0s autopkgtest [11:27:34]: starting date and time: 2025-03-15 11:27:34+0000 0s autopkgtest [11:27:34]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [11:27:34]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.wo659zwa/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade vsearch --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-20@bos03-arm64-7.secgroup --name adt-plucky-arm64-vsearch-20250315-112734-juju-7f2275-prod-proposed-migration-environment-20-8420259c-64c4-42bc-b842-d7dd0467d561 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --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/ 152s autopkgtest [11:30:06]: testbed dpkg architecture: arm64 152s autopkgtest [11:30:06]: testbed apt version: 2.9.33 152s autopkgtest [11:30:06]: @@@@@@@@@@@@@@@@@@@@ test bed setup 153s autopkgtest [11:30:07]: testbed release detected to be: None 153s autopkgtest [11:30:07]: updating testbed package index (apt update) 154s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 154s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 154s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 154s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 154s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 154s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [410 kB] 155s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [46.2 kB] 155s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [78.2 kB] 155s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 c-n-f Metadata [1888 B] 155s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 c-n-f Metadata [116 B] 155s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [353 kB] 155s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 c-n-f Metadata [15.7 kB] 155s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [4948 B] 155s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 c-n-f Metadata [572 B] 156s Fetched 1052 kB in 2s (606 kB/s) 157s Reading package lists... 157s Reading package lists... 158s Building dependency tree... 158s Reading state information... 158s Calculating upgrade... 158s Calculating upgrade... 159s The following packages will be upgraded: 159s python3-jinja2 strace 159s 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 159s Need to get 608 kB of archives. 159s After this operation, 11.3 kB of additional disk space will be used. 159s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 strace arm64 6.13+ds-1ubuntu1 [499 kB] 160s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 160s Fetched 608 kB in 1s (567 kB/s) 161s (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.) 161s Preparing to unpack .../strace_6.13+ds-1ubuntu1_arm64.deb ... 161s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 161s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 161s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 161s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 161s Setting up strace (6.13+ds-1ubuntu1) ... 161s Processing triggers for man-db (2.13.0-1) ... 162s Reading package lists... 162s Building dependency tree... 162s Reading state information... 163s Solving dependencies... 163s The following packages will be REMOVED: 163s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 163s libunwind8* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 163s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 163s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* 163s 0 upgraded, 0 newly installed, 11 to remove and 5 not upgraded. 163s After this operation, 267 MB disk space will be freed. 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 ... 117701 files and directories currently installed.) 164s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 164s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 164s Removing libpython3.12t64:arm64 (3.12.9-1) ... 164s Removing libpython3.12-stdlib:arm64 (3.12.9-1) ... 164s Removing libnsl2:arm64 (1.3.0-3build3) ... 164s Removing libpython3.12-minimal:arm64 (3.12.9-1) ... 164s Removing libunwind8:arm64 (1.6.2-3.1) ... 164s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 164s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 166s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 166s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic 166s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic 166s /etc/kernel/postrm.d/initramfs-tools: 166s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 166s /etc/kernel/postrm.d/zz-flash-kernel: 166s flash-kernel: Kernel 6.11.0-8-generic has been removed. 166s flash-kernel: A higher version (6.14.0-10-generic) is still installed, no reflashing required. 167s /etc/kernel/postrm.d/zz-update-grub: 167s Sourcing file `/etc/default/grub' 167s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 167s Generating grub configuration file ... 167s Found linux image: /boot/vmlinuz-6.14.0-10-generic 167s Found initrd image: /boot/initrd.img-6.14.0-10-generic 168s Warning: os-prober will not be executed to detect other bootable partitions. 168s Systems on them will not be added to the GRUB boot configuration. 168s Check GRUB_DISABLE_OS_PROBER documentation entry. 168s Adding boot menu entry for UEFI Firmware Settings ... 168s done 168s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 168s Processing triggers for libc-bin (2.41-1ubuntu1) ... 168s (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.) 168s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 168s Purging configuration files for libpython3.12-minimal:arm64 (3.12.9-1) ... 169s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 169s autopkgtest [11:30:23]: upgrading testbed (apt dist-upgrade and autopurge) 169s Reading package lists... 170s Building dependency tree... 170s Reading state information... 171s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 172s Starting 2 pkgProblemResolver with broken count: 0 172s Done 174s Entering ResolveByKeep 174s 175s Calculating upgrade... 176s The following packages will be upgraded: 176s libc-bin libc-dev-bin libc6 libc6-dev locales 176s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 176s Need to get 9530 kB of archives. 176s After this operation, 0 B of additional disk space will be used. 176s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6-dev arm64 2.41-1ubuntu2 [1750 kB] 179s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-dev-bin arm64 2.41-1ubuntu2 [24.0 kB] 179s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6 arm64 2.41-1ubuntu2 [2910 kB] 182s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-bin arm64 2.41-1ubuntu2 [600 kB] 183s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 locales all 2.41-1ubuntu2 [4246 kB] 188s Preconfiguring packages ... 188s Fetched 9530 kB in 12s (808 kB/s) 188s (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.) 188s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_arm64.deb ... 188s Unpacking libc6-dev:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 189s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_arm64.deb ... 189s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 189s Preparing to unpack .../libc6_2.41-1ubuntu2_arm64.deb ... 189s Unpacking libc6:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 189s Setting up libc6:arm64 (2.41-1ubuntu2) ... 189s (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.) 189s Preparing to unpack .../libc-bin_2.41-1ubuntu2_arm64.deb ... 189s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 189s Setting up libc-bin (2.41-1ubuntu2) ... 190s (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.) 190s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 190s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 190s Setting up locales (2.41-1ubuntu2) ... 191s Generating locales (this might take a while)... 194s en_US.UTF-8... done 194s Generation complete. 194s Setting up libc-dev-bin (2.41-1ubuntu2) ... 194s Setting up libc6-dev:arm64 (2.41-1ubuntu2) ... 194s Processing triggers for man-db (2.13.0-1) ... 195s Processing triggers for systemd (257.3-1ubuntu3) ... 196s Reading package lists... 197s Building dependency tree... 197s Reading state information... 198s Starting pkgProblemResolver with broken count: 0 198s Starting 2 pkgProblemResolver with broken count: 0 198s Done 199s Solving dependencies... 199s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 200s autopkgtest [11:30:54]: rebooting testbed after setup commands that affected boot 222s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 231s autopkgtest [11:31:25]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 15:45:31 UTC 2025 236s autopkgtest [11:31:30]: @@@@@@@@@@@@@@@@@@@@ apt-source vsearch 241s Get:1 http://ftpmaster.internal/ubuntu plucky/universe vsearch 2.29.1-1 (dsc) [2354 B] 241s Get:2 http://ftpmaster.internal/ubuntu plucky/universe vsearch 2.29.1-1 (tar) [284 kB] 241s Get:3 http://ftpmaster.internal/ubuntu plucky/universe vsearch 2.29.1-1 (diff) [1632 kB] 241s gpgv: Signature made Sat Nov 2 15:57:05 2024 UTC 241s gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA 241s gpgv: issuer "emollier@debian.org" 241s gpgv: Can't check signature: No public key 241s dpkg-source: warning: cannot verify inline signature for ./vsearch_2.29.1-1.dsc: no acceptable signature found 242s autopkgtest [11:31:36]: testing package vsearch version 2.29.1-1 243s autopkgtest [11:31:37]: build not needed 244s autopkgtest [11:31:38]: test run-unit-test: preparing testbed 245s Reading package lists... 245s Building dependency tree... 245s Reading state information... 246s Starting pkgProblemResolver with broken count: 0 246s Starting 2 pkgProblemResolver with broken count: 0 246s Done 248s The following NEW packages will be installed: 248s vsearch vsearch-examples 248s 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. 248s Need to get 3909 kB of archives. 248s After this operation, 4179 kB of additional disk space will be used. 248s Get:1 http://ftpmaster.internal/ubuntu plucky/universe arm64 vsearch arm64 2.29.1-1 [430 kB] 249s Get:2 http://ftpmaster.internal/ubuntu plucky/universe arm64 vsearch-examples all 2.29.1-1 [3479 kB] 253s Fetched 3909 kB in 4s (980 kB/s) 253s Selecting previously unselected package vsearch. 253s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81647 files and directories currently installed.) 253s Preparing to unpack .../vsearch_2.29.1-1_arm64.deb ... 253s Unpacking vsearch (2.29.1-1) ... 253s Selecting previously unselected package vsearch-examples. 253s Preparing to unpack .../vsearch-examples_2.29.1-1_all.deb ... 253s Unpacking vsearch-examples (2.29.1-1) ... 253s Setting up vsearch (2.29.1-1) ... 253s Setting up vsearch-examples (2.29.1-1) ... 253s Processing triggers for man-db (2.13.0-1) ... 256s autopkgtest [11:31:50]: test run-unit-test: [----------------------- 256s Test 1 256s vsearch v2.29.1_linux_aarch64, 3.8GB RAM, 2 cores 256s https://github.com/torognes/vsearch 256s 256s Reading file BioMarKs50k.fsa 100% 256s 19073093 nt in 49958 seqs, min 32, max 497, avg 382 256s minseqlength 32: 42 sequences discarded. 258s Masking 100% 258s Sorting by length 100% 258s Counting k-mers 100% 297s Clustering 100% 297s Sorting clusters 100% 297s Writing clusters 100% 297s Clusters: 4301 Size min 1, max 932, avg 11.6 297s Singletons: 1856, 3.7% of seqs, 43.2% of clusters 297s PASS 297s 297s Test 2 297s vsearch v2.29.1_linux_aarch64, 3.8GB RAM, 2 cores 297s https://github.com/torognes/vsearch 297s 297s Reading file BioMarKs50k.fsa 100% 297s 19073093 nt in 49958 seqs, min 32, max 497, avg 382 297s minseqlength 32: 42 sequences discarded. 298s Masking 100% 298s Counting k-mers 100% 299s Creating k-mer index 100% 299s Searching 100% 299s Matching unique query sequences: 1 of 1 (100.00%) 299s PASS 299s autopkgtest [11:32:33]: test run-unit-test: -----------------------] 300s run-unit-test PASS 300s autopkgtest [11:32:34]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 300s autopkgtest [11:32:34]: @@@@@@@@@@@@@@@@@@@@ summary 300s run-unit-test PASS 317s nova [W] Using flock in prodstack6-arm64 317s Creating nova instance adt-plucky-arm64-vsearch-20250315-112734-juju-7f2275-prod-proposed-migration-environment-20-8420259c-64c4-42bc-b842-d7dd0467d561 from image adt/ubuntu-plucky-arm64-server-20250315.img (UUID bd6e766c-b51f-4b53-86d6-23aa4d18f524)... 317s nova [W] Timed out waiting for 7b440e67-8986-4993-8d09-4bfc2d920542 to get deleted.