0s autopkgtest [04:26:08]: starting date and time: 2024-03-23 04:26:08+0000 0s autopkgtest [04:26:08]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [04:26:08]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.1jvcmoc5/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:python-pysam --apt-upgrade mirtop --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=python-pysam/0.22.0+ds-1build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-s390x-3.secgroup --name adt-noble-s390x-mirtop-20240323-042607-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --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/ 95s autopkgtest [04:27:43]: testbed dpkg architecture: s390x 95s autopkgtest [04:27:43]: testbed apt version: 2.7.12 95s autopkgtest [04:27:43]: @@@@@@@@@@@@@@@@@@@@ test bed setup 96s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 96s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [4001 kB] 97s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [57.7 kB] 97s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [495 kB] 97s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 97s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [661 kB] 97s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 97s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 97s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 97s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4154 kB] 97s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 97s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [47.5 kB] 97s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 99s Fetched 9552 kB in 2s (3910 kB/s) 99s Reading package lists... 102s Reading package lists... 102s Building dependency tree... 102s Reading state information... 102s Calculating upgrade... 102s The following packages will be upgraded: 102s libbsd0 102s 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 102s Need to get 46.7 kB of archives. 102s After this operation, 0 B of additional disk space will be used. 102s Get:1 http://ftpmaster.internal/ubuntu noble/main s390x libbsd0 s390x 0.12.1-1 [46.7 kB] 103s Fetched 46.7 kB in 0s (157 kB/s) 103s (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 ... 52170 files and directories currently installed.) 103s Preparing to unpack .../libbsd0_0.12.1-1_s390x.deb ... 103s Unpacking libbsd0:s390x (0.12.1-1) over (0.11.8-1) ... 103s Setting up libbsd0:s390x (0.12.1-1) ... 103s Processing triggers for libc-bin (2.39-0ubuntu2) ... 103s Reading package lists... 103s Building dependency tree... 103s Reading state information... 104s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 104s Unknown architecture, assuming PC-style ttyS0 104s sh: Attempting to set up Debian/Ubuntu apt sources automatically 104s sh: Distribution appears to be Ubuntu 105s Reading package lists... 105s Building dependency tree... 105s Reading state information... 105s eatmydata is already the newest version (131-1). 105s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 105s Reading package lists... 105s Building dependency tree... 105s Reading state information... 105s dbus is already the newest version (1.14.10-4ubuntu1). 105s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 105s Reading package lists... 106s Building dependency tree... 106s Reading state information... 106s rng-tools-debian is already the newest version (2.4). 106s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 106s Reading package lists... 106s Building dependency tree... 106s Reading state information... 106s The following packages will be REMOVED: 106s cloud-init* python3-configobj* python3-debconf* 106s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 106s After this operation, 3256 kB disk space will be freed. 106s (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 ... 52170 files and directories currently installed.) 106s Removing cloud-init (24.1.2-0ubuntu1) ... 107s Removing python3-configobj (5.0.8-3) ... 107s Removing python3-debconf (1.5.86) ... 107s Processing triggers for man-db (2.12.0-3) ... 107s (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 ... 51781 files and directories currently installed.) 107s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 108s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 108s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 108s invoke-rc.d: policy-rc.d denied execution of try-restart. 108s Reading package lists... 108s Building dependency tree... 108s Reading state information... 108s linux-generic is already the newest version (6.8.0-11.11+1). 108s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 109s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 109s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 109s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 110s Reading package lists... 110s Reading package lists... 111s Building dependency tree... 111s Reading state information... 111s Calculating upgrade... 111s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 111s Reading package lists... 111s Building dependency tree... 111s Reading state information... 111s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 111s autopkgtest [04:27:59]: rebooting testbed after setup commands that affected boot 128s autopkgtest [04:28:16]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024 131s autopkgtest [04:28:19]: @@@@@@@@@@@@@@@@@@@@ apt-source mirtop 133s Get:1 http://ftpmaster.internal/ubuntu noble/universe mirtop 0.4.25-5 (dsc) [1697 B] 133s Get:2 http://ftpmaster.internal/ubuntu noble/universe mirtop 0.4.25-5 (tar) [720 kB] 133s Get:3 http://ftpmaster.internal/ubuntu noble/universe mirtop 0.4.25-5 (diff) [10.7 kB] 133s gpgv: Signature made Sun Feb 4 10:03:14 2024 UTC 133s gpgv: using EDDSA key A095B66EE09024BEE6A2F0722A27904BD7243EDA 133s gpgv: Can't check signature: No public key 133s dpkg-source: warning: cannot verify inline signature for ./mirtop_0.4.25-5.dsc: no acceptable signature found 133s autopkgtest [04:28:21]: testing package mirtop version 0.4.25-5 134s autopkgtest [04:28:22]: build not needed 134s autopkgtest [04:28:22]: test run-unit-test: preparing testbed 135s Reading package lists... 136s Building dependency tree... 136s Reading state information... 136s Starting pkgProblemResolver with broken count: 1 136s Starting 2 pkgProblemResolver with broken count: 1 136s Investigating (0) python3-mirtop:s390x < none -> 0.4.25-5 @un puN Ib > 136s Broken python3-mirtop:s390x Depends on python3-pysam:s390x < none @un H > 136s Broken python3-mirtop:s390x Depends on python3-pybedtools:s390x < none @un H > 136s Broken python3-mirtop:s390x Depends on python3-pandas:s390x < none | 2.1.4+dfsg-4ubuntu2 @un uH > 136s Considering python3-pandas:s390x 1 as a solution to python3-mirtop:s390x 1 136s Re-Instated python3-dateutil:s390x 136s Re-Instated libblas3:s390x 136s Re-Instated libgfortran5:s390x 136s Re-Instated liblapack3:s390x 136s Re-Instated python3-numpy:s390x 136s Re-Instated python3-pandas-lib:s390x 136s Re-Instated python3-pandas:s390x 136s Broken python3-mirtop:s390x Depends on python3-biopython:s390x < none | 1.81+dfsg-3 @un uH > 136s Considering python3-biopython:s390x 1 as a solution to python3-mirtop:s390x 1 136s Re-Instated libfreetype6:s390x 136s Re-Instated libimagequant0:s390x 136s Re-Instated libjpeg-turbo8:s390x 136s Re-Instated libjpeg8:s390x 136s Re-Instated liblcms2-2:s390x 136s Re-Instated libopenjp2-7:s390x 136s Re-Instated libgraphite2-3:s390x 136s Re-Instated libharfbuzz0b:s390x 136s Re-Instated libraqm0:s390x 136s Re-Instated libjbig0:s390x 136s Re-Instated libsharpyuv0:s390x 136s Re-Instated libwebp7:s390x 136s Re-Instated libtiff6:s390x 136s Re-Instated libwebpdemux2:s390x 136s Re-Instated libwebpmux3:s390x 136s Re-Instated python3-pil:s390x 136s Re-Instated fonts-dejavu-mono:s390x 136s Re-Instated fonts-dejavu-core:s390x 136s Re-Instated fontconfig-config:s390x 136s Re-Instated libfontconfig1:s390x 136s Re-Instated libpixman-1-0:s390x 136s Re-Instated libxcb-render0:s390x 136s Re-Instated libxcb-shm0:s390x 136s Re-Instated libxrender1:s390x 136s Re-Instated libcairo2:s390x 136s Re-Instated python3-cairo:s390x 136s Re-Instated python3-freetype:s390x 136s Re-Instated python3-rlpycairo:s390x 136s Re-Instated fonts-dejavu-extra:s390x 136s Re-Instated libfontenc1:s390x 136s Re-Instated x11-common:s390x 136s Re-Instated xfonts-encodings:s390x 136s Re-Instated xfonts-utils:s390x 136s Re-Instated fonts-urw-base35:s390x 136s Re-Instated python3-reportlab:s390x 136s Re-Instated sgml-base:s390x 136s Re-Instated xml-core:s390x 136s Re-Instated w3c-sgml-lib:s390x 136s Re-Instated python3-biopython:s390x 136s Done 136s Some packages could not be installed. This may mean that you have 136s requested an impossible situation or if you are using the unstable 136s distribution that some required packages have not yet been created 136s or been moved out of Incoming. 136s The following information may help to resolve the situation: 136s 136s The following packages have unmet dependencies: 136s python3-mirtop : Depends: python3-pysam but it is not installable 136s Depends: python3-pybedtools but it is not installable 136s E: Unable to correct problems, you have held broken packages. 136s autopkgtest: WARNING: Test dependencies are unsatisfiable with using apt pinning. Retrying with using all packages from noble-proposed 136s Reading package lists... 137s Building dependency tree... 137s Reading state information... 137s Starting pkgProblemResolver with broken count: 1 137s Starting 2 pkgProblemResolver with broken count: 1 137s Investigating (0) python3-mirtop:s390x < none -> 0.4.25-5 @un puN Ib > 137s Broken python3-mirtop:s390x Depends on python3-pysam:s390x < none @un H > 137s Broken python3-mirtop:s390x Depends on python3-pybedtools:s390x < none @un H > 137s Broken python3-mirtop:s390x Depends on python3-pandas:s390x < none | 2.1.4+dfsg-4ubuntu2 @un uH > 137s Considering python3-pandas:s390x 1 as a solution to python3-mirtop:s390x 1 137s Re-Instated python3-dateutil:s390x 137s Re-Instated libblas3:s390x 137s Re-Instated libgfortran5:s390x 137s Re-Instated liblapack3:s390x 137s Re-Instated python3-numpy:s390x 137s Re-Instated python3-pandas-lib:s390x 137s Re-Instated python3-pandas:s390x 137s Broken python3-mirtop:s390x Depends on python3-biopython:s390x < none | 1.81+dfsg-3 @un uH > 137s Considering python3-biopython:s390x 1 as a solution to python3-mirtop:s390x 1 137s Re-Instated libfreetype6:s390x 137s Re-Instated libimagequant0:s390x 137s Re-Instated libjpeg-turbo8:s390x 137s Re-Instated libjpeg8:s390x 137s Re-Instated liblcms2-2:s390x 137s Re-Instated libopenjp2-7:s390x 137s Re-Instated libgraphite2-3:s390x 137s Re-Instated libharfbuzz0b:s390x 137s Re-Instated libraqm0:s390x 137s Re-Instated libjbig0:s390x 137s Re-Instated libsharpyuv0:s390x 137s Re-Instated libwebp7:s390x 137s Re-Instated libtiff6:s390x 137s Re-Instated libwebpdemux2:s390x 137s Re-Instated libwebpmux3:s390x 137s Re-Instated python3-pil:s390x 137s Re-Instated fonts-dejavu-mono:s390x 137s Re-Instated fonts-dejavu-core:s390x 137s Re-Instated fontconfig-config:s390x 137s Re-Instated libfontconfig1:s390x 137s Re-Instated libpixman-1-0:s390x 137s Re-Instated libxcb-render0:s390x 137s Re-Instated libxcb-shm0:s390x 137s Re-Instated libxrender1:s390x 137s Re-Instated libcairo2:s390x 137s Re-Instated python3-cairo:s390x 137s Re-Instated python3-freetype:s390x 137s Re-Instated python3-rlpycairo:s390x 137s Re-Instated fonts-dejavu-extra:s390x 137s Re-Instated libfontenc1:s390x 137s Re-Instated x11-common:s390x 137s Re-Instated xfonts-encodings:s390x 137s Re-Instated xfonts-utils:s390x 137s Re-Instated fonts-urw-base35:s390x 137s Re-Instated python3-reportlab:s390x 137s Re-Instated sgml-base:s390x 137s Re-Instated xml-core:s390x 137s Re-Instated w3c-sgml-lib:s390x 137s Re-Instated python3-biopython:s390x 137s Done 137s Some packages could not be installed. This may mean that you have 137s requested an impossible situation or if you are using the unstable 137s distribution that some required packages have not yet been created 137s or been moved out of Incoming. 137s The following information may help to resolve the situation: 137s 137s The following packages have unmet dependencies: 137s python3-mirtop : Depends: python3-pysam but it is not installable 137s Depends: python3-pybedtools but it is not installable 137s E: Unable to correct problems, you have held broken packages. 137s autopkgtest: WARNING: Test dependencies are unsatisfiable - calling apt install on test deps directly for further data about failing dependencies in test logs 137s Reading package lists... 137s Building dependency tree... 137s Reading state information... 137s Starting pkgProblemResolver with broken count: 1 137s Starting 2 pkgProblemResolver with broken count: 1 137s Investigating (0) python3-mirtop:s390x < none -> 0.4.25-5 @un puN Ib > 137s Broken python3-mirtop:s390x Depends on python3-pysam:s390x < none @un H > 137s Broken python3-mirtop:s390x Depends on python3-pybedtools:s390x < none @un H > 137s Broken python3-mirtop:s390x Depends on python3-pandas:s390x < none | 2.1.4+dfsg-4ubuntu2 @un uH > 137s Considering python3-pandas:s390x 1 as a solution to python3-mirtop:s390x 10000 137s Re-Instated python3-dateutil:s390x 137s Re-Instated libblas3:s390x 137s Re-Instated libgfortran5:s390x 137s Re-Instated liblapack3:s390x 137s Re-Instated python3-numpy:s390x 137s Re-Instated python3-pandas-lib:s390x 137s Re-Instated python3-pandas:s390x 137s Broken python3-mirtop:s390x Depends on python3-biopython:s390x < none | 1.81+dfsg-3 @un uH > 137s Considering python3-biopython:s390x 1 as a solution to python3-mirtop:s390x 10000 137s Re-Instated libfreetype6:s390x 137s Re-Instated libimagequant0:s390x 137s Re-Instated libjpeg-turbo8:s390x 137s Re-Instated libjpeg8:s390x 137s Re-Instated liblcms2-2:s390x 137s Re-Instated libopenjp2-7:s390x 137s Re-Instated libgraphite2-3:s390x 137s Re-Instated libharfbuzz0b:s390x 137s Re-Instated libraqm0:s390x 137s Re-Instated libjbig0:s390x 137s Re-Instated libsharpyuv0:s390x 137s Re-Instated libwebp7:s390x 137s Re-Instated libtiff6:s390x 137s Re-Instated libwebpdemux2:s390x 137s Re-Instated libwebpmux3:s390x 137s Re-Instated python3-pil:s390x 137s Re-Instated fonts-dejavu-mono:s390x 137s Re-Instated fonts-dejavu-core:s390x 137s Re-Instated fontconfig-config:s390x 137s Re-Instated libfontconfig1:s390x 137s Re-Instated libpixman-1-0:s390x 137s Re-Instated libxcb-render0:s390x 137s Re-Instated libxcb-shm0:s390x 137s Re-Instated libxrender1:s390x 137s Re-Instated libcairo2:s390x 137s Re-Instated python3-cairo:s390x 137s Re-Instated python3-freetype:s390x 137s Re-Instated python3-rlpycairo:s390x 137s Re-Instated fonts-dejavu-extra:s390x 137s Re-Instated libfontenc1:s390x 137s Re-Instated x11-common:s390x 137s Re-Instated xfonts-encodings:s390x 137s Re-Instated xfonts-utils:s390x 137s Re-Instated fonts-urw-base35:s390x 137s Re-Instated python3-reportlab:s390x 137s Re-Instated sgml-base:s390x 137s Re-Instated xml-core:s390x 137s Re-Instated w3c-sgml-lib:s390x 137s Re-Instated python3-biopython:s390x 137s Done 137s Some packages could not be installed. This may mean that you have 137s requested an impossible situation or if you are using the unstable 137s distribution that some required packages have not yet been created 137s or been moved out of Incoming. 137s The following information may help to resolve the situation: 137s 137s The following packages have unmet dependencies: 137s python3-mirtop : Depends: python3-pysam but it is not installable 137s Depends: python3-pybedtools but it is not installable 137s E: Unable to correct problems, you have held broken packages. 137s autopkgtest [04:28:25]: test autodep8-python3: preparing testbed 137s run-unit-test FAIL badpkg 137s blame: mirtop 137s 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. 243s autopkgtest [04:30:11]: testbed dpkg architecture: s390x 243s autopkgtest [04:30:11]: testbed apt version: 2.7.12 243s autopkgtest [04:30:11]: @@@@@@@@@@@@@@@@@@@@ test bed setup 244s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 244s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [495 kB] 245s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [57.7 kB] 245s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 245s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [4001 kB] 247s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [661 kB] 247s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 247s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 247s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 247s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4154 kB] 248s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 248s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [47.5 kB] 248s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 249s Fetched 9552 kB in 5s (2073 kB/s) 249s Reading package lists... 252s Reading package lists... 252s Building dependency tree... 252s Reading state information... 252s Calculating upgrade... 252s The following packages will be upgraded: 252s libbsd0 252s 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 252s Need to get 46.7 kB of archives. 252s After this operation, 0 B of additional disk space will be used. 252s Get:1 http://ftpmaster.internal/ubuntu noble/main s390x libbsd0 s390x 0.12.1-1 [46.7 kB] 253s Fetched 46.7 kB in 0s (148 kB/s) 253s (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 ... 52170 files and directories currently installed.) 253s Preparing to unpack .../libbsd0_0.12.1-1_s390x.deb ... 253s Unpacking libbsd0:s390x (0.12.1-1) over (0.11.8-1) ... 253s Setting up libbsd0:s390x (0.12.1-1) ... 253s Processing triggers for libc-bin (2.39-0ubuntu2) ... 253s Reading package lists... 253s Building dependency tree... 253s Reading state information... 254s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 254s Unknown architecture, assuming PC-style ttyS0 254s sh: Attempting to set up Debian/Ubuntu apt sources automatically 254s sh: Distribution appears to be Ubuntu 255s Reading package lists... 255s Building dependency tree... 255s Reading state information... 255s eatmydata is already the newest version (131-1). 255s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 255s Reading package lists... 255s Building dependency tree... 255s Reading state information... 255s dbus is already the newest version (1.14.10-4ubuntu1). 255s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 255s Reading package lists... 256s Building dependency tree... 256s Reading state information... 256s rng-tools-debian is already the newest version (2.4). 256s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 256s Reading package lists... 256s Building dependency tree... 256s Reading state information... 256s The following packages will be REMOVED: 256s cloud-init* python3-configobj* python3-debconf* 256s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 256s After this operation, 3256 kB disk space will be freed. 256s (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 ... 52170 files and directories currently installed.) 256s Removing cloud-init (24.1.2-0ubuntu1) ... 257s Removing python3-configobj (5.0.8-3) ... 257s Removing python3-debconf (1.5.86) ... 257s Processing triggers for man-db (2.12.0-3) ... 257s (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 ... 51781 files and directories currently installed.) 257s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 258s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 258s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 258s invoke-rc.d: policy-rc.d denied execution of try-restart. 258s Reading package lists... 258s Building dependency tree... 258s Reading state information... 258s linux-generic is already the newest version (6.8.0-11.11+1). 258s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 259s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 259s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 259s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 261s Reading package lists... 261s Reading package lists... 261s Building dependency tree... 261s Reading state information... 261s Calculating upgrade... 261s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 261s Reading package lists... 261s Building dependency tree... 261s Reading state information... 261s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 261s autopkgtest [04:30:29]: rebooting testbed after setup commands that affected boot 282s Reading package lists... 283s Building dependency tree... 283s Reading state information... 283s Starting pkgProblemResolver with broken count: 1 283s Starting 2 pkgProblemResolver with broken count: 1 283s Investigating (0) python3-mirtop:s390x < none -> 0.4.25-5 @un puN Ib > 283s Broken python3-mirtop:s390x Depends on python3-pysam:s390x < none @un H > 283s Broken python3-mirtop:s390x Depends on python3-pybedtools:s390x < none @un H > 283s Broken python3-mirtop:s390x Depends on python3-pandas:s390x < none | 2.1.4+dfsg-4ubuntu2 @un uH > 283s Considering python3-pandas:s390x 1 as a solution to python3-mirtop:s390x 0 283s Re-Instated python3-dateutil:s390x 283s Re-Instated libblas3:s390x 283s Re-Instated libgfortran5:s390x 283s Re-Instated liblapack3:s390x 283s Re-Instated python3-numpy:s390x 283s Re-Instated python3-pandas-lib:s390x 283s Re-Instated python3-pandas:s390x 283s Broken python3-mirtop:s390x Depends on python3-biopython:s390x < none | 1.81+dfsg-3 @un uH > 283s Considering python3-biopython:s390x 1 as a solution to python3-mirtop:s390x 0 283s Re-Instated libfreetype6:s390x 283s Re-Instated libgomp1:s390x 283s Re-Instated libimagequant0:s390x 283s Re-Instated libjpeg-turbo8:s390x 283s Re-Instated libjpeg8:s390x 283s Re-Instated liblcms2-2:s390x 283s Re-Instated libopenjp2-7:s390x 283s Re-Instated libgraphite2-3:s390x 283s Re-Instated libharfbuzz0b:s390x 283s Re-Instated libraqm0:s390x 283s Re-Instated libdeflate0:s390x 283s Re-Instated libjbig0:s390x 283s Re-Instated libsharpyuv0:s390x 283s Re-Instated libwebp7:s390x 283s Re-Instated libtiff6:s390x 283s Re-Instated libwebpdemux2:s390x 283s Re-Instated libwebpmux3:s390x 283s Re-Instated python3-pil:s390x 283s Re-Instated fonts-dejavu-mono:s390x 283s Re-Instated fonts-dejavu-core:s390x 283s Re-Instated fontconfig-config:s390x 283s Re-Instated libfontconfig1:s390x 283s Re-Instated libpixman-1-0:s390x 283s Re-Instated libxcb-render0:s390x 283s Re-Instated libxcb-shm0:s390x 283s Re-Instated libxrender1:s390x 283s Re-Instated libcairo2:s390x 283s Re-Instated python3-cairo:s390x 283s Re-Instated python3-freetype:s390x 283s Re-Instated python3-rlpycairo:s390x 283s Re-Instated fonts-dejavu-extra:s390x 283s Re-Instated libfontenc1:s390x 283s Re-Instated x11-common:s390x 283s Re-Instated xfonts-encodings:s390x 283s Re-Instated xfonts-utils:s390x 283s Re-Instated fonts-urw-base35:s390x 283s Re-Instated python3-reportlab:s390x 283s Re-Instated sgml-base:s390x 283s Re-Instated xml-core:s390x 283s Re-Instated w3c-sgml-lib:s390x 283s Re-Instated python3-biopython:s390x 283s Done 283s Some packages could not be installed. This may mean that you have 283s requested an impossible situation or if you are using the unstable 283s distribution that some required packages have not yet been created 283s or been moved out of Incoming. 283s The following information may help to resolve the situation: 283s 283s The following packages have unmet dependencies: 283s python3-mirtop : Depends: python3-pysam but it is not installable 283s Depends: python3-pybedtools but it is not installable 283s E: Unable to correct problems, you have held broken packages. 283s autopkgtest: WARNING: Test dependencies are unsatisfiable with using apt pinning. Retrying with using all packages from noble-proposed 283s Reading package lists... 284s Building dependency tree... 284s Reading state information... 284s Starting pkgProblemResolver with broken count: 1 284s Starting 2 pkgProblemResolver with broken count: 1 284s Investigating (0) python3-mirtop:s390x < none -> 0.4.25-5 @un puN Ib > 284s Broken python3-mirtop:s390x Depends on python3-pysam:s390x < none @un H > 284s Broken python3-mirtop:s390x Depends on python3-pybedtools:s390x < none @un H > 284s Broken python3-mirtop:s390x Depends on python3-pandas:s390x < none | 2.1.4+dfsg-4ubuntu2 @un uH > 284s Considering python3-pandas:s390x 1 as a solution to python3-mirtop:s390x 0 284s Re-Instated python3-dateutil:s390x 284s Re-Instated libblas3:s390x 284s Re-Instated libgfortran5:s390x 284s Re-Instated liblapack3:s390x 284s Re-Instated python3-numpy:s390x 284s Re-Instated python3-pandas-lib:s390x 284s Re-Instated python3-pandas:s390x 284s Broken python3-mirtop:s390x Depends on python3-biopython:s390x < none | 1.81+dfsg-3 @un uH > 284s Considering python3-biopython:s390x 1 as a solution to python3-mirtop:s390x 0 284s Re-Instated libfreetype6:s390x 284s Re-Instated libgomp1:s390x 284s Re-Instated libimagequant0:s390x 284s Re-Instated libjpeg-turbo8:s390x 284s Re-Instated libjpeg8:s390x 284s Re-Instated liblcms2-2:s390x 284s Re-Instated libopenjp2-7:s390x 284s Re-Instated libgraphite2-3:s390x 284s Re-Instated libharfbuzz0b:s390x 284s Re-Instated libraqm0:s390x 284s Re-Instated libdeflate0:s390x 284s Re-Instated libjbig0:s390x 284s Re-Instated libsharpyuv0:s390x 284s Re-Instated libwebp7:s390x 284s Re-Instated libtiff6:s390x 284s Re-Instated libwebpdemux2:s390x 284s Re-Instated libwebpmux3:s390x 284s Re-Instated python3-pil:s390x 284s Re-Instated fonts-dejavu-mono:s390x 284s Re-Instated fonts-dejavu-core:s390x 284s Re-Instated fontconfig-config:s390x 284s Re-Instated libfontconfig1:s390x 284s Re-Instated libpixman-1-0:s390x 284s Re-Instated libxcb-render0:s390x 284s Re-Instated libxcb-shm0:s390x 284s Re-Instated libxrender1:s390x 284s Re-Instated libcairo2:s390x 284s Re-Instated python3-cairo:s390x 284s Re-Instated python3-freetype:s390x 284s Re-Instated python3-rlpycairo:s390x 284s Re-Instated fonts-dejavu-extra:s390x 284s Re-Instated libfontenc1:s390x 284s Re-Instated x11-common:s390x 284s Re-Instated xfonts-encodings:s390x 284s Re-Instated xfonts-utils:s390x 284s Re-Instated fonts-urw-base35:s390x 284s Re-Instated python3-reportlab:s390x 284s Re-Instated sgml-base:s390x 284s Re-Instated xml-core:s390x 284s Re-Instated w3c-sgml-lib:s390x 284s Re-Instated python3-biopython:s390x 284s Done 284s Some packages could not be installed. This may mean that you have 284s requested an impossible situation or if you are using the unstable 284s distribution that some required packages have not yet been created 284s or been moved out of Incoming. 284s The following information may help to resolve the situation: 284s 284s The following packages have unmet dependencies: 284s python3-mirtop : Depends: python3-pysam but it is not installable 284s Depends: python3-pybedtools but it is not installable 284s E: Unable to correct problems, you have held broken packages. 284s autopkgtest: WARNING: Test dependencies are unsatisfiable - calling apt install on test deps directly for further data about failing dependencies in test logs 284s Reading package lists... 284s Building dependency tree... 284s Reading state information... 284s Starting pkgProblemResolver with broken count: 1 284s Starting 2 pkgProblemResolver with broken count: 1 284s Investigating (0) python3-mirtop:s390x < none -> 0.4.25-5 @un puN Ib > 284s Broken python3-mirtop:s390x Depends on python3-pysam:s390x < none @un H > 284s Broken python3-mirtop:s390x Depends on python3-pybedtools:s390x < none @un H > 284s Broken python3-mirtop:s390x Depends on python3-pandas:s390x < none | 2.1.4+dfsg-4ubuntu2 @un uH > 284s Considering python3-pandas:s390x 1 as a solution to python3-mirtop:s390x 9999 284s Re-Instated python3-dateutil:s390x 284s Re-Instated libblas3:s390x 284s Re-Instated libgfortran5:s390x 284s Re-Instated liblapack3:s390x 284s Re-Instated python3-numpy:s390x 284s Re-Instated python3-pandas-lib:s390x 284s Re-Instated python3-pandas:s390x 284s Broken python3-mirtop:s390x Depends on python3-biopython:s390x < none | 1.81+dfsg-3 @un uH > 284s Considering python3-biopython:s390x 1 as a solution to python3-mirtop:s390x 9999 284s Re-Instated libfreetype6:s390x 284s Re-Instated libgomp1:s390x 284s Re-Instated libimagequant0:s390x 284s Re-Instated libjpeg-turbo8:s390x 284s Re-Instated libjpeg8:s390x 284s Re-Instated liblcms2-2:s390x 284s Re-Instated libopenjp2-7:s390x 284s Re-Instated libgraphite2-3:s390x 284s Re-Instated libharfbuzz0b:s390x 284s Re-Instated libraqm0:s390x 284s Re-Instated libdeflate0:s390x 284s Re-Instated libjbig0:s390x 284s Re-Instated libsharpyuv0:s390x 284s Re-Instated libwebp7:s390x 284s Re-Instated libtiff6:s390x 284s Re-Instated libwebpdemux2:s390x 284s Re-Instated libwebpmux3:s390x 284s Re-Instated python3-pil:s390x 284s Re-Instated fonts-dejavu-mono:s390x 284s Re-Instated fonts-dejavu-core:s390x 284s Re-Instated fontconfig-config:s390x 284s Re-Instated libfontconfig1:s390x 284s Re-Instated libpixman-1-0:s390x 284s Re-Instated libxcb-render0:s390x 284s Re-Instated libxcb-shm0:s390x 284s Re-Instated libxrender1:s390x 284s Re-Instated libcairo2:s390x 284s Re-Instated python3-cairo:s390x 284s Re-Instated python3-freetype:s390x 284s Re-Instated python3-rlpycairo:s390x 284s Re-Instated fonts-dejavu-extra:s390x 284s Re-Instated libfontenc1:s390x 284s Re-Instated x11-common:s390x 284s Re-Instated xfonts-encodings:s390x 284s Re-Instated xfonts-utils:s390x 284s Re-Instated fonts-urw-base35:s390x 284s Re-Instated python3-reportlab:s390x 284s Re-Instated sgml-base:s390x 284s Re-Instated xml-core:s390x 284s Re-Instated w3c-sgml-lib:s390x 284s Re-Instated python3-biopython:s390x 284s Done 284s Some packages could not be installed. This may mean that you have 284s requested an impossible situation or if you are using the unstable 284s distribution that some required packages have not yet been created 284s or been moved out of Incoming. 284s The following information may help to resolve the situation: 284s 284s The following packages have unmet dependencies: 285s python3-mirtop : Depends: python3-pysam but it is not installable 285s Depends: python3-pybedtools but it is not installable 285s E: Unable to correct problems, you have held broken packages. 285s autodep8-python3 FAIL badpkg 285s blame: mirtop 285s 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. 285s autopkgtest [04:30:53]: @@@@@@@@@@@@@@@@@@@@ summary 285s run-unit-test FAIL badpkg 285s blame: mirtop 285s 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. 285s autodep8-python3 FAIL badpkg 285s blame: mirtop 285s 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. 296s Creating nova instance adt-noble-s390x-mirtop-20240323-042607-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240322.img (UUID c8671f9a-0e89-48e3-af4f-3c79b89294e8)... 296s Creating nova instance adt-noble-s390x-mirtop-20240323-042607-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240322.img (UUID c8671f9a-0e89-48e3-af4f-3c79b89294e8)...