0s autopkgtest [07:22:08]: starting date and time: 2025-02-16 07:22:08+0000 0s autopkgtest [07:22:08]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [07:22:08]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.snesgfvo/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc,src:iproute2,src:php-twig,src:postgresql-17,src:postgresql-common,src:roundcube --apt-upgrade r-cran-fastcluster --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu1 iproute2/6.13.0-1ubuntu1 php-twig/3.19.0-1 postgresql-17/17.3-2 postgresql-common/273 roundcube/1.6.10+dfsg-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-ppc64el --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-ppc64el-25.secgroup --name adt-plucky-ppc64el-r-cran-fastcluster-20250216-072207-juju-7f2275-prod-proposed-migration-environment-20-d4004232-8f74-45ab-83d4-2ac1b420cdea --image adt/ubuntu-plucky-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-ppc64el -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 114s autopkgtest [07:24:02]: testbed dpkg architecture: ppc64el 114s autopkgtest [07:24:02]: testbed apt version: 2.9.28 114s autopkgtest [07:24:02]: @@@@@@@@@@@@@@@@@@@@ test bed setup 115s autopkgtest [07:24:03]: testbed release detected to be: None 115s autopkgtest [07:24:03]: updating testbed package index (apt update) 116s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 116s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 116s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 116s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 116s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 116s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.1 kB] 116s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [801 kB] 116s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [72.6 kB] 116s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el Packages [167 kB] 116s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted ppc64el Packages [760 B] 116s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe ppc64el Packages [897 kB] 116s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse ppc64el Packages [4228 B] 117s Fetched 2068 kB in 1s (1915 kB/s) 118s Reading package lists... 118s Reading package lists... 119s Building dependency tree... 119s Reading state information... 119s Calculating upgrade... 119s The following packages will be upgraded: 119s dash gcc-14-base libatomic1 libgcc-s1 libp11-kit0 libstdc++6 libtasn1-6 119s libxdmcp6 119s 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 119s Need to get 1476 kB of archives. 119s After this operation, 15.4 kB of additional disk space will be used. 119s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el dash ppc64el 0.5.12-12ubuntu1 [114 kB] 120s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el libatomic1 ppc64el 14.2.0-17ubuntu1 [10.7 kB] 120s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-14-base ppc64el 14.2.0-17ubuntu1 [53.6 kB] 120s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libstdc++6 ppc64el 14.2.0-17ubuntu1 [886 kB] 120s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgcc-s1 ppc64el 14.2.0-17ubuntu1 [39.2 kB] 120s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el libp11-kit0 ppc64el 0.25.5-2ubuntu2 [305 kB] 120s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtasn1-6 ppc64el 4.20.0-2 [55.9 kB] 120s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxdmcp6 ppc64el 1:1.1.5-1 [11.6 kB] 120s Preconfiguring packages ... 120s Fetched 1476 kB in 1s (2410 kB/s) 121s (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 ... 106311 files and directories currently installed.) 121s Preparing to unpack .../dash_0.5.12-12ubuntu1_ppc64el.deb ... 121s Unpacking dash (0.5.12-12ubuntu1) over (0.5.12-9ubuntu1) ... 121s Setting up dash (0.5.12-12ubuntu1) ... 121s (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 ... 106311 files and directories currently installed.) 121s Preparing to unpack .../libatomic1_14.2.0-17ubuntu1_ppc64el.deb ... 121s Unpacking libatomic1:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 121s Preparing to unpack .../gcc-14-base_14.2.0-17ubuntu1_ppc64el.deb ... 121s Unpacking gcc-14-base:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 121s Setting up gcc-14-base:ppc64el (14.2.0-17ubuntu1) ... 121s (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 ... 106311 files and directories currently installed.) 121s Preparing to unpack .../libstdc++6_14.2.0-17ubuntu1_ppc64el.deb ... 121s Unpacking libstdc++6:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 121s Setting up libstdc++6:ppc64el (14.2.0-17ubuntu1) ... 121s (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 ... 106311 files and directories currently installed.) 121s Preparing to unpack .../libgcc-s1_14.2.0-17ubuntu1_ppc64el.deb ... 121s Unpacking libgcc-s1:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 121s Setting up libgcc-s1:ppc64el (14.2.0-17ubuntu1) ... 121s (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 ... 106311 files and directories currently installed.) 121s Preparing to unpack .../libp11-kit0_0.25.5-2ubuntu2_ppc64el.deb ... 121s Unpacking libp11-kit0:ppc64el (0.25.5-2ubuntu2) over (0.25.5-2ubuntu1) ... 121s Preparing to unpack .../libtasn1-6_4.20.0-2_ppc64el.deb ... 121s Unpacking libtasn1-6:ppc64el (4.20.0-2) over (4.19.0-3build1) ... 121s Preparing to unpack .../libxdmcp6_1%3a1.1.5-1_ppc64el.deb ... 121s Unpacking libxdmcp6:ppc64el (1:1.1.5-1) over (1:1.1.3-0ubuntu6) ... 122s Setting up libxdmcp6:ppc64el (1:1.1.5-1) ... 122s Setting up libp11-kit0:ppc64el (0.25.5-2ubuntu2) ... 122s Setting up libatomic1:ppc64el (14.2.0-17ubuntu1) ... 122s Setting up libtasn1-6:ppc64el (4.20.0-2) ... 122s Processing triggers for libc-bin (2.40-4ubuntu1) ... 122s Processing triggers for man-db (2.13.0-1) ... 123s Processing triggers for debianutils (5.21) ... 123s Reading package lists... 123s Building dependency tree... 123s Reading state information... 123s 0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded. 124s autopkgtest [07:24:12]: upgrading testbed (apt dist-upgrade and autopurge) 124s Reading package lists... 124s Building dependency tree... 124s Reading state information... 124s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 124s Starting 2 pkgProblemResolver with broken count: 0 124s Done 125s Entering ResolveByKeep 125s 125s The following packages will be upgraded: 125s iproute2 libc-bin libc-dev-bin libc6 libc6-dev locales 125s 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 125s Need to get 11.7 MB of archives. 125s After this operation, 358 kB of additional disk space will be used. 125s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc-dev-bin ppc64el 2.41-1ubuntu1 [25.3 kB] 126s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc6-dev ppc64el 2.41-1ubuntu1 [2046 kB] 126s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el locales all 2.41-1ubuntu1 [4246 kB] 126s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc6 ppc64el 2.41-1ubuntu1 [3243 kB] 126s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc-bin ppc64el 2.41-1ubuntu1 [742 kB] 126s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el iproute2 ppc64el 6.13.0-1ubuntu1 [1419 kB] 127s Preconfiguring packages ... 127s Fetched 11.7 MB in 1s (10.4 MB/s) 127s (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 ... 106311 files and directories currently installed.) 127s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu1_ppc64el.deb ... 127s Unpacking libc-dev-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 127s Preparing to unpack .../libc6-dev_2.41-1ubuntu1_ppc64el.deb ... 127s Unpacking libc6-dev:ppc64el (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 127s Preparing to unpack .../locales_2.41-1ubuntu1_all.deb ... 127s Unpacking locales (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 128s Preparing to unpack .../libc6_2.41-1ubuntu1_ppc64el.deb ... 128s Checking for services that may need to be restarted... 128s Checking init scripts... 128s Checking for services that may need to be restarted... 128s Checking init scripts... 128s Stopping some services possibly affected by the upgrade (will be restarted later): 128s cron: stopping...done. 128s 128s Unpacking libc6:ppc64el (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 128s Setting up libc6:ppc64el (2.41-1ubuntu1) ... 128s Checking for services that may need to be restarted... 128s Checking init scripts... 128s Restarting services possibly affected by the upgrade: 129s cron: restarting...done. 129s 129s Services restarted successfully. 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 ... 106312 files and directories currently installed.) 129s Preparing to unpack .../libc-bin_2.41-1ubuntu1_ppc64el.deb ... 129s Unpacking libc-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 129s Setting up libc-bin (2.41-1ubuntu1) ... 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 ... 106312 files and directories currently installed.) 129s Preparing to unpack .../iproute2_6.13.0-1ubuntu1_ppc64el.deb ... 129s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 129s Setting up iproute2 (6.13.0-1ubuntu1) ... 130s Setting up locales (2.41-1ubuntu1) ... 130s Installing new version of config file /etc/locale.alias ... 130s Generating locales (this might take a while)... 132s en_US.UTF-8... done 132s Generation complete. 132s Setting up libc-dev-bin (2.41-1ubuntu1) ... 132s Setting up libc6-dev:ppc64el (2.41-1ubuntu1) ... 132s Processing triggers for man-db (2.13.0-1) ... 134s Processing triggers for systemd (257.2-3ubuntu1) ... 135s Reading package lists... 136s Building dependency tree... 136s Reading state information... 136s Starting pkgProblemResolver with broken count: 0 136s Starting 2 pkgProblemResolver with broken count: 0 136s Done 136s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 139s autopkgtest [07:24:27]: testbed running kernel: Linux 6.12.0-15-generic #15-Ubuntu SMP Tue Feb 4 16:32:08 UTC 2025 139s autopkgtest [07:24:27]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-fastcluster 142s Get:1 http://ftpmaster.internal/ubuntu plucky/universe r-cran-fastcluster 1.2.6-1build2 (dsc) [2272 B] 142s Get:2 http://ftpmaster.internal/ubuntu plucky/universe r-cran-fastcluster 1.2.6-1build2 (tar) [208 kB] 142s Get:3 http://ftpmaster.internal/ubuntu plucky/universe r-cran-fastcluster 1.2.6-1build2 (diff) [4884 B] 142s gpgv: Signature made Thu Nov 14 18:29:06 2024 UTC 142s gpgv: using RSA key 568BF22A66337CBFC9A6B9B72C83DBC8E9BD0E37 142s gpgv: Can't check signature: No public key 142s dpkg-source: warning: cannot verify inline signature for ./r-cran-fastcluster_1.2.6-1build2.dsc: no acceptable signature found 142s autopkgtest [07:24:30]: testing package r-cran-fastcluster version 1.2.6-1build2 143s autopkgtest [07:24:31]: build not needed 143s autopkgtest [07:24:31]: test run-unit-test: preparing testbed 144s Reading package lists... 144s Building dependency tree... 144s Reading state information... 144s Starting pkgProblemResolver with broken count: 0 144s Starting 2 pkgProblemResolver with broken count: 0 144s Done 145s The following NEW packages will be installed: 145s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libblas3 145s libcairo2 libdatrie1 libdeflate0 libfontconfig1 libgfortran5 libgomp1 145s libgraphite2-3 libharfbuzz0b libice6 libjbig0 libjpeg-turbo8 libjpeg8 145s liblapack3 liblerc4 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 145s libpaper-utils libpaper2 libpixman-1-0 libsharpyuv0 libsm6 libtcl8.6 145s libthai-data libthai0 libtiff6 libtk8.6 libwebp7 libxcb-render0 libxcb-shm0 145s libxft2 libxrender1 libxss1 libxt6t64 python3-fastcluster python3-numpy 145s r-base-core r-cran-fastcluster unzip x11-common xdg-utils zip 145s 0 upgraded, 47 newly installed, 0 to remove and 0 not upgraded. 145s Need to get 46.5 MB of archives. 145s After this operation, 126 MB of additional disk space will be used. 145s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB] 145s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB] 145s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el fontconfig-config ppc64el 2.15.0-1.1ubuntu2 [37.4 kB] 145s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libfontconfig1 ppc64el 2.15.0-1.1ubuntu2 [190 kB] 145s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el fontconfig ppc64el 2.15.0-1.1ubuntu2 [192 kB] 145s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el libblas3 ppc64el 3.12.1-2 [239 kB] 145s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpixman-1-0 ppc64el 0.44.0-3 [334 kB] 145s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxcb-render0 ppc64el 1.17.0-2 [17.2 kB] 145s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxcb-shm0 ppc64el 1.17.0-2 [5980 B] 145s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1build1 [23.1 kB] 145s Get:11 http://ftpmaster.internal/ubuntu plucky/main ppc64el libcairo2 ppc64el 1.18.2-2 [747 kB] 145s Get:12 http://ftpmaster.internal/ubuntu plucky/main ppc64el libdatrie1 ppc64el 0.2.13-3build1 [22.7 kB] 145s Get:13 http://ftpmaster.internal/ubuntu plucky/main ppc64el libdeflate0 ppc64el 1.23-1 [63.4 kB] 145s Get:14 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgfortran5 ppc64el 14.2.0-17ubuntu1 [571 kB] 145s Get:15 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgomp1 ppc64el 14.2.0-17ubuntu1 [161 kB] 145s Get:16 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgraphite2-3 ppc64el 1.3.14-2ubuntu1 [84.6 kB] 145s Get:17 http://ftpmaster.internal/ubuntu plucky/main ppc64el libharfbuzz0b ppc64el 10.2.0-1 [598 kB] 146s Get:18 http://ftpmaster.internal/ubuntu plucky/main ppc64el x11-common all 1:7.7+23ubuntu3 [21.7 kB] 146s Get:19 http://ftpmaster.internal/ubuntu plucky/main ppc64el libice6 ppc64el 2:1.1.1-1 [49.9 kB] 146s Get:20 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-3ubuntu2 [215 kB] 146s Get:21 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B] 146s Get:22 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblapack3 ppc64el 3.12.1-2 [2813 kB] 146s Get:23 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblerc4 ppc64el 4.0.0+ds-5ubuntu1 [298 kB] 146s Get:24 http://ftpmaster.internal/ubuntu plucky/main ppc64el libthai-data all 0.1.29-2build1 [158 kB] 146s Get:25 http://ftpmaster.internal/ubuntu plucky/main ppc64el libthai0 ppc64el 0.1.29-2build1 [21.8 kB] 146s Get:26 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpango-1.0-0 ppc64el 1.56.1-1 [277 kB] 146s Get:27 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpangoft2-1.0-0 ppc64el 1.56.1-1 [58.6 kB] 146s Get:28 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpangocairo-1.0-0 ppc64el 1.56.1-1 [30.6 kB] 146s Get:29 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpaper2 ppc64el 2.2.5-0.3 [18.0 kB] 146s Get:30 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpaper-utils ppc64el 2.2.5-0.3 [15.6 kB] 146s Get:31 http://ftpmaster.internal/ubuntu plucky/main ppc64el libsharpyuv0 ppc64el 1.5.0-0.1 [22.3 kB] 146s Get:32 http://ftpmaster.internal/ubuntu plucky/main ppc64el libsm6 ppc64el 2:1.2.4-1 [18.4 kB] 146s Get:33 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtcl8.6 ppc64el 8.6.16+dfsg-1 [1201 kB] 146s Get:34 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu2 [35.9 kB] 146s Get:35 http://ftpmaster.internal/ubuntu plucky/main ppc64el libwebp7 ppc64el 1.5.0-0.1 [315 kB] 146s Get:36 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtiff6 ppc64el 4.5.1+git230720-4ubuntu4 [272 kB] 146s Get:37 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxft2 ppc64el 2.3.6-1build1 [61.5 kB] 146s Get:38 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxss1 ppc64el 1:1.2.3-1build3 [7980 B] 146s Get:39 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtk8.6 ppc64el 8.6.16-1 [946 kB] 146s Get:40 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxt6t64 ppc64el 1:1.2.1-1.2build1 [202 kB] 146s Get:41 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-numpy ppc64el 1:1.26.4+ds-13 [5146 kB] 146s Get:42 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-fastcluster ppc64el 1.2.6-1build2 [50.9 kB] 146s Get:43 http://ftpmaster.internal/ubuntu plucky/main ppc64el zip ppc64el 3.0-14ubuntu2 [196 kB] 146s Get:44 http://ftpmaster.internal/ubuntu plucky/main ppc64el unzip ppc64el 6.0-28ubuntu6 [200 kB] 146s Get:45 http://ftpmaster.internal/ubuntu plucky/main ppc64el xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 146s Get:46 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-base-core ppc64el 4.4.2-1build1 [28.9 MB] 147s Get:47 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-fastcluster ppc64el 1.2.6-1build2 [198 kB] 147s Preconfiguring packages ... 147s Fetched 46.5 MB in 2s (21.7 MB/s) 147s Selecting previously unselected package fonts-dejavu-mono. 147s (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 ... 106313 files and directories currently installed.) 147s Preparing to unpack .../00-fonts-dejavu-mono_2.37-8_all.deb ... 147s Unpacking fonts-dejavu-mono (2.37-8) ... 147s Selecting previously unselected package fonts-dejavu-core. 147s Preparing to unpack .../01-fonts-dejavu-core_2.37-8_all.deb ... 147s Unpacking fonts-dejavu-core (2.37-8) ... 148s Selecting previously unselected package fontconfig-config. 148s Preparing to unpack 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NO WARRANTY. 159s You are welcome to redistribute it under certain conditions. 159s Type 'license()' or 'licence()' for distribution details. 159s 159s R is a collaborative project with many contributors. 159s Type 'contributors()' for more information and 159s 'citation()' on how to cite R or R packages in publications. 159s 159s Type 'demo()' for some demos, 'help()' for on-line help, or 159s 'help.start()' for an HTML browser interface to help. 159s Type 'q()' to quit R. 159s 159s > # fastcluster: Fast hierarchical clustering routines for R and Python 159s > # 159s > # Copyright: 159s > # * Until package version 1.1.23: © 2011 Daniel Müllner 159s > # * All changes from version 1.1.24 on: © Google Inc. 159s > # 159s > # Test script for the R interface 159s > 159s > seed = as.integer(runif(1, 0, 1e9)) 159s > set.seed(seed) 159s > cat(sprintf("Random seed: %d\n",seed)) 159s Random seed: 948330932 159s > 159s > print_seed <- function() { 159s + return(sprintf(' 159s + Please send a report to the author of the \'fastcluster\' package, Daniel Müllner. 159s + For contact details, see . To make the error 159s + reproducible, you must include the following number (the random seed value) in 159s + your error report: %d.\n\n', seed)) 159s + } 159s > 159s > hasWardD2 = getRversion() >= '3.1.0' 159s > 159s > # Compare two dendrograms and check whether they are equal, except that 159s > # ties may be resolved differently. 159s > compare <- function(dg1, dg2) { 159s + h1 <- dg1$height 159s + h2 <- dg2$height 159s + # "height" vectors may have small numerical errors. 159s + rdiffs <- abs(h1-h2)/pmax(abs(h1),abs(h2)) 159s + rdiffs = rdiffs[complete.cases(rdiffs)] 159s + rel_error <- max(rdiffs) 159s + # We allow a relative error of 1e-13. 159s + if (rel_error>1e-13) { 159s + print(h1) 159s + print(h2) 159s + cat(sprintf('Height vectors differ! The maximum relative error is %e.\n', rel_error)) 159s + return(FALSE) 159s + } 159s + # Filter the indices where consecutive merging distances are distinct. 159s + d = diff(dg1$height) 159s + b = (c(d,1)!=0 & c(1,d)!=0) 159s + #cat(sprintf("Percentage of indices where we can test: %g.\n",100.0*length(b[b])/length(b))) 159s + if (any(b)) { 159s + m1 = dg1$merge[b,] 159s + m2 = dg2$merge[b,] 159s + 159s + r = function(i) { 159s + if (i<0) { 159s + return(1) 159s + } 159s + else { 159s + return(b[i]) 159s + } 159s + } 159s + 159s + f = sapply(m1,r) 159s + fm1 = m1*f 159s + fm2 = m2*f 159s + # The "merge" matrices must be identical whereever indices are not ambiguous 159s + # due to ties. 159s + if (!identical(fm1,fm2)) { 159s + cat('Merge matrices differ!\n') 159s + return(FALSE) 159s + } 159s + # Compare the "order" vectors only if all merging distances were distinct. 159s + if (all(b) && !identical(dg1$order,dg2$order)) { 159s + cat('Order vectors differ!\n') 159s + return(FALSE) 159s + } 159s + } 159s + return(TRUE) 159s + } 159s > 159s > # Generate uniformly distributed random data 159s > generate.uniform <- function() { 159s + n = sample(10:1000,1) 159s + range_exp = runif(1,min=-10, max=10) 159s + cat(sprintf("Number of sample points: %d\n",n)) 159s + cat(sprintf("Dissimilarity range: [0,%g]\n",10^range_exp)) 159s + d = runif(n*(n-1)/2, min=0, max=10^range_exp) 159s + # Fake a compressed distance matrix 159s + attributes(d) <- NULL 159s + attr(d,"Size") <- n 159s + attr(d, "call") <- 'N/A' 159s + class(d) <- "dist" 159s + return(d) 159s + } 159s > 159s > # Generate normally distributed random data 159s > generate.normal <- function() { 159s + n = sample(10:1000,1) 159s + dim = sample(2:20,1) 159s + 159s + cat (sprintf("Number of sample points: %d\n",n)) 159s + cat (sprintf("Dimension: %d\n",dim)) 159s + 159s + pcd = matrix(rnorm(n*dim), c(n,dim)) 159s + d = dist(pcd) 159s + return(d) 159s + } 159s > 159s > # Test the clustering functions when a distance matrix is given. 159s > test.dm <- function(d) { 159s + d2 = d 159s + if (hasWardD2) { 159s + methods = c('single','complete','average','mcquitty','ward.D','ward.D2','centroid','median') 159s + } 159s + else { 159s + methods = c('single','complete','average','mcquitty','ward','centroid','median') 159s + } 159s + for (method in methods) { 159s + cat(paste('Method :', method, '\n')) 159s + dg_stats = stats::hclust(d, method=method) 159s + if (method == 'ward') { 159s + method = 'ward.D' 159s + } 159s + dg_fastcluster = fastcluster::hclust(d, method=method) 159s + if (!identical(d,d2)) { 159s + cat('Input array was corrupted!\n') 159s + stop(print_seed()) 159s + } 159s + if (!compare(dg_stats, dg_fastcluster)) { 159s + stop(print_seed()) 159s + } 159s + } 159s + cat('Passed.\n') 159s + } 159s > 159s > # Test the clustering functions for vector input in Euclidean space. 159s > test.vector <- function() { 159s + # generate test data 159s + n = sample(10:1000,1) 159s + dim = sample(2:20,1) 159s + cat (sprintf("Number of sample points: %d\n",n)) 159s + cat (sprintf("Dimension: %d\n",dim)) 159s + 159s + range_exp = runif(1,min=-10, max=10) 159s + pcd = matrix(rnorm(n*dim, sd=10^range_exp), c(n,dim)) 159s + pcd2 = pcd 159s + # test 159s + method='single' 159s + cat(paste('Method:', method, '\n')) 159s + for (metric in c('euclidean', 'maximum', 'manhattan', 'canberra', 'minkowski')) { 159s + cat(paste(' Metric:', metric, '\n')) 159s + if (metric=='minkowski') { 159s + p = runif(1, min=1.0, max=10.0) 159s + cat (sprintf(" p: %g\n",p)); 159s + dg_fastcluster = fastcluster::hclust.vector(pcd, method=method, metric=metric, p=p) 159s + d = dist(pcd, method=metric, p=p) 159s + } 159s + else { 159s + dg_fastcluster = fastcluster::hclust.vector(pcd, method=method, metric=metric) 159s + d = dist(pcd, method=metric) 159s + } 159s + d2 = d 159s + dg_fastcluster_dist = fastcluster::hclust(d, method=method) 159s + if (!identical(d,d2) || !identical(pcd,pcd2)) { 159s + cat('Input array was corrupted!\n') 159s + stop(print_seed()) 159s + } 159s + if (!compare(dg_fastcluster_dist, dg_fastcluster)) { 159s + stop(print_seed()) 159s + } 159s + } 159s + for (method in c('ward','centroid','median') ) { 159s + cat(paste('Method:', method, '\n')) 159s + dg_fastcluster = fastcluster::hclust.vector(pcd, method=method) 159s + if (!identical(pcd,pcd2)) { 159s + cat('Input array was corrupted!\n') 159s + stop(print_seed()) 159s + } 159s + d = dist(pcd) 159s + if(method == "ward" && hasWardD2) { 159s + method = "ward.D2" 159s + } 159s + else 159s + { 159s + # Workaround: fastcluster::hclust expects _squared_ euclidean distances. 159s + d = d^2 159s + } 159s + d2 = d 159s + dg_fastcluster_dist = fastcluster::hclust(d, method=method) 159s + if (!identical(d,d2)) { 159s + cat('Input array was corrupted!\n') 159s + stop(print_seed()) 159s + } 159s + if(method != "ward.D2") { 159s + dg_fastcluster_dist$height = sqrt(dg_fastcluster_dist$height) 159s + } 159s + # The Euclidean methods may have small numerical errors due to squaring/ 159s + # taking the root in the Euclidean distances. 159s + if (!compare(dg_fastcluster_dist, dg_fastcluster)) { 159s + stop(print_seed()) 159s + } 159s + } 159s + cat('Passed.\n') 159s + } 159s > 159s > # Test the single linkage function with the "binary" metric 159s > test.vector.binary <- function() { 159s + # generate test data 159s + cat (sprintf("Uniform sampling for the 'binary' metric:\n")) 159s + n = sample(10:400,1) 159s + dim = sample(n:(2*n),1) 159s + cat (sprintf("Number of sample points: %d\n",n)) 159s + cat (sprintf("Dimension: %d\n",dim)) 159s + pcd = matrix(sample(-1:2, n*dim, replace=T), c(n,dim)) 159s + pcd2 = pcd 159s + # test 159s + method='single' 159s + metric='binary' 159s + cat(paste('Method:', method, '\n')) 159s + cat(paste(' Metric:', metric, '\n')) 159s + dg_fastcluster = fastcluster::hclust.vector(pcd, method=method, metric=metric) 159s + d = dist(pcd, method=metric) 159s + d2 = d 159s + dg_fastcluster_dist = fastcluster::hclust(d, method=method) 159s + if (!identical(d,d2) || !identical(d,d2)) { 159s + cat('Input array was corrupted!\n') 159s + stop(print_seed()) 159s + } 159s + if (!compare(dg_fastcluster_dist, dg_fastcluster)) { 159s + stop(print_seed()) 159s + } 159s + cat('Passed.\n') 159s + } 159s > 159s > 159s > N = 15 159s > for (i in (1:N)) { 159s + if (i%%2==1) { 159s + cat(sprintf('Random test %d of %d (uniform distribution of distances):\n',i,2*N)) 159s + d = generate.uniform() 159s + } 159s + else { 159s + cat(sprintf('Random test %d of %d (Gaussian density):\n',i,2*N)) 159s + d = generate.normal() 159s + } 159s + test.dm(d) 159s + } 159s Random test 1 of 30 (uniform distribution of distances): 159s Number of sample points: 785 159s Dissimilarity range: [0,4.44019e+07] 159s Method : single 159s Method : complete 159s Method : average 159s Method : mcquitty 159s Method : ward.D 159s Method : ward.D2 159s Method : centroid 159s Method : median 159s Passed. 159s Random test 2 of 30 (Gaussian density): 159s Number of sample points: 146 159s Dimension: 2 159s Method : single 159s Method : complete 159s Method : average 159s Method : mcquitty 159s Method : ward.D 159s Method : ward.D2 159s Method : centroid 159s Method : median 159s Passed. 159s Random test 3 of 30 (uniform distribution of distances): 159s Number of sample points: 77 159s Dissimilarity range: [0,0.00221009] 159s Method : single 159s Method : complete 159s Method : average 159s Method : mcquitty 159s Method : ward.D 159s Method : ward.D2 159s Method : centroid 159s Method : median 159s Passed. 159s Random test 4 of 30 (Gaussian density): 159s Number of sample points: 593 159s Dimension: 10 159s Method : single 159s Method : complete 159s Method : average 159s Method : mcquitty 159s Method : ward.D 159s Method : ward.D2 159s Method : centroid 159s Method : median 159s Passed. 159s Random test 5 of 30 (uniform distribution of distances): 159s Number of sample points: 548 159s Dissimilarity range: [0,3.02896e+09] 159s Method : single 159s Method : complete 159s Method : average 159s Method : mcquitty 159s Method : ward.D 159s Method : ward.D2 159s Method : centroid 159s Method : median 159s Passed. 159s Random test 6 of 30 (Gaussian density): 159s Number of sample points: 564 159s Dimension: 17 159s Method : single 159s Method : complete 159s Method : average 159s Method : mcquitty 159s Method : ward.D 159s Method : ward.D2 159s Method : centroid 159s Method : median 159s Passed. 159s Random test 7 of 30 (uniform distribution of distances): 159s Number of sample points: 295 159s Dissimilarity range: [0,1.57952e+07] 159s Method : single 159s Method : complete 159s Method : average 159s Method : mcquitty 159s Method : ward.D 159s Method : ward.D2 159s Method : centroid 159s Method : median 159s Passed. 159s Random test 8 of 30 (Gaussian density): 159s Number of sample points: 903 159s Dimension: 15 159s Method : single 159s Method : complete 159s Method : average 159s Method : mcquitty 159s Method : ward.D 160s Method : ward.D2 160s Method : centroid 160s Method : median 160s Passed. 160s Random test 9 of 30 (uniform distribution of distances): 160s Number of sample points: 598 160s Dissimilarity range: [0,1.91148e-09] 160s Method : single 160s Method : complete 160s Method : average 160s Method : mcquitty 160s Method : ward.D 160s Method : ward.D2 160s Method : centroid 160s Method : median 160s Passed. 160s Random test 10 of 30 (Gaussian density): 160s Number of sample points: 141 160s Dimension: 4 160s Method : single 160s Method : complete 160s Method : average 160s Method : mcquitty 160s Method : ward.D 160s Method : ward.D2 160s Method : centroid 160s Method : median 160s Passed. 160s Random test 11 of 30 (uniform distribution of distances): 160s Number of sample points: 104 160s Dissimilarity range: [0,2.40464e+09] 160s Method : single 160s Method : complete 160s Method : average 160s Method : mcquitty 160s Method : ward.D 160s Method : ward.D2 160s Method : centroid 160s Method : median 160s Passed. 160s Random test 12 of 30 (Gaussian density): 160s Number of sample points: 203 160s Dimension: 15 160s Method : single 160s Method : complete 160s Method : average 160s Method : mcquitty 160s Method : ward.D 160s Method : ward.D2 160s Method : centroid 160s Method : median 160s Passed. 160s Random test 13 of 30 (uniform distribution of distances): 160s Number of sample points: 65 160s Dissimilarity range: [0,0.00292185] 160s Method : single 160s Method : complete 160s Method : average 160s Method : mcquitty 160s Method : ward.D 160s Method : ward.D2 160s Method : centroid 160s Method : median 160s Passed. 160s Random test 14 of 30 (Gaussian density): 160s Number of sample points: 588 160s Dimension: 4 160s Method : single 160s Method : complete 160s Method : average 160s Method : mcquitty 160s Method : ward.D 160s Method : ward.D2 160s Method : centroid 160s Method : median 160s Passed. 160s Random test 15 of 30 (uniform distribution of distances): 160s Number of sample points: 1000 160s Dissimilarity range: [0,1.94813e+06] 160s Method : single 160s Method : complete 160s Method : average 160s Method : mcquitty 160s Method : ward.D 160s Method : ward.D2 160s Method : centroid 160s Method : median 160s Passed. 160s > for (i in (N+1:N)) { 160s + cat(sprintf('Random test %d of %d (Gaussian density):\n',i,2*N)) 160s + test.vector() 160s + test.vector.binary() 160s + } 160s Random test 16 of 30 (Gaussian density): 160s Number of sample points: 687 160s Dimension: 17 160s Method: single 160s Metric: euclidean 160s Metric: maximum 160s Metric: manhattan 160s Metric: canberra 161s Metric: minkowski 161s p: 4.64153 161s Method: ward 161s Method: centroid 161s Method: median 161s Passed. 161s Uniform sampling for the 'binary' metric: 161s Number of sample points: 120 161s Dimension: 154 161s Method: single 161s Metric: binary 161s Passed. 161s Random test 17 of 30 (Gaussian density): 161s Number of sample points: 659 161s Dimension: 14 161s Method: single 161s Metric: euclidean 161s Metric: maximum 161s Metric: manhattan 162s Metric: canberra 162s Metric: minkowski 162s p: 8.38365 162s Method: ward 162s Method: centroid 162s Method: median 162s Passed. 162s Uniform sampling for the 'binary' metric: 162s Number of sample points: 179 162s Dimension: 223 162s Method: single 162s Metric: binary 162s Passed. 162s Random test 18 of 30 (Gaussian density): 162s Number of sample points: 946 162s Dimension: 19 162s Method: single 162s Metric: euclidean 162s Metric: maximum 162s Metric: manhattan 163s Metric: canberra 163s Metric: minkowski 163s p: 9.66961 163s Method: ward 164s Method: centroid 164s Method: median 164s Passed. 164s Uniform sampling for the 'binary' metric: 164s Number of sample points: 276 164s Dimension: 297 164s Method: single 164s Metric: binary 165s Passed. 165s Random test 19 of 30 (Gaussian density): 165s Number of sample points: 700 165s Dimension: 19 165s Method: single 165s Metric: euclidean 165s Metric: maximum 165s Metric: manhattan 165s Metric: canberra 165s Metric: minkowski 165s p: 4.92306 165s Method: ward 165s Method: centroid 166s Method: median 166s Passed. 166s Uniform sampling for the 'binary' metric: 166s Number of sample points: 69 166s Dimension: 132 166s Method: single 166s Metric: binary 166s Passed. 166s Random test 20 of 30 (Gaussian density): 166s Number of sample points: 74 166s Dimension: 2 166s Method: single 166s Metric: euclidean 166s Metric: maximum 166s Metric: manhattan 166s Metric: canberra 166s Metric: minkowski 166s p: 9.45999 166s Method: ward 166s Method: centroid 166s Method: median 166s Passed. 166s Uniform sampling for the 'binary' metric: 166s Number of sample points: 289 166s Dimension: 384 166s Method: single 166s Metric: binary 166s Passed. 166s Random test 21 of 30 (Gaussian density): 166s Number of sample points: 58 166s Dimension: 4 166s Method: single 166s Metric: euclidean 166s Metric: maximum 166s Metric: manhattan 166s Metric: canberra 166s Metric: minkowski 166s p: 4.57284 166s Method: ward 166s Method: centroid 166s Method: median 166s Passed. 166s Uniform sampling for the 'binary' metric: 166s Number of sample points: 314 166s Dimension: 374 166s Method: single 166s Metric: binary 167s Passed. 167s Random test 22 of 30 (Gaussian density): 167s Number of sample points: 210 167s Dimension: 14 167s Method: single 167s Metric: euclidean 167s Metric: maximum 167s Metric: manhattan 167s Metric: canberra 167s Metric: minkowski 167s p: 6.6176 167s Method: ward 167s Method: centroid 167s Method: median 167s Passed. 167s Uniform sampling for the 'binary' metric: 167s Number of sample points: 396 167s Dimension: 427 167s Method: single 167s Metric: binary 168s Passed. 168s Random test 23 of 30 (Gaussian density): 168s Number of sample points: 941 168s Dimension: 11 168s Method: single 168s Metric: euclidean 168s Metric: maximum 168s Metric: manhattan 168s Metric: canberra 168s Metric: minkowski 168s p: 3.27801 169s Method: ward 169s Method: centroid 169s Method: median 169s Passed. 169s Uniform sampling for the 'binary' metric: 169s Number of sample points: 81 169s Dimension: 106 169s Method: single 169s Metric: binary 169s Passed. 169s Random test 24 of 30 (Gaussian density): 169s Number of sample points: 920 169s Dimension: 4 169s Method: single 169s Metric: euclidean 169s Metric: maximum 169s Metric: manhattan 169s Metric: canberra 169s Metric: minkowski 169s p: 1.9923 170s Method: ward 170s Method: centroid 170s Method: median 170s Passed. 170s Uniform sampling for the 'binary' metric: 170s Number of sample points: 297 170s Dimension: 456 170s Method: single 170s Metric: binary 170s Passed. 170s Random test 25 of 30 (Gaussian density): 170s Number of sample points: 114 170s Dimension: 9 170s Method: single 170s Metric: euclidean 170s Metric: maximum 170s Metric: manhattan 170s Metric: canberra 170s Metric: minkowski 170s p: 1.92499 170s Method: ward 170s Method: centroid 170s Method: median 171s Passed. 171s Uniform sampling for the 'binary' metric: 171s Number of sample points: 68 171s Dimension: 95 171s Method: single 171s Metric: binary 171s Passed. 171s Random test 26 of 30 (Gaussian density): 171s Number of sample points: 418 171s Dimension: 18 171s Method: single 171s Metric: euclidean 171s Metric: maximum 171s Metric: manhattan 171s Metric: canberra 171s Metric: minkowski 171s p: 8.29937 171s Method: ward 171s Method: centroid 171s Method: median 171s Passed. 171s Uniform sampling for the 'binary' metric: 171s Number of sample points: 107 171s Dimension: 125 171s Method: single 171s Metric: binary 171s Passed. 171s Random test 27 of 30 (Gaussian density): 171s Number of sample points: 769 171s Dimension: 14 171s Method: single 171s Metric: euclidean 171s Metric: maximum 171s Metric: manhattan 171s Metric: canberra 171s Metric: minkowski 171s p: 8.91108 171s Method: ward 172s Method: centroid 172s Method: median 172s Passed. 172s Uniform sampling for the 'binary' metric: 172s Number of sample points: 229 172s Dimension: 280 172s Method: single 172s Metric: binary 172s Passed. 172s Random test 28 of 30 (Gaussian density): 172s Number of sample points: 971 172s Dimension: 4 172s Method: single 172s Metric: euclidean 172s Metric: maximum 172s Metric: manhattan 172s Metric: canberra 172s Metric: minkowski 172s p: 2.46593 172s Method: ward 172s Method: centroid 173s Method: median 173s Passed. 173s Uniform sampling for the 'binary' metric: 173s Number of sample points: 308 173s Dimension: 360 173s Method: single 173s Metric: binary 173s Passed. 173s Random test 29 of 30 (Gaussian density): 173s Number of sample points: 869 173s Dimension: 8 173s Method: single 173s Metric: euclidean 173s Metric: maximum 173s Metric: manhattan 173s Metric: canberra 173s Metric: minkowski 173s p: 6.4571 174s Method: ward 174s Method: centroid 174s Method: median 174s Passed. 174s Uniform sampling for the 'binary' metric: 174s Number of sample points: 382 174s Dimension: 704 174s Method: single 174s Metric: binary 176s Passed. 176s Random test 30 of 30 (Gaussian density): 176s Number of sample points: 228 176s Dimension: 18 176s Method: single 176s Metric: euclidean 176s Metric: maximum 176s Metric: manhattan 176s Metric: canberra 176s Metric: minkowski 176s p: 4.84303 176s Method: ward 176s Method: centroid 176s Method: median 176s Passed. 176s Uniform sampling for the 'binary' metric: 176s Number of sample points: 132 176s Dimension: 259 176s Method: single 176s Metric: binary 176s Passed. 176s > 176s > cat('Done.\n') 176s Done. 176s > 176s autopkgtest [07:25:04]: test run-unit-test: -----------------------] 177s run-unit-test PASS 177s autopkgtest [07:25:05]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 177s autopkgtest [07:25:05]: test autodep8-python3: preparing testbed 284s autopkgtest [07:26:52]: testbed dpkg architecture: ppc64el 284s autopkgtest [07:26:52]: testbed apt version: 2.9.28 284s autopkgtest [07:26:52]: @@@@@@@@@@@@@@@@@@@@ test bed setup 284s autopkgtest [07:26:52]: testbed release detected to be: plucky 285s autopkgtest [07:26:53]: updating testbed package index (apt update) 285s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 286s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 286s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 286s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 286s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 286s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [812 kB] 286s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.1 kB] 286s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [74.8 kB] 286s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el Packages [168 kB] 286s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted ppc64el Packages [760 B] 286s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe ppc64el Packages [901 kB] 286s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse ppc64el Packages [4220 B] 286s Fetched 2088 kB in 1s (2021 kB/s) 287s Reading package lists... 288s Reading package lists... 288s Building dependency tree... 288s Reading state information... 288s Calculating upgrade... 288s The following packages will be upgraded: 288s dash gcc-14-base libatomic1 libgcc-s1 libp11-kit0 libstdc++6 libtasn1-6 288s libxdmcp6 pci.ids 289s 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 289s Need to get 1761 kB of archives. 289s After this operation, 16.4 kB of additional disk space will be used. 289s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el dash ppc64el 0.5.12-12ubuntu1 [114 kB] 289s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el libatomic1 ppc64el 14.2.0-17ubuntu1 [10.7 kB] 289s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-14-base ppc64el 14.2.0-17ubuntu1 [53.6 kB] 289s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libstdc++6 ppc64el 14.2.0-17ubuntu1 [886 kB] 289s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgcc-s1 ppc64el 14.2.0-17ubuntu1 [39.2 kB] 289s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el libp11-kit0 ppc64el 0.25.5-2ubuntu2 [305 kB] 289s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtasn1-6 ppc64el 4.20.0-2 [55.9 kB] 289s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxdmcp6 ppc64el 1:1.1.5-1 [11.6 kB] 289s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el pci.ids all 0.0~2025.02.12-1 [284 kB] 289s Preconfiguring packages ... 289s Fetched 1761 kB in 1s (2669 kB/s) 290s (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 ... 106311 files and directories currently installed.) 290s Preparing to unpack .../dash_0.5.12-12ubuntu1_ppc64el.deb ... 290s Unpacking dash (0.5.12-12ubuntu1) over (0.5.12-9ubuntu1) ... 290s Setting up dash (0.5.12-12ubuntu1) ... 290s (Reading database ... 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(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 ... 106311 files and directories currently installed.) 290s Preparing to unpack .../libgcc-s1_14.2.0-17ubuntu1_ppc64el.deb ... 290s Unpacking libgcc-s1:ppc64el (14.2.0-17ubuntu1) over (14.2.0-16ubuntu1) ... 290s Setting up libgcc-s1:ppc64el (14.2.0-17ubuntu1) ... 290s (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 ... 106311 files and directories currently installed.) 290s Preparing to unpack .../libp11-kit0_0.25.5-2ubuntu2_ppc64el.deb ... 290s Unpacking libp11-kit0:ppc64el (0.25.5-2ubuntu2) over (0.25.5-2ubuntu1) ... 290s Preparing to unpack .../libtasn1-6_4.20.0-2_ppc64el.deb ... 290s Unpacking libtasn1-6:ppc64el (4.20.0-2) over (4.19.0-3build1) ... 290s Preparing to unpack .../libxdmcp6_1%3a1.1.5-1_ppc64el.deb ... 290s Unpacking libxdmcp6:ppc64el (1:1.1.5-1) over (1:1.1.3-0ubuntu6) ... 290s Preparing to unpack .../pci.ids_0.0~2025.02.12-1_all.deb ... 290s Unpacking pci.ids (0.0~2025.02.12-1) over (0.0~2025.02.05-1) ... 290s Setting up libxdmcp6:ppc64el (1:1.1.5-1) ... 290s Setting up pci.ids (0.0~2025.02.12-1) ... 290s Setting up libp11-kit0:ppc64el (0.25.5-2ubuntu2) ... 290s Setting up libatomic1:ppc64el (14.2.0-17ubuntu1) ... 290s Setting up libtasn1-6:ppc64el (4.20.0-2) ... 290s Processing triggers for libc-bin (2.40-4ubuntu1) ... 290s Processing triggers for man-db (2.13.0-1) ... 291s Processing triggers for debianutils (5.21) ... 291s Reading package lists... 292s Building dependency tree... 292s Reading state information... 292s 0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded. 292s autopkgtest [07:27:00]: upgrading testbed (apt dist-upgrade and autopurge) 292s Reading package lists... 292s Building dependency tree... 292s Reading state information... 293s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 293s Starting 2 pkgProblemResolver with broken count: 0 293s Done 293s Entering ResolveByKeep 293s 293s The following packages will be upgraded: 293s iproute2 libc-bin libc-dev-bin libc6 libc6-dev locales 294s 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 294s Need to get 11.7 MB of archives. 294s After this operation, 358 kB of additional disk space will be used. 294s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc-dev-bin ppc64el 2.41-1ubuntu1 [25.3 kB] 294s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc6-dev ppc64el 2.41-1ubuntu1 [2046 kB] 294s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el locales all 2.41-1ubuntu1 [4246 kB] 294s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc6 ppc64el 2.41-1ubuntu1 [3243 kB] 294s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libc-bin ppc64el 2.41-1ubuntu1 [742 kB] 294s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el iproute2 ppc64el 6.13.0-1ubuntu1 [1419 kB] 295s Preconfiguring packages ... 295s Fetched 11.7 MB in 1s (13.0 MB/s) 295s (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 ... 106311 files and directories currently installed.) 295s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu1_ppc64el.deb ... 295s Unpacking libc-dev-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 295s Preparing to unpack .../libc6-dev_2.41-1ubuntu1_ppc64el.deb ... 295s Unpacking libc6-dev:ppc64el (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 295s Preparing to unpack .../locales_2.41-1ubuntu1_all.deb ... 295s Unpacking locales (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 295s Preparing to unpack .../libc6_2.41-1ubuntu1_ppc64el.deb ... 295s Checking for services that may need to be restarted... 295s Checking init scripts... 295s Checking for services that may need to be restarted... 295s Checking init scripts... 295s Stopping some services possibly affected by the upgrade (will be restarted later): 296s cron: stopping...done. 296s 296s Unpacking libc6:ppc64el (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 296s Setting up libc6:ppc64el (2.41-1ubuntu1) ... 296s Checking for services that may need to be restarted... 296s Checking init scripts... 296s Restarting services possibly affected by the upgrade: 296s cron: restarting...done. 296s 296s Services restarted successfully. 296s (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 ... 106312 files and directories currently installed.) 296s Preparing to unpack .../libc-bin_2.41-1ubuntu1_ppc64el.deb ... 296s Unpacking libc-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 296s Setting up libc-bin (2.41-1ubuntu1) ... 297s (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 ... 106312 files and directories currently installed.) 297s Preparing to unpack .../iproute2_6.13.0-1ubuntu1_ppc64el.deb ... 297s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 297s Setting up iproute2 (6.13.0-1ubuntu1) ... 297s Setting up locales (2.41-1ubuntu1) ... 297s Installing new version of config file /etc/locale.alias ... 298s Generating locales (this might take a while)... 299s en_US.UTF-8... done 299s Generation complete. 299s Setting up libc-dev-bin (2.41-1ubuntu1) ... 299s Setting up libc6-dev:ppc64el (2.41-1ubuntu1) ... 299s Processing triggers for man-db (2.13.0-1) ... 301s Processing triggers for systemd (257.2-3ubuntu1) ... 302s Reading package lists... 302s Building dependency tree... 302s Reading state information... 303s Starting pkgProblemResolver with broken count: 0 303s Starting 2 pkgProblemResolver with broken count: 0 303s Done 303s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 306s Reading package lists... 306s Building dependency tree... 306s Reading state information... 306s Starting pkgProblemResolver with broken count: 0 306s Starting 2 pkgProblemResolver with broken count: 0 306s Done 306s The following NEW packages will be installed: 306s libblas3 libgfortran5 liblapack3 python3-all python3-fastcluster 306s python3-numpy python3.12 python3.12-minimal 307s 0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. 307s Need to get 12.0 MB of archives. 307s After this operation, 57.3 MB of additional disk space will be used. 307s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.12-minimal ppc64el 3.12.9-1 [2465 kB] 307s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.12 ppc64el 3.12.9-1 [671 kB] 308s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el libblas3 ppc64el 3.12.1-2 [239 kB] 308s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgfortran5 ppc64el 14.2.0-17ubuntu1 [571 kB] 308s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblapack3 ppc64el 3.12.1-2 [2813 kB] 308s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-all ppc64el 3.13.1-1~exp2 [896 B] 308s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-numpy ppc64el 1:1.26.4+ds-13 [5146 kB] 309s Get:8 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-fastcluster ppc64el 1.2.6-1build2 [50.9 kB] 309s Fetched 12.0 MB in 2s (5311 kB/s) 309s Selecting previously unselected package python3.12-minimal. 309s (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 ... 106313 files and directories currently installed.) 309s Preparing to unpack .../0-python3.12-minimal_3.12.9-1_ppc64el.deb ... 309s Unpacking python3.12-minimal (3.12.9-1) ... 309s Selecting previously unselected package python3.12. 309s Preparing to unpack .../1-python3.12_3.12.9-1_ppc64el.deb ... 309s Unpacking python3.12 (3.12.9-1) ... 309s Selecting previously unselected package libblas3:ppc64el. 309s Preparing to unpack .../2-libblas3_3.12.1-2_ppc64el.deb ... 309s Unpacking libblas3:ppc64el (3.12.1-2) ... 309s Selecting previously unselected package libgfortran5:ppc64el. 309s Preparing to unpack .../3-libgfortran5_14.2.0-17ubuntu1_ppc64el.deb ... 309s Unpacking libgfortran5:ppc64el (14.2.0-17ubuntu1) ... 309s Selecting previously unselected package liblapack3:ppc64el. 309s Preparing to unpack .../4-liblapack3_3.12.1-2_ppc64el.deb ... 309s Unpacking liblapack3:ppc64el (3.12.1-2) ... 309s Selecting previously unselected package python3-all. 309s Preparing to unpack .../5-python3-all_3.13.1-1~exp2_ppc64el.deb ... 309s Unpacking python3-all (3.13.1-1~exp2) ... 309s Selecting previously unselected package python3-numpy. 309s Preparing to unpack .../6-python3-numpy_1%3a1.26.4+ds-13_ppc64el.deb ... 309s Unpacking python3-numpy (1:1.26.4+ds-13) ... 309s Selecting previously unselected package python3-fastcluster. 309s Preparing to unpack .../7-python3-fastcluster_1.2.6-1build2_ppc64el.deb ... 309s Unpacking python3-fastcluster (1.2.6-1build2) ... 309s Setting up python3.12-minimal (3.12.9-1) ... 311s Setting up python3.12 (3.12.9-1) ... 312s Setting up python3-all (3.13.1-1~exp2) ... 312s Setting up libblas3:ppc64el (3.12.1-2) ... 312s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 312s Setting up libgfortran5:ppc64el (14.2.0-17ubuntu1) ... 312s Setting up liblapack3:ppc64el (3.12.1-2) ... 312s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 312s Setting up python3-numpy (1:1.26.4+ds-13) ... 316s Setting up python3-fastcluster (1.2.6-1build2) ... 316s Processing triggers for systemd (257.2-3ubuntu1) ... 316s Processing triggers for man-db (2.13.0-1) ... 316s Processing triggers for libc-bin (2.41-1ubuntu1) ... 318s autopkgtest [07:27:26]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import fastcluster; print(fastcluster)" ; done 318s autopkgtest [07:27:26]: test autodep8-python3: [----------------------- 318s Testing with python3.12: 318s 318s Testing with python3.13: 319s 319s autopkgtest [07:27:27]: test autodep8-python3: -----------------------] 319s autodep8-python3 PASS (superficial) 319s autopkgtest [07:27:27]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 320s autopkgtest [07:27:28]: @@@@@@@@@@@@@@@@@@@@ summary 320s run-unit-test PASS 320s autodep8-python3 PASS (superficial) 324s nova [W] Using flock in prodstack6-ppc64el 324s Creating nova instance adt-plucky-ppc64el-r-cran-fastcluster-20250216-072207-juju-7f2275-prod-proposed-migration-environment-20-d4004232-8f74-45ab-83d4-2ac1b420cdea from image adt/ubuntu-plucky-ppc64el-server-20250215.img (UUID 6b0563e5-c35c-4c0f-8fb5-aae43570455f)... 324s nova [W] Timed out waiting for f96fc3a4-4614-4ec9-b006-f9d006c951f8 to get deleted. 324s nova [W] Using flock in prodstack6-ppc64el 324s Creating nova instance adt-plucky-ppc64el-r-cran-fastcluster-20250216-072207-juju-7f2275-prod-proposed-migration-environment-20-d4004232-8f74-45ab-83d4-2ac1b420cdea from image adt/ubuntu-plucky-ppc64el-server-20250215.img (UUID 6b0563e5-c35c-4c0f-8fb5-aae43570455f)... 324s nova [W] Timed out waiting for 160e565f-e1bc-49a9-ba69-facea978dec2 to get deleted.