0s autopkgtest [03:39:55]: starting date and time: 2025-05-05 03:39:55+0000 0s autopkgtest [03:39:55]: git checkout: 9986aa8c Merge branch 'skia/fix_network_interface' into 'ubuntu/production' 0s autopkgtest [03:39:55]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.ozux9nh7/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:sqlite3 --apt-upgrade ncbi-blast+ --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=sqlite3/3.46.1-4 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-ppc64el --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@sto01-ppc64el-5.secgroup --name adt-questing-ppc64el-ncbi-blast+-20250505-033955-juju-7f2275-prod-proposed-migration-environment-15-0c3d319f-30c9-4859-b0fd-ecfc0eeb3b68 --image adt/ubuntu-questing-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-autopkgtest-workers-ppc64el -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 59s autopkgtest [03:40:54]: testbed dpkg architecture: ppc64el 59s autopkgtest [03:40:54]: testbed apt version: 3.0.0 60s autopkgtest [03:40:55]: @@@@@@@@@@@@@@@@@@@@ test bed setup 60s autopkgtest [03:40:55]: testbed release detected to be: None 61s autopkgtest [03:40:56]: updating testbed package index (apt update) 61s Get:1 http://ftpmaster.internal/ubuntu questing-proposed InRelease [110 kB] 61s Hit:2 http://ftpmaster.internal/ubuntu questing InRelease 61s Hit:3 http://ftpmaster.internal/ubuntu questing-updates InRelease 61s Hit:4 http://ftpmaster.internal/ubuntu questing-security InRelease 61s Get:5 http://ftpmaster.internal/ubuntu questing-proposed/multiverse Sources [31.7 kB] 61s Get:6 http://ftpmaster.internal/ubuntu questing-proposed/universe Sources [983 kB] 61s Get:7 http://ftpmaster.internal/ubuntu questing-proposed/main Sources [96.5 kB] 61s Get:8 http://ftpmaster.internal/ubuntu questing-proposed/main ppc64el Packages [130 kB] 61s Get:9 http://ftpmaster.internal/ubuntu questing-proposed/universe ppc64el Packages [938 kB] 61s Get:10 http://ftpmaster.internal/ubuntu questing-proposed/multiverse ppc64el Packages [18.6 kB] 61s Fetched 2307 kB in 0s (4657 kB/s) 62s Reading package lists... 63s autopkgtest [03:40:58]: upgrading testbed (apt dist-upgrade and autopurge) 63s Reading package lists... 63s Building dependency tree... 63s Reading state information... 63s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 63s Starting 2 pkgProblemResolver with broken count: 0 63s Done 64s Entering ResolveByKeep 64s 64s Calculating upgrade... 64s The following packages will be upgraded: 64s diffutils gettext-base libperl5.40 libsqlite3-0 perl perl-base 64s perl-modules-5.40 64s 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 64s Need to get 11.4 MB of archives. 64s After this operation, 65.5 kB disk space will be freed. 64s Get:1 http://ftpmaster.internal/ubuntu questing/main ppc64el diffutils ppc64el 1:3.10-4 [206 kB] 64s Get:2 http://ftpmaster.internal/ubuntu questing-proposed/main ppc64el libperl5.40 ppc64el 5.40.1-3 [4949 kB] 64s Get:3 http://ftpmaster.internal/ubuntu questing-proposed/main ppc64el perl ppc64el 5.40.1-3 [262 kB] 64s Get:4 http://ftpmaster.internal/ubuntu questing-proposed/main ppc64el perl-base ppc64el 5.40.1-3 [1923 kB] 64s Get:5 http://ftpmaster.internal/ubuntu questing-proposed/main ppc64el perl-modules-5.40 all 5.40.1-3 [3217 kB] 64s Get:6 http://ftpmaster.internal/ubuntu questing-proposed/main ppc64el libsqlite3-0 ppc64el 3.46.1-4 [805 kB] 64s Get:7 http://ftpmaster.internal/ubuntu questing/main ppc64el gettext-base ppc64el 0.23.1-2 [43.9 kB] 65s Fetched 11.4 MB in 1s (20.3 MB/s) 65s (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 ... 78710 files and directories currently installed.) 65s Preparing to unpack .../diffutils_1%3a3.10-4_ppc64el.deb ... 65s Unpacking diffutils (1:3.10-4) over (1:3.10-3) ... 65s Setting up diffutils (1:3.10-4) ... 65s (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 ... 78710 files and directories currently installed.) 65s Preparing to unpack .../libperl5.40_5.40.1-3_ppc64el.deb ... 65s Unpacking libperl5.40:ppc64el (5.40.1-3) over (5.40.1-2ubuntu0.1) ... 66s Preparing to unpack .../perl_5.40.1-3_ppc64el.deb ... 66s Unpacking perl (5.40.1-3) over (5.40.1-2ubuntu0.1) ... 66s Preparing to unpack .../perl-base_5.40.1-3_ppc64el.deb ... 66s Unpacking perl-base (5.40.1-3) over (5.40.1-2ubuntu0.1) ... 66s Setting up perl-base (5.40.1-3) ... 66s (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 ... 78710 files and directories currently installed.) 66s Preparing to unpack .../perl-modules-5.40_5.40.1-3_all.deb ... 66s Unpacking perl-modules-5.40 (5.40.1-3) over (5.40.1-2ubuntu0.1) ... 67s Preparing to unpack .../libsqlite3-0_3.46.1-4_ppc64el.deb ... 67s Unpacking libsqlite3-0:ppc64el (3.46.1-4) over (3.46.1-3) ... 67s Preparing to unpack .../gettext-base_0.23.1-2_ppc64el.deb ... 67s Unpacking gettext-base (0.23.1-2) over (0.23.1-1) ... 67s Setting up libsqlite3-0:ppc64el (3.46.1-4) ... 67s Setting up gettext-base (0.23.1-2) ... 67s Setting up perl-modules-5.40 (5.40.1-3) ... 67s Setting up libperl5.40:ppc64el (5.40.1-3) ... 67s Setting up perl (5.40.1-3) ... 67s Processing triggers for libc-bin (2.41-6ubuntu1) ... 68s Processing triggers for man-db (2.13.1-1) ... 69s Processing triggers for install-info (7.1.1-1) ... 69s Reading package lists... 69s Building dependency tree... 69s Reading state information... 70s Starting pkgProblemResolver with broken count: 0 70s Starting 2 pkgProblemResolver with broken count: 0 70s Done 70s Solving dependencies... 70s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 72s autopkgtest [03:41:07]: testbed running kernel: Linux 6.14.0-15-generic #15-Ubuntu SMP Sun Apr 6 14:52:42 UTC 2025 72s autopkgtest [03:41:07]: @@@@@@@@@@@@@@@@@@@@ apt-source ncbi-blast+ 74s Get:1 http://ftpmaster.internal/ubuntu questing/universe ncbi-blast+ 2.16.0+ds-6build1 (dsc) [2401 B] 74s Get:2 http://ftpmaster.internal/ubuntu questing/universe ncbi-blast+ 2.16.0+ds-6build1 (tar) [18.4 MB] 74s Get:3 http://ftpmaster.internal/ubuntu questing/universe ncbi-blast+ 2.16.0+ds-6build1 (diff) [40.8 kB] 75s gpgv: Signature made Thu Nov 21 15:47:04 2024 UTC 75s gpgv: using RSA key 4D0BE12F0E4776D8AACE9696E66C775AEBFE6C7D 75s gpgv: Can't check signature: No public key 75s dpkg-source: warning: cannot verify inline signature for ./ncbi-blast+_2.16.0+ds-6build1.dsc: no acceptable signature found 76s autopkgtest [03:41:11]: testing package ncbi-blast+ version 2.16.0+ds-6build1 76s autopkgtest [03:41:11]: build not needed 81s autopkgtest [03:41:16]: test run-unit-test: preparing testbed 82s Reading package lists... 82s Building dependency tree... 82s Reading state information... 82s Starting pkgProblemResolver with broken count: 0 82s Starting 2 pkgProblemResolver with broken count: 0 82s Done 82s The following NEW packages will be installed: 82s libgomp1 libmbedcrypto16 libmbedtls21 libmbedx509-7 ncbi-blast+ 82s ncbi-blast+-legacy ncbi-data 82s 0 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. 82s Need to get 20.7 MB of archives. 82s After this operation, 100 MB of additional disk space will be used. 82s Get:1 http://ftpmaster.internal/ubuntu questing/main ppc64el libgomp1 ppc64el 15-20250404-0ubuntu1 [168 kB] 82s Get:2 http://ftpmaster.internal/ubuntu questing/universe ppc64el libmbedcrypto16 ppc64el 3.6.2-3ubuntu1 [293 kB] 82s Get:3 http://ftpmaster.internal/ubuntu questing/universe ppc64el libmbedx509-7 ppc64el 3.6.2-3ubuntu1 [40.1 kB] 82s Get:4 http://ftpmaster.internal/ubuntu questing/universe ppc64el libmbedtls21 ppc64el 3.6.2-3ubuntu1 [135 kB] 82s Get:5 http://ftpmaster.internal/ubuntu questing/universe ppc64el ncbi-data all 6.1.20170106+dfsg2-5 [3966 kB] 83s Get:6 http://ftpmaster.internal/ubuntu questing/universe ppc64el ncbi-blast+ ppc64el 2.16.0+ds-6build1 [16.1 MB] 83s Get:7 http://ftpmaster.internal/ubuntu questing/universe ppc64el ncbi-blast+-legacy all 2.16.0+ds-6build1 [4984 B] 84s Fetched 20.7 MB in 1s (18.8 MB/s) 84s Selecting previously unselected package libgomp1:ppc64el. 84s (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 ... 78710 files and directories currently installed.) 84s Preparing to unpack .../0-libgomp1_15-20250404-0ubuntu1_ppc64el.deb ... 84s Unpacking libgomp1:ppc64el (15-20250404-0ubuntu1) ... 84s Selecting previously unselected package libmbedcrypto16:ppc64el. 84s Preparing to unpack .../1-libmbedcrypto16_3.6.2-3ubuntu1_ppc64el.deb ... 84s Unpacking libmbedcrypto16:ppc64el (3.6.2-3ubuntu1) ... 84s Selecting previously unselected package libmbedx509-7:ppc64el. 84s Preparing to unpack .../2-libmbedx509-7_3.6.2-3ubuntu1_ppc64el.deb ... 84s Unpacking libmbedx509-7:ppc64el (3.6.2-3ubuntu1) ... 84s Selecting previously unselected package libmbedtls21:ppc64el. 84s Preparing to unpack .../3-libmbedtls21_3.6.2-3ubuntu1_ppc64el.deb ... 84s Unpacking libmbedtls21:ppc64el (3.6.2-3ubuntu1) ... 84s Selecting previously unselected package ncbi-data. 84s Preparing to unpack .../4-ncbi-data_6.1.20170106+dfsg2-5_all.deb ... 84s Unpacking ncbi-data (6.1.20170106+dfsg2-5) ... 84s Selecting previously unselected package ncbi-blast+. 84s Preparing to unpack .../5-ncbi-blast+_2.16.0+ds-6build1_ppc64el.deb ... 84s Unpacking ncbi-blast+ (2.16.0+ds-6build1) ... 84s Selecting previously unselected package ncbi-blast+-legacy. 84s Preparing to unpack .../6-ncbi-blast+-legacy_2.16.0+ds-6build1_all.deb ... 84s Unpacking ncbi-blast+-legacy (2.16.0+ds-6build1) ... 84s Setting up ncbi-data (6.1.20170106+dfsg2-5) ... 84s Setting up libgomp1:ppc64el (15-20250404-0ubuntu1) ... 84s Setting up libmbedcrypto16:ppc64el (3.6.2-3ubuntu1) ... 84s Setting up libmbedx509-7:ppc64el (3.6.2-3ubuntu1) ... 84s Setting up libmbedtls21:ppc64el (3.6.2-3ubuntu1) ... 84s Setting up ncbi-blast+ (2.16.0+ds-6build1) ... 84s Setting up ncbi-blast+-legacy (2.16.0+ds-6build1) ... 84s Processing triggers for man-db (2.13.1-1) ... 84s Processing triggers for libc-bin (2.41-6ubuntu1) ... 85s autopkgtest [03:41:20]: test run-unit-test: [----------------------- 86s ---Creating Database-- 86s 86s 86s Building a new DB, current time: 05/05/2025 03:41:19 86s New DB name: /tmp/autopkgtest.T4BvYD/autopkgtest_tmp/testdb 86s New DB title: testdatabase.fa 86s Sequence type: Nucleotide 86s Keep MBits: T 86s Maximum file size: 3000000000B 86s Adding sequences from FASTA; added 3 sequences in 0.163595 seconds. 86s 86s 86s ---Searching Database for Hits--- 86s Warning: [blastn] Examining 5 or more matches is recommended 86s # BLASTN 2.16.0+ 86s # Query: gnl|MYDB|1 this is sequence 1 86s # Database: testdb 86s # Fields: query id, subject id, evalue, bit score 86s # 2 hits found 86s gnl|MYDB|1 gnl2 0.0 1299 86s gnl|MYDB|1 gnl1 0.0 1299 86s # BLAST processed 1 queries 86s ---Search and Fetch An Entry From Database--- 86s >gnl1 86s GAATTCCCGCTACAGGGGGGGCCTGAGGCACTGCAGAAAGTGGGCCTGAGCCTCGAGGATGACGGTGCTGCAGGAACCCG 86s TCCAGGCTGCTATATGGCAAGCACTAAACCACTATGCTTACCGAGATGCGGTTTTCCTCGCAGAACGCCTTTATGCAGAA 86s GTACACTCAGAAGAAGCCTTGTTTTTACTGGCAACCTGTTATTACCGCTCAGGAAAGGCATATAAAGCATATAGACTCTT 86s GAAAGGACACAGTTGTACTACACCGCAATGCAAATACCTGCTTGCAAAATGTTGTGTTGATCTCAGCAAGCTTGCAGAAG 86s GGGAACAAATCTTATCTGGTGGAGTGTTTAATAAGCAGAAAAGCCATGATGATATTGTTACTGAGTTTGGTGATTCAGCT 86s TGCTTTACTCTTTCATTGTTGGGACATGTATATTGCAAGACAGATCGGCTTGCCAAAGGATCAGAATGTTACCAAAAGAG 86s CCTTAGTTTAAATCCTTTCCTCTGGTCTCCCTTTGAATCATTATGTGAAATAGGTGAAAAGCCAGATCCTGACCAAACAT 86s TTAAATTCACATCTTTACAGAACTTTAGCAACTGTCTGCCCAACTCTTGCACAACACAAGTACCTAATCATAGTTTATCT 86s CACAGACAGCCTGAGACAGTTCTTACGGAAACACCCCAGGACACAATTGAATTAAACAGATTGAATTTAGAATCTTCCAA 86s PASS 86s autopkgtest [03:41:21]: test run-unit-test: -----------------------] 87s autopkgtest [03:41:22]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 87s run-unit-test PASS 87s autopkgtest [03:41:22]: @@@@@@@@@@@@@@@@@@@@ summary 87s run-unit-test PASS 102s nova [W] Using flock in prodstack7-ppc64el 102s Creating nova instance adt-questing-ppc64el-ncbi-blast+-20250505-033955-juju-7f2275-prod-proposed-migration-environment-15-0c3d319f-30c9-4859-b0fd-ecfc0eeb3b68 from image adt/ubuntu-questing-ppc64el-server-20250505.img (UUID 1f333b8a-0e22-4209-a8a8-539666d3d5e7)... 102s nova [W] Timed out waiting for fb86fab6-3e77-42b7-88e9-48d31eee771e to get deleted.