0s autopkgtest [08:45:26]: starting date and time: 2024-11-13 08:45:26+0000
  0s autopkgtest [08:45:26]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky
  0s autopkgtest [08:45:26]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.meypjt_5/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade libedlib --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-25.secgroup --name adt-plucky-amd64-libedlib-20241113-084526-juju-7f2275-prod-proposed-migration-environment-20-652c4899-5b33-45a1-aa9d-d6bb5059fe8a --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-amd64 -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'"'"'' --mirror=http://ftpmaster.internal/ubuntu/
 48s autopkgtest [08:46:14]: testbed dpkg architecture: amd64
 48s autopkgtest [08:46:14]: testbed apt version: 2.9.8
 48s autopkgtest [08:46:14]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 49s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB]
 50s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB]
 50s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB]
 50s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB]
 50s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B]
 50s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [111 kB]
 50s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [65.2 kB]
 50s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB]
 50s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [255 kB]
 50s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [637 kB]
 50s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [37.7 kB]
 50s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [13.0 kB]
 50s Fetched 2173 kB in 1s (2690 kB/s)
 50s Reading package lists...
 54s Reading package lists...
 54s Building dependency tree...
 54s Reading state information...
 55s Calculating upgrade...
 55s The following NEW packages will be installed:
 55s   python3.13-gdbm
 55s The following packages will be upgraded:
 55s   libgpgme11t64 libpython3-stdlib python3 python3-gdbm python3-minimal
 55s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
 55s Need to get 253 kB of archives.
 55s After this operation, 147 kB of additional disk space will be used.
 55s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-minimal amd64 3.12.7-1 [27.4 kB]
 55s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3 amd64 3.12.7-1 [24.0 kB]
 55s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libpython3-stdlib amd64 3.12.7-1 [10.0 kB]
 55s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.0-2 [31.3 kB]
 55s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 python3-gdbm amd64 3.12.7-1 [8642 B]
 55s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.23.2-5ubuntu4 [152 kB]
 56s Fetched 253 kB in 0s (564 kB/s)
 56s (Reading database ... 
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(Reading database ... 75541 files and directories currently installed.)
 56s Preparing to unpack .../python3-minimal_3.12.7-1_amd64.deb ...
 56s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ...
 56s Setting up python3-minimal (3.12.7-1) ...
 56s (Reading database ... 
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(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 75541 files and directories currently installed.)
 56s Preparing to unpack .../python3_3.12.7-1_amd64.deb ...
 56s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ...
 56s Preparing to unpack .../libpython3-stdlib_3.12.7-1_amd64.deb ...
 56s Unpacking libpython3-stdlib:amd64 (3.12.7-1) over (3.12.6-0ubuntu1) ...
 56s Selecting previously unselected package python3.13-gdbm.
 56s Preparing to unpack .../python3.13-gdbm_3.13.0-2_amd64.deb ...
 56s Unpacking python3.13-gdbm (3.13.0-2) ...
 56s Preparing to unpack .../python3-gdbm_3.12.7-1_amd64.deb ...
 56s Unpacking python3-gdbm:amd64 (3.12.7-1) over (3.12.6-1ubuntu1) ...
 56s Preparing to unpack .../libgpgme11t64_1.23.2-5ubuntu4_amd64.deb ...
 56s Unpacking libgpgme11t64:amd64 (1.23.2-5ubuntu4) over (1.18.0-4.1ubuntu4) ...
 56s Setting up libgpgme11t64:amd64 (1.23.2-5ubuntu4) ...
 56s Setting up python3.13-gdbm (3.13.0-2) ...
 56s Setting up libpython3-stdlib:amd64 (3.12.7-1) ...
 56s Setting up python3 (3.12.7-1) ...
 56s Setting up python3-gdbm:amd64 (3.12.7-1) ...
 56s Processing triggers for man-db (2.12.1-3) ...
 57s Processing triggers for libc-bin (2.40-1ubuntu3) ...
 57s Reading package lists...
 57s Building dependency tree...
 57s Reading state information...
 58s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 69s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease
 69s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
 69s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
 69s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
 70s Reading package lists...
 70s Reading package lists...
 70s Building dependency tree...
 70s Reading state information...
 71s Calculating upgrade...
 71s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 71s Reading package lists...
 71s Building dependency tree...
 71s Reading state information...
 71s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
144s autopkgtest [08:47:50]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024
144s autopkgtest [08:47:50]: @@@@@@@@@@@@@@@@@@@@ apt-source libedlib
153s Get:1 http://ftpmaster.internal/ubuntu plucky/universe libedlib 1.2.7-6 (dsc) [2389 B]
153s Get:2 http://ftpmaster.internal/ubuntu plucky/universe libedlib 1.2.7-6 (tar) [4319 kB]
153s Get:3 http://ftpmaster.internal/ubuntu plucky/universe libedlib 1.2.7-6 (diff) [7604 B]
153s gpgv: Signature made Sat Jul 13 18:52:01 2024 UTC
153s gpgv:                using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
153s gpgv:                issuer "emollier@debian.org"
153s gpgv: Can't check signature: No public key
153s dpkg-source: warning: cannot verify inline signature for ./libedlib_1.2.7-6.dsc: no acceptable signature found
153s autopkgtest [08:47:59]: testing package libedlib version 1.2.7-6
153s autopkgtest [08:47:59]: build not needed
155s autopkgtest [08:48:01]: test run-unit-test: preparing testbed
171s Reading package lists...
172s Building dependency tree...
172s Reading state information...
172s Starting pkgProblemResolver with broken count: 0
172s Starting 2 pkgProblemResolver with broken count: 0
172s Done
172s The following additional packages will be installed:
172s   edlib-aligner libedlib-dev libedlib1 python3-edlib
172s The following NEW packages will be installed:
172s   autopkgtest-satdep edlib-aligner libedlib-dev libedlib1 python3-edlib
172s 0 upgraded, 5 newly installed, 0 to remove and 0 not upgraded.
172s Need to get 131 kB/132 kB of archives.
172s After this operation, 383 kB of additional disk space will be used.
172s Get:1 /tmp/autopkgtest.aHJxf0/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [732 B]
173s Get:2 http://ftpmaster.internal/ubuntu plucky/universe amd64 libedlib1 amd64 1.2.7-6 [18.3 kB]
173s Get:3 http://ftpmaster.internal/ubuntu plucky/universe amd64 edlib-aligner amd64 1.2.7-6 [23.8 kB]
173s Get:4 http://ftpmaster.internal/ubuntu plucky/universe amd64 libedlib-dev amd64 1.2.7-6 [22.2 kB]
173s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-edlib amd64 1.2.7-6 [66.5 kB]
173s Fetched 131 kB in 0s (308 kB/s)
173s Selecting previously unselected package libedlib1:amd64.
173s (Reading database ... 
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(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 75548 files and directories currently installed.)
173s Preparing to unpack .../libedlib1_1.2.7-6_amd64.deb ...
173s Unpacking libedlib1:amd64 (1.2.7-6) ...
173s Selecting previously unselected package edlib-aligner.
173s Preparing to unpack .../edlib-aligner_1.2.7-6_amd64.deb ...
173s Unpacking edlib-aligner (1.2.7-6) ...
173s Selecting previously unselected package libedlib-dev:amd64.
173s Preparing to unpack .../libedlib-dev_1.2.7-6_amd64.deb ...
173s Unpacking libedlib-dev:amd64 (1.2.7-6) ...
173s Selecting previously unselected package python3-edlib:amd64.
173s Preparing to unpack .../python3-edlib_1.2.7-6_amd64.deb ...
173s Unpacking python3-edlib:amd64 (1.2.7-6) ...
173s Selecting previously unselected package autopkgtest-satdep.
173s Preparing to unpack .../1-autopkgtest-satdep.deb ...
173s Unpacking autopkgtest-satdep (0) ...
173s Setting up libedlib1:amd64 (1.2.7-6) ...
173s Setting up python3-edlib:amd64 (1.2.7-6) ...
173s Setting up edlib-aligner (1.2.7-6) ...
173s Setting up libedlib-dev:amd64 (1.2.7-6) ...
173s Setting up autopkgtest-satdep (0) ...
173s Processing triggers for man-db (2.12.1-3) ...
174s Processing triggers for libc-bin (2.40-1ubuntu3) ...
177s (Reading database ... 75584 files and directories currently installed.)
177s Removing autopkgtest-satdep (0) ...
178s autopkgtest [08:48:24]: test run-unit-test: [-----------------------
179s Using NW alignment mode.
179s Reading queries...
179s Read 1 queries, 110 residues total.
179s Reading target fasta file...
179s Read target, 109 residues.
179s 
179s Comparing queries to target...
179s 
179s Query #0 (110 residues): score = 17
179s T: MMEEERFAASADEIFHVTQEVC-RTASELTESESRNVIVDELFCVGVTEM (0 - 48)
179s    ||||||| |   |||||||||| |||||||||||||||||||||||||||
179s Q: MMEEERFKA---EIFHVTQEVCNRTASELTESESRNVIVDELFCVGVTEM (0 - 46)
179s 
179s T: VAEQIRVLAKDIEA---HA-RKTVQPQDVLDDLCCRRNEGL-EIINNF-K (49 - 92)
179s    | ||||||||||||   || ||||||||||  ||||||||| |||||| |
179s Q: VWEQIRVLAKDIEAFAEHAGRKTVQPQDVL--LCCRRNEGLYEIINNFHK (47 - 94)
179s 
179s T: AESIKSKKKKKE-STTB (93 - 108)
179s     ||||||||||| ||| 
179s Q: -ESIKSKKKKKENSTT- (94 - 109)
179s 
179s 
179s Cpu time of searching: 0.000079
179s autopkgtest [08:48:25]: test run-unit-test: -----------------------]
179s run-unit-test        PASS
179s autopkgtest [08:48:25]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
180s autopkgtest [08:48:26]: @@@@@@@@@@@@@@@@@@@@ summary
180s run-unit-test        PASS
194s nova [W] Skipping flock for amd64
194s Creating nova instance adt-plucky-amd64-libedlib-20241113-084526-juju-7f2275-prod-proposed-migration-environment-20-652c4899-5b33-45a1-aa9d-d6bb5059fe8a from image adt/ubuntu-plucky-amd64-server-20241113.img (UUID 62c21ac4-2290-4c8d-8313-dddd18eacff4)...