0s autopkgtest [17:29:46]: starting date and time: 2025-03-15 17:29:46+0000 1s autopkgtest [17:29:47]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 1s autopkgtest [17:29:47]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.o5f5bjsb/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade wham-align --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-arm64-9.secgroup --name adt-plucky-arm64-wham-align-20250315-172946-juju-7f2275-prod-proposed-migration-environment-15-96dc4142-cbed-494e-9fe7-9cb88d83a5a6 --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/ 150s autopkgtest [17:32:16]: testbed dpkg architecture: arm64 151s autopkgtest [17:32:17]: testbed apt version: 2.9.33 151s autopkgtest [17:32:17]: @@@@@@@@@@@@@@@@@@@@ test bed setup 151s autopkgtest [17:32:17]: testbed release detected to be: None 152s autopkgtest [17:32:18]: updating testbed package index (apt update) 153s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 153s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 153s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 153s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 153s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 154s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 154s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 154s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [111 kB] 154s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 c-n-f Metadata [1856 B] 154s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 c-n-f Metadata [116 B] 154s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [324 kB] 155s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 c-n-f Metadata [14.7 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 [268 B] 155s Fetched 1078 kB in 2s (552 kB/s) 156s Reading package lists... 157s + lsb_release --codename --short 157s + RELEASE=plucky 157s + cat 157s + [ plucky != trusty ] 157s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 157s Reading package lists... 158s Building dependency tree... 158s Reading state information... 159s Calculating upgrade... 159s Calculating upgrade... 160s The following packages will be upgraded: 160s pinentry-curses python3-jinja2 strace 160s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 160s Need to get 647 kB of archives. 160s After this operation, 11.3 kB of additional disk space will be used. 160s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 strace arm64 6.13+ds-1ubuntu1 [499 kB] 161s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 pinentry-curses arm64 1.3.1-2ubuntu3 [39.2 kB] 161s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 161s Fetched 647 kB in 1s (708 kB/s) 162s (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.) 162s Preparing to unpack .../strace_6.13+ds-1ubuntu1_arm64.deb ... 162s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 162s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_arm64.deb ... 162s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 162s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 162s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 162s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 162s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 162s Setting up strace (6.13+ds-1ubuntu1) ... 162s Processing triggers for man-db (2.13.0-1) ... 163s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 163s + /usr/lib/apt/apt-helper analyze-pattern ?true 163s + uname -r 163s + sed s/\./\\./g 163s + running_kernel_pattern=^linux-.*6\.14\.0-10-generic.* 163s + tail -n+2 163s + apt list ?obsolete 163s + cut -d/ -f1 163s + grep -v ^linux-.*6\.14\.0-10-generic.* 164s + obsolete_pkgs=linux-headers-6.11.0-8-generic 164s linux-headers-6.11.0-8 164s linux-image-6.11.0-8-generic 164s linux-modules-6.11.0-8-generic 164s linux-tools-6.11.0-8-generic 164s linux-tools-6.11.0-8 164s + 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 164s Reading package lists... 164s Building dependency tree... 164s Reading state information... 165s Solving dependencies... 166s The following packages will be REMOVED: 166s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 166s libunwind8* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 166s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 166s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* 166s 0 upgraded, 0 newly installed, 11 to remove and 5 not upgraded. 166s After this operation, 267 MB disk space will be freed. 166s (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.) 166s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 166s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 166s Removing libpython3.12t64:arm64 (3.12.9-1) ... 166s Removing libpython3.12-stdlib:arm64 (3.12.9-1) ... 166s Removing libnsl2:arm64 (1.3.0-3build3) ... 166s Removing libpython3.12-minimal:arm64 (3.12.9-1) ... 166s Removing libunwind8:arm64 (1.6.2-3.1) ... 166s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 167s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 169s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 169s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic 169s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic 169s /etc/kernel/postrm.d/initramfs-tools: 169s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 169s /etc/kernel/postrm.d/zz-flash-kernel: 169s flash-kernel: Kernel 6.11.0-8-generic has been removed. 169s flash-kernel: A higher version (6.14.0-10-generic) is still installed, no reflashing required. 170s /etc/kernel/postrm.d/zz-update-grub: 170s Sourcing file `/etc/default/grub' 170s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 170s Generating grub configuration file ... 170s Found linux image: /boot/vmlinuz-6.14.0-10-generic 170s Found initrd image: /boot/initrd.img-6.14.0-10-generic 170s Warning: os-prober will not be executed to detect other bootable partitions. 170s Systems on them will not be added to the GRUB boot configuration. 170s Check GRUB_DISABLE_OS_PROBER documentation entry. 170s Adding boot menu entry for UEFI Firmware Settings ... 170s done 170s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 170s Processing triggers for libc-bin (2.41-1ubuntu1) ... 170s (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.) 170s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 170s Purging configuration files for libpython3.12-minimal:arm64 (3.12.9-1) ... 170s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 171s + grep -q trusty /etc/lsb-release 171s + [ ! -d /usr/share/doc/unattended-upgrades ] 171s + [ ! -d /usr/share/doc/lxd ] 171s + [ ! -d /usr/share/doc/lxd-client ] 171s + [ ! -d /usr/share/doc/snapd ] 171s + type iptables 171s + cat 171s + chmod 755 /etc/rc.local 171s + . /etc/rc.local 171s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 171s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 171s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 171s + uname -m 171s + [ aarch64 = ppc64le ] 171s + [ -d /run/systemd/system ] 171s + systemd-detect-virt --quiet --vm 171s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 171s + cat 171s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 171s + echo COMPRESS=lz4 171s autopkgtest [17:32:37]: upgrading testbed (apt dist-upgrade and autopurge) 171s Reading package lists... 172s Building dependency tree... 172s Reading state information... 172s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 173s Starting 2 pkgProblemResolver with broken count: 0 173s Done 173s Entering ResolveByKeep 174s 174s Calculating upgrade... 174s The following packages will be upgraded: 174s libc-bin libc-dev-bin libc6 libc6-dev locales 174s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 174s Need to get 9530 kB of archives. 174s After this operation, 0 B of additional disk space will be used. 174s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6-dev arm64 2.41-1ubuntu2 [1750 kB] 178s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-dev-bin arm64 2.41-1ubuntu2 [24.0 kB] 178s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6 arm64 2.41-1ubuntu2 [2910 kB] 180s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-bin arm64 2.41-1ubuntu2 [600 kB] 180s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 locales all 2.41-1ubuntu2 [4246 kB] 185s Preconfiguring packages ... 185s Fetched 9530 kB in 10s (953 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 ... 81647 files and directories currently installed.) 185s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_arm64.deb ... 185s Unpacking libc6-dev:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 185s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_arm64.deb ... 185s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 185s Preparing to unpack .../libc6_2.41-1ubuntu2_arm64.deb ... 185s Unpacking libc6:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 185s Setting up libc6:arm64 (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 ... 81647 files and directories currently installed.) 186s Preparing to unpack .../libc-bin_2.41-1ubuntu2_arm64.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 ... 81647 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) ... 187s Generating locales (this might take a while)... 189s en_US.UTF-8... done 189s Generation complete. 189s Setting up libc-dev-bin (2.41-1ubuntu2) ... 189s Setting up libc6-dev:arm64 (2.41-1ubuntu2) ... 189s Processing triggers for man-db (2.13.0-1) ... 190s Processing triggers for systemd (257.3-1ubuntu3) ... 191s Reading package lists... 191s Building dependency tree... 191s Reading state information... 191s Starting pkgProblemResolver with broken count: 0 191s Starting 2 pkgProblemResolver with broken count: 0 191s Done 192s Solving dependencies... 192s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 193s autopkgtest [17:32:59]: rebooting testbed after setup commands that affected boot 217s autopkgtest [17:33:23]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 15:45:31 UTC 2025 221s autopkgtest [17:33:27]: @@@@@@@@@@@@@@@@@@@@ apt-source wham-align 223s Get:1 http://ftpmaster.internal/ubuntu plucky/universe wham-align 0.1.5-8 (dsc) [1987 B] 223s Get:2 http://ftpmaster.internal/ubuntu plucky/universe wham-align 0.1.5-8 (tar) [120 kB] 223s Get:3 http://ftpmaster.internal/ubuntu plucky/universe wham-align 0.1.5-8 (diff) [7760 B] 224s gpgv: Signature made Fri Feb 19 07:13:34 2021 UTC 224s gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 224s gpgv: issuer "npatra974@gmail.com" 224s gpgv: Can't check signature: No public key 224s dpkg-source: warning: cannot verify inline signature for ./wham-align_0.1.5-8.dsc: no acceptable signature found 224s autopkgtest [17:33:30]: testing package wham-align version 0.1.5-8 225s autopkgtest [17:33:31]: build not needed 225s autopkgtest [17:33:31]: test run-unit-test: preparing testbed 225s Reading package lists... 226s Building dependency tree... 226s Reading state information... 226s Starting pkgProblemResolver with broken count: 0 226s Starting 2 pkgProblemResolver with broken count: 0 226s Done 227s The following NEW packages will be installed: 227s wham-align 227s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 227s Need to get 155 kB of archives. 227s After this operation, 524 kB of additional disk space will be used. 227s Get:1 http://ftpmaster.internal/ubuntu plucky/universe arm64 wham-align arm64 0.1.5-8 [155 kB] 228s Fetched 155 kB in 0s (353 kB/s) 228s Selecting previously unselected package wham-align. 228s (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.) 228s Preparing to unpack .../wham-align_0.1.5-8_arm64.deb ... 228s Unpacking wham-align (0.1.5-8) ... 228s Setting up wham-align (0.1.5-8) ... 228s Processing triggers for man-db (2.13.0-1) ... 230s autopkgtest [17:33:36]: test run-unit-test: [----------------------- 230s .: 230s reads 230s ref 230s sequences 230s 230s ./reads: 230s sample.fq 230s sample_pair_1.fq 230s sample_pair_2.fq 230s 230s ./ref: 230s README.test_data 230s output1 230s output2 230s output3 230s output4 230s output5 230s output6 230s output7 230s 230s ./sequences: 230s chr1_100k.fa 230s Test 1 230s length: 60, #mismatch: 2, #partition: 0 230s loading reference sequences... 230s Preprocessing reference sequences... 230s preprocessing sequences/chr1_100k.fa... 230s 230s loading reference sequences... 230s [ ] 0% ] 1% ] 2%# ] 3%# ] 4%## ] 5%## ] 6%## ] 7%### ] 8%### ] 9%#### ] 10%#### ] 11%#### ] 12%##### ] 13%##### ] 14%###### ] 15%###### ] 16%###### ] 17%####### ] 18%####### ] 19%######## ] 20%######## ] 21%######## ] 22%######### ] 23%######### ] 24%########## ] 25%########## ] 26%########## ] 27%########### ] 28%########### ] 29%############ ] 30%############ ] 31%############ ] 32%############# ] 33%############# ] 34%############## ] 35%############## ] 36%############## ] 37%############### ] 38%############### ] 39%################ ] 40%################ ] 41%################ ] 42%################# ] 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the reference sequences... 230s optimizer chooses 3 fragments 230s building WHAM index... 230s preprocessing... 230s [ ] 0% ] 1% ] 2%# ] 3%# ] 4%## ] 5%## ] 6%## ] 7%### ] 8%### ] 9%#### ] 10%#### ] 11%#### ] 12%##### ] 13%##### ] 14%###### ] 15%###### ] 16%###### ] 17%####### ] 18%####### ] 19%######## ] 20%######## ] 21%######## ] 22%######### ] 23%######### ] 24%########## ] 25%########## ] 26%########## ] 27%########### ] 28%########### ] 29%############ ] 30%############ ] 31%############ ] 32%############# ] 33%############# ] 34%############## ] 35%############## ] 36%############## ] 37%############### ] 38%############### ] 39%################ ] 40%################ ] 41%################ ] 42%################# ] 43%################# ] 44%################## ] 45%################## ] 46%################## ] 47%################### ] 48%################### ] 49%#################### ] 50%#################### ] 51%#################### ] 52%##################### ] 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92%##################################### ] 93%##################################### ] 94%###################################### ] 95%###################################### ] 96%###################################### ] 97%####################################### ] 98%####################################### ] 99%########################################] 100% 230s saving... 230s building time: 0.024546 sec 230s Complete. 230s Passed 230s 230s Test 2 230s loading short reads... 230s loading WHAM indexes... 230s loading time: 0 sec 230s align reads using indexes... 230s [ ] 0%########## ] 25%#################### ] 50%############################## ] 75%########################################] 100% 230s 230s *************************** 230s Total Align Time: 0.000216 sec 230s Valid Reads: 3/5=60.00% 230s Valid Alignments: 3 230s *************************** 230s 230s see output1 for all valid alignments. 230s Passed 230s 230s Test 3 230s loading short reads... 230s loading WHAM indexes... 230s loading time: 0 sec 230s align reads using indexes... 230s [ ] 0%########## ] 25%#################### ] 50%############################## ] 75%########################################] 100% 230s 230s *************************** 230s Total Align Time: 0.000321 sec 230s Valid Reads: 3/5=60.00% 230s Valid Alignments: 9 230s *************************** 230s 230s see output2 for all valid alignments. 230s Passed 230s 230s Test 4 230s loading short reads... 230s loading WHAM indexes... 230s loading time: 0 sec 230s align reads using indexes... 230s [ ] 0%########## ] 25%#################### ] 50%############################## ] 75%########################################] 100% 230s 230s *************************** 230s Total Align Time: 0.000287 sec 230s Valid Reads: 2/5=40.00% 230s Valid Alignments: 3 230s *************************** 230s 230s see output3 for all valid alignments. 230s Passed 230s 230s Test 5 230s loading short reads... 230s loading WHAM indexes... 230s loading time: 0 sec 230s align reads using indexes... 230s [ ] 0%########## ] 25%#################### ] 50%############################## ] 75%########################################] 100% 230s 230s *************************** 230s Total Align Time: 0.000166 sec 230s Valid Reads: 4/5=80.00% 230s Valid Alignments: 4 230s *************************** 230s 230s see output4 for all valid alignments. 230s Passed 230s 230s Test 6 230s loading short reads... 230s loading WHAM indexes... 230s loading time: 0 sec 230s align reads using indexes... 230s [ ] 0%########## ] 25%#################### ] 50%############################## ] 75%########################################] 100% 230s 230s *************************** 230s Total Align Time: 0.000141 sec 230s Valid Reads: 0/5=0.00% 230s Valid Alignments: 0 230s *************************** 230s 230s see output5 for all valid alignments. 230s Passed 230s 230s Test 7 230s loading short reads... 230s loading WHAM indexes... 230s loading time: 0 sec 230s align reads using indexes... 230s [ ] 0%########## ] 25%#################### ] 50%############################## ] 75%########################################] 100% 230s 230s *************************** 230s Total Align Time: 0.000178 sec 230s Valid Reads: 3/5=60.00% 230s Valid Alignments: 3 230s *************************** 230s 230s see output6 for all valid alignments. 230s Passed 230s 230s Test 8 230s loading short reads... 230s loading WHAM indexes... 230s loading time: 0 sec 230s align reads using indexes... 230s [ ] 0% 230s 230s Thread 0: Valid Reads: 1/1, Valid Alignments: 1 230s Thread 1: Valid Reads: 1/1, Valid Alignments: 1 230s Thread 2: Valid Reads: 1/1, Valid Alignments: 1 230s Thread 3: Valid Reads: 0/1, Valid Alignments: 0 230s Thread 4: Valid Reads: 0/1, Valid Alignments: 0 230s Thread 5: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 6: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 7: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 8: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 9: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 10: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 11: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 12: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 13: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 14: Valid Reads: 0/0, Valid Alignments: 0 230s Thread 15: Valid Reads: 0/0, Valid Alignments: 0 230s collect results... 230s 230s *************************** 230s Total Align Time: 0.001090 sec 230s Valid Reads: 3/5=60.00% 230s Valid Alignments: 3 230s *************************** 230s 230s see output7 for all valid alignments. 230s Passed 230s 230s autopkgtest [17:33:36]: test run-unit-test: -----------------------] 231s run-unit-test PASS 231s autopkgtest [17:33:37]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 231s autopkgtest [17:33:37]: @@@@@@@@@@@@@@@@@@@@ summary 231s run-unit-test PASS 251s nova [W] Using flock in prodstack6-arm64 251s Creating nova instance adt-plucky-arm64-wham-align-20250315-172946-juju-7f2275-prod-proposed-migration-environment-15-96dc4142-cbed-494e-9fe7-9cb88d83a5a6 from image adt/ubuntu-plucky-arm64-server-20250315.img (UUID bd6e766c-b51f-4b53-86d6-23aa4d18f524)... 251s nova [W] Timed out waiting for d653a129-2442-48ca-917b-04f93a7d115e to get deleted.