0s autopkgtest [17:01:05]: starting date and time: 2025-03-15 17:01:05+0000 0s autopkgtest [17:01:05]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [17:01:05]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.ymm4zcsb/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade sweed --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 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-20.secgroup --name adt-plucky-arm64-sweed-20250315-170104-juju-7f2275-prod-proposed-migration-environment-2-c0808416-92cc-4e07-9951-5c5866ee57a0 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,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/ 169s autopkgtest [17:03:54]: testbed dpkg architecture: arm64 170s autopkgtest [17:03:55]: testbed apt version: 2.9.33 170s autopkgtest [17:03:55]: @@@@@@@@@@@@@@@@@@@@ test bed setup 170s autopkgtest [17:03:55]: testbed release detected to be: None 171s autopkgtest [17:03:56]: updating testbed package index (apt update) 171s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 172s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 172s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 172s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 172s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 172s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 172s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 173s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [111 kB] 173s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 c-n-f Metadata [1856 B] 173s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 c-n-f Metadata [116 B] 173s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [324 kB] 174s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 c-n-f Metadata [14.7 kB] 174s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [4948 B] 174s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 c-n-f Metadata [268 B] 174s Fetched 1078 kB in 3s (408 kB/s) 175s Reading package lists... 176s Reading package lists... 176s Building dependency tree... 176s Reading state information... 177s Calculating upgrade... 177s Calculating upgrade... 177s The following packages will be upgraded: 177s pinentry-curses python3-jinja2 strace 178s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 178s Need to get 647 kB of archives. 178s After this operation, 11.3 kB of additional disk space will be used. 178s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 strace arm64 6.13+ds-1ubuntu1 [499 kB] 179s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 pinentry-curses arm64 1.3.1-2ubuntu3 [39.2 kB] 179s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 179s Fetched 647 kB in 1s (486 kB/s) 180s (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 ... 117701 files and directories currently installed.) 180s Preparing to unpack .../strace_6.13+ds-1ubuntu1_arm64.deb ... 180s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 180s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_arm64.deb ... 180s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 180s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 180s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 180s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 180s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 180s Setting up strace (6.13+ds-1ubuntu1) ... 180s Processing triggers for man-db (2.13.0-1) ... 181s Reading package lists... 181s Building dependency tree... 181s Reading state information... 182s Solving dependencies... 182s The following packages will be REMOVED: 182s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 182s libunwind8* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 182s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 182s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* 183s 0 upgraded, 0 newly installed, 11 to remove and 5 not upgraded. 183s After this operation, 267 MB disk space will be freed. 183s (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 ... 117701 files and directories currently installed.) 183s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 183s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 183s Removing libpython3.12t64:arm64 (3.12.9-1) ... 183s Removing libpython3.12-stdlib:arm64 (3.12.9-1) ... 183s Removing libnsl2:arm64 (1.3.0-3build3) ... 183s Removing libpython3.12-minimal:arm64 (3.12.9-1) ... 183s Removing libunwind8:arm64 (1.6.2-3.1) ... 183s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 184s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 185s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 186s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic 186s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic 186s /etc/kernel/postrm.d/initramfs-tools: 186s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 186s /etc/kernel/postrm.d/zz-flash-kernel: 186s flash-kernel: Kernel 6.11.0-8-generic has been removed. 186s flash-kernel: A higher version (6.14.0-10-generic) is still installed, no reflashing required. 186s /etc/kernel/postrm.d/zz-update-grub: 186s Sourcing file `/etc/default/grub' 186s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 186s Generating grub configuration file ... 186s Found linux image: /boot/vmlinuz-6.14.0-10-generic 186s Found initrd image: /boot/initrd.img-6.14.0-10-generic 187s Warning: os-prober will not be executed to detect other bootable partitions. 187s Systems on them will not be added to the GRUB boot configuration. 187s Check GRUB_DISABLE_OS_PROBER documentation entry. 187s Adding boot menu entry for UEFI Firmware Settings ... 187s done 187s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 187s Processing triggers for libc-bin (2.41-1ubuntu1) ... 187s (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 ... 81650 files and directories currently installed.) 187s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 187s Purging configuration files for libpython3.12-minimal:arm64 (3.12.9-1) ... 187s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 188s autopkgtest [17:04:13]: upgrading testbed (apt dist-upgrade and autopurge) 188s Reading package lists... 188s Building dependency tree... 188s Reading state information... 189s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 189s Starting 2 pkgProblemResolver with broken count: 0 189s Done 190s Entering ResolveByKeep 190s 190s Calculating upgrade... 191s The following packages will be upgraded: 191s libc-bin libc-dev-bin libc6 libc6-dev locales 191s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 191s Need to get 9530 kB of archives. 191s After this operation, 0 B of additional disk space will be used. 191s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6-dev arm64 2.41-1ubuntu2 [1750 kB] 193s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-dev-bin arm64 2.41-1ubuntu2 [24.0 kB] 193s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6 arm64 2.41-1ubuntu2 [2910 kB] 196s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-bin arm64 2.41-1ubuntu2 [600 kB] 197s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 locales all 2.41-1ubuntu2 [4246 kB] 202s Preconfiguring packages ... 202s Fetched 9530 kB in 11s (847 kB/s) 202s (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 ... 81647 files and directories currently installed.) 202s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_arm64.deb ... 202s Unpacking libc6-dev:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 203s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_arm64.deb ... 203s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 203s Preparing to unpack .../libc6_2.41-1ubuntu2_arm64.deb ... 203s Unpacking libc6:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 203s Setting up libc6:arm64 (2.41-1ubuntu2) ... 203s (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 ... 81647 files and directories currently installed.) 203s Preparing to unpack .../libc-bin_2.41-1ubuntu2_arm64.deb ... 203s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 203s Setting up libc-bin (2.41-1ubuntu2) ... 203s (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 ... 81647 files and directories currently installed.) 203s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 203s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 204s Setting up locales (2.41-1ubuntu2) ... 204s Generating locales (this might take a while)... 207s en_US.UTF-8... done 207s Generation complete. 207s Setting up libc-dev-bin (2.41-1ubuntu2) ... 207s Setting up libc6-dev:arm64 (2.41-1ubuntu2) ... 207s Processing triggers for man-db (2.13.0-1) ... 208s Processing triggers for systemd (257.3-1ubuntu3) ... 209s Reading package lists... 210s Building dependency tree... 210s Reading state information... 210s Starting pkgProblemResolver with broken count: 0 210s Starting 2 pkgProblemResolver with broken count: 0 210s Done 211s Solving dependencies... 211s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 211s autopkgtest [17:04:36]: rebooting testbed after setup commands that affected boot 235s autopkgtest [17:05:00]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 15:45:31 UTC 2025 238s autopkgtest [17:05:03]: @@@@@@@@@@@@@@@@@@@@ apt-source sweed 241s Get:1 http://ftpmaster.internal/ubuntu plucky/universe sweed 3.2.1+dfsg-6 (dsc) [1978 B] 241s Get:2 http://ftpmaster.internal/ubuntu plucky/universe sweed 3.2.1+dfsg-6 (tar) [62.1 kB] 241s Get:3 http://ftpmaster.internal/ubuntu plucky/universe sweed 3.2.1+dfsg-6 (diff) [7784 B] 241s gpgv: Signature made Tue Dec 3 10:24:07 2024 UTC 241s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 241s gpgv: issuer "tille@debian.org" 241s gpgv: Can't check signature: No public key 241s dpkg-source: warning: cannot verify inline signature for ./sweed_3.2.1+dfsg-6.dsc: no acceptable signature found 241s autopkgtest [17:05:06]: testing package sweed version 3.2.1+dfsg-6 241s autopkgtest [17:05:06]: build not needed 242s autopkgtest [17:05:07]: test run-unit-test: preparing testbed 242s Reading package lists... 242s Building dependency tree... 242s Reading state information... 243s Starting pkgProblemResolver with broken count: 0 243s Starting 2 pkgProblemResolver with broken count: 0 243s Done 243s The following NEW packages will be installed: 243s sweed 244s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 244s Need to get 56.6 kB of archives. 244s After this operation, 155 kB of additional disk space will be used. 244s Get:1 http://ftpmaster.internal/ubuntu plucky/universe arm64 sweed arm64 3.2.1+dfsg-6 [56.6 kB] 244s Fetched 56.6 kB in 0s (180 kB/s) 244s Selecting previously unselected package sweed. 244s (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 ... 81647 files and directories currently installed.) 244s Preparing to unpack .../sweed_3.2.1+dfsg-6_arm64.deb ... 244s Unpacking sweed (3.2.1+dfsg-6) ... 244s Setting up sweed (3.2.1+dfsg-6) ... 244s Processing triggers for man-db (2.13.0-1) ... 246s autopkgtest [17:05:11]: test run-unit-test: [----------------------- 246s Test 1 246s 246s 246s _______________ 246s 246s SweeD 246s _______________ 246s 246s 246s 246s SweeD version 3.1 released by Nikolaos Alachiotis and Pavlos Pavlidis in January 2013. 246s 246s 246s Command: 246s 246s SweeD -name test1 -input ms.out -grid 15 -length 1000 246s 246s 246s Alignment 1 246s 246s Sequences: 5 246s Sites: 6 246s Discarded sites: 0 246s 246s Processing: 0.00 seconds 246s 246s Position: 7.360000e+02 246s Likelihood: 1.716739e-01 246s Alpha: 1.012449e-01 246s 246s 246s Alignment 2 246s 246s Sequences: 5 246s Sites: 4 246s Discarded sites: 0 246s 246s Processing: 0.00 seconds 246s 246s Position: 4.260000e+02 246s Likelihood: 6.774829e-03 246s Alpha: 2.089549e-01 246s 246s 246s Total elapsed time 0.00 seconds. 246s 246s 246s PASS 246s Test 2 246s 246s 246s _______________ 246s 246s SweeD 246s _______________ 246s 246s 246s 246s SweeD version 3.1 released by Nikolaos Alachiotis and Pavlos Pavlidis in January 2013. 246s 246s 246s Command: 246s 246s SweeD -name test3 -input macs.out -length 10000 -grid 100 246s 246s 246s Alignment 1 246s 246s Sequences: 40 246s Sites: 6 246s Discarded sites: 0 246s 247s Processing: 0.01 seconds 247s 247s Position: 1.758000e+03 247s Likelihood: 1.053377e-07 247s Alpha: 2.123894e-02 247s 247s 247s Alignment 2 247s 247s Sequences: 40 247s Sites: 5 247s Discarded sites: 0 247s 247s Processing: 0.01 seconds 247s 247s Position: 7.045000e+03 247s Likelihood: 9.151017e-01 247s Alpha: 5.543519e-03 247s 247s 247s Total elapsed time 0.02 seconds. 247s 247s 247s PASS 247s Test 3 247s 247s 247s _______________ 247s 247s SweeD 247s _______________ 247s 247s 247s 247s SweeD version 3.1 released by Nikolaos Alachiotis and Pavlos Pavlidis in January 2013. 247s 247s 247s Command: 247s 247s SweeD -name test -input data.VCF -grid 15 247s 247s 247s Alignment 1 247s 247s Chromosome: 20 247s Sequences: 6 247s Sites: 3 247s Discarded sites: 2 247s 247s Processing: 0.00 seconds 247s 247s Position: 0.000000e+00 247s Likelihood: 0.000000e+00 247s Alpha: 0.000000e+00 247s 247s 247s Total elapsed time 0.00 seconds. 247s 247s 247s PASS 247s Test 4 247s 247s 247s _______________ 247s 247s SweeD 247s _______________ 247s 247s 247s 247s SweeD version 3.1 released by Nikolaos Alachiotis and Pavlos Pavlidis in January 2013. 247s 247s 247s Command: 247s 247s SweeD -name test -input data.FA -grid 15 247s 247s 247s Alignment 1 247s segsites: 60 length: 60 247s Outgroup: none 247s 247s Sequences: 4 247s Sites: 60 247s Discarded sites: 26 247s 247s Processing: 0.00 seconds 247s 247s Position: 0.000000e+00 247s Likelihood: 0.000000e+00 247s Alpha: 0.000000e+00 247s 247s 247s Alignment 2 247s segsites: 60 length: 60 247s Outgroup: none 247s 247s Sequences: 4 247s Sites: 60 247s Discarded sites: 26 247s 247s Processing: 0.00 seconds 247s 247s Position: 0.000000e+00 247s Likelihood: 0.000000e+00 247s Alpha: 0.000000e+00 247s 247s 247s Total elapsed time 0.00 seconds. 247s 247s 247s PASS 247s autopkgtest [17:05:12]: test run-unit-test: -----------------------] 247s autopkgtest [17:05:12]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 247s run-unit-test PASS 248s autopkgtest [17:05:13]: @@@@@@@@@@@@@@@@@@@@ summary 248s run-unit-test PASS 253s nova [W] Using flock in prodstack6-arm64 253s flock: timeout while waiting to get lock 253s Creating nova instance adt-plucky-arm64-sweed-20250315-170104-juju-7f2275-prod-proposed-migration-environment-2-c0808416-92cc-4e07-9951-5c5866ee57a0 from image adt/ubuntu-plucky-arm64-server-20250315.img (UUID bd6e766c-b51f-4b53-86d6-23aa4d18f524)... 253s nova [W] Timed out waiting for 3d9c8729-c6d8-45aa-bb55-6e177312167a to get deleted.