0s autopkgtest [17:39:51]: starting date and time: 2025-03-15 17:39:51+0000 1s autopkgtest [17:39:52]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 1s autopkgtest [17:39:52]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.l8rpz5j9/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade yaha --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-15@bos03-arm64-30.secgroup --name adt-plucky-arm64-yaha-20250315-173951-juju-7f2275-prod-proposed-migration-environment-15-ae0eddbe-8467-4328-bd60-b932968b2091 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --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/ 194s autopkgtest [17:43:05]: testbed dpkg architecture: arm64 197s autopkgtest [17:43:08]: testbed apt version: 2.9.33 205s autopkgtest [17:43:16]: @@@@@@@@@@@@@@@@@@@@ test bed setup 207s autopkgtest [17:43:18]: testbed release detected to be: None 211s autopkgtest [17:43:22]: updating testbed package index (apt update) 211s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 212s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 212s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 212s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 212s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 212s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 212s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 212s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [111 kB] 212s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 c-n-f Metadata [1856 B] 212s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 c-n-f Metadata [116 B] 212s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [324 kB] 212s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 c-n-f Metadata [14.7 kB] 212s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [4948 B] 212s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 c-n-f Metadata [268 B] 213s Fetched 1078 kB in 1s (878 kB/s) 213s Reading package lists... 214s + lsb_release --codename --short 214s + RELEASE=plucky 214s + cat 214s + [ plucky != trusty ] 214s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 215s Reading package lists... 215s Building dependency tree... 215s Reading state information... 215s Calculating upgrade... 216s Calculating upgrade... 216s The following packages will be upgraded: 216s pinentry-curses python3-jinja2 strace 216s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 216s Need to get 647 kB of archives. 216s After this operation, 11.3 kB of additional disk space will be used. 216s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 strace arm64 6.13+ds-1ubuntu1 [499 kB] 217s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 pinentry-curses arm64 1.3.1-2ubuntu3 [39.2 kB] 217s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 217s Fetched 647 kB in 1s (861 kB/s) 217s (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.) 217s Preparing to unpack .../strace_6.13+ds-1ubuntu1_arm64.deb ... 217s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 218s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_arm64.deb ... 218s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 218s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 218s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 218s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 218s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 218s Setting up strace (6.13+ds-1ubuntu1) ... 218s Processing triggers for man-db (2.13.0-1) ... 219s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 219s + /usr/lib/apt/apt-helper analyze-pattern ?true 219s + uname -r 219s + sed s/\./\\./g 219s + running_kernel_pattern=^linux-.*6\.14\.0-10-generic.* 219s + apt list ?obsolete 219s + tail -n+2 219s + cut+ -d/grep -v ^linux-.*6\.14\.0-10-generic.* 219s -f1 219s + obsolete_pkgs=linux-headers-6.11.0-8-generic 219s linux-headers-6.11.0-8 219s linux-image-6.11.0-8-generic 219s linux-modules-6.11.0-8-generic 219s linux-tools-6.11.0-8-generic 219s linux-tools-6.11.0-8 219s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove linux-headers-6.11.0-8-generic linux-headers-6.11.0-8 linux-image-6.11.0-8-generic linux-modules-6.11.0-8-generic linux-tools-6.11.0-8-generic linux-tools-6.11.0-8 219s Reading package lists... 219s Building dependency tree... 219s Reading state information... 219s Solving dependencies... 220s The following packages will be REMOVED: 220s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 220s libunwind8* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 220s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 220s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* 220s 0 upgraded, 0 newly installed, 11 to remove and 5 not upgraded. 220s After this operation, 267 MB disk space will be freed. 220s (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.) 220s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 220s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 220s Removing libpython3.12t64:arm64 (3.12.9-1) ... 220s Removing libpython3.12-stdlib:arm64 (3.12.9-1) ... 220s Removing libnsl2:arm64 (1.3.0-3build3) ... 220s Removing libpython3.12-minimal:arm64 (3.12.9-1) ... 220s Removing libunwind8:arm64 (1.6.2-3.1) ... 220s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 221s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 222s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 222s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic 222s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic 222s /etc/kernel/postrm.d/initramfs-tools: 222s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 223s /etc/kernel/postrm.d/zz-flash-kernel: 223s flash-kernel: Kernel 6.11.0-8-generic has been removed. 223s flash-kernel: A higher version (6.14.0-10-generic) is still installed, no reflashing required. 223s /etc/kernel/postrm.d/zz-update-grub: 223s Sourcing file `/etc/default/grub' 223s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 223s Generating grub configuration file ... 223s Found linux image: /boot/vmlinuz-6.14.0-10-generic 223s Found initrd image: /boot/initrd.img-6.14.0-10-generic 223s Warning: os-prober will not be executed to detect other bootable partitions. 223s Systems on them will not be added to the GRUB boot configuration. 223s Check GRUB_DISABLE_OS_PROBER documentation entry. 223s Adding boot menu entry for UEFI Firmware Settings ... 223s done 223s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 224s Processing triggers for libc-bin (2.41-1ubuntu1) ... 224s (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.) 224s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 224s Purging configuration files for libpython3.12-minimal:arm64 (3.12.9-1) ... 224s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 224s + grep -q trusty /etc/lsb-release 224s + [ ! -d /usr/share/doc/unattended-upgrades ] 224s + [ ! -d /usr/share/doc/lxd ] 224s + [ ! -d /usr/share/doc/lxd-client ] 224s + [ ! -d /usr/share/doc/snapd ] 224s + type iptables 224s + cat 224s + chmod 755 /etc/rc.local 224s + . /etc/rc.local 224s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 224s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 224s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 224s + uname -m 224s + [ aarch64 = ppc64le ] 224s + [ -d /run/systemd/system ] 224s + systemd-detect-virt --quiet --vm 224s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 224s + cat 224s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 224s + echo COMPRESS=lz4 224s autopkgtest [17:43:35]: upgrading testbed (apt dist-upgrade and autopurge) 227s Reading package lists... 227s Building dependency tree... 227s Reading state information... 228s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 228s Starting 2 pkgProblemResolver with broken count: 0 228s Done 228s Entering ResolveByKeep 229s 229s Calculating upgrade... 229s The following packages will be upgraded: 229s libc-bin libc-dev-bin libc6 libc6-dev locales 229s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 229s Need to get 9530 kB of archives. 229s After this operation, 0 B of additional disk space will be used. 229s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6-dev arm64 2.41-1ubuntu2 [1750 kB] 231s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-dev-bin arm64 2.41-1ubuntu2 [24.0 kB] 231s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6 arm64 2.41-1ubuntu2 [2910 kB] 233s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-bin arm64 2.41-1ubuntu2 [600 kB] 233s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 locales all 2.41-1ubuntu2 [4246 kB] 235s Preconfiguring packages ... 236s Fetched 9530 kB in 6s (1621 kB/s) 236s (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.) 236s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_arm64.deb ... 236s Unpacking libc6-dev:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 236s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_arm64.deb ... 236s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 236s Preparing to unpack .../libc6_2.41-1ubuntu2_arm64.deb ... 236s Unpacking libc6:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 236s Setting up libc6:arm64 (2.41-1ubuntu2) ... 236s (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.) 236s Preparing to unpack .../libc-bin_2.41-1ubuntu2_arm64.deb ... 236s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 236s Setting up libc-bin (2.41-1ubuntu2) ... 236s (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.) 237s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 237s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 237s Setting up locales (2.41-1ubuntu2) ... 237s Generating locales (this might take a while)... 239s en_US.UTF-8... done 239s Generation complete. 239s Setting up libc-dev-bin (2.41-1ubuntu2) ... 239s Setting up libc6-dev:arm64 (2.41-1ubuntu2) ... 239s Processing triggers for man-db (2.13.0-1) ... 240s Processing triggers for systemd (257.3-1ubuntu3) ... 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 Solving dependencies... 244s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 244s autopkgtest [17:43:55]: rebooting testbed after setup commands that affected boot 278s autopkgtest [17:44:29]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 15:45:31 UTC 2025 285s autopkgtest [17:44:36]: @@@@@@@@@@@@@@@@@@@@ apt-source yaha 340s Get:1 http://ftpmaster.internal/ubuntu plucky/universe yaha 0.1.83-3 (dsc) [1941 B] 340s Get:2 http://ftpmaster.internal/ubuntu plucky/universe yaha 0.1.83-3 (tar) [104 MB] 340s Get:3 http://ftpmaster.internal/ubuntu plucky/universe yaha 0.1.83-3 (diff) [5124 B] 340s gpgv: Signature made Sun Aug 15 17:24:36 2021 UTC 340s gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 340s gpgv: issuer "npatra974@gmail.com" 340s gpgv: Can't check signature: No public key 340s dpkg-source: warning: cannot verify inline signature for ./yaha_0.1.83-3.dsc: no acceptable signature found 341s autopkgtest [17:45:32]: testing package yaha version 0.1.83-3 342s autopkgtest [17:45:33]: build not needed 348s autopkgtest [17:45:39]: test run-unit-test: preparing testbed 348s Reading package lists... 348s Building dependency tree... 348s Reading state information... 349s Starting pkgProblemResolver with broken count: 0 349s Starting 2 pkgProblemResolver with broken count: 0 349s Done 349s The following NEW packages will be installed: 349s yaha 350s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 350s Need to get 40.0 kB of archives. 350s After this operation, 86.0 kB of additional disk space will be used. 350s Get:1 http://ftpmaster.internal/ubuntu plucky/universe arm64 yaha arm64 0.1.83-3 [40.0 kB] 350s Fetched 40.0 kB in 0s (155 kB/s) 350s Selecting previously unselected package yaha. 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 ... 81647 files and directories currently installed.) 350s Preparing to unpack .../yaha_0.1.83-3_arm64.deb ... 350s Unpacking yaha (0.1.83-3) ... 350s Setting up yaha (0.1.83-3) ... 350s Processing triggers for man-db (2.13.0-1) ... 353s autopkgtest [17:45:44]: test run-unit-test: [----------------------- 354s YAHA version 0.1.83 354s Compressing hg18L100E10Q100K.fasta into hg18L100E10Q100K.nib2. 354s Finished compressing hg18L100E10Q100K.nib2, now forming index. 354s Creating index file hg18L100E10Q100K.X13_13_10000S. 355s Randomly Sampling hits for 13-mers that occur more than 10000 times in the reference. 355s 0 13-mers had more than 10000 hits. 355s Index hg18L100E10Q100K.X13_13_10000S created. 355s Number of non-IO page faults: 200150, Number of IO page faults: 0. 355s Operation on hg18L100E10Q100K.nib2 used 0.502S User, 0.701S System, Total: 1.203S in 1S wall time. 355s YAHA version 0.1.83 366s Query setup and hashing took: 0.873S User CPU time (8.06%). 366s Sorting k-mers and forming fragments took: 0.357S User CPU time (3.29%). 366s Collecting fragments into clumps (using graph) took: 0.250S User CPU time (2.30%). 366s Aligning and scoring clumps took: 1.710S User CPU time (15.78%). 366s Filtering clumps took: 6.843S User CPU time (63.14%). 366s Printing clumps took: 0.805S User CPU time (7.43%). 366s Number of non-IO page faults: 8609, Number of IO page faults: 0. 366s Operation on hg18L100E05Q100K.fasta used 10.863S User, 0.435S System, Total: 11.297S in 11S wall time. 366s PASS Test 366s autopkgtest [17:45:57]: test run-unit-test: -----------------------] 367s autopkgtest [17:45:58]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 367s run-unit-test PASS 367s autopkgtest [17:45:58]: @@@@@@@@@@@@@@@@@@@@ summary 367s run-unit-test PASS 386s nova [W] Using flock in prodstack6-arm64 386s Creating nova instance adt-plucky-arm64-yaha-20250315-173951-juju-7f2275-prod-proposed-migration-environment-15-ae0eddbe-8467-4328-bd60-b932968b2091 from image adt/ubuntu-plucky-arm64-server-20250315.img (UUID bd6e766c-b51f-4b53-86d6-23aa4d18f524)... 386s nova [W] Timed out waiting for 5a32c2d3-86ba-434e-8e47-a7e388e2c504 to get deleted.