0s autopkgtest [18:21:57]: starting date and time: 2024-03-24 18:21:57+0000 0s autopkgtest [18:21:57]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [18:21:57]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.9lj73g4e/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:samtools,src:curl,src:gnutls28,src:htslib,src:libpsl,src:nettle,src:openssl --apt-upgrade samblaster --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=samtools/1.19.2-1build1 curl/8.5.0-2ubuntu7 gnutls28/3.8.3-1.1ubuntu2 htslib/1.19+ds-1.1build2 libpsl/0.21.2-1.1 nettle/3.9.1-2.2 openssl/3.0.13-0ubuntu2' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-arm64-11.secgroup --name adt-noble-arm64-samblaster-20240324-182157-juju-7f2275-prod-proposed-migration-environment-2 --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/ 97s autopkgtest [18:23:34]: testbed dpkg architecture: arm64 97s autopkgtest [18:23:34]: testbed apt version: 2.7.12 97s autopkgtest [18:23:34]: @@@@@@@@@@@@@@@@@@@@ test bed setup 98s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 99s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [57.3 kB] 99s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 99s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3986 kB] 99s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [496 kB] 99s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [710 kB] 99s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 99s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [33.7 kB] 99s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 99s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [4364 kB] 99s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 99s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [70.1 kB] 99s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 105s Fetched 9851 kB in 3s (3138 kB/s) 106s Reading package lists... 110s Reading package lists... 110s Building dependency tree... 110s Reading state information... 112s Calculating upgrade... 113s The following packages will be REMOVED: 113s libssl3 113s The following NEW packages will be installed: 113s libssl3t64 113s The following packages have been kept back: 113s curl 113s The following packages will be upgraded: 113s openssl 113s 1 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 113s Need to get 2777 kB of archives. 113s After this operation, 139 kB of additional disk space will be used. 113s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 openssl arm64 3.0.13-0ubuntu2 [985 kB] 113s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl3t64 arm64 3.0.13-0ubuntu2 [1793 kB] 114s Fetched 2777 kB in 1s (3939 kB/s) 114s (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 ... 75911 files and directories currently installed.) 114s Preparing to unpack .../openssl_3.0.13-0ubuntu2_arm64.deb ... 114s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 115s dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: 115s wget depends on libssl3 (>= 3.0.0). 115s u-boot-tools depends on libssl3 (>= 3.0.0). 115s tnftp depends on libssl3 (>= 3.0.0). 115s tcpdump depends on libssl3 (>= 3.0.0). 115s systemd-resolved depends on libssl3 (>= 3.0.0). 115s systemd depends on libssl3 (>= 3.0.0). 115s sudo depends on libssl3 (>= 3.0.0). 115s sbsigntool depends on libssl3 (>= 3.0.0). 115s rsync depends on libssl3 (>= 3.0.0). 115s python3-cryptography depends on libssl3 (>= 3.0.0). 115s openssh-server depends on libssl3 (>= 3.0.10). 115s openssh-client depends on libssl3 (>= 3.0.10). 115s mtd-utils depends on libssl3 (>= 3.0.0). 115s mokutil depends on libssl3 (>= 3.0.0). 115s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 115s libsystemd-shared:arm64 depends on libssl3 (>= 3.0.0). 115s libssh-4:arm64 depends on libssl3 (>= 3.0.0). 115s libsasl2-modules:arm64 depends on libssl3 (>= 3.0.0). 115s libsasl2-2:arm64 depends on libssl3 (>= 3.0.0). 115s libpython3.12-minimal:arm64 depends on libssl3 (>= 3.0.0). 115s libpython3.11-minimal:arm64 depends on libssl3 (>= 3.0.0). 115s libnvme1 depends on libssl3 (>= 3.0.0). 115s libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). 115s libkmod2:arm64 depends on libssl3 (>= 3.0.0). 115s libfido2-1:arm64 depends on libssl3 (>= 3.0.0). 115s libcurl4:arm64 depends on libssl3 (>= 3.0.0). 115s libcryptsetup12:arm64 depends on libssl3 (>= 3.0.0). 115s kmod depends on libssl3 (>= 3.0.0). 115s dhcpcd-base depends on libssl3 (>= 3.0.0). 115s bind9-libs:arm64 depends on libssl3 (>= 3.0.0). 115s 115s (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 ... 75911 files and directories currently installed.) 115s Removing libssl3:arm64 (3.0.10-1ubuntu4) ... 115s Selecting previously unselected package libssl3t64:arm64. 115s (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 ... 75900 files and directories currently installed.) 115s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_arm64.deb ... 115s Unpacking libssl3t64:arm64 (3.0.13-0ubuntu2) ... 115s Setting up libssl3t64:arm64 (3.0.13-0ubuntu2) ... 115s Setting up openssl (3.0.13-0ubuntu2) ... 115s Processing triggers for man-db (2.12.0-3) ... 116s Processing triggers for libc-bin (2.39-0ubuntu6) ... 117s Reading package lists... 117s Building dependency tree... 117s Reading state information... 119s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 120s sh: Attempting to set up Debian/Ubuntu apt sources automatically 120s sh: Distribution appears to be Ubuntu 122s Reading package lists... 122s Building dependency tree... 123s Reading state information... 124s eatmydata is already the newest version (131-1). 124s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 124s Reading package lists... 124s Building dependency tree... 124s Reading state information... 125s dbus is already the newest version (1.14.10-4ubuntu1). 125s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 126s Reading package lists... 126s Building dependency tree... 126s Reading state information... 127s rng-tools-debian is already the newest version (2.4). 127s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 127s Reading package lists... 128s Building dependency tree... 128s Reading state information... 129s The following packages will be REMOVED: 129s cloud-init* python3-configobj* python3-debconf* 130s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 130s After this operation, 3256 kB disk space will be freed. 130s (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 ... 75913 files and directories currently installed.) 130s Removing cloud-init (24.1.2-0ubuntu1) ... 131s Removing python3-configobj (5.0.8-3) ... 132s Removing python3-debconf (1.5.86) ... 132s Processing triggers for man-db (2.12.0-3) ... 132s (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 ... 75524 files and directories currently installed.) 132s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 134s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 134s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 134s invoke-rc.d: policy-rc.d denied execution of try-restart. 135s Reading package lists... 135s Building dependency tree... 135s Reading state information... 136s linux-generic is already the newest version (6.8.0-11.11+1). 136s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 137s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 137s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 137s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 143s Reading package lists... 143s Reading package lists... 143s Building dependency tree... 143s Reading state information... 144s Calculating upgrade... 145s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 145s Reading package lists... 146s Building dependency tree... 146s Reading state information... 147s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 148s autopkgtest [18:24:25]: rebooting testbed after setup commands that affected boot 306s autopkgtest [18:27:03]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 309s autopkgtest [18:27:06]: @@@@@@@@@@@@@@@@@@@@ apt-source samblaster 311s Get:1 http://ftpmaster.internal/ubuntu noble/universe samblaster 0.1.26-4 (dsc) [2029 B] 311s Get:2 http://ftpmaster.internal/ubuntu noble/universe samblaster 0.1.26-4 (tar) [133 kB] 311s Get:3 http://ftpmaster.internal/ubuntu noble/universe samblaster 0.1.26-4 (diff) [5256 B] 312s gpgv: Signature made Tue Dec 6 14:37:10 2022 UTC 312s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 312s gpgv: issuer "tille@debian.org" 312s gpgv: Can't check signature: No public key 312s dpkg-source: warning: cannot verify inline signature for ./samblaster_0.1.26-4.dsc: no acceptable signature found 312s autopkgtest [18:27:09]: testing package samblaster version 0.1.26-4 312s autopkgtest [18:27:09]: build not needed 312s autopkgtest [18:27:09]: test run-unit-test: preparing testbed 326s Reading package lists... 326s Building dependency tree... 326s Reading state information... 327s Starting pkgProblemResolver with broken count: 0 327s Starting 2 pkgProblemResolver with broken count: 0 327s Done 328s The following additional packages will be installed: 328s libdeflate0 libhts3 libhtscodecs2 samblaster samtools 328s Suggested packages: 328s cwltool 328s The following NEW packages will be installed: 328s autopkgtest-satdep libdeflate0 libhts3 libhtscodecs2 samblaster samtools 328s 0 upgraded, 6 newly installed, 0 to remove and 0 not upgraded. 328s Need to get 1152 kB/1152 kB of archives. 328s After this operation, 3191 kB of additional disk space will be used. 328s Get:1 /tmp/autopkgtest.R1UWS5/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [712 B] 329s Get:2 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB] 329s Get:3 http://ftpmaster.internal/ubuntu noble/universe arm64 libhtscodecs2 arm64 1.6.0-1 [78.1 kB] 329s Get:4 http://ftpmaster.internal/ubuntu noble/universe arm64 libhts3 arm64 1.18+ds-1 [422 kB] 329s Get:5 http://ftpmaster.internal/ubuntu noble/universe arm64 samblaster arm64 0.1.26-4 [23.7 kB] 329s Get:6 http://ftpmaster.internal/ubuntu noble/universe arm64 samtools arm64 1.19.2-1 [584 kB] 330s Fetched 1152 kB in 1s (1126 kB/s) 330s Selecting previously unselected package libdeflate0:arm64. 330s (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 ... 75469 files and directories currently installed.) 330s Preparing to unpack .../0-libdeflate0_1.19-1_arm64.deb ... 330s Unpacking libdeflate0:arm64 (1.19-1) ... 330s Selecting previously unselected package libhtscodecs2:arm64. 331s Preparing to unpack .../1-libhtscodecs2_1.6.0-1_arm64.deb ... 331s Unpacking libhtscodecs2:arm64 (1.6.0-1) ... 331s Selecting previously unselected package libhts3:arm64. 331s Preparing to unpack .../2-libhts3_1.18+ds-1_arm64.deb ... 331s Unpacking libhts3:arm64 (1.18+ds-1) ... 331s Selecting previously unselected package samblaster. 331s Preparing to unpack .../3-samblaster_0.1.26-4_arm64.deb ... 331s Unpacking samblaster (0.1.26-4) ... 331s Selecting previously unselected package samtools. 331s Preparing to unpack .../4-samtools_1.19.2-1_arm64.deb ... 331s Unpacking samtools (1.19.2-1) ... 331s Selecting previously unselected package autopkgtest-satdep. 331s Preparing to unpack .../5-1-autopkgtest-satdep.deb ... 331s Unpacking autopkgtest-satdep (0) ... 331s Setting up libhtscodecs2:arm64 (1.6.0-1) ... 331s Setting up samblaster (0.1.26-4) ... 331s Setting up libdeflate0:arm64 (1.19-1) ... 331s Setting up libhts3:arm64 (1.18+ds-1) ... 331s Setting up samtools (1.19.2-1) ... 331s Setting up autopkgtest-satdep (0) ... 331s Processing triggers for man-db (2.12.0-3) ... 332s Processing triggers for libc-bin (2.39-0ubuntu6) ... 337s (Reading database ... 75584 files and directories currently installed.) 337s Removing autopkgtest-satdep (0) ... 338s autopkgtest [18:27:35]: test run-unit-test: [----------------------- 338s samblaster: Version 0.1.26 338s samblaster: Opening read.sam for read. 338s samblaster: Opening output for write. 338s samblaster: Loaded 2 header sequence entries. 338s Unknown opcode 'P' in CIGAR string: '1S2I6M1P1I1P1I4M2I' 338s Unknown opcode 'P' in CIGAR string: '1S2I6M1P1I1P1I4M2I' 338s samblaster: Found 2 of 12 (16.667%) total read ids are marked paired yet are unmated. 338s samblaster: Please double check that input file is read-id (QNAME) grouped. 338s samblaster: Marked 0 of 12 (0.000%) total read ids as duplicates using 3072k memory in 0.000S CPU seconds and 0S wall time. 338s PASS Test 338s autopkgtest [18:27:35]: test run-unit-test: -----------------------] 339s run-unit-test PASS 339s autopkgtest [18:27:36]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 339s autopkgtest [18:27:36]: @@@@@@@@@@@@@@@@@@@@ summary 339s run-unit-test PASS 350s Creating nova instance adt-noble-arm64-samblaster-20240324-182157-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-arm64-server-20240324.img (UUID 86f9118c-691d-4fd3-ac71-bf5396ee0d8a)...