0s autopkgtest: DBG: testbed init 0s autopkgtest [12:33:30]: starting date and time: 2025-02-19 12:33:30+0000 0s autopkgtest [12:33:30]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [12:33:30]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.vqs4pib3/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:sphinx --apt-upgrade python-biom-format --debug --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=sphinx/8.1.3-5 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-s390x-18.secgroup --name adt-plucky-s390x-python-biom-format-20250219-123330-juju-7f2275-prod-proposed-migration-environment-15-22a6c8ed-de12-466f-9a9e-1b31407c1025 --image adt/ubuntu-plucky-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --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/ 0s autopkgtest: DBG: got reply from testbed: ok 0s autopkgtest: DBG: testbed open, scratch=None 0s autopkgtest: DBG: sending command to testbed: open 113s autopkgtest: DBG: got reply from testbed: ok /tmp/autopkgtest.lLAh2j 113s autopkgtest: DBG: sending command to testbed: print-execute-command 113s autopkgtest: DBG: got reply from testbed: ok /tmp/autopkgtest-ssh.zxp4kf04/runcmd 113s autopkgtest: DBG: sending command to testbed: capabilities 113s autopkgtest: DBG: got reply from testbed: ok isolation-machine revert suggested-normal-user=ubuntu reboot revert-full-system root-on-testbed 113s autopkgtest: DBG: testbed capabilities: ['isolation-machine', 'revert', 'suggested-normal-user=ubuntu', 'reboot', 'revert-full-system', 'root-on-testbed', 'has_internet'] 113s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 114s autopkgtest: DBG: testbed command exited with code 0 114s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/wrapper.sh /tmp/autopkgtest.lLAh2j/wrapper.sh 114s autopkgtest: DBG: got reply from testbed: ok 114s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/wrapper.sh'], kind short, sout raw, serr pipe, env [] 114s autopkgtest: DBG: testbed command exited with code 0 114s autopkgtest: DBG: testbed command ['dpkg', '--print-architecture'], kind short, sout pipe, serr pipe, env [] 114s autopkgtest: DBG: testbed command exited with code 0 114s autopkgtest [12:35:24]: testbed dpkg architecture: s390x 114s autopkgtest: DBG: testbed command ['dpkg-query', '-W', '-f', '${Version}', 'apt'], kind short, sout pipe, serr pipe, env [] 114s autopkgtest: DBG: testbed command exited with code 0 114s autopkgtest [12:35:24]: testbed apt version: 2.9.30 114s autopkgtest: DBG: testbed command ['sh', '-ec', 'command -v eatmydata'], kind short, sout pipe, serr pipe, env [] 114s autopkgtest: DBG: testbed command exited with code 0 114s autopkgtest: DBG: testbed has eatmydata 114s autopkgtest: DBG: testbed command ['mkdir', '-p', '/etc/apt/preferences.d'], kind short, sout raw, serr pipe, env [] 115s autopkgtest: DBG: testbed command exited with code 0 115s autopkgtest [12:35:25]: @@@@@@@@@@@@@@@@@@@@ test bed setup 115s autopkgtest: DBG: testbed command ['sh', '-ec', '#!/bin/sh\n# Copyright © 2006-2018 Canonical Ltd.\n# Copyright © 2015-2017 Martin Pitt\n# Copyright © 2017 Steve Langasek\n# Copyright © 2017-2022 Paul Gevers\n# Copyright © 2018 Simon McVittie\n# SPDX-License-Identifier: GPL-2.0-or-later\n\n# This script returns the first suite found in apt sources. We can\'t just rely\n# on /etc/os-release because it doesn\'t allow to distinguish between Debian\n# unstable and testing.\n#\n# This release detection logic should be kept in sync with similar code in the\n# setup-testbed script.\n#\n# For more information on APT data sources see sources.list(5).\n\n# Usage $0\n\nset -eux\n\ndistro=UNKNOWN\nif [ -r /etc/os-release ]; then\n # shellcheck disable=SC1091\n distro=$(. /etc/os-release && echo "${ID:-$distro}")\nfi\n\n# Try guessing the default release from deb822-style format sources.\n#\n# While not mandatory, APT upstream expects distros to follow the\n# .sources naming pattern for the default deb822 sources.\napt_sources="/etc/apt/sources.list.d/$distro.sources"\nif [ -r "$apt_sources" ]; then\n release=$(sed -En \'s/^Suites:\\s*(\\w+).*/\\1/Ip\' "$apt_sources" | head -n1)\n [ -n "$release" ] && echo "$release" && exit\nfi\n\n# Try guessing the default release from one-line-style format sources.\napt_sources=/etc/apt/sources.list\nif [ -r "$apt_sources" ]; then\n release=$(sed -En \'/^(deb|deb-src) +(\\[.*\\] *)?(http|https|file):/ { s/\\[.*\\] +//; s/^[^ ]+ +[^ ]* +([^ ]+) +.*$/\\1/p }\' "$apt_sources" | head -n1)\n [ -n "$release" ] && echo "$release" && exit\nfi\n\n# Could not guess the default release\necho "Could not guess the default release from the APT sources." >&2\nexit 1\n'], kind short, sout pipe, serr pipe, env [] 115s autopkgtest: DBG: testbed command exited with code 0 115s autopkgtest [12:35:25]: testbed release detected to be: None 115s autopkgtest: DBG: testbed command ['sh', '-ec', '#!/bin/sh\n# SPDX-License-Identifier: GPL-2.0-or-later\n\n# This script returns the list of configured "deb" sources in one-line-style\n# source lists (/etc/apt/sources.list, /etc/apt/sources.list.d/*.list).\n# See sources.list(5) for more information on the APT source list formats.\n#\n# This script takes no arguments.\n\nset -eu\n\n# grep(1) returns 1 if no lines were selected from the input files, which\n# can happen if there are .list files, but they contain no "deb" entries.\n# We don\'t want to fail in this case, hence the "|| true", which we put\n# in a subshell because we want it to affect only the grep invocation.\n{\n if [ -f /etc/apt/sources.list ]; then\n printf \'%s\\0\' /etc/apt/sources.list\n fi\n if [ -d /etc/apt/sources.list.d ]; then\n find /etc/apt/sources.list.d -maxdepth 1 -type f -regex \'.*/[a-zA-Z0-9_.-]+\\.list\' -print0 \\\n | LC_ALL=C sort --zero-terminated\n fi\n} | xargs -0 --no-run-if-empty -- sh -c \'grep -h "^deb " "$@" || true\' "$(basename "$0")"\n'], kind short, sout pipe, serr pipe, env [] 115s autopkgtest: DBG: testbed command exited with code 0 115s autopkgtest: DBG: testbed command ['sh', '-ec', '#!/bin/sh\n# SPDX-License-Identifier: GPL-2.0-or-later\n\n# This script returns the list of configured sources in deb822-style source\n# lists (/etc/apt/sources.list.d/*.sources). Sources are not stripped out of\n# comments, extra blank lines or similar: the output of this script is meant to\n# be consumed by a deb822 parser that is able to correctly handle those.\n# See sources.list(5) for more information on the APT source list formats.\n#\n# This script takes no arguments.\n\nset -eu\n\n# Awk concatenates files making sure stanzas from separate files are separated\n# by a blank line, even if there are no newlines at EOF in the .sources files.\nif [ -d /etc/apt/sources.list.d ]; then\n find /etc/apt/sources.list.d -maxdepth 1 -type f -regex \'.*/[a-zA-Z0-9_.-]+\\.sources\' -print0 \\\n | LC_ALL=C sort --zero-terminated \\\n | xargs -0 --no-run-if-empty -- awk \'FNR == 1 && NR != 1 { print "" } { print }\'\nfi\n'], kind short, sout pipe, serr pipe, env [] 115s autopkgtest: DBG: testbed command exited with code 0 115s autopkgtest: DBG: adding APT source: Types: deb deb-src 115s URIs: http://ftpmaster.internal/ubuntu/ 115s Suites: plucky-proposed 115s Components: main restricted universe multiverse 115s Signed-By: /usr/share/keyrings/ubuntu-archive-keyring.gpg 115s autopkgtest: DBG: testbed command ['sh', '-ec', '"$@" >> "/etc/apt/sources.list.d/autopkgtest-add-apt-release-plucky-proposed.sources"', 'add_apt_source', 'printf', '%s\\n', 'Types: deb deb-src\nURIs: http://ftpmaster.internal/ubuntu/\nSuites: plucky-proposed\nComponents: main restricted universe multiverse\nSigned-By: /usr/share/keyrings/ubuntu-archive-keyring.gpg\n'], kind short, sout raw, serr pipe, env [] 115s autopkgtest: DBG: testbed command exited with code 0 115s autopkgtest: DBG: adding APT preference to autopkgtest-zz-plucky-proposed-baseline.pref: 115s Package: * 115s Pin: release plucky-proposed 115s Pin-Priority: 500 115s autopkgtest: DBG: testbed command ['sh', '-ec', '"$@" > "/etc/apt/preferences.d/autopkgtest-zz-plucky-proposed-baseline.pref"', 'add_apt_preference', 'printf', '%s\\n', 'Package: *\nPin: release plucky-proposed\nPin-Priority: 500'], kind short, sout raw, serr pipe, env [] 115s autopkgtest: DBG: testbed command exited with code 0 115s autopkgtest [12:35:25]: updating testbed package index (apt update) 115s autopkgtest: DBG: testbed command ['/bin/sh', '-ec', '"$@" 3>&2 2>&1', 'run_apt_command', '/usr/bin/eatmydata', 'apt-get', '--quiet', '--assume-yes', '-o=APT::Status-Fd=3', '-o=APT::Install-Recommends=false', '-o=Dpkg::Options::=--force-confnew', '-o=Debug::pkgProblemResolver=true', 'update'], kind install, sout raw, serr pipe, env ['DEBIAN_FRONTEND=noninteractive', 'APT_LISTBUGS_FRONTEND=none', 'APT_LISTCHANGES_FRONTEND=none'] 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/universe Sources [750 kB] 116s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.1 kB] 116s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.9 kB] 116s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [95.1 kB] 116s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted s390x Packages [760 B] 116s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [646 kB] 116s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [4900 B] 117s Fetched 1700 kB in 1s (1866 kB/s) 117s Reading package lists... 117s autopkgtest: DBG: testbed command exited with code 0 117s autopkgtest: DBG: adding APT preference to autopkgtest-plucky-proposed.pref: 117s Package: * 117s Pin: release plucky-proposed 117s Pin-Priority: 100 117s 117s Package: src:sphinx:any 117s Pin: release plucky-proposed 117s Pin-Priority: 995 117s autopkgtest: DBG: testbed command ['sh', '-ec', '"$@" > "/etc/apt/preferences.d/autopkgtest-plucky-proposed.pref"', 'add_apt_preference', 'printf', '%s\\n', 'Package: *\nPin: release plucky-proposed\nPin-Priority: 100\n\nPackage: src:sphinx:any\nPin: release plucky-proposed\nPin-Priority: 995'], kind short, sout raw, serr pipe, env [] 117s autopkgtest: DBG: testbed command exited with code 0 117s autopkgtest: DBG: testbed command ['bash', '-ec', 'for d in /boot /boot/efi /boot/grub /etc/init /etc/init.d /etc/systemd/system /lib/systemd/system; do [ ! -d $d ] || touch -r $d /tmp/autopkgtest.lLAh2j/${d//\\//_}.stamp; done'], kind short, sout raw, serr pipe, env [] 118s autopkgtest: DBG: testbed command exited with code 0 118s autopkgtest: DBG: testbed command ['sh', '-ec', '#!/bin/sh\n# Canonical/Ubuntu specific testbed setup\n\nset -x\n\nRELEASE=$(lsb_release --codename --short 2>/dev/null)\n\n# Make the installed package versions match what is available from the configured\n# repositories, even if a downgrade is required.\n#\n# We may end up with images with packages newer than those available from the\n# repositories when opening a new release (images are created using the\n# previous release dailies as a base, which may include 0-day SRUs, or\n# Launchpad may fail to copy packages, see openssl 3.0.8-1ubuntu2), or when\n# package versions are pulled from the archive.\n#\n# Note: \'release a=\' matches the Suite field in the repository Release file.\ncat >/etc/apt/preferences.d/force-downgrade-to-release.pref <= Focal).\n#\n# Note: autoremove/--autoremove always runs on the entire set of installed\n# packages. Together with --autopurge/purge each removal becomes a purge.\n#\n# Removing \'?obsolete\' packages may remove the running kernel. This is not\n# expected to be an issue.\nif /usr/lib/apt/apt-helper analyze-pattern \'?true\' >/dev/null 2>&1; then\n # DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove \'?obsolete\'\n # Avoid removing the running kernel\n running_kernel_pattern="^linux-.*$(uname -r | sed \'s/\\./\\\\./g\').*"\n obsolete_pkgs="$(apt list \'?obsolete\' 2>/dev/null \\\n | tail -n+2 \\\n | cut -d\'/\' -f1 \\\n | grep -v "${running_kernel_pattern}" || true)"\n DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove ${obsolete_pkgs}\nelse\n # We\'re on an older release (analyze-pattern is not available).\n # Still do an autopurge to get rid of packages that got orphaned\n # by downgrades.\n eatmydata apt-get -y autoremove --purge\nfi\n\n# compatibility with old Jenkins testbeds for trusty\nif grep -q trusty /etc/lsb-release; then apt-get update || (sleep 10; apt-get update); apt-get install -y build-essential; fi\n\n# these packages really break tests, purge them if we use standard cloud images\n# (on lcy01)\nfor p in unattended-upgrades lxd lxd-client snapd; do\n [ ! -d /usr/share/doc/$p ] || $(which eatmydata || true) apt-get purge --auto-remove -y $p\ndone\n\nif type iptables >/dev/null 2>&1; then\n cat < /etc/rc.local\n#!/bin/sh\n\n# work around broken PTMU; LP: #1572026, RT#90771\niptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu || true\n\n# These addresses are used at least by rust-reqwest and should not be reachable\n# See https://bugs.launchpad.net/ubuntu/+source/rust-reqwest/+bug/2080346\niptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP || true\niptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP || true\nEOF\n chmod 755 /etc/rc.local\n # shellcheck disable=SC1091\n . /etc/rc.local\nfi\n\n# work around broken tty on ppc64el instances (LP: #1607075)\nif [ "$(uname -m)" = ppc64le ] && [ "$(systemctl is-active keyboard-setup.service 2>/dev/null|| true)" = failed ]; then\n systemctl reset-failed keyboard-setup.service\n systemctl mask keyboard-setup.service\nfi\n\n# work around late urandom pool initialization (LP: #1622893)\nif [ -d /run/systemd/system ] && systemd-detect-virt --quiet --vm; then\n mkdir -p /etc/systemd/system/systemd-random-seed.service.d/\n cat < /etc/systemd/system/systemd-random-seed.service.d/fakeentropy.conf\n[Service]\nExecStart=/usr/bin/perl -E \'open \\$\\$f, "/bin/bash" or die; open \\$\\$rnd, ">/dev/random" or die; for (\\$\\$i = 0; \\$\\$i < 10; ++\\$\\$i) {read \\$\\$f, \\$\\$d, 64; ioctl \\$\\$rnd, 0x40085203, pack("ii", 64*8, 64) . \\$\\$d}\'\nEOF\nfi\n\n# set compressor to lz4 where supported, we care about compression speed\nif grep -q lz4 /etc/initramfs-tools/initramfs.conf; then\n echo COMPRESS=lz4 > /etc/initramfs-tools/conf.d/lz4\nfi'], kind install, sout raw, serr raw, env ['AUTOPKGTEST_IS_SETUP_COMMAND=1', 'AUTOPKGTEST_NORMAL_USER=ubuntu', 'ADT_NORMAL_USER=ubuntu'] 118s + lsb_release --codename --short 118s + RELEASE=plucky 118s + cat 118s + [ plucky != trusty ] 118s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 118s Reading package lists... 118s Building dependency tree... 118s Reading state information... 118s Calculating upgrade... 118s The following packages were automatically installed and are no longer required: 118s libnsl2 libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 118s linux-headers-6.11.0-8 linux-headers-6.11.0-8-generic 118s linux-modules-6.11.0-8-generic linux-tools-6.11.0-8 118s linux-tools-6.11.0-8-generic 118s Use 'sudo apt autoremove' to remove them. 118s The following packages will be upgraded: 118s iproute2 liblsof0 libp11-kit0 lsof 118s 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 118s Need to get 1791 kB of archives. 118s After this operation, 17.4 kB of additional disk space will be used. 118s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x iproute2 s390x 6.13.0-1ubuntu1 [1174 kB] 119s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libp11-kit0 s390x 0.25.5-2ubuntu3 [316 kB] 119s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x lsof s390x 4.99.4+dfsg-1 [243 kB] 119s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x liblsof0 s390x 4.99.4+dfsg-1 [58.5 kB] 119s Preconfiguring packages ... 119s Fetched 1791 kB in 1s (2772 kB/s) 119s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81030 files and directories currently installed.) 119s Preparing to unpack .../iproute2_6.13.0-1ubuntu1_s390x.deb ... 119s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 119s Preparing to unpack .../libp11-kit0_0.25.5-2ubuntu3_s390x.deb ... 119s Unpacking libp11-kit0:s390x (0.25.5-2ubuntu3) over (0.25.5-2ubuntu2) ... 119s Preparing to unpack .../lsof_4.99.4+dfsg-1_s390x.deb ... 119s Unpacking lsof (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 119s Preparing to unpack .../liblsof0_4.99.4+dfsg-1_s390x.deb ... 119s Unpacking liblsof0 (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 119s Setting up liblsof0 (4.99.4+dfsg-1) ... 119s Setting up iproute2 (6.13.0-1ubuntu1) ... 119s Setting up libp11-kit0:s390x (0.25.5-2ubuntu3) ... 119s Setting up lsof (4.99.4+dfsg-1) ... 119s Processing triggers for man-db (2.13.0-1) ... 120s Processing triggers for libc-bin (2.40-4ubuntu1) ... 120s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 120s + /usr/lib/apt/apt-helper analyze-pattern ?true 120s + uname -r 120s + sed s/\./\\./g 120s + running_kernel_pattern=^linux-.*6\.12\.0-15-generic.* 120s + apt list ?obsolete 120s + + cut -d/ -f1 120s tail -n+2 120s + grep -v ^linux-.*6\.12\.0-15-generic.* 120s + true 120s + obsolete_pkgs= 120s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove 120s Reading package lists... 120s Building dependency tree... 120s Reading state information... 121s The following packages will be REMOVED: 121s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 121s linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 121s linux-modules-6.11.0-8-generic* linux-tools-6.11.0-8* 121s linux-tools-6.11.0-8-generic* 121s 0 upgraded, 0 newly installed, 9 to remove and 0 not upgraded. 121s After this operation, 167 MB disk space will be freed. 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 ... 81031 files and directories currently installed.) 121s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 121s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 121s Removing libpython3.12t64:s390x (3.12.9-1) ... 121s Removing libpython3.12-stdlib:s390x (3.12.9-1) ... 121s Removing libnsl2:s390x (1.3.0-3build3) ... 121s Removing libpython3.12-minimal:s390x (3.12.9-1) ... 121s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 121s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 122s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 122s Processing triggers for libc-bin (2.40-4ubuntu1) ... 122s (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 ... 55931 files and directories currently installed.) 122s Purging configuration files for libpython3.12-minimal:s390x (3.12.9-1) ... 122s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 122s + grep -q trusty /etc/lsb-release 122s + [ ! -d /usr/share/doc/unattended-upgrades ] 122s + [ ! -d /usr/share/doc/lxd ] 122s + [ ! -d /usr/share/doc/lxd-client ] 122s + [ ! -d /usr/share/doc/snapd ] 122s + type iptables 122s + cat 122s + chmod 755 /etc/rc.local 122s + . /etc/rc.local 122s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 122s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 122s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 122s + uname -m 122s + [ s390x = ppc64le ] 122s + [ -d /run/systemd/system ] 122s + systemd-detect-virt --quiet --vm 122s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 122s + cat 122s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 122s + echo COMPRESS=lz4 122s autopkgtest: DBG: testbed command exited with code 0 122s autopkgtest [12:35:32]: upgrading testbed (apt dist-upgrade and autopurge) 122s autopkgtest: DBG: testbed command ['/bin/sh', '-ec', '"$@" 3>&2 2>&1', 'run_apt_command', '/usr/bin/eatmydata', 'apt-get', '--quiet', '--assume-yes', '-o=APT::Status-Fd=3', '-o=APT::Install-Recommends=false', '-o=Dpkg::Options::=--force-confnew', '-o=Debug::pkgProblemResolver=true', 'dist-upgrade'], kind install, sout raw, serr pipe, env ['DEBIAN_FRONTEND=noninteractive', 'APT_LISTBUGS_FRONTEND=none', 'APT_LISTCHANGES_FRONTEND=none'] 122s Reading package lists... 122s Building dependency tree... 122s Reading state information... 122s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 123s Starting 2 pkgProblemResolver with broken count: 0 123s Done 123s Entering ResolveByKeep 123s 123s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 123s autopkgtest: DBG: testbed command exited with code 0 123s autopkgtest: DBG: testbed command ['/bin/sh', '-ec', '"$@" 3>&2 2>&1', 'run_apt_command', '/usr/bin/eatmydata', 'apt-get', '--quiet', '--assume-yes', '-o=APT::Status-Fd=3', '-o=APT::Install-Recommends=false', '-o=Dpkg::Options::=--force-confnew', '-o=Debug::pkgProblemResolver=true', '--purge', 'autoremove'], kind install, sout raw, serr pipe, env ['DEBIAN_FRONTEND=noninteractive', 'APT_LISTBUGS_FRONTEND=none', 'APT_LISTCHANGES_FRONTEND=none'] 123s Reading package lists... 123s Building dependency tree... 123s Reading state information... 123s Starting pkgProblemResolver with broken count: 0 123s Starting 2 pkgProblemResolver with broken count: 0 123s Done 124s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 124s autopkgtest: DBG: testbed command exited with code 0 124s autopkgtest: DBG: testbed command ['bash', '-ec', '[ ! -e /run/autopkgtest_no_reboot.stamp ] || exit 0;for d in /boot /boot/efi /boot/grub /etc/init /etc/init.d /etc/systemd/system /lib/systemd/system; do s=/tmp/autopkgtest.lLAh2j/${d//\\//_}.stamp; [ ! -d $d ] || [ `stat -c %Y $d` = `stat -c %Y $s` ]; done'], kind short, sout raw, serr raw, env [] 124s autopkgtest: DBG: testbed command exited with code 1 124s autopkgtest [12:35:34]: rebooting testbed after setup commands that affected boot 124s autopkgtest: DBG: sending command to testbed: reboot 142s autopkgtest: DBG: got reply from testbed: ok 142s autopkgtest: DBG: testbed supports reboot, creating /tmp/autopkgtest-reboot 142s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 144s autopkgtest: DBG: testbed command exited with code 0 144s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/reboot.sh /tmp/autopkgtest.lLAh2j/autopkgtest-reboot 144s autopkgtest: DBG: got reply from testbed: ok 144s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 145s autopkgtest: DBG: testbed command exited with code 0 145s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot', '/tmp/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 145s autopkgtest: DBG: testbed command exited with code 0 145s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot', '/sbin/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 145s autopkgtest: DBG: testbed command exited with code 0 145s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 145s autopkgtest: DBG: testbed command exited with code 0 145s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/reboot-prepare.sh /tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare 145s autopkgtest: DBG: got reply from testbed: ok 145s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare'], kind short, sout raw, serr pipe, env [] 145s autopkgtest: DBG: testbed command exited with code 0 145s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare', '/tmp/autopkgtest-reboot-prepare'], kind short, sout raw, serr pipe, env [] 146s autopkgtest: DBG: testbed command exited with code 0 146s autopkgtest: DBG: testbed command ['uname', '-srv'], kind short, sout pipe, serr pipe, env [] 146s autopkgtest: DBG: testbed command exited with code 0 146s autopkgtest [12:35:56]: testbed running kernel: Linux 6.12.0-15-generic #15-Ubuntu SMP Tue Feb 4 15:05:57 UTC 2025 146s autopkgtest: DBG: testbed command ['sh', '-c', 'nproc; cat /proc/cpuinfo 2>/dev/null || true'], kind short, sout pipe, serr pipe, env [] 146s autopkgtest: DBG: testbed command exited with code 0 146s autopkgtest: DBG: testbed command ['sh', '-ec', "dpkg-query --show -f '${Package}\\t${Version}\\n' > /tmp/autopkgtest.lLAh2j/testbed-packages"], kind short, sout raw, serr pipe, env [] 146s autopkgtest: DBG: testbed command exited with code 0 146s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/testbed-packages /tmp/autopkgtest-work.vqs4pib3/out/testbed-packages 146s autopkgtest: DBG: got reply from testbed: ok 146s autopkgtest: DBG: testbed supports reboot, creating /tmp/autopkgtest-reboot 146s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 146s autopkgtest: DBG: testbed command exited with code 0 146s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/reboot.sh /tmp/autopkgtest.lLAh2j/autopkgtest-reboot 147s autopkgtest: DBG: got reply from testbed: ok 147s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 147s autopkgtest: DBG: testbed command exited with code 0 147s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot', '/tmp/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 147s autopkgtest: DBG: testbed command exited with code 0 147s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot', '/sbin/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 147s autopkgtest: DBG: testbed command exited with code 0 147s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 147s autopkgtest: DBG: testbed command exited with code 0 147s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/reboot-prepare.sh /tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare 147s autopkgtest: DBG: got reply from testbed: ok 147s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare'], kind short, sout raw, serr pipe, env [] 148s autopkgtest: DBG: testbed command exited with code 0 148s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare', '/tmp/autopkgtest-reboot-prepare'], kind short, sout raw, serr pipe, env [] 148s autopkgtest: DBG: testbed command exited with code 0 148s autopkgtest: DBG: testbed command ['uname', '-srv'], kind short, sout pipe, serr pipe, env [] 148s autopkgtest: DBG: testbed command exited with code 0 148s autopkgtest: DBG: Binaries: initialising 148s autopkgtest [12:35:58]: @@@@@@@@@@@@@@@@@@@@ apt-source python-biom-format 148s autopkgtest: DBG: blame += python-biom-format 148s autopkgtest: DBG: testbed reset: modified=False, deps_installed=[], deps_new=[] 148s autopkgtest: DBG: testbed command ['apt-cache', 'showsrc', '--only-source', 'python-biom-format'], kind short, sout pipe, serr pipe, env [] 148s autopkgtest: DBG: testbed command exited with code 0 148s autopkgtest: DBG: testbed command ['apt-cache', 'policy', '^python-biom-format-doc$'], kind short, sout pipe, serr raw, env [] 149s autopkgtest: DBG: testbed command exited with code 0 149s autopkgtest: DBG: testbed command ['apt-cache', 'show', 'python-biom-format-doc=2.1.16-1build2'], kind short, sout pipe, serr raw, env [] 149s autopkgtest: DBG: testbed command exited with code 0 149s autopkgtest: DBG: testbed command ['apt-cache', 'policy', '^python3-biom-format$'], kind short, sout pipe, serr raw, env [] 149s autopkgtest: DBG: testbed command exited with code 0 149s autopkgtest: DBG: testbed command ['apt-cache', 'show', 'python3-biom-format=2.1.16-1build2'], kind short, sout pipe, serr raw, env [] 149s autopkgtest: DBG: testbed command exited with code 0 149s autopkgtest: DBG: install_deps: deps_new=[] 149s autopkgtest: DBG: testbed command ['sh', '-ec', 'command -v dpkg-source'], kind short, sout pipe, serr pipe, env [] 149s autopkgtest: DBG: testbed command exited with code 0 149s autopkgtest: DBG: testbed command ['sh', '-ec', 'su --shell=/bin/sh ubuntu -c \'set -e; exec 3>&1 >&2; set -x; cd /; builddir=$(mktemp -d /tmp/autopkgtest.lLAh2j/build.XXX); cd $builddir; OUT=$(apt-get source -d -q --only-source python-biom-format=2.1.16-1build2 2>&1) || RC=$?;if [ -n "$RC" ]; then if echo "$OUT" | grep -q "Unable to find a source package"; then exit 1; else exit $RC; fi;fi;echo "$OUT" | grep ^Get: || true;dpkg-source -x python-biom-format_*.dsc src >/dev/null; chmod -R a+rX .; cd [a-z0-9]*/.; pwd >&3; sed -n "1 {s/).*//; s/ (/\\n/; p}" debian/changelog >&3\''], kind build, sout pipe, serr raw, env ['ADT_TEST_TRIGGERS=sphinx/8.1.3-5'] 149s + cd / 149s + mktemp -d /tmp/autopkgtest.lLAh2j/build.XXX 149s + builddir=/tmp/autopkgtest.lLAh2j/build.Ff2 149s + cd /tmp/autopkgtest.lLAh2j/build.Ff2 149s + apt-get source -d -q --only-source python-biom-format=2.1.16-1build2 151s + OUT=Reading package lists... 151s NOTICE: 'python-biom-format' packaging is maintained in the 'Git' version control system at: 151s https://salsa.debian.org/med-team/python-biom-format.git 151s Please use: 151s git clone https://salsa.debian.org/med-team/python-biom-format.git 151s to retrieve the latest (possibly unreleased) updates to the package. 151s Need to get 11.9 MB of source archives. 151s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (dsc) [2498 B] 151s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (tar) [11.9 MB] 151s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (diff) [11.7 kB] 151s Fetched 11.9 MB in 1s (11.5 MB/s) 151s Download complete and in download only mode 151s + [ -n ] 151s + + echogrep Reading package lists... 151s NOTICE: 'python-biom-format' packaging is maintained in the 'Git' version control system at: 151s https://salsa.debian.org/med-team/python-biom-format.git 151s Please use: 151s git clone https://salsa.debian.org/med-team/python-biom-format.git 151s to retrieve the latest (possibly unreleased) updates to the package. 151s Need to get 11.9 MB of source archives. 151s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (dsc) [2498 B] 151s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (tar) [11.9 MB] 151s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (diff) [11.7 kB] 151s Fetched 11.9 MB in 1s (11.5 MB/s) 151s Download complete and in download only mode ^Get: 151s 151s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (dsc) [2498 B] 151s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (tar) [11.9 MB] 151s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-biom-format 2.1.16-1build2 (diff) [11.7 kB] 151s + dpkg-source -x python-biom-format_2.1.16-1build2.dsc src 151s gpgv: Signature made Wed Jan 29 22:35:10 2025 UTC 151s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 151s gpgv: Can't check signature: No public key 151s dpkg-source: warning: cannot verify inline signature for ./python-biom-format_2.1.16-1build2.dsc: no acceptable signature found 151s + chmod -R a+rX . 151s + cd src/. 151s + pwd 151s + sed -n 1 {s/).*//; s/ (/\n/; p} debian/changelog 151s autopkgtest: DBG: testbed command exited with code 0 151s autopkgtest [12:36:01]: testing package python-biom-format version 2.1.16-1build2 151s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/build.Ff2/src/debian/ /tmp/autopkgtest-work.vqs4pib3/out/pkg/debian/ 151s autopkgtest: DBG: got reply from testbed: ok 152s autopkgtest: DBG: autodep8 generated control: ----- 152s Tests: run-unit-test 152s Depends: @ 152s Restrictions: allow-stderr 152s 152s 152s Test-Command: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import biom; print(biom)" ; done 152s Depends: python3-all, python3-biom-format, 152s Restrictions: allow-stderr, superficial, 152s Features: test-name=autodep8-python3 152s 152s 152s ------- 152s autopkgtest: DBG: processing dependency @ 152s autopkgtest: DBG: synthesised dependency python3-biom-format 152s autopkgtest: DBG: synthesised dependency python-biom-format-doc 152s autopkgtest: DBG: Test defined: name run-unit-test path debian/tests/run-unit-test command "None" restrictions ['allow-stderr'] features [] depends ['python3-biom-format', 'python-biom-format-doc'] 152s autopkgtest: DBG: processing dependency python3-all 152s autopkgtest: DBG: processing dependency python3-biom-format 152s autopkgtest: DBG: marked alternatives ['python3-biom-format'] as a synthesised dependency 152s autopkgtest: DBG: Test defined: name autodep8-python3 path None command "set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import biom; print(biom)" ; done" restrictions ['allow-stderr', 'superficial'] features ['test-name=autodep8-python3'] depends ['python3-all', 'python3-biom-format'] 152s autopkgtest [12:36:02]: build not needed 152s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/build.Ff2/src/ /tmp/autopkgtest-work.vqs4pib3/out/tests-tree/ 160s autopkgtest: DBG: got reply from testbed: ok 160s autopkgtest: DBG: autodep8 generated control: ----- 160s Tests: run-unit-test 160s Depends: @ 160s Restrictions: allow-stderr 160s 160s 160s Test-Command: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import biom; print(biom)" ; done 160s Depends: python3-all, python3-biom-format, 160s Restrictions: allow-stderr, superficial, 160s Features: test-name=autodep8-python3 160s 160s 160s ------- 160s autopkgtest: DBG: processing dependency @ 160s autopkgtest: DBG: synthesised dependency python3-biom-format 160s autopkgtest: DBG: synthesised dependency python-biom-format-doc 160s autopkgtest: DBG: Test defined: name run-unit-test path debian/tests/run-unit-test command "None" restrictions ['allow-stderr'] features [] depends ['python3-biom-format', 'python-biom-format-doc'] 160s autopkgtest: DBG: processing dependency python3-all 160s autopkgtest: DBG: processing dependency python3-biom-format 160s autopkgtest: DBG: marked alternatives ['python3-biom-format'] as a synthesised dependency 160s autopkgtest: DBG: Test defined: name autodep8-python3 path None command "set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import biom; print(biom)" ; done" restrictions ['allow-stderr', 'superficial'] features ['test-name=autodep8-python3'] depends ['python3-all', 'python3-biom-format'] 160s autopkgtest [12:36:10]: test run-unit-test: preparing testbed 160s autopkgtest: DBG: testbed reset: modified=False, deps_installed=[], deps_new=['python3-biom-format', 'python-biom-format-doc'] 160s autopkgtest: DBG: Binaries: no registered binaries, not publishing anything 160s autopkgtest: DBG: install_deps: deps_new=['python3-biom-format', 'python-biom-format-doc'] 160s autopkgtest: DBG: install-deps: satisfying python3-biom-format, python-biom-format-doc 160s autopkgtest: DBG: can use apt-get on testbed: True 160s autopkgtest: DBG: testbed command ['/bin/sh', '-ec', '"$@" 3>&2 2>&1', 'run_apt_command', '/usr/bin/eatmydata', 'apt-get', '--quiet', '--assume-yes', '-o=APT::Status-Fd=3', '-o=APT::Install-Recommends=false', '-o=Dpkg::Options::=--force-confnew', '-o=Debug::pkgProblemResolver=true', 'satisfy', 'python3-biom-format, python-biom-format-doc'], kind install, sout raw, serr pipe, env ['DEBIAN_FRONTEND=noninteractive', 'APT_LISTBUGS_FRONTEND=none', 'APT_LISTCHANGES_FRONTEND=none'] 161s Reading package lists... 161s Building dependency tree... 161s Reading state information... 161s Starting pkgProblemResolver with broken count: 0 161s Starting 2 pkgProblemResolver with broken count: 0 161s Done 161s The following NEW packages will be installed: 161s libaec0 libblas3 libgfortran5 libhdf5-310 libhdf5-hl-310 libjs-jquery 161s libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0 liblzf1 libsz2 161s python-biom-format-doc python3-biom-format python3-click python3-dateutil 161s python3-decorator python3-h5py python3-h5py-serial python3-numpy 161s python3-pandas python3-pandas-lib python3-pytz python3-scipy python3-tz 161s 0 upgraded, 25 newly installed, 0 to remove and 0 not upgraded. 161s Need to get 45.1 MB of archives. 161s After this operation, 239 MB of additional disk space will be used. 161s Get:1 http://ftpmaster.internal/ubuntu plucky/universe s390x libaec0 s390x 1.1.3-1 [25.7 kB] 161s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.1-2 [252 kB] 162s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 15-20250213-1ubuntu1 [620 kB] 162s Get:4 http://ftpmaster.internal/ubuntu plucky/universe s390x libsz2 s390x 1.1.3-1 [5442 B] 162s Get:5 http://ftpmaster.internal/ubuntu plucky/universe s390x libhdf5-310 s390x 1.14.5+repack-3 [1477 kB] 162s Get:6 http://ftpmaster.internal/ubuntu plucky/universe s390x libhdf5-hl-310 s390x 1.14.5+repack-3 [61.0 kB] 162s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 162s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 162s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libjs-sphinxdoc all 8.1.3-5 [31.0 kB] 162s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.1-2 [2971 kB] 162s Get:11 http://ftpmaster.internal/ubuntu plucky/universe s390x liblbfgsb0 s390x 3.0+dfsg.4-1build1 [32.4 kB] 162s Get:12 http://ftpmaster.internal/ubuntu plucky/universe s390x liblzf1 s390x 3.6-4 [7020 B] 162s Get:13 http://ftpmaster.internal/ubuntu plucky/universe s390x python-biom-format-doc all 2.1.16-1build2 [57.5 kB] 162s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-13 [4601 kB] 162s Get:15 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-h5py-serial s390x 3.12.1-1 [1669 kB] 162s Get:16 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-h5py all 3.12.1-1 [7970 B] 162s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x python3-click all 8.1.8-1 [79.8 kB] 162s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x python3-dateutil all 2.9.0-3 [80.2 kB] 162s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pytz all 2025.1-3 [162 kB] 162s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tz all 2025.1-3 [1866 B] 162s Get:21 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pandas-lib s390x 2.2.3+dfsg-8 [8022 kB] 163s Get:22 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pandas all 2.2.3+dfsg-8 [3112 kB] 163s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x python3-decorator all 5.1.1-5 [10.1 kB] 163s Get:24 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-scipy s390x 1.14.1-4ubuntu1 [21.2 MB] 163s Get:25 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biom-format s390x 2.1.16-1build2 [178 kB] 164s Fetched 45.1 MB in 2s (21.1 MB/s) 164s Selecting previously unselected package libaec0:s390x. 164s (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 ... 55929 files and directories currently installed.) 164s Preparing to unpack .../00-libaec0_1.1.3-1_s390x.deb ... 164s Unpacking libaec0:s390x (1.1.3-1) ... 164s Selecting previously unselected package libblas3:s390x. 164s Preparing to unpack .../01-libblas3_3.12.1-2_s390x.deb ... 164s Unpacking libblas3:s390x (3.12.1-2) ... 164s Selecting previously unselected package libgfortran5:s390x. 164s Preparing to unpack .../02-libgfortran5_15-20250213-1ubuntu1_s390x.deb ... 164s Unpacking libgfortran5:s390x (15-20250213-1ubuntu1) ... 164s Selecting previously unselected package libsz2:s390x. 164s Preparing to unpack .../03-libsz2_1.1.3-1_s390x.deb ... 164s Unpacking libsz2:s390x (1.1.3-1) ... 164s Selecting previously unselected package libhdf5-310:s390x. 164s Preparing to unpack .../04-libhdf5-310_1.14.5+repack-3_s390x.deb ... 164s Unpacking libhdf5-310:s390x (1.14.5+repack-3) ... 164s Selecting previously unselected package libhdf5-hl-310:s390x. 164s Preparing to unpack .../05-libhdf5-hl-310_1.14.5+repack-3_s390x.deb ... 164s Unpacking libhdf5-hl-310:s390x (1.14.5+repack-3) ... 164s Selecting previously unselected package libjs-jquery. 164s Preparing to unpack .../06-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 164s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 164s Selecting previously unselected package libjs-underscore. 164s Preparing to unpack .../07-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 164s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 164s Selecting previously unselected package libjs-sphinxdoc. 164s Preparing to unpack .../08-libjs-sphinxdoc_8.1.3-5_all.deb ... 164s Unpacking libjs-sphinxdoc (8.1.3-5) ... 164s Selecting previously unselected package liblapack3:s390x. 164s Preparing to unpack .../09-liblapack3_3.12.1-2_s390x.deb ... 164s Unpacking liblapack3:s390x (3.12.1-2) ... 164s Selecting previously unselected package liblbfgsb0:s390x. 164s Preparing to unpack .../10-liblbfgsb0_3.0+dfsg.4-1build1_s390x.deb ... 164s Unpacking liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 164s Selecting previously unselected package liblzf1:s390x. 164s Preparing to unpack .../11-liblzf1_3.6-4_s390x.deb ... 164s Unpacking liblzf1:s390x (3.6-4) ... 164s Selecting previously unselected package python-biom-format-doc. 164s Preparing to unpack .../12-python-biom-format-doc_2.1.16-1build2_all.deb ... 164s Unpacking python-biom-format-doc (2.1.16-1build2) ... 164s Selecting previously unselected package python3-numpy. 164s Preparing to unpack .../13-python3-numpy_1%3a1.26.4+ds-13_s390x.deb ... 164s Unpacking python3-numpy (1:1.26.4+ds-13) ... 164s Selecting previously unselected package python3-h5py-serial. 164s Preparing to unpack .../14-python3-h5py-serial_3.12.1-1_s390x.deb ... 164s Unpacking python3-h5py-serial (3.12.1-1) ... 164s Selecting previously unselected package python3-h5py. 164s Preparing to unpack .../15-python3-h5py_3.12.1-1_all.deb ... 164s Unpacking python3-h5py (3.12.1-1) ... 164s Selecting previously unselected package python3-click. 164s Preparing to unpack .../16-python3-click_8.1.8-1_all.deb ... 164s Unpacking python3-click (8.1.8-1) ... 164s Selecting previously unselected package python3-dateutil. 164s Preparing to unpack .../17-python3-dateutil_2.9.0-3_all.deb ... 164s Unpacking python3-dateutil (2.9.0-3) ... 164s Selecting previously unselected package python3-pytz. 164s Preparing to unpack .../18-python3-pytz_2025.1-3_all.deb ... 164s Unpacking python3-pytz (2025.1-3) ... 164s Selecting previously unselected package python3-tz. 164s Preparing to unpack .../19-python3-tz_2025.1-3_all.deb ... 164s Unpacking python3-tz (2025.1-3) ... 164s Selecting previously unselected package python3-pandas-lib:s390x. 164s Preparing to unpack .../20-python3-pandas-lib_2.2.3+dfsg-8_s390x.deb ... 164s Unpacking python3-pandas-lib:s390x (2.2.3+dfsg-8) ... 164s Selecting previously unselected package python3-pandas. 164s Preparing to unpack .../21-python3-pandas_2.2.3+dfsg-8_all.deb ... 164s Unpacking python3-pandas (2.2.3+dfsg-8) ... 164s Selecting previously unselected package python3-decorator. 166s Preparing to unpack .../22-python3-decorator_5.1.1-5_all.deb ... 166s Unpacking python3-decorator (5.1.1-5) ... 166s Selecting previously unselected package python3-scipy. 166s Preparing to unpack .../23-python3-scipy_1.14.1-4ubuntu1_s390x.deb ... 166s Unpacking python3-scipy (1.14.1-4ubuntu1) ... 166s Selecting previously unselected package python3-biom-format. 166s Preparing to unpack .../24-python3-biom-format_2.1.16-1build2_s390x.deb ... 166s Unpacking python3-biom-format (2.1.16-1build2) ... 166s Setting up python3-pytz (2025.1-3) ... 166s Setting up python3-click (8.1.8-1) ... 166s Setting up libaec0:s390x (1.1.3-1) ... 166s Setting up python3-tz (2025.1-3) ... 166s Setting up python3-decorator (5.1.1-5) ... 166s Setting up libblas3:s390x (3.12.1-2) ... 166s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode 166s Setting up liblzf1:s390x (3.6-4) ... 166s Setting up libgfortran5:s390x (15-20250213-1ubuntu1) ... 166s Setting up python3-dateutil (2.9.0-3) ... 166s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 166s Setting up libsz2:s390x (1.1.3-1) ... 166s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 166s Setting up liblapack3:s390x (3.12.1-2) ... 166s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode 166s Setting up python3-numpy (1:1.26.4+ds-13) ... 167s Setting up libjs-sphinxdoc (8.1.3-5) ... 167s Setting up libhdf5-310:s390x (1.14.5+repack-3) ... 167s Setting up liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 167s Setting up libhdf5-hl-310:s390x (1.14.5+repack-3) ... 167s Setting up python3-scipy (1.14.1-4ubuntu1) ... 169s Setting up python3-pandas-lib:s390x (2.2.3+dfsg-8) ... 169s Setting up python3-h5py-serial (3.12.1-1) ... 169s Setting up python-biom-format-doc (2.1.16-1build2) ... 169s Setting up python3-pandas (2.2.3+dfsg-8) ... 172s Setting up python3-h5py (3.12.1-1) ... 172s Setting up python3-biom-format (2.1.16-1build2) ... 173s Processing triggers for man-db (2.13.0-1) ... 173s Processing triggers for libc-bin (2.40-4ubuntu1) ... 173s autopkgtest: DBG: testbed command exited with code 0 173s autopkgtest: DBG: testbed command ['dpkg-query', '--show', '-f', '${Status}', 'python3-biom-format'], kind short, sout pipe, serr pipe, env [] 173s autopkgtest: DBG: testbed command exited with code 0 173s autopkgtest: DBG: testbed command ['dpkg-query', '--show', '-f', '${Status}', 'python-biom-format-doc'], kind short, sout pipe, serr pipe, env [] 174s autopkgtest: DBG: testbed command exited with code 0 174s autopkgtest: DBG: testbed command ['sh', '-ec', "dpkg-query --show -f '${Package}\\t${Version}\\n' > /tmp/autopkgtest.lLAh2j/run-unit-test-packages.all"], kind short, sout raw, serr pipe, env [] 174s autopkgtest: DBG: testbed command exited with code 0 174s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/run-unit-test-packages.all /tmp/autopkgtest-work.vqs4pib3/out/run-unit-test-packages.all 174s autopkgtest: DBG: got reply from testbed: ok 174s autopkgtest: DBG: testbed command ['test', '-e', '/tmp/autopkgtest.lLAh2j/build.Ff2/src'], kind short, sout raw, serr raw, env [] 174s autopkgtest: DBG: testbed command exited with code 0 174s autopkgtest: DBG: copydown: tb path /tmp/autopkgtest.lLAh2j/build.Ff2/src already exists 174s autopkgtest [12:36:24]: test run-unit-test: [----------------------- 174s autopkgtest: DBG: testbed command ['su', '-s', '/bin/bash', 'ubuntu', '-c', 'set -e; exec /tmp/autopkgtest.lLAh2j/wrapper.sh --debug --artifacts=/tmp/autopkgtest.lLAh2j/run-unit-test-artifacts --chdir=/tmp/autopkgtest.lLAh2j/build.Ff2/src --env=AUTOPKGTEST_TESTBED_ARCH=s390x --env=AUTOPKGTEST_TEST_ARCH=s390x --env=DEB_BUILD_OPTIONS=parallel=2 --env=DEBIAN_FRONTEND=noninteractive --env=LANG=C.UTF-8 --unset-env=LANGUAGE --unset-env=LC_ADDRESS --unset-env=LC_ALL --unset-env=LC_COLLATE --unset-env=LC_CTYPE --unset-env=LC_IDENTIFICATION --unset-env=LC_MEASUREMENT --unset-env=LC_MESSAGES --unset-env=LC_MONETARY --unset-env=LC_NAME --unset-env=LC_NUMERIC --unset-env=LC_PAPER --unset-env=LC_TELEPHONE --unset-env=LC_TIME --script-pid-file=/tmp/autopkgtest_script_pid --source-profile --stderr=/tmp/autopkgtest.lLAh2j/run-unit-test-stderr --stdout=/tmp/autopkgtest.lLAh2j/run-unit-test-stdout --tmp=/tmp/autopkgtest.lLAh2j/autopkgtest_tmp --env=ADT_TEST_TRIGGERS=sphinx/8.1.3-5 --make-executable=/tmp/autopkgtest.lLAh2j/build.Ff2/src/debian/tests/run-unit-test -- /tmp/autopkgtest.lLAh2j/build.Ff2/src/debian/tests/run-unit-test'], kind test, sout raw, serr raw, env [] 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: creating AUTOPKGTEST_ARTIFACTS: /tmp/autopkgtest.lLAh2j/run-unit-test-artifacts 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: changing to directory: /tmp/autopkgtest.lLAh2j/build.Ff2/src 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: AUTOPKGTEST_TESTBED_ARCH=s390x 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: AUTOPKGTEST_TEST_ARCH=s390x 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: DEB_BUILD_OPTIONS=parallel=2 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: DEBIAN_FRONTEND=noninteractive 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: LANG=C.UTF-8 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LANGUAGE 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_ADDRESS 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_ALL 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_COLLATE 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_CTYPE 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_IDENTIFICATION 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_MEASUREMENT 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_MESSAGES 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_MONETARY 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_NAME 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_NUMERIC 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_PAPER 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_TELEPHONE 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_TIME 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: will create pid file: /tmp/autopkgtest_script_pid 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: pretending to be a login shell 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: will write standard error to /tmp/autopkgtest.lLAh2j/run-unit-test-stderr 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: will write stdout to /tmp/autopkgtest.lLAh2j/run-unit-test-stdout 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: creating AUTOPKGTEST_TMP: /tmp/autopkgtest.lLAh2j/autopkgtest_tmp 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: ADT_TEST_TRIGGERS=sphinx/8.1.3-5 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: marking as executable: /tmp/autopkgtest.lLAh2j/build.Ff2/src/debian/tests/run-unit-test 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: command to run: /tmp/autopkgtest.lLAh2j/build.Ff2/src/debian/tests/run-unit-test 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: copying /tmp/tmp.dImHffFRXF/out to stdout and file: /tmp/autopkgtest.lLAh2j/run-unit-test-stdout 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: copying /tmp/tmp.dImHffFRXF/err to standard error and file: /tmp/autopkgtest.lLAh2j/run-unit-test-stdout 174s /tmp/autopkgtest.lLAh2j/wrapper.sh: writing script pid 1619 to /tmp/autopkgtest_script_pid 175s 175s System information 175s ================== 175s Platform: linux 175s Python version: 3.13.2 (main, Feb 5 2025, 01:23:35) [GCC 14.2.0] 175s Python executable: /usr/bin/python3 175s 175s Dependency versions 175s =================== 175s click version: 8.1.8 175s NumPy version: 1.26.4 175s SciPy version: 1.14.1 175s h5py version: 3.12.1 175s 175s biom-format package information 175s =============================== 175s biom-format version: 2.1.16 175s 175s 175s The input file is a valid BIOM-formatted file. 176s 176s The input file is a valid BIOM-formatted file. 176s 176s The input file is a valid BIOM-formatted file. 177s 177s The input file is a valid BIOM-formatted file. 178s + table=examples/min_sparse_otu_table_hdf5.biom 178s + obsmd=examples/obs_md.txt 178s + [ ! -f examples/min_sparse_otu_table_hdf5.biom ] 178s + biom show-install-info 178s 178s System information 178s ================== 178s Platform: linux 178s Python version: 3.13.2 (main, Feb 5 2025, 01:23:35) [GCC 14.2.0] 178s Python executable: /usr/bin/python3 178s 178s Dependency versions 178s =================== 178s click version: 8.1.8 178s NumPy version: 1.26.4 178s SciPy version: 1.14.1 178s h5py version: 3.12.1 178s 178s biom-format package information 178s =============================== 178s biom-format version: 2.1.16 178s 178s + biom validate-table -i examples/min_sparse_otu_table_hdf5.biom 179s 179s The input file is a valid BIOM-formatted file. 179s + biom add-metadata -i examples/min_sparse_otu_table_hdf5.biom -o test_add_metadata.biom --observation-metadata-fp examples/obs_md.txt --sc-separated taxonomy 179s + biom convert -i examples/min_sparse_otu_table_hdf5.biom -o test_json.biom --to-json 180s + biom convert -i examples/min_sparse_otu_table_hdf5.biom -o test_tsv.txt --to-tsv 180s + biom validate-table -i test_json.biom 181s 181s The input file is a valid BIOM-formatted file. 181s + biom convert -i test_json.biom -o test_hdf5.biom --to-hdf5 181s + biom validate-table -i test_hdf5.biom 182s 182s The input file is a valid BIOM-formatted file. 182s + biom convert -i test_json.biom -o test_tsv.txt --to-tsv 182s + biom convert -i test_tsv.txt -o test_hdf5.biom --to-hdf5 --table-type OTU table 183s + biom validate-table -i test_hdf5.biom 183s 183s The input file is a valid BIOM-formatted file. 183s + biom convert -i test_tsv.txt -o test_json.biom --to-json --table-type OTU table 184s + biom validate-table -i test_json.biom 184s 184s The input file is a valid BIOM-formatted file. 184s + biom head -i examples/min_sparse_otu_table_hdf5.biom 185s # Constructed from biom file 185s #OTU ID Sample1 Sample2 Sample3 Sample4 Sample5 185s GG_OTU_1 0.0 0.0 1.0 0.0 0.0 185s GG_OTU_2 5.0 1.0 0.0 2.0 3.0 185s GG_OTU_3 0.0 0.0 1.0 4.0 0.0 185s GG_OTU_4 2.0 1.0 1.0 0.0 0.0 185s GG_OTU_5 0.0 1.0 1.0 0.0 0.0 185s + biom table-ids -i examples/min_sparse_otu_table_hdf5.biom 185s Sample1 185s Sample2 185s Sample3 185s Sample4 185s Sample5 185s Sample6 185s + biom normalize-table -i examples/min_sparse_otu_table_hdf5.biom -o test_norm.biom -p 186s + cat 186s + biom subset-table -i examples/min_sparse_otu_table_hdf5.biom -o test_subset.biom -a observation -s ids.txt 186s + biom summarize-table -i examples/min_sparse_otu_table_hdf5.biom 187s Num samples: 6 187s Num observations: 5 187s Total count: 27 187s Table density (fraction of non-zero values): 0.500 187s 187s Counts/sample summary: 187s Min: 3.000 187s Max: 7.000 187s Median: 4.000 187s Mean: 4.500 187s Std. dev.: 1.500 187s Sample Metadata Categories: None provided 187s Observation Metadata Categories: None provided 187s 187s Counts/sample detail: 187s Sample2: 3.000 187s Sample5: 3.000 187s Sample3: 4.000 187s Sample6: 4.000 187s Sample4: 6.000 187s Sample1: 7.000 187s + cat 187s + biom from-uc -i uctest -o test_uc.biom 187s If this message was shown, then all commands executed without failure 187s + echo If this message was shown, then all commands executed without failure 187s /tmp/autopkgtest.lLAh2j/wrapper.sh: checking for leaked background processes... 187s /tmp/autopkgtest.lLAh2j/wrapper.sh: waiting for tee/cat subprocesses... 187s /tmp/autopkgtest.lLAh2j/wrapper.sh: cleaning up... 187s /tmp/autopkgtest.lLAh2j/wrapper.sh: Exit status: 0 187s autopkgtest: DBG: testbed command exited with code 0 187s autopkgtest [12:36:37]: test run-unit-test: -----------------------] 187s autopkgtest: DBG: testbed executing test finished with exit status 0 187s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/run-unit-test-stdout /tmp/autopkgtest-work.vqs4pib3/out/run-unit-test-stdout 188s autopkgtest: DBG: got reply from testbed: ok 188s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/run-unit-test-stderr /tmp/autopkgtest-work.vqs4pib3/out/run-unit-test-stderr 188s autopkgtest: DBG: got reply from testbed: ok 188s autopkgtest [12:36:38]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 188s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/run-unit-test-artifacts/ /tmp/autopkgtest-work.vqs4pib3/out/artifacts/ 188s run-unit-test PASS 188s autopkgtest: DBG: got reply from testbed: ok 188s autopkgtest: DBG: testbed command ['rm', '-rf', '/tmp/autopkgtest.lLAh2j/run-unit-test-artifacts', '/tmp/autopkgtest.lLAh2j/autopkgtest_tmp'], kind short, sout raw, serr pipe, env [] 188s autopkgtest: DBG: testbed command exited with code 0 188s autopkgtest [12:36:38]: test autodep8-python3: preparing testbed 188s autopkgtest: DBG: testbed reset: modified=False, deps_installed=['python3-biom-format', 'python-biom-format-doc'], deps_new=['python3-all', 'python3-biom-format'] 188s autopkgtest: DBG: testbed reset 188s autopkgtest: DBG: sending command to testbed: revert 342s autopkgtest: DBG: got reply from testbed: ok /tmp/autopkgtest.lLAh2j 342s autopkgtest: DBG: sending command to testbed: print-execute-command 342s autopkgtest: DBG: got reply from testbed: ok /tmp/autopkgtest-ssh.zxp4kf04/runcmd 342s autopkgtest: DBG: sending command to testbed: capabilities 342s autopkgtest: DBG: got reply from testbed: ok isolation-machine revert root-on-testbed suggested-normal-user=ubuntu reboot ok revert-full-system 342s autopkgtest: DBG: testbed capabilities: ['isolation-machine', 'revert', 'root-on-testbed', 'suggested-normal-user=ubuntu', 'reboot', 'ok', 'revert-full-system', 'has_internet'] 342s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 342s autopkgtest: DBG: testbed command exited with code 0 342s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/wrapper.sh /tmp/autopkgtest.lLAh2j/wrapper.sh 342s autopkgtest: DBG: got reply from testbed: ok 342s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/wrapper.sh'], kind short, sout raw, serr pipe, env [] 342s autopkgtest: DBG: testbed command exited with code 0 342s autopkgtest: DBG: testbed command ['dpkg', '--print-architecture'], kind short, sout pipe, serr pipe, env [] 342s autopkgtest: DBG: testbed command exited with code 0 342s autopkgtest [12:39:12]: testbed dpkg architecture: s390x 342s autopkgtest: DBG: testbed command ['dpkg-query', '-W', '-f', '${Version}', 'apt'], kind short, sout pipe, serr pipe, env [] 342s autopkgtest: DBG: testbed command exited with code 0 342s autopkgtest [12:39:12]: testbed apt version: 2.9.30 342s autopkgtest: DBG: testbed command ['sh', '-ec', 'command -v eatmydata'], kind short, sout pipe, serr pipe, env [] 343s autopkgtest: DBG: testbed command exited with code 0 343s autopkgtest: DBG: testbed has eatmydata 343s autopkgtest: DBG: testbed command ['mkdir', '-p', '/etc/apt/preferences.d'], kind short, sout raw, serr pipe, env [] 343s autopkgtest: DBG: testbed command exited with code 0 343s autopkgtest [12:39:13]: @@@@@@@@@@@@@@@@@@@@ test bed setup 343s autopkgtest: DBG: testbed command ['sh', '-ec', '#!/bin/sh\n# Copyright © 2006-2018 Canonical Ltd.\n# Copyright © 2015-2017 Martin Pitt\n# Copyright © 2017 Steve Langasek\n# Copyright © 2017-2022 Paul Gevers\n# Copyright © 2018 Simon McVittie\n# SPDX-License-Identifier: GPL-2.0-or-later\n\n# This script returns the first suite found in apt sources. We can\'t just rely\n# on /etc/os-release because it doesn\'t allow to distinguish between Debian\n# unstable and testing.\n#\n# This release detection logic should be kept in sync with similar code in the\n# setup-testbed script.\n#\n# For more information on APT data sources see sources.list(5).\n\n# Usage $0\n\nset -eux\n\ndistro=UNKNOWN\nif [ -r /etc/os-release ]; then\n # shellcheck disable=SC1091\n distro=$(. /etc/os-release && echo "${ID:-$distro}")\nfi\n\n# Try guessing the default release from deb822-style format sources.\n#\n# While not mandatory, APT upstream expects distros to follow the\n# .sources naming pattern for the default deb822 sources.\napt_sources="/etc/apt/sources.list.d/$distro.sources"\nif [ -r "$apt_sources" ]; then\n release=$(sed -En \'s/^Suites:\\s*(\\w+).*/\\1/Ip\' "$apt_sources" | head -n1)\n [ -n "$release" ] && echo "$release" && exit\nfi\n\n# Try guessing the default release from one-line-style format sources.\napt_sources=/etc/apt/sources.list\nif [ -r "$apt_sources" ]; then\n release=$(sed -En \'/^(deb|deb-src) +(\\[.*\\] *)?(http|https|file):/ { s/\\[.*\\] +//; s/^[^ ]+ +[^ ]* +([^ ]+) +.*$/\\1/p }\' "$apt_sources" | head -n1)\n [ -n "$release" ] && echo "$release" && exit\nfi\n\n# Could not guess the default release\necho "Could not guess the default release from the APT sources." >&2\nexit 1\n'], kind short, sout pipe, serr pipe, env [] 343s autopkgtest: DBG: testbed command exited with code 0 343s autopkgtest [12:39:13]: testbed release detected to be: plucky 343s autopkgtest: DBG: testbed command ['sh', '-ec', '#!/bin/sh\n# SPDX-License-Identifier: GPL-2.0-or-later\n\n# This script returns the list of configured "deb" sources in one-line-style\n# source lists (/etc/apt/sources.list, /etc/apt/sources.list.d/*.list).\n# See sources.list(5) for more information on the APT source list formats.\n#\n# This script takes no arguments.\n\nset -eu\n\n# grep(1) returns 1 if no lines were selected from the input files, which\n# can happen if there are .list files, but they contain no "deb" entries.\n# We don\'t want to fail in this case, hence the "|| true", which we put\n# in a subshell because we want it to affect only the grep invocation.\n{\n if [ -f /etc/apt/sources.list ]; then\n printf \'%s\\0\' /etc/apt/sources.list\n fi\n if [ -d /etc/apt/sources.list.d ]; then\n find /etc/apt/sources.list.d -maxdepth 1 -type f -regex \'.*/[a-zA-Z0-9_.-]+\\.list\' -print0 \\\n | LC_ALL=C sort --zero-terminated\n fi\n} | xargs -0 --no-run-if-empty -- sh -c \'grep -h "^deb " "$@" || true\' "$(basename "$0")"\n'], kind short, sout pipe, serr pipe, env [] 343s autopkgtest: DBG: testbed command exited with code 0 343s autopkgtest: DBG: testbed command ['sh', '-ec', '#!/bin/sh\n# SPDX-License-Identifier: GPL-2.0-or-later\n\n# This script returns the list of configured sources in deb822-style source\n# lists (/etc/apt/sources.list.d/*.sources). Sources are not stripped out of\n# comments, extra blank lines or similar: the output of this script is meant to\n# be consumed by a deb822 parser that is able to correctly handle those.\n# See sources.list(5) for more information on the APT source list formats.\n#\n# This script takes no arguments.\n\nset -eu\n\n# Awk concatenates files making sure stanzas from separate files are separated\n# by a blank line, even if there are no newlines at EOF in the .sources files.\nif [ -d /etc/apt/sources.list.d ]; then\n find /etc/apt/sources.list.d -maxdepth 1 -type f -regex \'.*/[a-zA-Z0-9_.-]+\\.sources\' -print0 \\\n | LC_ALL=C sort --zero-terminated \\\n | xargs -0 --no-run-if-empty -- awk \'FNR == 1 && NR != 1 { print "" } { print }\'\nfi\n'], kind short, sout pipe, serr pipe, env [] 343s autopkgtest: DBG: testbed command exited with code 0 343s autopkgtest: DBG: adding APT source: Types: deb deb-src 343s URIs: http://ftpmaster.internal/ubuntu/ 343s Suites: plucky-proposed 343s Components: main restricted universe multiverse 343s Signed-By: /usr/share/keyrings/ubuntu-archive-keyring.gpg 343s autopkgtest: DBG: testbed command ['sh', '-ec', '"$@" >> "/etc/apt/sources.list.d/autopkgtest-add-apt-release-plucky-proposed.sources"', 'add_apt_source', 'printf', '%s\\n', 'Types: deb deb-src\nURIs: http://ftpmaster.internal/ubuntu/\nSuites: plucky-proposed\nComponents: main restricted universe multiverse\nSigned-By: /usr/share/keyrings/ubuntu-archive-keyring.gpg\n'], kind short, sout raw, serr pipe, env [] 343s autopkgtest: DBG: testbed command exited with code 0 343s autopkgtest: DBG: adding APT preference to autopkgtest-zz-plucky-proposed-baseline.pref: 343s Package: * 343s Pin: release plucky-proposed 343s Pin-Priority: 500 343s autopkgtest: DBG: testbed command ['sh', '-ec', '"$@" > "/etc/apt/preferences.d/autopkgtest-zz-plucky-proposed-baseline.pref"', 'add_apt_preference', 'printf', '%s\\n', 'Package: *\nPin: release plucky-proposed\nPin-Priority: 500'], kind short, sout raw, serr pipe, env [] 344s autopkgtest: DBG: testbed command exited with code 0 344s autopkgtest [12:39:14]: updating testbed package index (apt update) 344s autopkgtest: DBG: testbed command ['/bin/sh', '-ec', '"$@" 3>&2 2>&1', 'run_apt_command', '/usr/bin/eatmydata', 'apt-get', '--quiet', '--assume-yes', '-o=APT::Status-Fd=3', '-o=APT::Install-Recommends=false', '-o=Dpkg::Options::=--force-confnew', '-o=Debug::pkgProblemResolver=true', 'update'], kind install, sout raw, serr pipe, env ['DEBIAN_FRONTEND=noninteractive', 'APT_LISTBUGS_FRONTEND=none', 'APT_LISTCHANGES_FRONTEND=none'] 344s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB] 344s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 344s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 344s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 344s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [3120 B] 344s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.9 kB] 344s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.1 kB] 345s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [750 kB] 345s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [95.1 kB] 345s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted s390x Packages [760 B] 345s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [646 kB] 345s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [4900 B] 345s Fetched 1700 kB in 1s (1445 kB/s) 346s Reading package lists... 346s autopkgtest: DBG: testbed command exited with code 0 346s autopkgtest: DBG: adding APT preference to autopkgtest-plucky-proposed.pref: 346s Package: * 346s Pin: release plucky-proposed 346s Pin-Priority: 100 346s 346s Package: src:sphinx:any 346s Pin: release plucky-proposed 346s Pin-Priority: 995 346s autopkgtest: DBG: testbed command ['sh', '-ec', '"$@" > "/etc/apt/preferences.d/autopkgtest-plucky-proposed.pref"', 'add_apt_preference', 'printf', '%s\\n', 'Package: *\nPin: release plucky-proposed\nPin-Priority: 100\n\nPackage: src:sphinx:any\nPin: release plucky-proposed\nPin-Priority: 995'], kind short, sout raw, serr pipe, env [] 346s autopkgtest: DBG: testbed command exited with code 0 346s autopkgtest: DBG: testbed command ['bash', '-ec', 'for d in /boot /boot/efi /boot/grub /etc/init /etc/init.d /etc/systemd/system /lib/systemd/system; do [ ! -d $d ] || touch -r $d /tmp/autopkgtest.lLAh2j/${d//\\//_}.stamp; done'], kind short, sout raw, serr pipe, env [] 346s autopkgtest: DBG: testbed command exited with code 0 346s autopkgtest: DBG: testbed command ['sh', '-ec', '#!/bin/sh\n# Canonical/Ubuntu specific testbed setup\n\nset -x\n\nRELEASE=$(lsb_release --codename --short 2>/dev/null)\n\n# Make the installed package versions match what is available from the configured\n# repositories, even if a downgrade is required.\n#\n# We may end up with images with packages newer than those available from the\n# repositories when opening a new release (images are created using the\n# previous release dailies as a base, which may include 0-day SRUs, or\n# Launchpad may fail to copy packages, see openssl 3.0.8-1ubuntu2), or when\n# package versions are pulled from the archive.\n#\n# Note: \'release a=\' matches the Suite field in the repository Release file.\ncat >/etc/apt/preferences.d/force-downgrade-to-release.pref <= Focal).\n#\n# Note: autoremove/--autoremove always runs on the entire set of installed\n# packages. Together with --autopurge/purge each removal becomes a purge.\n#\n# Removing \'?obsolete\' packages may remove the running kernel. This is not\n# expected to be an issue.\nif /usr/lib/apt/apt-helper analyze-pattern \'?true\' >/dev/null 2>&1; then\n # DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove \'?obsolete\'\n # Avoid removing the running kernel\n running_kernel_pattern="^linux-.*$(uname -r | sed \'s/\\./\\\\./g\').*"\n obsolete_pkgs="$(apt list \'?obsolete\' 2>/dev/null \\\n | tail -n+2 \\\n | cut -d\'/\' -f1 \\\n | grep -v "${running_kernel_pattern}" || true)"\n DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove ${obsolete_pkgs}\nelse\n # We\'re on an older release (analyze-pattern is not available).\n # Still do an autopurge to get rid of packages that got orphaned\n # by downgrades.\n eatmydata apt-get -y autoremove --purge\nfi\n\n# compatibility with old Jenkins testbeds for trusty\nif grep -q trusty /etc/lsb-release; then apt-get update || (sleep 10; apt-get update); apt-get install -y build-essential; fi\n\n# these packages really break tests, purge them if we use standard cloud images\n# (on lcy01)\nfor p in unattended-upgrades lxd lxd-client snapd; do\n [ ! -d /usr/share/doc/$p ] || $(which eatmydata || true) apt-get purge --auto-remove -y $p\ndone\n\nif type iptables >/dev/null 2>&1; then\n cat < /etc/rc.local\n#!/bin/sh\n\n# work around broken PTMU; LP: #1572026, RT#90771\niptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu || true\n\n# These addresses are used at least by rust-reqwest and should not be reachable\n# See https://bugs.launchpad.net/ubuntu/+source/rust-reqwest/+bug/2080346\niptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP || true\niptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP || true\nEOF\n chmod 755 /etc/rc.local\n # shellcheck disable=SC1091\n . /etc/rc.local\nfi\n\n# work around broken tty on ppc64el instances (LP: #1607075)\nif [ "$(uname -m)" = ppc64le ] && [ "$(systemctl is-active keyboard-setup.service 2>/dev/null|| true)" = failed ]; then\n systemctl reset-failed keyboard-setup.service\n systemctl mask keyboard-setup.service\nfi\n\n# work around late urandom pool initialization (LP: #1622893)\nif [ -d /run/systemd/system ] && systemd-detect-virt --quiet --vm; then\n mkdir -p /etc/systemd/system/systemd-random-seed.service.d/\n cat < /etc/systemd/system/systemd-random-seed.service.d/fakeentropy.conf\n[Service]\nExecStart=/usr/bin/perl -E \'open \\$\\$f, "/bin/bash" or die; open \\$\\$rnd, ">/dev/random" or die; for (\\$\\$i = 0; \\$\\$i < 10; ++\\$\\$i) {read \\$\\$f, \\$\\$d, 64; ioctl \\$\\$rnd, 0x40085203, pack("ii", 64*8, 64) . \\$\\$d}\'\nEOF\nfi\n\n# set compressor to lz4 where supported, we care about compression speed\nif grep -q lz4 /etc/initramfs-tools/initramfs.conf; then\n echo COMPRESS=lz4 > /etc/initramfs-tools/conf.d/lz4\nfi'], kind install, sout raw, serr raw, env ['AUTOPKGTEST_IS_SETUP_COMMAND=1', 'AUTOPKGTEST_NORMAL_USER=ubuntu', 'ADT_NORMAL_USER=ubuntu'] 346s + lsb_release --codename --short 346s + RELEASE=plucky 346s + cat 346s + [ plucky != trusty ] 346s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 346s Reading package lists... 346s Building dependency tree... 346s Reading state information... 347s Calculating upgrade... 347s The following packages were automatically installed and are no longer required: 347s libnsl2 libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 347s linux-headers-6.11.0-8 linux-headers-6.11.0-8-generic 347s linux-modules-6.11.0-8-generic linux-tools-6.11.0-8 347s linux-tools-6.11.0-8-generic 347s Use 'sudo apt autoremove' to remove them. 347s The following packages will be upgraded: 347s iproute2 liblsof0 libp11-kit0 lsof 347s 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 347s Need to get 1791 kB of archives. 347s After this operation, 17.4 kB of additional disk space will be used. 347s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x iproute2 s390x 6.13.0-1ubuntu1 [1174 kB] 348s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x libp11-kit0 s390x 0.25.5-2ubuntu3 [316 kB] 348s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x lsof s390x 4.99.4+dfsg-1 [243 kB] 348s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x liblsof0 s390x 4.99.4+dfsg-1 [58.5 kB] 348s Preconfiguring packages ... 348s Fetched 1791 kB in 1s (1515 kB/s) 348s (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 ... 81030 files and directories currently installed.) 348s Preparing to unpack .../iproute2_6.13.0-1ubuntu1_s390x.deb ... 348s Unpacking iproute2 (6.13.0-1ubuntu1) over (6.10.0-2ubuntu1) ... 349s Preparing to unpack .../libp11-kit0_0.25.5-2ubuntu3_s390x.deb ... 349s Unpacking libp11-kit0:s390x (0.25.5-2ubuntu3) over (0.25.5-2ubuntu2) ... 349s Preparing to unpack .../lsof_4.99.4+dfsg-1_s390x.deb ... 349s Unpacking lsof (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 349s Preparing to unpack .../liblsof0_4.99.4+dfsg-1_s390x.deb ... 349s Unpacking liblsof0 (4.99.4+dfsg-1) over (4.99.3+dfsg-2) ... 349s Setting up liblsof0 (4.99.4+dfsg-1) ... 349s Setting up iproute2 (6.13.0-1ubuntu1) ... 349s Setting up libp11-kit0:s390x (0.25.5-2ubuntu3) ... 349s Setting up lsof (4.99.4+dfsg-1) ... 349s Processing triggers for man-db (2.13.0-1) ... 349s Processing triggers for libc-bin (2.40-4ubuntu1) ... 350s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 350s + /usr/lib/apt/apt-helper analyze-pattern ?true 350s + uname -r 350s + sed s/\./\\./g 350s + running_kernel_pattern=^linux-.*6\.12\.0-15-generic.* 350s + apt list ?obsolete 350s + tail -n+2 350s + + cutgrep -v ^linux-.*6\.12\.0-15-generic.* 350s -d/ -f1 350s + true 350s + obsolete_pkgs= 350s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove 350s Reading package lists... 350s Building dependency tree... 350s Reading state information... 350s The following packages will be REMOVED: 350s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 350s linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 350s linux-modules-6.11.0-8-generic* linux-tools-6.11.0-8* 350s linux-tools-6.11.0-8-generic* 350s 0 upgraded, 0 newly installed, 9 to remove and 0 not upgraded. 350s After this operation, 167 MB disk space will be freed. 350s (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 ... 81031 files and directories currently installed.) 350s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 350s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 350s Removing libpython3.12t64:s390x (3.12.9-1) ... 350s Removing libpython3.12-stdlib:s390x (3.12.9-1) ... 350s Removing libnsl2:s390x (1.3.0-3build3) ... 350s Removing libpython3.12-minimal:s390x (3.12.9-1) ... 350s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 351s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 352s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 352s Processing triggers for libc-bin (2.40-4ubuntu1) ... 352s (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 ... 55931 files and directories currently installed.) 352s Purging configuration files for libpython3.12-minimal:s390x (3.12.9-1) ... 352s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 352s + grep -q trusty /etc/lsb-release 352s + [ ! -d /usr/share/doc/unattended-upgrades ] 352s + [ ! -d /usr/share/doc/lxd ] 352s + [ ! -d /usr/share/doc/lxd-client ] 352s + [ ! -d /usr/share/doc/snapd ] 352s + type iptables 352s + cat 352s + chmod 755 /etc/rc.local 352s + . /etc/rc.local 352s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 352s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 352s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 352s + uname -m 352s + [ s390x = ppc64le ] 352s + [ -d /run/systemd/system ] 352s + systemd-detect-virt --quiet --vm 352s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 352s + cat 352s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 352s + echo COMPRESS=lz4 352s autopkgtest: DBG: testbed command exited with code 0 352s autopkgtest [12:39:22]: upgrading testbed (apt dist-upgrade and autopurge) 352s autopkgtest: DBG: testbed command ['/bin/sh', '-ec', '"$@" 3>&2 2>&1', 'run_apt_command', '/usr/bin/eatmydata', 'apt-get', '--quiet', '--assume-yes', '-o=APT::Status-Fd=3', '-o=APT::Install-Recommends=false', '-o=Dpkg::Options::=--force-confnew', '-o=Debug::pkgProblemResolver=true', 'dist-upgrade'], kind install, sout raw, serr pipe, env ['DEBIAN_FRONTEND=noninteractive', 'APT_LISTBUGS_FRONTEND=none', 'APT_LISTCHANGES_FRONTEND=none'] 352s Reading package lists... 352s Building dependency tree... 352s Reading state information... 353s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 353s Starting 2 pkgProblemResolver with broken count: 0 353s Done 353s Entering ResolveByKeep 353s 353s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 353s autopkgtest: DBG: testbed command exited with code 0 353s autopkgtest: DBG: testbed command ['/bin/sh', '-ec', '"$@" 3>&2 2>&1', 'run_apt_command', '/usr/bin/eatmydata', 'apt-get', '--quiet', '--assume-yes', '-o=APT::Status-Fd=3', '-o=APT::Install-Recommends=false', '-o=Dpkg::Options::=--force-confnew', '-o=Debug::pkgProblemResolver=true', '--purge', 'autoremove'], kind install, sout raw, serr pipe, env ['DEBIAN_FRONTEND=noninteractive', 'APT_LISTBUGS_FRONTEND=none', 'APT_LISTCHANGES_FRONTEND=none'] 353s Reading package lists... 353s Building dependency tree... 353s Reading state information... 353s Starting pkgProblemResolver with broken count: 0 353s Starting 2 pkgProblemResolver with broken count: 0 353s Done 354s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 354s autopkgtest: DBG: testbed command exited with code 0 354s autopkgtest: DBG: testbed command ['bash', '-ec', '[ ! -e /run/autopkgtest_no_reboot.stamp ] || exit 0;for d in /boot /boot/efi /boot/grub /etc/init /etc/init.d /etc/systemd/system /lib/systemd/system; do s=/tmp/autopkgtest.lLAh2j/${d//\\//_}.stamp; [ ! -d $d ] || [ `stat -c %Y $d` = `stat -c %Y $s` ]; done'], kind short, sout raw, serr raw, env [] 354s autopkgtest: DBG: testbed command exited with code 1 354s autopkgtest [12:39:24]: rebooting testbed after setup commands that affected boot 354s autopkgtest: DBG: sending command to testbed: reboot 358s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 373s autopkgtest: DBG: got reply from testbed: ok 373s autopkgtest: DBG: testbed supports reboot, creating /tmp/autopkgtest-reboot 373s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 374s autopkgtest: DBG: testbed command exited with code 0 374s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/reboot.sh /tmp/autopkgtest.lLAh2j/autopkgtest-reboot 374s autopkgtest: DBG: got reply from testbed: ok 374s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 374s autopkgtest: DBG: testbed command exited with code 0 374s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot', '/tmp/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 374s autopkgtest: DBG: testbed command exited with code 0 374s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot', '/sbin/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 374s autopkgtest: DBG: testbed command exited with code 0 374s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 374s autopkgtest: DBG: testbed command exited with code 0 374s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/reboot-prepare.sh /tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare 375s autopkgtest: DBG: got reply from testbed: ok 375s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare'], kind short, sout raw, serr pipe, env [] 375s autopkgtest: DBG: testbed command exited with code 0 375s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare', '/tmp/autopkgtest-reboot-prepare'], kind short, sout raw, serr pipe, env [] 375s autopkgtest: DBG: testbed command exited with code 0 375s autopkgtest: DBG: testbed command ['uname', '-srv'], kind short, sout pipe, serr pipe, env [] 375s autopkgtest: DBG: testbed command exited with code 0 375s autopkgtest: DBG: testbed command ['sh', '-ec', "dpkg-query --show -f '${Package}\\t${Version}\\n' > /tmp/autopkgtest.lLAh2j/testbed-packages"], kind short, sout raw, serr pipe, env [] 375s autopkgtest: DBG: testbed command exited with code 0 375s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/testbed-packages /tmp/autopkgtest-work.vqs4pib3/out/testbed-packages 376s autopkgtest: DBG: got reply from testbed: ok 376s autopkgtest: DBG: testbed supports reboot, creating /tmp/autopkgtest-reboot 376s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 376s autopkgtest: DBG: testbed command exited with code 0 376s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/reboot.sh /tmp/autopkgtest.lLAh2j/autopkgtest-reboot 376s autopkgtest: DBG: got reply from testbed: ok 376s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 376s autopkgtest: DBG: testbed command exited with code 0 376s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot', '/tmp/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 376s autopkgtest: DBG: testbed command exited with code 0 376s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot', '/sbin/autopkgtest-reboot'], kind short, sout raw, serr pipe, env [] 376s autopkgtest: DBG: testbed command exited with code 0 376s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j'], kind short, sout raw, serr pipe, env [] 377s autopkgtest: DBG: testbed command exited with code 0 377s autopkgtest: DBG: sending command to testbed: copydown /home/ubuntu/autopkgtest/lib/in-testbed/reboot-prepare.sh /tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare 377s autopkgtest: DBG: got reply from testbed: ok 377s autopkgtest: DBG: testbed command ['chmod', '-R', '0755', '--', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare'], kind short, sout raw, serr pipe, env [] 377s autopkgtest: DBG: testbed command exited with code 0 377s autopkgtest: DBG: testbed command ['ln', '-fns', '/tmp/autopkgtest.lLAh2j/autopkgtest-reboot-prepare', '/tmp/autopkgtest-reboot-prepare'], kind short, sout raw, serr pipe, env [] 377s autopkgtest: DBG: testbed command exited with code 0 377s autopkgtest: DBG: testbed command ['uname', '-srv'], kind short, sout pipe, serr pipe, env [] 377s autopkgtest: DBG: testbed command exited with code 0 377s autopkgtest: DBG: Binaries: no registered binaries, not publishing anything 377s autopkgtest: DBG: install_deps: deps_new=['python3-all', 'python3-biom-format'] 377s autopkgtest: DBG: install-deps: satisfying python3-all, python3-biom-format 377s autopkgtest: DBG: can use apt-get on testbed: True 377s autopkgtest: DBG: testbed command ['/bin/sh', '-ec', '"$@" 3>&2 2>&1', 'run_apt_command', '/usr/bin/eatmydata', 'apt-get', '--quiet', '--assume-yes', '-o=APT::Status-Fd=3', '-o=APT::Install-Recommends=false', '-o=Dpkg::Options::=--force-confnew', '-o=Debug::pkgProblemResolver=true', 'satisfy', 'python3-all, python3-biom-format'], kind install, sout raw, serr pipe, env ['DEBIAN_FRONTEND=noninteractive', 'APT_LISTBUGS_FRONTEND=none', 'APT_LISTCHANGES_FRONTEND=none'] 378s Reading package lists... 378s Building dependency tree... 378s Reading state information... 378s Starting pkgProblemResolver with broken count: 0 378s Starting 2 pkgProblemResolver with broken count: 0 378s Done 378s The following NEW packages will be installed: 378s libaec0 libblas3 libgfortran5 libhdf5-310 libhdf5-hl-310 liblapack3 378s liblbfgsb0 liblzf1 libnsl2 libpython3.12-minimal libpython3.12-stdlib libsz2 378s python3-all python3-biom-format python3-click python3-dateutil 378s python3-decorator python3-h5py python3-h5py-serial python3-numpy 378s python3-pandas python3-pandas-lib python3-pytz python3-scipy python3-tz 378s python3.12 python3.12-minimal 378s 0 upgraded, 27 newly installed, 0 to remove and 0 not upgraded. 378s Need to get 50.6 MB of archives. 378s After this operation, 262 MB of additional disk space will be used. 378s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.12-minimal s390x 3.12.9-1 [836 kB] 379s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x python3.12-minimal s390x 3.12.9-1 [2403 kB] 380s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x libnsl2 s390x 1.3.0-3build3 [44.1 kB] 380s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x libpython3.12-stdlib s390x 3.12.9-1 [2071 kB] 380s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x python3.12 s390x 3.12.9-1 [671 kB] 381s Get:6 http://ftpmaster.internal/ubuntu plucky/universe s390x libaec0 s390x 1.1.3-1 [25.7 kB] 381s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.1-2 [252 kB] 381s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 15-20250213-1ubuntu1 [620 kB] 381s Get:9 http://ftpmaster.internal/ubuntu plucky/universe s390x libsz2 s390x 1.1.3-1 [5442 B] 381s Get:10 http://ftpmaster.internal/ubuntu plucky/universe s390x libhdf5-310 s390x 1.14.5+repack-3 [1477 kB] 381s Get:11 http://ftpmaster.internal/ubuntu plucky/universe s390x libhdf5-hl-310 s390x 1.14.5+repack-3 [61.0 kB] 381s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.1-2 [2971 kB] 382s Get:13 http://ftpmaster.internal/ubuntu plucky/universe s390x liblbfgsb0 s390x 3.0+dfsg.4-1build1 [32.4 kB] 382s Get:14 http://ftpmaster.internal/ubuntu plucky/universe s390x liblzf1 s390x 3.6-4 [7020 B] 382s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x python3-all s390x 3.13.1-1~exp2 [898 B] 382s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x python3-numpy s390x 1:1.26.4+ds-13 [4601 kB] 382s Get:17 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-h5py-serial s390x 3.12.1-1 [1669 kB] 382s Get:18 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-h5py all 3.12.1-1 [7970 B] 382s Get:19 http://ftpmaster.internal/ubuntu plucky/main s390x python3-click all 8.1.8-1 [79.8 kB] 382s Get:20 http://ftpmaster.internal/ubuntu plucky/main s390x python3-dateutil all 2.9.0-3 [80.2 kB] 382s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x python3-pytz all 2025.1-3 [162 kB] 382s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x python3-tz all 2025.1-3 [1866 B] 382s Get:23 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pandas-lib s390x 2.2.3+dfsg-8 [8022 kB] 383s Get:24 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-pandas all 2.2.3+dfsg-8 [3112 kB] 383s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x python3-decorator all 5.1.1-5 [10.1 kB] 383s Get:26 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-scipy s390x 1.14.1-4ubuntu1 [21.2 MB] 384s Get:27 http://ftpmaster.internal/ubuntu plucky/universe s390x python3-biom-format s390x 2.1.16-1build2 [178 kB] 384s Fetched 50.6 MB in 6s (9190 kB/s) 384s Selecting previously unselected package libpython3.12-minimal:s390x. 384s (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 ... 55929 files and directories currently installed.) 384s Preparing to unpack .../00-libpython3.12-minimal_3.12.9-1_s390x.deb ... 384s Unpacking libpython3.12-minimal:s390x (3.12.9-1) ... 384s Selecting previously unselected package python3.12-minimal. 384s Preparing to unpack .../01-python3.12-minimal_3.12.9-1_s390x.deb ... 384s Unpacking python3.12-minimal (3.12.9-1) ... 384s Selecting previously unselected package libnsl2:s390x. 384s Preparing to unpack .../02-libnsl2_1.3.0-3build3_s390x.deb ... 384s Unpacking libnsl2:s390x (1.3.0-3build3) ... 384s Selecting previously unselected package libpython3.12-stdlib:s390x. 384s Preparing to unpack .../03-libpython3.12-stdlib_3.12.9-1_s390x.deb ... 384s Unpacking libpython3.12-stdlib:s390x (3.12.9-1) ... 384s Selecting previously unselected package python3.12. 384s Preparing to unpack .../04-python3.12_3.12.9-1_s390x.deb ... 384s Unpacking python3.12 (3.12.9-1) ... 384s Selecting previously unselected package libaec0:s390x. 384s Preparing to unpack .../05-libaec0_1.1.3-1_s390x.deb ... 384s Unpacking libaec0:s390x (1.1.3-1) ... 385s Selecting previously unselected package libblas3:s390x. 385s Preparing to unpack .../06-libblas3_3.12.1-2_s390x.deb ... 385s Unpacking libblas3:s390x (3.12.1-2) ... 385s Selecting previously unselected package libgfortran5:s390x. 385s Preparing to unpack .../07-libgfortran5_15-20250213-1ubuntu1_s390x.deb ... 385s Unpacking libgfortran5:s390x (15-20250213-1ubuntu1) ... 385s Selecting previously unselected package libsz2:s390x. 385s Preparing to unpack .../08-libsz2_1.1.3-1_s390x.deb ... 385s Unpacking libsz2:s390x (1.1.3-1) ... 385s Selecting previously unselected package libhdf5-310:s390x. 385s Preparing to unpack .../09-libhdf5-310_1.14.5+repack-3_s390x.deb ... 385s Unpacking libhdf5-310:s390x (1.14.5+repack-3) ... 385s Selecting previously unselected package libhdf5-hl-310:s390x. 385s Preparing to unpack .../10-libhdf5-hl-310_1.14.5+repack-3_s390x.deb ... 385s Unpacking libhdf5-hl-310:s390x (1.14.5+repack-3) ... 385s Selecting previously unselected package liblapack3:s390x. 385s Preparing to unpack .../11-liblapack3_3.12.1-2_s390x.deb ... 385s Unpacking liblapack3:s390x (3.12.1-2) ... 385s Selecting previously unselected package liblbfgsb0:s390x. 385s Preparing to unpack .../12-liblbfgsb0_3.0+dfsg.4-1build1_s390x.deb ... 385s Unpacking liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 385s Selecting previously unselected package liblzf1:s390x. 385s Preparing to unpack .../13-liblzf1_3.6-4_s390x.deb ... 385s Unpacking liblzf1:s390x (3.6-4) ... 385s Selecting previously unselected package python3-all. 385s Preparing to unpack .../14-python3-all_3.13.1-1~exp2_s390x.deb ... 385s Unpacking python3-all (3.13.1-1~exp2) ... 385s Selecting previously unselected package python3-numpy. 385s Preparing to unpack .../15-python3-numpy_1%3a1.26.4+ds-13_s390x.deb ... 385s Unpacking python3-numpy (1:1.26.4+ds-13) ... 385s Selecting previously unselected package python3-h5py-serial. 385s Preparing to unpack .../16-python3-h5py-serial_3.12.1-1_s390x.deb ... 385s Unpacking python3-h5py-serial (3.12.1-1) ... 385s Selecting previously unselected package python3-h5py. 385s Preparing to unpack .../17-python3-h5py_3.12.1-1_all.deb ... 385s Unpacking python3-h5py (3.12.1-1) ... 385s Selecting previously unselected package python3-click. 385s Preparing to unpack .../18-python3-click_8.1.8-1_all.deb ... 385s Unpacking python3-click (8.1.8-1) ... 385s Selecting previously unselected package python3-dateutil. 385s Preparing to unpack .../19-python3-dateutil_2.9.0-3_all.deb ... 385s Unpacking python3-dateutil (2.9.0-3) ... 385s Selecting previously unselected package python3-pytz. 385s Preparing to unpack .../20-python3-pytz_2025.1-3_all.deb ... 385s Unpacking python3-pytz (2025.1-3) ... 385s Selecting previously unselected package python3-tz. 385s Preparing to unpack .../21-python3-tz_2025.1-3_all.deb ... 385s Unpacking python3-tz (2025.1-3) ... 385s Selecting previously unselected package python3-pandas-lib:s390x. 385s Preparing to unpack .../22-python3-pandas-lib_2.2.3+dfsg-8_s390x.deb ... 385s Unpacking python3-pandas-lib:s390x (2.2.3+dfsg-8) ... 385s Selecting previously unselected package python3-pandas. 385s Preparing to unpack .../23-python3-pandas_2.2.3+dfsg-8_all.deb ... 385s Unpacking python3-pandas (2.2.3+dfsg-8) ... 385s Selecting previously unselected package python3-decorator. 385s Preparing to unpack .../24-python3-decorator_5.1.1-5_all.deb ... 385s Unpacking python3-decorator (5.1.1-5) ... 385s Selecting previously unselected package python3-scipy. 385s Preparing to unpack .../25-python3-scipy_1.14.1-4ubuntu1_s390x.deb ... 385s Unpacking python3-scipy (1.14.1-4ubuntu1) ... 386s Selecting previously unselected package python3-biom-format. 386s Preparing to unpack .../26-python3-biom-format_2.1.16-1build2_s390x.deb ... 386s Unpacking python3-biom-format (2.1.16-1build2) ... 386s Setting up libpython3.12-minimal:s390x (3.12.9-1) ... 386s Setting up python3-pytz (2025.1-3) ... 386s Setting up python3-click (8.1.8-1) ... 387s Setting up libaec0:s390x (1.1.3-1) ... 387s Setting up python3-tz (2025.1-3) ... 387s Setting up python3-decorator (5.1.1-5) ... 387s Setting up libblas3:s390x (3.12.1-2) ... 387s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode 387s Setting up liblzf1:s390x (3.6-4) ... 387s Setting up libgfortran5:s390x (15-20250213-1ubuntu1) ... 387s Setting up libnsl2:s390x (1.3.0-3build3) ... 387s Setting up python3-dateutil (2.9.0-3) ... 387s Setting up libsz2:s390x (1.1.3-1) ... 387s Setting up python3.12-minimal (3.12.9-1) ... 388s Setting up liblapack3:s390x (3.12.1-2) ... 388s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode 388s Setting up libpython3.12-stdlib:s390x (3.12.9-1) ... 388s Setting up python3.12 (3.12.9-1) ... 389s Setting up python3-all (3.13.1-1~exp2) ... 389s Setting up python3-numpy (1:1.26.4+ds-13) ... 393s Setting up libhdf5-310:s390x (1.14.5+repack-3) ... 393s Setting up liblbfgsb0:s390x (3.0+dfsg.4-1build1) ... 393s Setting up libhdf5-hl-310:s390x (1.14.5+repack-3) ... 393s Setting up python3-scipy (1.14.1-4ubuntu1) ... 402s Setting up python3-pandas-lib:s390x (2.2.3+dfsg-8) ... 402s Setting up python3-h5py-serial (3.12.1-1) ... 403s Setting up python3-pandas (2.2.3+dfsg-8) ... 414s Setting up python3-h5py (3.12.1-1) ... 414s Setting up python3-biom-format (2.1.16-1build2) ... 414s Processing triggers for systemd (257.2-3ubuntu1) ... 414s Processing triggers for man-db (2.13.0-1) ... 415s Processing triggers for libc-bin (2.40-4ubuntu1) ... 415s autopkgtest: DBG: testbed command exited with code 0 415s autopkgtest: DBG: testbed command ['dpkg-query', '--show', '-f', '${Status}', 'python3-biom-format'], kind short, sout pipe, serr pipe, env [] 415s autopkgtest: DBG: testbed command exited with code 0 415s autopkgtest: DBG: testbed command ['sh', '-ec', "dpkg-query --show -f '${Package}\\t${Version}\\n' > /tmp/autopkgtest.lLAh2j/autodep8-python3-packages.all"], kind short, sout raw, serr pipe, env [] 415s autopkgtest: DBG: testbed command exited with code 0 415s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/autodep8-python3-packages.all /tmp/autopkgtest-work.vqs4pib3/out/autodep8-python3-packages.all 416s autopkgtest: DBG: got reply from testbed: ok 416s autopkgtest: DBG: testbed command ['test', '-e', '/tmp/autopkgtest.lLAh2j/build.Ff2/src'], kind short, sout raw, serr raw, env [] 416s autopkgtest: DBG: testbed command exited with code 1 416s autopkgtest: DBG: testbed command ['mkdir', '-p', '/tmp/autopkgtest.lLAh2j/build.Ff2'], kind short, sout raw, serr pipe, env [] 416s autopkgtest: DBG: testbed command exited with code 0 416s autopkgtest: DBG: sending command to testbed: copydown /tmp/autopkgtest-work.vqs4pib3/out/tests-tree/ /tmp/autopkgtest.lLAh2j/build.Ff2/src/ 418s autopkgtest: DBG: got reply from testbed: ok 418s autopkgtest: DBG: testbed command ['chown', '-R', 'ubuntu', '--', '/tmp/autopkgtest.lLAh2j/build.Ff2/src'], kind short, sout raw, serr pipe, env [] 419s autopkgtest: DBG: testbed command exited with code 0 419s autopkgtest [12:40:29]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import biom; print(biom)" ; done 419s autopkgtest [12:40:29]: test autodep8-python3: [----------------------- 419s autopkgtest: DBG: testbed command ['su', '-s', '/bin/bash', 'ubuntu', '-c', 'set -e; exec /tmp/autopkgtest.lLAh2j/wrapper.sh --debug --artifacts=/tmp/autopkgtest.lLAh2j/autodep8-python3-artifacts --chdir=/tmp/autopkgtest.lLAh2j/build.Ff2/src --env=AUTOPKGTEST_TESTBED_ARCH=s390x --env=AUTOPKGTEST_TEST_ARCH=s390x --env=DEB_BUILD_OPTIONS=parallel=2 --env=DEBIAN_FRONTEND=noninteractive --env=LANG=C.UTF-8 --unset-env=LANGUAGE --unset-env=LC_ADDRESS --unset-env=LC_ALL --unset-env=LC_COLLATE --unset-env=LC_CTYPE --unset-env=LC_IDENTIFICATION --unset-env=LC_MEASUREMENT --unset-env=LC_MESSAGES --unset-env=LC_MONETARY --unset-env=LC_NAME --unset-env=LC_NUMERIC --unset-env=LC_PAPER --unset-env=LC_TELEPHONE --unset-env=LC_TIME --script-pid-file=/tmp/autopkgtest_script_pid --source-profile --stderr=/tmp/autopkgtest.lLAh2j/autodep8-python3-stderr --stdout=/tmp/autopkgtest.lLAh2j/autodep8-python3-stdout --tmp=/tmp/autopkgtest.lLAh2j/autopkgtest_tmp --env=ADT_TEST_TRIGGERS=sphinx/8.1.3-5 -- bash -ec \'set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import biom; print(biom)" ; done\''], kind test, sout raw, serr raw, env [] 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: creating AUTOPKGTEST_ARTIFACTS: /tmp/autopkgtest.lLAh2j/autodep8-python3-artifacts 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: changing to directory: /tmp/autopkgtest.lLAh2j/build.Ff2/src 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: AUTOPKGTEST_TESTBED_ARCH=s390x 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: AUTOPKGTEST_TEST_ARCH=s390x 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: DEB_BUILD_OPTIONS=parallel=2 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: DEBIAN_FRONTEND=noninteractive 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: LANG=C.UTF-8 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LANGUAGE 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_ADDRESS 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_ALL 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_COLLATE 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_CTYPE 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_IDENTIFICATION 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_MEASUREMENT 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_MESSAGES 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_MONETARY 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_NAME 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_NUMERIC 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_PAPER 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_TELEPHONE 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: unsetting environment: LC_TIME 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: will create pid file: /tmp/autopkgtest_script_pid 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: pretending to be a login shell 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: will write standard error to /tmp/autopkgtest.lLAh2j/autodep8-python3-stderr 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: will write stdout to /tmp/autopkgtest.lLAh2j/autodep8-python3-stdout 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: creating AUTOPKGTEST_TMP: /tmp/autopkgtest.lLAh2j/autopkgtest_tmp 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: setting environment: ADT_TEST_TRIGGERS=sphinx/8.1.3-5 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: command to run: bash -ec set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import biom; print(biom)" ; done 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: copying /tmp/tmp.Lg0EZQeqe5/out to stdout and file: /tmp/autopkgtest.lLAh2j/autodep8-python3-stdout 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: copying /tmp/tmp.Lg0EZQeqe5/err to standard error and file: /tmp/autopkgtest.lLAh2j/autodep8-python3-stdout 419s /tmp/autopkgtest.lLAh2j/wrapper.sh: writing script pid 1571 to /tmp/autopkgtest_script_pid 419s Testing with python3.12: 419s 420s Testing with python3.13: 420s 420s /tmp/autopkgtest.lLAh2j/wrapper.sh: checking for leaked background processes... 420s /tmp/autopkgtest.lLAh2j/wrapper.sh: waiting for tee/cat subprocesses... 420s /tmp/autopkgtest.lLAh2j/wrapper.sh: cleaning up... 420s /tmp/autopkgtest.lLAh2j/wrapper.sh: Exit status: 0 420s autopkgtest: DBG: testbed command exited with code 0 421s autopkgtest [12:40:31]: test autodep8-python3: -----------------------] 421s autopkgtest: DBG: testbed executing test finished with exit status 0 421s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/autodep8-python3-stdout /tmp/autopkgtest-work.vqs4pib3/out/autodep8-python3-stdout 421s autopkgtest: DBG: got reply from testbed: ok 421s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/autodep8-python3-stderr /tmp/autopkgtest-work.vqs4pib3/out/autodep8-python3-stderr 421s autopkgtest: DBG: got reply from testbed: ok 421s autodep8-python3 PASS (superficial) 421s autopkgtest [12:40:31]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 421s autopkgtest: DBG: sending command to testbed: copyup /tmp/autopkgtest.lLAh2j/autodep8-python3-artifacts/ /tmp/autopkgtest-work.vqs4pib3/out/artifacts/ 421s autopkgtest: DBG: got reply from testbed: ok 421s autopkgtest: DBG: testbed command ['rm', '-rf', '/tmp/autopkgtest.lLAh2j/autodep8-python3-artifacts', '/tmp/autopkgtest.lLAh2j/autopkgtest_tmp'], kind short, sout raw, serr pipe, env [] 421s autopkgtest: DBG: testbed command exited with code 0 421s autopkgtest: DBG: needs_reset, previously=False, requested by run_tests() line 230 421s autopkgtest [12:40:31]: @@@@@@@@@@@@@@@@@@@@ summary 421s run-unit-test PASS 421s autodep8-python3 PASS (superficial) 421s autopkgtest: DBG: testbed stop 421s autopkgtest: DBG: testbed close, scratch=/tmp/autopkgtest.lLAh2j 421s autopkgtest: DBG: sending command to testbed: close 439s autopkgtest: DBG: got reply from testbed: ok 439s autopkgtest: DBG: sending command to testbed: quit 439s nova [W] Using flock in prodstack6-s390x 439s flock: timeout while waiting to get lock 439s Creating nova instance adt-plucky-s390x-python-biom-format-20250219-123330-juju-7f2275-prod-proposed-migration-environment-15-22a6c8ed-de12-466f-9a9e-1b31407c1025 from image adt/ubuntu-plucky-s390x-server-20250219.img (UUID 7af5aa59-4155-4177-a560-02c7dd963d23)... 439s nova [W] Timed out waiting for 7d143020-e21d-4b89-9396-8b856b061653 to get deleted. 439s nova [W] Using flock in prodstack6-s390x 439s Creating nova instance adt-plucky-s390x-python-biom-format-20250219-123330-juju-7f2275-prod-proposed-migration-environment-15-22a6c8ed-de12-466f-9a9e-1b31407c1025 from image adt/ubuntu-plucky-s390x-server-20250219.img (UUID 7af5aa59-4155-4177-a560-02c7dd963d23)... 439s nova [W] Timed out waiting for ccc082c4-5888-49a3-86d3-c7ef42cc3f7a to get deleted.