0s autopkgtest [02:55:49]: starting date and time: 2025-02-17 02:55:49+0000 0s autopkgtest [02:55:49]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [02:55:49]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.ccnrzr91/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:spades --apt-upgrade circlator --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=spades/4.0.0+dfsg1-2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-s390x-24.secgroup --name adt-plucky-s390x-circlator-20250217-023326-juju-7f2275-prod-proposed-migration-environment-20-c408720c-7c75-44db-8414-bf6df0460786 --image adt/ubuntu-plucky-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-s390x -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/ 61s autopkgtest [02:56:50]: testbed dpkg architecture: s390x 62s autopkgtest [02:56:51]: testbed apt version: 2.9.28 62s autopkgtest [02:56:51]: @@@@@@@@@@@@@@@@@@@@ test bed setup 62s autopkgtest [02:56:51]: testbed release detected to be: None 63s autopkgtest [02:56:52]: updating testbed package index (apt update) 63s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 63s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 63s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 63s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 63s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.9 kB] 63s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 63s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [61.5 kB] 63s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [698 kB] 64s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [77.9 kB] 64s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted s390x Packages [760 B] 64s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [578 kB] 64s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [4676 B] 64s Fetched 1549 kB in 1s (1827 kB/s) 64s Reading package lists... 65s Reading package lists... 65s Building dependency tree... 65s Reading state information... 65s Calculating upgrade... 65s The following packages were automatically installed and are no longer required: 65s libnsl2 libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 65s linux-headers-6.11.0-8 linux-headers-6.11.0-8-generic 65s linux-modules-6.11.0-8-generic linux-tools-6.11.0-8 65s linux-tools-6.11.0-8-generic 65s Use 'sudo apt autoremove' to remove them. 65s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 65s Reading package lists... 65s Building dependency tree... 65s Reading state information... 65s The following packages will be REMOVED: 65s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 65s linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 65s linux-modules-6.11.0-8-generic* linux-tools-6.11.0-8* 65s linux-tools-6.11.0-8-generic* 66s 0 upgraded, 0 newly installed, 9 to remove and 0 not upgraded. 66s After this operation, 167 MB disk space will be freed. 66s (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 ... 80974 files and directories currently installed.) 66s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 66s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 66s Removing libpython3.12t64:s390x (3.12.9-1) ... 66s Removing libpython3.12-stdlib:s390x (3.12.9-1) ... 66s Removing libnsl2:s390x (1.3.0-3build3) ... 66s Removing libpython3.12-minimal:s390x (3.12.9-1) ... 66s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 66s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 67s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 67s Processing triggers for libc-bin (2.40-4ubuntu1) ... 67s (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 ... 55874 files and directories currently installed.) 67s Purging configuration files for libpython3.12-minimal:s390x (3.12.9-1) ... 67s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 67s autopkgtest [02:56:56]: upgrading testbed (apt dist-upgrade and autopurge) 67s Reading package lists... 67s Building dependency tree... 67s Reading state information... 67s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 67s Starting 2 pkgProblemResolver with broken count: 0 67s Done 68s Entering ResolveByKeep 68s 68s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 68s Reading package lists... 68s Building dependency tree... 68s Reading state information... 68s Starting pkgProblemResolver with broken count: 0 68s Starting 2 pkgProblemResolver with broken count: 0 68s Done 68s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 69s autopkgtest [02:56:58]: rebooting testbed after setup commands that affected boot 77s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 87s autopkgtest [02:57:16]: testbed running kernel: Linux 6.12.0-15-generic #15-Ubuntu SMP Tue Feb 4 15:05:57 UTC 2025 89s autopkgtest [02:57:18]: @@@@@@@@@@@@@@@@@@@@ apt-source circlator 91s Get:1 http://ftpmaster.internal/ubuntu plucky/universe circlator 1.5.6-12 (dsc) [2302 B] 91s Get:2 http://ftpmaster.internal/ubuntu plucky/universe circlator 1.5.6-12 (tar) [5724 kB] 91s Get:3 http://ftpmaster.internal/ubuntu plucky/universe circlator 1.5.6-12 (diff) [6412 B] 91s gpgv: Signature made Fri Dec 6 09:53:32 2024 UTC 91s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 91s gpgv: issuer "tille@debian.org" 91s gpgv: Can't check signature: No public key 91s dpkg-source: warning: cannot verify inline signature for ./circlator_1.5.6-12.dsc: no acceptable signature found 91s autopkgtest [02:57:20]: testing package circlator version 1.5.6-12 92s autopkgtest [02:57:21]: build not needed 93s autopkgtest [02:57:22]: test run-unit-test: preparing testbed 93s Reading package lists... 93s Building dependency tree... 93s Reading state information... 93s Starting pkgProblemResolver with broken count: 1 93s Starting 2 pkgProblemResolver with broken count: 1 93s Investigating (0) circlator:s390x < none -> 1.5.6-12 @un puN Ib > 93s Broken circlator:s390x Depends on fastaq:s390x < none | 3.17.0-9 @un uH > 93s Considering fastaq:s390x 1 as a solution to circlator:s390x 0 93s Re-Instated libdeflate0:s390x 93s Re-Instated libhtscodecs2:s390x 93s Re-Instated libhts3t64:s390x 93s Re-Instated samtools:s390x 93s Re-Instated fastaq:s390x 93s Broken circlator:s390x Depends on python3-openpyxl:s390x < none | 3.1.5+dfsg-1 @un uH > 93s Considering python3-openpyxl:s390x 1 as a solution to circlator:s390x 0 93s Re-Instated python3-et-xmlfile:s390x 93s Re-Instated libxslt1.1:s390x 93s Re-Instated python3-lxml:s390x 93s Re-Instated python3-openpyxl:s390x 93s Broken circlator:s390x Depends on python3-pymummer:s390x < none | 0.11.0-4 @un uH > 93s Considering python3-pymummer:s390x 1 as a solution to circlator:s390x 0 93s Re-Instated mummer:s390x 93s Re-Instated python3-pymummer:s390x 93s Broken circlator:s390x Depends on python3-pysam:s390x < none @un H > 93s Broken circlator:s390x Depends on prodigal:s390x < none | 1:2.6.3-6 @un uH > 93s Considering prodigal:s390x 1 as a solution to circlator:s390x 0 93s Re-Instated prodigal:s390x 93s Broken circlator:s390x Depends on bwa:s390x < none | 0.7.18-1 @un uH > 93s Considering bwa:s390x 1 as a solution to circlator:s390x 0 93s Re-Instated bwa:s390x 93s Broken circlator:s390x Depends on canu:s390x < none | 2.2+dfsg-5 @un uH > 93s Considering canu:s390x 1 as a solution to circlator:s390x 0 93s Re-Instated libgomp1:s390x 93s Re-Instated libsnappy1v5:s390x 93s Re-Instated libfilesys-df-perl:s390x 93s Re-Instated ca-certificates-java:s390x 93s Re-Instated java-common:s390x 93s Re-Instated liblcms2-2:s390x 93s Re-Instated libjpeg-turbo8:s390x 93s Re-Instated libjpeg8:s390x 93s Re-Instated libpcsclite1:s390x 93s Re-Instated openjdk-21-jre-headless:s390x 93s Re-Instated default-jre-headless:s390x 93s Re-Instated binfmt-support:s390x 93s Re-Instated fastjar:s390x 93s Re-Instated jarwrapper:s390x 93s Re-Instated libapache-pom-java:s390x 93s Re-Instated libcommons-parent-java:s390x 93s Re-Instated libcommons-codec-java:s390x 93s Re-Instated libcommons-io-java:s390x 93s Re-Instated libcommons-compress-java:s390x 93s Re-Instated libfastutil-java:s390x 93s Re-Instated libatinject-jsr330-api-java:s390x 93s Re-Instated liberror-prone-java:s390x 93s Re-Instated libjsr305-java:s390x 93s Re-Instated libguava-java:s390x 93s Re-Instated jaligner:s390x 93s Re-Instated libssw-java:s390x 93s Re-Instated mhap:s390x 93s Re-Instated aglfn:s390x 93s Re-Instated gnuplot-data:s390x 93s Re-Instated libfreetype6:s390x 93s Re-Instated fonts-dejavu-mono:s390x 93s Re-Instated fonts-dejavu-core:s390x 93s Re-Instated fontconfig-config:s390x 93s Re-Instated libfontconfig1:s390x 93s Re-Instated libpixman-1-0:s390x 93s Re-Instated libxcb-render0:s390x 93s Re-Instated libxcb-shm0:s390x 93s Re-Instated libxrender1:s390x 93s Re-Instated libcairo2:s390x 93s Re-Instated libsharpyuv0:s390x 93s Re-Instated libaom3:s390x 93s Re-Instated libheif-plugin-aomdec:s390x 93s Re-Instated libde265-0:s390x 93s Re-Instated libheif-plugin-libde265:s390x 93s Re-Instated libheif1:s390x 93s Re-Instated libimagequant0:s390x 93s Re-Instated libgraphite2-3:s390x 93s Re-Instated libharfbuzz0b:s390x 93s Re-Instated libraqm0:s390x 93s Re-Instated libjbig0:s390x 93s Re-Instated libwebp7:s390x 93s Re-Instated libtiff6:s390x 93s Re-Instated libxpm4:s390x 93s Re-Instated libgd3:s390x 93s Re-Instated liblua5.4-0:s390x 93s Re-Instated fontconfig:s390x 93s Re-Instated libthai-data:s390x 93s Re-Instated libdatrie1:s390x 93s Re-Instated libthai0:s390x 93s Re-Instated libpango-1.0-0:s390x 93s Re-Instated libpangoft2-1.0-0:s390x 93s Re-Instated libpangocairo-1.0-0:s390x 93s Re-Instated libwebpmux3:s390x 93s Re-Instated gnuplot-nox:s390x 93s Re-Instated canu:s390x 93s Done 93s Some packages could not be installed. This may mean that you have 93s requested an impossible situation or if you are using the unstable 93s distribution that some required packages have not yet been created 93s or been moved out of Incoming. 93s The following information may help to resolve the situation: 93s 93s The following packages have unmet dependencies: 93s circlator : Depends: python3-pysam but it is not installable 93s E: Unable to correct problems, you have held broken packages. 93s autopkgtest: WARNING: Test dependencies are unsatisfiable with using apt pinning. Retrying with using all packages from plucky-proposed 93s Reading package lists... 94s Building dependency tree... 94s Reading state information... 94s Starting pkgProblemResolver with broken count: 1 94s Starting 2 pkgProblemResolver with broken count: 1 94s Investigating (0) circlator:s390x < none -> 1.5.6-12 @un puN Ib > 94s Broken circlator:s390x Depends on fastaq:s390x < none | 3.17.0-9 @un uH > 94s Considering fastaq:s390x 1 as a solution to circlator:s390x 0 94s Re-Instated libdeflate0:s390x 94s Re-Instated libhtscodecs2:s390x 94s Re-Instated libhts3t64:s390x 94s Re-Instated samtools:s390x 94s Re-Instated fastaq:s390x 94s Broken circlator:s390x Depends on python3-openpyxl:s390x < none | 3.1.5+dfsg-1 @un uH > 94s Considering python3-openpyxl:s390x 1 as a solution to circlator:s390x 0 94s Re-Instated python3-et-xmlfile:s390x 94s Re-Instated libxslt1.1:s390x 94s Re-Instated python3-lxml:s390x 94s Re-Instated python3-openpyxl:s390x 94s Broken circlator:s390x Depends on python3-pymummer:s390x < none | 0.11.0-4 @un uH > 94s Considering python3-pymummer:s390x 1 as a solution to circlator:s390x 0 94s Re-Instated mummer:s390x 94s Re-Instated python3-pymummer:s390x 94s Broken circlator:s390x Depends on python3-pysam:s390x < none @un H > 94s Broken circlator:s390x Depends on prodigal:s390x < none | 1:2.6.3-6 @un uH > 94s Considering prodigal:s390x 1 as a solution to circlator:s390x 0 94s Re-Instated prodigal:s390x 94s Broken circlator:s390x Depends on bwa:s390x < none | 0.7.18-1 @un uH > 94s Considering bwa:s390x 1 as a solution to circlator:s390x 0 94s Re-Instated bwa:s390x 94s Broken circlator:s390x Depends on canu:s390x < none | 2.2+dfsg-5 @un uH > 94s Considering canu:s390x 1 as a solution to circlator:s390x 0 94s Re-Instated libgomp1:s390x 94s Re-Instated libsnappy1v5:s390x 94s Re-Instated libfilesys-df-perl:s390x 94s Re-Instated ca-certificates-java:s390x 94s Re-Instated java-common:s390x 94s Re-Instated liblcms2-2:s390x 94s Re-Instated libjpeg-turbo8:s390x 94s Re-Instated libjpeg8:s390x 94s Re-Instated libpcsclite1:s390x 94s Re-Instated openjdk-21-jre-headless:s390x 94s Re-Instated default-jre-headless:s390x 94s Re-Instated binfmt-support:s390x 94s Re-Instated fastjar:s390x 94s Re-Instated jarwrapper:s390x 94s Re-Instated libapache-pom-java:s390x 94s Re-Instated libcommons-parent-java:s390x 94s Re-Instated libcommons-codec-java:s390x 94s Re-Instated libcommons-io-java:s390x 94s Re-Instated libcommons-compress-java:s390x 94s Re-Instated libfastutil-java:s390x 94s Re-Instated libatinject-jsr330-api-java:s390x 94s Re-Instated liberror-prone-java:s390x 94s Re-Instated libjsr305-java:s390x 94s Re-Instated libguava-java:s390x 94s Re-Instated jaligner:s390x 94s Re-Instated libssw-java:s390x 94s Re-Instated mhap:s390x 94s Re-Instated aglfn:s390x 94s Re-Instated gnuplot-data:s390x 94s Re-Instated libfreetype6:s390x 94s Re-Instated fonts-dejavu-mono:s390x 94s Re-Instated fonts-dejavu-core:s390x 94s Re-Instated fontconfig-config:s390x 94s Re-Instated libfontconfig1:s390x 94s Re-Instated libpixman-1-0:s390x 94s Re-Instated libxcb-render0:s390x 94s Re-Instated libxcb-shm0:s390x 94s Re-Instated libxrender1:s390x 94s Re-Instated libcairo2:s390x 94s Re-Instated libsharpyuv0:s390x 94s Re-Instated libaom3:s390x 94s Re-Instated libheif-plugin-aomdec:s390x 94s Re-Instated libde265-0:s390x 94s Re-Instated libheif-plugin-libde265:s390x 94s Re-Instated libheif1:s390x 94s Re-Instated libimagequant0:s390x 94s Re-Instated libgraphite2-3:s390x 94s Re-Instated libharfbuzz0b:s390x 94s Re-Instated libraqm0:s390x 94s Re-Instated libjbig0:s390x 94s Re-Instated libwebp7:s390x 94s Re-Instated libtiff6:s390x 94s Re-Instated libxpm4:s390x 94s Re-Instated libgd3:s390x 94s Re-Instated liblua5.4-0:s390x 94s Re-Instated fontconfig:s390x 94s Re-Instated libthai-data:s390x 94s Re-Instated libdatrie1:s390x 94s Re-Instated libthai0:s390x 94s Re-Instated libpango-1.0-0:s390x 94s Re-Instated libpangoft2-1.0-0:s390x 94s Re-Instated libpangocairo-1.0-0:s390x 94s Re-Instated libwebpmux3:s390x 94s Re-Instated gnuplot-nox:s390x 94s Re-Instated canu:s390x 94s Done 94s Some packages could not be installed. This may mean that you have 94s requested an impossible situation or if you are using the unstable 94s distribution that some required packages have not yet been created 94s or been moved out of Incoming. 94s The following information may help to resolve the situation: 94s 94s The following packages have unmet dependencies: 94s circlator : Depends: python3-pysam but it is not installable 94s E: Unable to correct problems, you have held broken packages. 94s run-unit-test FAIL badpkg 94s blame: circlator 94s badpkg: Test dependencies are unsatisfiable. A common reason is that your testbed is out of date with respect to the archive, and you need to use a current testbed or run apt-get update or use -U. 94s autopkgtest [02:57:23]: @@@@@@@@@@@@@@@@@@@@ summary 94s run-unit-test FAIL badpkg 94s blame: circlator 94s badpkg: Test dependencies are unsatisfiable. A common reason is that your testbed is out of date with respect to the archive, and you need to use a current testbed or run apt-get update or use -U. 110s nova [W] Using flock in prodstack6-s390x 110s Creating nova instance adt-plucky-s390x-circlator-20250217-023326-juju-7f2275-prod-proposed-migration-environment-20-c408720c-7c75-44db-8414-bf6df0460786 from image adt/ubuntu-plucky-s390x-server-20250217.img (UUID 720732d6-1e45-4504-9c51-6dc165c3195f)... 110s nova [W] Timed out waiting for af6d9844-d137-4ffb-8428-92fe4bb07f38 to get deleted.