0s autopkgtest [16:44:53]: starting date and time: 2025-03-15 16:44:53+0000 1s autopkgtest [16:44:54]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 1s autopkgtest [16:44:54]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.9k3tzkh8/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade plink --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-s390x-32.secgroup --name adt-plucky-s390x-plink-20250315-164452-juju-7f2275-prod-proposed-migration-environment-15-6e97aa80-e3c1-4a3f-af2b-70fc76cbc97f --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/ 165s autopkgtest [16:47:38]: testbed dpkg architecture: s390x 165s autopkgtest [16:47:38]: testbed apt version: 2.9.33 165s autopkgtest [16:47:38]: @@@@@@@@@@@@@@@@@@@@ test bed setup 165s autopkgtest [16:47:38]: testbed release detected to be: None 166s autopkgtest [16:47:39]: updating testbed package index (apt update) 166s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 167s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 167s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 167s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 167s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 167s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 167s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 167s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [113 kB] 168s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x c-n-f Metadata [1824 B] 168s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted s390x c-n-f Metadata [116 B] 168s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [320 kB] 168s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x c-n-f Metadata [13.4 kB] 168s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [3776 B] 168s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x c-n-f Metadata [240 B] 168s Fetched 1073 kB in 2s (622 kB/s) 169s Reading package lists... 169s + lsb_release --codename --short 169s + RELEASE=plucky 169s + cat 169s + [ plucky != trusty ] 169s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 170s Reading package lists... 170s Building dependency tree... 170s Reading state information... 170s Calculating upgrade... 170s Calculating upgrade... 170s The following packages were automatically installed and are no longer required: 170s libnsl2 libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 170s linux-headers-6.11.0-8 linux-headers-6.11.0-8-generic 170s linux-modules-6.11.0-8-generic linux-tools-6.11.0-8 170s linux-tools-6.11.0-8-generic 170s Use 'sudo apt autoremove' to remove them. 170s The following packages will be upgraded: 170s pinentry-curses python3-jinja2 strace 170s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 170s Need to get 652 kB of archives. 170s After this operation, 27.6 kB of additional disk space will be used. 170s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x strace s390x 6.13+ds-1ubuntu1 [500 kB] 171s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x pinentry-curses s390x 1.3.1-2ubuntu3 [42.9 kB] 171s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 171s Fetched 652 kB in 1s (614 kB/s) 171s (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 ... 81428 files and directories currently installed.) 171s Preparing to unpack .../strace_6.13+ds-1ubuntu1_s390x.deb ... 171s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 171s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_s390x.deb ... 171s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 171s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 171s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 171s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 171s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 172s Setting up strace (6.13+ds-1ubuntu1) ... 172s Processing triggers for man-db (2.13.0-1) ... 172s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 172s + /usr/lib/apt/apt-helper analyze-pattern ?true 172s + uname -r 172s + sed s/\./\\./g 172s + running_kernel_pattern=^linux-.*6\.14\.0-10-generic.* 172s + apt list ?obsolete 172s + tail -n+2 172s + cut -d/ -f1 172s + grep -v ^linux-.*6\.14\.0-10-generic.* 172s + obsolete_pkgs=linux-headers-6.11.0-8-generic 172s linux-headers-6.11.0-8 172s linux-modules-6.11.0-8-generic 172s linux-tools-6.11.0-8-generic 172s linux-tools-6.11.0-8 172s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove linux-headers-6.11.0-8-generic linux-headers-6.11.0-8 linux-modules-6.11.0-8-generic linux-tools-6.11.0-8-generic linux-tools-6.11.0-8 172s Reading package lists... 172s Building dependency tree... 172s Reading state information... 172s Solving dependencies... 173s The following packages will be REMOVED: 173s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 173s linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 173s linux-modules-6.11.0-8-generic* linux-tools-6.11.0-8* 173s linux-tools-6.11.0-8-generic* 173s 0 upgraded, 0 newly installed, 9 to remove and 5 not upgraded. 173s After this operation, 167 MB disk space will be freed. 173s (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 ... 81428 files and directories currently installed.) 173s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 173s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 173s Removing libpython3.12t64:s390x (3.12.9-1) ... 173s Removing libpython3.12-stdlib:s390x (3.12.9-1) ... 173s Removing libnsl2:s390x (1.3.0-3build3) ... 173s Removing libpython3.12-minimal:s390x (3.12.9-1) ... 173s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 173s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 174s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 174s Processing triggers for libc-bin (2.41-1ubuntu1) ... 174s (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 ... 56328 files and directories currently installed.) 174s Purging configuration files for libpython3.12-minimal:s390x (3.12.9-1) ... 174s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 174s + grep -q trusty /etc/lsb-release 174s + [ ! -d /usr/share/doc/unattended-upgrades ] 174s + [ ! -d /usr/share/doc/lxd ] 174s + [ ! -d /usr/share/doc/lxd-client ] 174s + [ ! -d /usr/share/doc/snapd ] 174s + type iptables 174s + cat 174s + chmod 755 /etc/rc.local 174s + . /etc/rc.local 174s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 174s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 174s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 174s + uname -m 174s + [ s390x = ppc64le ] 174s + [ -d /run/systemd/system ] 174s + systemd-detect-virt --quiet --vm 174s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 174s + cat 174s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 174s + echo COMPRESS=lz4 174s autopkgtest [16:47:47]: upgrading testbed (apt dist-upgrade and autopurge) 174s Reading package lists... 174s Building dependency tree... 174s Reading state information... 174s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 175s Starting 2 pkgProblemResolver with broken count: 0 175s Done 175s Entering ResolveByKeep 175s 175s Calculating upgrade... 175s The following packages will be upgraded: 175s libc-bin libc-dev-bin libc6 libc6-dev locales 175s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 175s Need to get 9512 kB of archives. 175s After this operation, 8192 B of additional disk space will be used. 175s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc6-dev s390x 2.41-1ubuntu2 [1678 kB] 177s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc-dev-bin s390x 2.41-1ubuntu2 [24.3 kB] 177s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc6 s390x 2.41-1ubuntu2 [2892 kB] 180s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc-bin s390x 2.41-1ubuntu2 [671 kB] 181s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x locales all 2.41-1ubuntu2 [4246 kB] 185s Preconfiguring packages ... 185s Fetched 9512 kB in 10s (944 kB/s) 185s (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 ... 56326 files and directories currently installed.) 185s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_s390x.deb ... 185s Unpacking libc6-dev:s390x (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 185s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_s390x.deb ... 185s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 185s Preparing to unpack .../libc6_2.41-1ubuntu2_s390x.deb ... 186s Unpacking libc6:s390x (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 186s Setting up libc6:s390x (2.41-1ubuntu2) ... 186s (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 ... 56326 files and directories currently installed.) 186s Preparing to unpack .../libc-bin_2.41-1ubuntu2_s390x.deb ... 186s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 186s Setting up libc-bin (2.41-1ubuntu2) ... 186s (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 ... 56326 files and directories currently installed.) 186s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 186s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 186s Setting up locales (2.41-1ubuntu2) ... 186s Generating locales (this might take a while)... 187s en_US.UTF-8... done 187s Generation complete. 187s Setting up libc-dev-bin (2.41-1ubuntu2) ... 187s Setting up libc6-dev:s390x (2.41-1ubuntu2) ... 187s Processing triggers for man-db (2.13.0-1) ... 188s Processing triggers for systemd (257.3-1ubuntu3) ... 189s Reading package lists... 189s Building dependency tree... 189s Reading state information... 189s Starting pkgProblemResolver with broken count: 0 189s Starting 2 pkgProblemResolver with broken count: 0 189s Done 189s Solving dependencies... 189s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 189s autopkgtest [16:48:02]: rebooting testbed after setup commands that affected boot 209s autopkgtest [16:48:21]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP Wed Mar 12 14:53:49 UTC 2025 211s autopkgtest [16:48:24]: @@@@@@@@@@@@@@@@@@@@ apt-source plink 213s Get:1 http://ftpmaster.internal/ubuntu plucky/universe plink 1.07+dfsg-4 (dsc) [2076 B] 213s Get:2 http://ftpmaster.internal/ubuntu plucky/universe plink 1.07+dfsg-4 (tar) [429 kB] 213s Get:3 http://ftpmaster.internal/ubuntu plucky/universe plink 1.07+dfsg-4 (diff) [17.4 kB] 213s gpgv: Signature made Sun Oct 31 15:36:45 2021 UTC 213s gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 213s gpgv: issuer "nilesh@debian.org" 213s gpgv: Can't check signature: No public key 213s dpkg-source: warning: cannot verify inline signature for ./plink_1.07+dfsg-4.dsc: no acceptable signature found 213s autopkgtest [16:48:26]: testing package plink version 1.07+dfsg-4 213s autopkgtest [16:48:26]: build not needed 214s autopkgtest [16:48:27]: test run-sample-analysis: preparing testbed 214s Reading package lists... 214s Building dependency tree... 214s Reading state information... 214s Starting pkgProblemResolver with broken count: 0 215s Starting 2 pkgProblemResolver with broken count: 0 215s Done 215s The following NEW packages will be installed: 215s plink 215s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 215s Need to get 1051 kB of archives. 215s After this operation, 2994 kB of additional disk space will be used. 215s Get:1 http://ftpmaster.internal/ubuntu plucky/universe s390x plink s390x 1.07+dfsg-4 [1051 kB] 216s Fetched 1051 kB in 1s (873 kB/s) 216s Selecting previously unselected package plink. 216s (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 ... 56326 files and directories currently installed.) 216s Preparing to unpack .../plink_1.07+dfsg-4_s390x.deb ... 216s Unpacking plink (1.07+dfsg-4) ... 216s Setting up plink (1.07+dfsg-4) ... 216s Processing triggers for man-db (2.13.0-1) ... 218s autopkgtest [16:48:31]: test run-sample-analysis: [----------------------- 218s 218s @----------------------------------------------------------@ 218s | PLINK! | v1.07 | 10/Aug/2009 | 218s |----------------------------------------------------------| 218s | (C) 2009 Shaun Purcell, GNU General Public License, v2 | 218s |----------------------------------------------------------| 218s | For documentation, citation & bug-report instructions: | 218s | http://pngu.mgh.harvard.edu/purcell/plink/ | 218s @----------------------------------------------------------@ 218s 218s Skipping web check... [ --noweb ] 218s Writing this text to log file [ plink.log ] 218s Analysis started: Sat Mar 15 16:49:56 2025 218s 218s Options in effect: 218s --noweb 218s --file test 218s --freq 218s 218s 2 (of 2) markers to be included from [ test.map ] 218s 6 individuals read from [ test.ped ] 218s 6 individuals with nonmissing phenotypes 218s Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) 218s Missing phenotype value is also -9 218s 3 cases, 3 controls and 0 missing 218s 6 males, 0 females, and 0 of unspecified sex 218s Before frequency and genotyping pruning, there are 2 SNPs 218s 6 founders and 0 non-founders found 218s Writing allele frequencies (founders-only) to [ plink.frq ] 218s 218s Analysis finished: Sat Mar 15 16:49:56 2025 218s 218s 218s @----------------------------------------------------------@ 218s | PLINK! | v1.07 | 10/Aug/2009 | 218s |----------------------------------------------------------| 218s | (C) 2009 Shaun Purcell, GNU General Public License, v2 | 218s |----------------------------------------------------------| 218s | For documentation, citation & bug-report instructions: | 218s | http://pngu.mgh.harvard.edu/purcell/plink/ | 218s @----------------------------------------------------------@ 218s 218s Skipping web check... [ --noweb ] 218s Writing this text to log file [ plink.log ] 218s Analysis started: Sat Mar 15 16:49:56 2025 218s 218s Options in effect: 218s --noweb 218s --file test 218s --assoc 218s 218s 2 (of 2) markers to be included from [ test.map ] 218s 6 individuals read from [ test.ped ] 218s 6 individuals with nonmissing phenotypes 218s Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) 218s Missing phenotype value is also -9 218s 3 cases, 3 controls and 0 missing 218s 6 males, 0 females, and 0 of unspecified sex 218s Before frequency and genotyping pruning, there are 2 SNPs 218s 6 founders and 0 non-founders found 218s Total genotyping rate in remaining individuals is 1 218s 0 SNPs failed missingness test ( GENO > 1 ) 218s 0 SNPs failed frequency test ( MAF < 0 ) 218s After frequency and genotyping pruning, there are 2 SNPs 218s After filtering, 3 cases, 3 controls and 0 missing 218s After filtering, 6 males, 0 females, and 0 of unspecified sex 218s Writing main association results to [ plink.assoc ] 218s 218s Analysis finished: Sat Mar 15 16:49:56 2025 218s 218s autopkgtest [16:48:31]: test run-sample-analysis: -----------------------] 219s autopkgtest [16:48:32]: test run-sample-analysis: - - - - - - - - - - results - - - - - - - - - - 219s run-sample-analysis PASS 219s autopkgtest [16:48:32]: @@@@@@@@@@@@@@@@@@@@ summary 219s run-sample-analysis PASS 242s nova [W] Using flock in prodstack6-s390x 242s Creating nova instance adt-plucky-s390x-plink-20250315-164452-juju-7f2275-prod-proposed-migration-environment-15-6e97aa80-e3c1-4a3f-af2b-70fc76cbc97f from image adt/ubuntu-plucky-s390x-server-20250315.img (UUID 3d3557fa-fd0f-4bba-9b89-8d5964e09f61)... 242s nova [W] Timed out waiting for adcdeba7-775f-4106-a1bd-4b90310fd66b to get deleted.