0s autopkgtest [01:26:28]: starting date and time: 2024-04-19 01:26:28+0000 0s autopkgtest [01:26:28]: git checkout: 43bc6cdf gitlab-ci: do not include the salsa pipeline 0s autopkgtest [01:26:28]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.g70a3qh6/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:gsl --apt-upgrade mash --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=gsl/2.7.1+dfsg-6ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-28.secgroup --name adt-noble-arm64-mash-20240419-012627-juju-7f2275-prod-proposed-migration-environment-2-6c6f051f-90e1-4225-bc39-8a8df94a0dc0 --image adt/ubuntu-noble-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,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 236s autopkgtest [01:30:24]: testbed dpkg architecture: arm64 236s autopkgtest [01:30:24]: testbed apt version: 2.7.14build2 236s autopkgtest [01:30:24]: @@@@@@@@@@@@@@@@@@@@ test bed setup 237s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 237s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [338 kB] 237s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [2340 B] 237s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [12.2 kB] 237s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [53.4 kB] 237s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [129 kB] 237s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 237s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [92.9 kB] 237s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 237s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [464 kB] 237s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 237s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 239s Fetched 1221 kB in 1s (1392 kB/s) 239s Reading package lists... 241s Setting LLMNR support level "yes" for "2", but the global support level is "no". 242s Reading package lists... 242s Building dependency tree... 242s Reading state information... 243s Calculating upgrade... 243s The following packages will be upgraded: 243s apport apport-core-dump-handler libkeyutils1 libnetplan1 libnuma1 libunwind8 243s make man-db netcat-openbsd netplan-generator netplan.io numactl 243s python3-apport python3-netplan python3-problem-report 243s 15 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 243s Need to get 2062 kB of archives. 243s After this operation, 1024 B of additional disk space will be used. 243s Get:1 http://ftpmaster.internal/ubuntu noble/main arm64 python3-problem-report all 2.28.1-0ubuntu1 [23.8 kB] 243s Get:2 http://ftpmaster.internal/ubuntu noble/main arm64 python3-apport all 2.28.1-0ubuntu1 [92.1 kB] 243s Get:3 http://ftpmaster.internal/ubuntu noble/main arm64 apport-core-dump-handler all 2.28.1-0ubuntu1 [16.8 kB] 243s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 apport all 2.28.1-0ubuntu1 [83.5 kB] 244s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 libkeyutils1 arm64 1.6.3-3build1 [9654 B] 244s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 netplan-generator arm64 1.0-2ubuntu1 [58.9 kB] 244s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 python3-netplan arm64 1.0-2ubuntu1 [21.5 kB] 244s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 netplan.io arm64 1.0-2ubuntu1 [65.8 kB] 244s Get:9 http://ftpmaster.internal/ubuntu noble/main arm64 libnetplan1 arm64 1.0-2ubuntu1 [119 kB] 244s Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 netcat-openbsd arm64 1.226-1ubuntu2 [43.8 kB] 244s Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 libnuma1 arm64 2.0.18-1build1 [23.6 kB] 244s Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 man-db arm64 2.12.0-4build2 [1232 kB] 244s Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 libunwind8 arm64 1.6.2-3build1 [53.5 kB] 244s Get:14 http://ftpmaster.internal/ubuntu noble/main arm64 make arm64 4.3-4.1build2 [178 kB] 244s Get:15 http://ftpmaster.internal/ubuntu noble/main arm64 numactl arm64 2.0.18-1build1 [39.5 kB] 244s Preconfiguring packages ... 244s Fetched 2062 kB in 1s (3042 kB/s) 245s (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 ... 112118 files and directories currently installed.) 245s Preparing to unpack .../00-python3-problem-report_2.28.1-0ubuntu1_all.deb ... 245s Unpacking python3-problem-report (2.28.1-0ubuntu1) over (2.28.0-0ubuntu1) ... 245s Preparing to unpack .../01-python3-apport_2.28.1-0ubuntu1_all.deb ... 245s Unpacking python3-apport (2.28.1-0ubuntu1) over (2.28.0-0ubuntu1) ... 245s Preparing to unpack .../02-apport-core-dump-handler_2.28.1-0ubuntu1_all.deb ... 245s Unpacking apport-core-dump-handler (2.28.1-0ubuntu1) over (2.28.0-0ubuntu1) ... 245s Preparing to unpack .../03-apport_2.28.1-0ubuntu1_all.deb ... 245s Unpacking apport (2.28.1-0ubuntu1) over (2.28.0-0ubuntu1) ... 245s Preparing to unpack .../04-libkeyutils1_1.6.3-3build1_arm64.deb ... 245s Unpacking libkeyutils1:arm64 (1.6.3-3build1) over (1.6.3-3) ... 245s Preparing to unpack .../05-netplan-generator_1.0-2ubuntu1_arm64.deb ... 245s Adding 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 245s Unpacking netplan-generator (1.0-2ubuntu1) over (1.0-2build1) ... 245s Preparing to unpack .../06-python3-netplan_1.0-2ubuntu1_arm64.deb ... 245s Unpacking python3-netplan (1.0-2ubuntu1) over (1.0-2build1) ... 245s Preparing to unpack .../07-netplan.io_1.0-2ubuntu1_arm64.deb ... 245s Unpacking netplan.io (1.0-2ubuntu1) over (1.0-2build1) ... 245s Preparing to unpack .../08-libnetplan1_1.0-2ubuntu1_arm64.deb ... 245s Unpacking libnetplan1:arm64 (1.0-2ubuntu1) over (1.0-2build1) ... 245s Preparing to unpack .../09-netcat-openbsd_1.226-1ubuntu2_arm64.deb ... 245s Unpacking netcat-openbsd (1.226-1ubuntu2) over (1.226-1ubuntu1) ... 246s Preparing to unpack .../10-libnuma1_2.0.18-1build1_arm64.deb ... 246s Unpacking libnuma1:arm64 (2.0.18-1build1) over (2.0.18-1) ... 246s Preparing to unpack .../11-man-db_2.12.0-4build2_arm64.deb ... 246s Unpacking man-db (2.12.0-4build2) over (2.12.0-4build1) ... 246s Preparing to unpack .../12-libunwind8_1.6.2-3build1_arm64.deb ... 246s Unpacking libunwind8:arm64 (1.6.2-3build1) over (1.6.2-3) ... 246s Preparing to unpack .../13-make_4.3-4.1build2_arm64.deb ... 246s Unpacking make (4.3-4.1build2) over (4.3-4.1build1) ... 246s Preparing to unpack .../14-numactl_2.0.18-1build1_arm64.deb ... 246s Unpacking numactl (2.0.18-1build1) over (2.0.18-1) ... 246s Setting up libkeyutils1:arm64 (1.6.3-3build1) ... 246s Setting up python3-problem-report (2.28.1-0ubuntu1) ... 246s Setting up netcat-openbsd (1.226-1ubuntu2) ... 246s Setting up libnetplan1:arm64 (1.0-2ubuntu1) ... 246s Setting up man-db (2.12.0-4build2) ... 246s Updating database of manual pages ... 248s man-db.service is a disabled or a static unit not running, not starting it. 248s Setting up libunwind8:arm64 (1.6.2-3build1) ... 248s Setting up python3-apport (2.28.1-0ubuntu1) ... 249s Setting up make (4.3-4.1build2) ... 249s Setting up libnuma1:arm64 (2.0.18-1build1) ... 249s Setting up python3-netplan (1.0-2ubuntu1) ... 249s Setting up netplan-generator (1.0-2ubuntu1) ... 249s Removing 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 249s Setting up numactl (2.0.18-1build1) ... 249s Setting up netplan.io (1.0-2ubuntu1) ... 249s Setting up apport-core-dump-handler (2.28.1-0ubuntu1) ... 250s Setting up apport (2.28.1-0ubuntu1) ... 250s Installing new version of config file /etc/apport/crashdb.conf ... 251s apport-autoreport.service is a disabled or a static unit not running, not starting it. 251s Processing triggers for dbus (1.14.10-4ubuntu4) ... 251s Processing triggers for libc-bin (2.39-0ubuntu8) ... 252s Reading package lists... 252s Building dependency tree... 252s Reading state information... 253s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 254s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 254s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 254s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 254s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease 256s Reading package lists... 256s Reading package lists... 256s Building dependency tree... 256s Reading state information... 257s Calculating upgrade... 257s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 257s Reading package lists... 257s Building dependency tree... 257s Reading state information... 258s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 259s autopkgtest [01:30:47]: rebooting testbed after setup commands that affected boot 297s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 304s autopkgtest [01:31:32]: testbed running kernel: Linux 6.8.0-22-generic #22-Ubuntu SMP PREEMPT_DYNAMIC Fri Apr 5 02:52:09 UTC 2024 308s autopkgtest [01:31:36]: @@@@@@@@@@@@@@@@@@@@ apt-source mash 313s Get:1 http://ftpmaster.internal/ubuntu noble/universe mash 2.3+dfsg-6 (dsc) [2376 B] 313s Get:2 http://ftpmaster.internal/ubuntu noble/universe mash 2.3+dfsg-6 (tar) [3449 kB] 313s Get:3 http://ftpmaster.internal/ubuntu noble/universe mash 2.3+dfsg-6 (diff) [2158 kB] 313s gpgv: Signature made Mon Dec 18 21:52:17 2023 UTC 313s gpgv: using RSA key 5B34BA5AAB5507E903426E85E8D37AE2F09F4872 313s gpgv: Can't check signature: No public key 313s dpkg-source: warning: cannot verify inline signature for ./mash_2.3+dfsg-6.dsc: no acceptable signature found 314s autopkgtest [01:31:42]: testing package mash version 2.3+dfsg-6 315s autopkgtest [01:31:43]: build not needed 316s autopkgtest [01:31:44]: test run-example: preparing testbed 318s Reading package lists... 318s Building dependency tree... 318s Reading state information... 318s Starting pkgProblemResolver with broken count: 0 319s Starting 2 pkgProblemResolver with broken count: 0 319s Done 319s The following additional packages will be installed: 319s libcapnp-1.0.1 libgsl27 libgslcblas0 libmurmurhash2 mash 319s Suggested packages: 319s gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html 319s The following NEW packages will be installed: 319s autopkgtest-satdep libcapnp-1.0.1 libgsl27 libgslcblas0 libmurmurhash2 mash 319s 0 upgraded, 6 newly installed, 0 to remove and 0 not upgraded. 319s Need to get 2468 kB/2468 kB of archives. 319s After this operation, 8533 kB of additional disk space will be used. 319s Get:1 /tmp/autopkgtest.s6AloC/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [700 B] 319s Get:2 http://ftpmaster.internal/ubuntu noble/universe arm64 libcapnp-1.0.1 arm64 1.0.1-3 [1326 kB] 320s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libgslcblas0 arm64 2.7.1+dfsg-6ubuntu2 [72.8 kB] 320s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libgsl27 arm64 2.7.1+dfsg-6ubuntu2 [918 kB] 320s Get:5 http://ftpmaster.internal/ubuntu noble/universe arm64 libmurmurhash2 arm64 1.6-1 [6098 B] 320s Get:6 http://ftpmaster.internal/ubuntu noble/universe arm64 mash arm64 2.3+dfsg-6 [145 kB] 321s Fetched 2468 kB in 1s (3167 kB/s) 321s Selecting previously unselected package libcapnp-1.0.1:arm64. 321s (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 ... 112117 files and directories currently installed.) 321s Preparing to unpack .../0-libcapnp-1.0.1_1.0.1-3_arm64.deb ... 321s Unpacking libcapnp-1.0.1:arm64 (1.0.1-3) ... 321s Selecting previously unselected package libgslcblas0:arm64. 321s Preparing to unpack .../1-libgslcblas0_2.7.1+dfsg-6ubuntu2_arm64.deb ... 321s Unpacking libgslcblas0:arm64 (2.7.1+dfsg-6ubuntu2) ... 321s Selecting previously unselected package libgsl27:arm64. 321s Preparing to unpack .../2-libgsl27_2.7.1+dfsg-6ubuntu2_arm64.deb ... 321s Unpacking libgsl27:arm64 (2.7.1+dfsg-6ubuntu2) ... 321s Selecting previously unselected package libmurmurhash2:arm64. 322s Preparing to unpack .../3-libmurmurhash2_1.6-1_arm64.deb ... 322s Unpacking libmurmurhash2:arm64 (1.6-1) ... 322s Selecting previously unselected package mash. 322s Preparing to unpack .../4-mash_2.3+dfsg-6_arm64.deb ... 322s Unpacking mash (2.3+dfsg-6) ... 322s Selecting previously unselected package autopkgtest-satdep. 322s Preparing to unpack .../5-1-autopkgtest-satdep.deb ... 322s Unpacking autopkgtest-satdep (0) ... 322s Setting up libgslcblas0:arm64 (2.7.1+dfsg-6ubuntu2) ... 322s Setting up libmurmurhash2:arm64 (1.6-1) ... 322s Setting up libcapnp-1.0.1:arm64 (1.0.1-3) ... 322s Setting up libgsl27:arm64 (2.7.1+dfsg-6ubuntu2) ... 322s Setting up mash (2.3+dfsg-6) ... 322s Setting up autopkgtest-satdep (0) ... 322s Processing triggers for man-db (2.12.0-4build2) ... 322s Processing triggers for libc-bin (2.39-0ubuntu8) ... 326s (Reading database ... 112165 files and directories currently installed.) 326s Removing autopkgtest-satdep (0) ... 327s autopkgtest [01:31:55]: test run-example: [----------------------- 327s genome1.fna 327s genome2.fna 327s genome3.fna 328s Sketching genome1.fna (provide sketch file made with "mash sketch" to skip)...done. 328s genome1.fna genome2.fna 0.0222766 0 456/1000 328s Sketching genome1.fna... 328s Writing to genome1.fna.msh... 328s Sketching genome2.fna... 328s Writing to genome2.fna.msh... 328s genome1.fna genome2.fna 0.0222766 0 456/1000 328s Sketching genome1.fna... 328s Sketching genome2.fna... 329s Writing to reference.msh... 329s Header: 329s Hash function (seed): MurmurHash3_x64_128 (42) 329s K-mer size: 21 (64-bit hashes) 329s Alphabet: ACGT (canonical) 329s Target min-hashes per sketch: 1000 329s Sketches: 2 329s 329s Sketches: 329s [Hashes] [Length] [ID] [Comment] 329s 329s 1000 4639675 genome1.fna gi|49175990|ref|NC_000913.2| Escherichia coli str. K-12 substr. MG1655, complete genome 329s 329s 1000 5498450 genome2.fna gi|47118301|dbj|BA000007.2| Escherichia coli O157:H7 str. Sakai DNA, complete genome 329s 329s genome1.fna genome3.fna 0 0 1000/1000 329s genome2.fna genome3.fna 0.0222766 0 456/1000 329s autopkgtest [01:31:57]: test run-example: -----------------------] 330s run-example PASS 330s autopkgtest [01:31:58]: test run-example: - - - - - - - - - - results - - - - - - - - - - 330s autopkgtest [01:31:58]: @@@@@@@@@@@@@@@@@@@@ summary 330s run-example PASS 342s Creating nova instance adt-noble-arm64-mash-20240419-012627-juju-7f2275-prod-proposed-migration-environment-2-6c6f051f-90e1-4225-bc39-8a8df94a0dc0 from image adt/ubuntu-noble-arm64-server-20240418.img (UUID c141647a-22ea-481a-97c5-a98894f31daa)...