0s autopkgtest [18:36:35]: starting date and time: 2024-03-18 18:36:35+0000 0s autopkgtest [18:36:35]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data 0s autopkgtest [18:36:35]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.hv02bs6d/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:ncbi-blast+,src:mbedtls --apt-upgrade kraken2 --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=ncbi-blast+/2.12.0+ds-4build1 mbedtls/2.28.7-1.1ubuntu1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos02-ppc64el-24.secgroup --name adt-noble-ppc64el-kraken2-20240318-183635-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --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/ 259s autopkgtest [18:40:54]: testbed dpkg architecture: ppc64el 259s autopkgtest [18:40:54]: testbed apt version: 2.7.12 259s autopkgtest [18:40:54]: @@@@@@@@@@@@@@@@@@@@ test bed setup 260s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 260s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [485 kB] 261s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3720 kB] 261s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 261s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [52.0 kB] 261s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [643 kB] 261s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 261s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 261s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 261s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [4012 kB] 261s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 261s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [48.4 kB] 261s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 265s Fetched 9098 kB in 2s (3862 kB/s) 265s Reading package lists... 268s Reading package lists... 268s Building dependency tree... 268s Reading state information... 268s Calculating upgrade... 268s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 268s Reading package lists... 268s Building dependency tree... 268s Reading state information... 268s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 269s sh: Attempting to set up Debian/Ubuntu apt sources automatically 269s sh: Distribution appears to be Ubuntu 270s Reading package lists... 270s Building dependency tree... 270s Reading state information... 270s eatmydata is already the newest version (131-1). 270s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 270s Reading package lists... 270s Building dependency tree... 270s Reading state information... 271s dbus is already the newest version (1.14.10-4ubuntu1). 271s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 271s Reading package lists... 271s Building dependency tree... 271s Reading state information... 271s rng-tools-debian is already the newest version (2.4). 271s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 271s Reading package lists... 271s Building dependency tree... 271s Reading state information... 271s The following packages will be REMOVED: 271s cloud-init* python3-configobj* python3-debconf* 272s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 272s After this operation, 3252 kB disk space will be freed. 272s (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 ... 70095 files and directories currently installed.) 272s Removing cloud-init (24.1.1-0ubuntu1) ... 272s Removing python3-configobj (5.0.8-3) ... 272s Removing python3-debconf (1.5.86) ... 273s Processing triggers for man-db (2.12.0-3) ... 273s (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 ... 69706 files and directories currently installed.) 273s Purging configuration files for cloud-init (24.1.1-0ubuntu1) ... 274s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 274s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 274s invoke-rc.d: policy-rc.d denied execution of try-restart. 274s Reading package lists... 274s Building dependency tree... 274s Reading state information... 274s linux-generic is already the newest version (6.8.0-11.11+1). 274s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 275s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 275s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 275s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 277s Reading package lists... 277s Reading package lists... 278s Building dependency tree... 278s Reading state information... 278s Calculating upgrade... 278s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 278s Reading package lists... 278s Building dependency tree... 278s Reading state information... 278s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 278s autopkgtest [18:41:13]: rebooting testbed after setup commands that affected boot 448s autopkgtest [18:44:03]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 450s autopkgtest [18:44:05]: @@@@@@@@@@@@@@@@@@@@ apt-source kraken2 452s Get:1 http://ftpmaster.internal/ubuntu noble/universe kraken2 2.1.3-1 (dsc) [1973 B] 452s Get:2 http://ftpmaster.internal/ubuntu noble/universe kraken2 2.1.3-1 (tar) [219 kB] 452s Get:3 http://ftpmaster.internal/ubuntu noble/universe kraken2 2.1.3-1 (diff) [339 kB] 452s gpgv: Signature made Tue Nov 28 19:25:57 2023 UTC 452s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 452s gpgv: issuer "tille@debian.org" 452s gpgv: Can't check signature: No public key 452s dpkg-source: warning: cannot verify inline signature for ./kraken2_2.1.3-1.dsc: no acceptable signature found 453s autopkgtest [18:44:08]: testing package kraken2 version 2.1.3-1 463s autopkgtest [18:44:18]: build not needed 475s autopkgtest [18:44:30]: test run-unit-test: preparing testbed 476s Reading package lists... 476s Building dependency tree... 476s Reading state information... 476s Starting pkgProblemResolver with broken count: 0 476s Starting 2 pkgProblemResolver with broken count: 0 476s Done 476s The following additional packages will be installed: 476s kraken2 libgomp1 libmbedcrypto7 libmbedtls14 libmbedx509-1 ncbi-blast+ 476s ncbi-data 476s The following NEW packages will be installed: 476s autopkgtest-satdep kraken2 libgomp1 libmbedcrypto7 libmbedtls14 476s libmbedx509-1 ncbi-blast+ ncbi-data 476s 0 upgraded, 8 newly installed, 0 to remove and 0 not upgraded. 476s Need to get 19.2 MB/19.2 MB of archives. 476s After this operation, 86.9 MB of additional disk space will be used. 476s Get:1 /tmp/autopkgtest.JdAEpu/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [708 B] 477s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libgomp1 ppc64el 14-20240303-1ubuntu1 [161 kB] 477s Get:3 http://ftpmaster.internal/ubuntu noble/universe ppc64el ncbi-data all 6.1.20170106+dfsg1-10 [4395 kB] 477s Get:4 http://ftpmaster.internal/ubuntu noble/universe ppc64el libmbedcrypto7 ppc64el 2.28.7-1ubuntu1 [262 kB] 477s Get:5 http://ftpmaster.internal/ubuntu noble/universe ppc64el libmbedx509-1 ppc64el 2.28.7-1ubuntu1 [51.4 kB] 477s Get:6 http://ftpmaster.internal/ubuntu noble/universe ppc64el libmbedtls14 ppc64el 2.28.7-1ubuntu1 [89.7 kB] 477s Get:7 http://ftpmaster.internal/ubuntu noble/universe ppc64el ncbi-blast+ ppc64el 2.12.0+ds-4 [13.4 MB] 478s Get:8 http://ftpmaster.internal/ubuntu noble/universe ppc64el kraken2 ppc64el 2.1.3-1 [872 kB] 478s Fetched 19.2 MB in 1s (14.9 MB/s) 478s Selecting previously unselected package libgomp1:ppc64el. 478s (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 ... 69651 files and directories currently installed.) 478s Preparing to unpack .../0-libgomp1_14-20240303-1ubuntu1_ppc64el.deb ... 478s Unpacking libgomp1:ppc64el (14-20240303-1ubuntu1) ... 478s Selecting previously unselected package ncbi-data. 478s Preparing to unpack .../1-ncbi-data_6.1.20170106+dfsg1-10_all.deb ... 478s Unpacking ncbi-data (6.1.20170106+dfsg1-10) ... 478s Selecting previously unselected package libmbedcrypto7:ppc64el. 478s Preparing to unpack .../2-libmbedcrypto7_2.28.7-1ubuntu1_ppc64el.deb ... 478s Unpacking libmbedcrypto7:ppc64el (2.28.7-1ubuntu1) ... 478s Selecting previously unselected package libmbedx509-1:ppc64el. 478s Preparing to unpack .../3-libmbedx509-1_2.28.7-1ubuntu1_ppc64el.deb ... 478s Unpacking libmbedx509-1:ppc64el (2.28.7-1ubuntu1) ... 478s Selecting previously unselected package libmbedtls14:ppc64el. 478s Preparing to unpack .../4-libmbedtls14_2.28.7-1ubuntu1_ppc64el.deb ... 478s Unpacking libmbedtls14:ppc64el (2.28.7-1ubuntu1) ... 478s Selecting previously unselected package ncbi-blast+. 478s Preparing to unpack .../5-ncbi-blast+_2.12.0+ds-4_ppc64el.deb ... 478s Unpacking ncbi-blast+ (2.12.0+ds-4) ... 479s Selecting previously unselected package kraken2. 479s Preparing to unpack .../6-kraken2_2.1.3-1_ppc64el.deb ... 479s Unpacking kraken2 (2.1.3-1) ... 479s Selecting previously unselected package autopkgtest-satdep. 479s Preparing to unpack .../7-1-autopkgtest-satdep.deb ... 479s Unpacking autopkgtest-satdep (0) ... 479s Setting up ncbi-data (6.1.20170106+dfsg1-10) ... 479s Setting up libgomp1:ppc64el (14-20240303-1ubuntu1) ... 479s Setting up libmbedcrypto7:ppc64el (2.28.7-1ubuntu1) ... 479s Setting up libmbedx509-1:ppc64el (2.28.7-1ubuntu1) ... 479s Setting up libmbedtls14:ppc64el (2.28.7-1ubuntu1) ... 479s Setting up ncbi-blast+ (2.12.0+ds-4) ... 479s Setting up kraken2 (2.1.3-1) ... 479s Setting up autopkgtest-satdep (0) ... 479s Processing triggers for man-db (2.12.0-3) ... 479s Processing triggers for libc-bin (2.39-0ubuntu2) ... 482s (Reading database ... 69973 files and directories currently installed.) 482s Removing autopkgtest-satdep (0) ... 482s autopkgtest [18:44:37]: test run-unit-test: [----------------------- 483s Masking low-complexity regions of new file... done. 483s Added "Acartia_tonsa.fasta" to library (test_db) 483s Masking low-complexity regions of new file... done. 483s Added "Acinetobacter_phage.fasta" to library (test_db) 483s autopkgtest [18:44:38]: test run-unit-test: -----------------------] 484s autopkgtest [18:44:39]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 484s run-unit-test PASS 484s autopkgtest [18:44:39]: @@@@@@@@@@@@@@@@@@@@ summary 484s run-unit-test PASS 512s Creating nova instance adt-noble-ppc64el-kraken2-20240318-183635-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-ppc64el-server-20240318.img (UUID 290ce4c5-ca44-4691-9a55-79589f8700e4)...