existing directory /var/lib/postgresql/16/main ... ok 203s creating subdirectories ... ok 203s selecting dynamic shared memory implementation ... posix 203s selecting default max_connections ... 100 203s selecting default shared_buffers ... 128MB 203s selecting default time zone ... Etc/UTC 203s creating configuration files ... ok 203s running bootstrap script ... ok 204s performing post-bootstrap initialization ... ok 204s syncing data to disk ... ok 208s Setting up libcairo2:arm64 (1.18.0-1ubuntu1) ... 208s Setting up python3-numpy (1:1.24.2-2) ... 210s Setting up librdkit1 (202309.3-3) ... 210s Setting up python3-rdkit (202309.3-3) ... 211s Setting up librdkit-dev (202309.3-3) ... 211s Setting up postgresql-16-rdkit (202309.3-3) ... 211s Setting up autopkgtest-satdep (0) ... 211s Processing triggers for systemd (255.2-3ubuntu2) ... 211s Processing triggers for man-db (2.12.0-3) ... 212s Processing triggers for libc-bin (2.39-0ubuntu2) ... 217s (Reading database ... 84337 files and directories currently installed.) 217s Removing autopkgtest-satdep (0) ... 218s autopkgtest [06:10:57]: test installcheck: [----------------------- 219s ### PostgreSQL 16 installcheck ### 219s Creating new PostgreSQL cluster 16/regress ... 222s make: Entering directory '/tmp/autopkgtest.qJUWau/build.UgJ/src/Code/PgSQL/rdkit' 222s echo "# +++ regress install-check in +++" && /usr/lib/postgresql/16/lib/pgxs/src/makefiles/../../src/test/regress/pg_regress --inputdir=/tmp/autopkgtest.qJUWau/build.UgJ/src --bindir='/usr/lib/postgresql/16/bin' --dbname=contrib_regression rdkit-91 props btree molgist bfpgist-91 bfpgin sfpgist slfpgist fps reaction fmcs query xqm 222s # +++ regress install-check in +++ 222s # using postmaster on localhost, port 5433 225s ok 1 - rdkit-91 3019 ms 225s ok 2 - props 85 ms 226s ok 3 - btree 460 ms 228s ok 4 - molgist 1560 ms 228s ok 5 - bfpgist-91 161 ms 228s ok 6 - bfpgin 153 ms 228s ok 7 - sfpgist 67 ms 228s ok 8 - slfpgist 69 ms 228s ok 9 - fps 76 ms 231s ok 10 - reaction 3170 ms 231s ok 11 - fmcs 197 ms 232s ok 12 - query 40 ms 232s ok 13 - xqm 226 ms 232s 1..13 232s # All 13 tests passed. 232s make: Leaving directory '/tmp/autopkgtest.qJUWau/build.UgJ/src/Code/PgSQL/rdkit' 232s Dropping cluster 16/regress ... 232s ### End 16 installcheck ### 232s dpkg-architecture: warning: cannot determine CC system type, falling back to default (native compilation) 232s dpkg-architecture: warning: cannot determine CC system type, falling back to default (native compilation) 233s autopkgtest [06:11:12]: test installcheck: -----------------------] 233s autopkgtest [06:11:12]: test installcheck: - - - - - - - - - - results - - - - - - - - - - 233s installcheck PASS 233s autopkgtest [06:11:12]: @@@@@@@@@@@@@@@@@@@@ summary 233s installcheck PASS 252s Creating nova instance adt-noble-arm64-rdkit-20240311-060718-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-arm64-server-20240311.img (UUID 900cfff9-7f1a-42c7-81a7-22635cd2a5f9)...