0s autopkgtest [09:31:25]: starting date and time: 2024-03-23 09:31:25+0000 0s autopkgtest [09:31:25]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [09:31:25]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.pek123i8/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-3@bos02-s390x-21.secgroup --name adt-noble-s390x-samblaster-20240323-093125-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-s390x-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/ 97s autopkgtest [09:33:02]: testbed dpkg architecture: s390x 97s autopkgtest [09:33:02]: testbed apt version: 2.7.12 97s autopkgtest [09:33:02]: @@@@@@@@@@@@@@@@@@@@ test bed setup 98s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 99s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 99s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [4029 kB] 99s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.9 kB] 99s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [494 kB] 99s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [651 kB] 99s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 99s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 99s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 99s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4144 kB] 100s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 100s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [46.8 kB] 100s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 102s Fetched 9558 kB in 3s (3563 kB/s) 102s Reading package lists... 105s Reading package lists... 105s Building dependency tree... 105s Reading state information... 105s Calculating upgrade... 105s The following packages will be REMOVED: 105s libssl3 105s The following NEW packages will be installed: 105s libssl3t64 105s The following packages have been kept back: 105s curl 105s The following packages will be upgraded: 105s libbsd0 libc-bin libc6 locales openssl 105s 5 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 105s Need to get 10.5 MB of archives. 105s After this operation, 241 kB of additional disk space will be used. 105s Get:1 http://ftpmaster.internal/ubuntu noble/main s390x libc6 s390x 2.39-0ubuntu6 [2847 kB] 106s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x libc-bin s390x 2.39-0ubuntu6 [654 kB] 106s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssl s390x 3.0.13-0ubuntu2 [1010 kB] 106s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl3t64 s390x 3.0.13-0ubuntu2 [1675 kB] 106s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libbsd0 s390x 0.12.1-1 [46.7 kB] 106s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x locales all 2.39-0ubuntu6 [4232 kB] 107s Preconfiguring packages ... 107s Fetched 10.5 MB in 1s (9926 kB/s) 107s (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 ... 52170 files and directories currently installed.) 107s Preparing to unpack .../libc6_2.39-0ubuntu6_s390x.deb ... 107s Unpacking libc6:s390x (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 107s Setting up libc6:s390x (2.39-0ubuntu6) ... 108s (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 ... 52170 files and directories currently installed.) 108s Preparing to unpack .../libc-bin_2.39-0ubuntu6_s390x.deb ... 108s Unpacking libc-bin (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 108s Setting up libc-bin (2.39-0ubuntu6) ... 108s (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 ... 52170 files and directories currently installed.) 108s Preparing to unpack .../openssl_3.0.13-0ubuntu2_s390x.deb ... 108s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 108s dpkg: libssl3:s390x: dependency problems, but removing anyway as you requested: 108s wget depends on libssl3 (>= 3.0.0). 108s tnftp depends on libssl3 (>= 3.0.0). 108s tcpdump depends on libssl3 (>= 3.0.0). 108s systemd-resolved depends on libssl3 (>= 3.0.0). 108s systemd depends on libssl3 (>= 3.0.0). 108s sudo depends on libssl3 (>= 3.0.0). 108s s390-tools depends on libssl3 (>= 3.0.0). 108s rsync depends on libssl3 (>= 3.0.0). 108s python3-cryptography depends on libssl3 (>= 3.0.0). 108s openssh-server depends on libssl3 (>= 3.0.10). 108s openssh-client depends on libssl3 (>= 3.0.10). 108s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 108s libsystemd-shared:s390x depends on libssl3 (>= 3.0.0). 108s libssh-4:s390x depends on libssl3 (>= 3.0.0). 108s libsasl2-modules:s390x depends on libssl3 (>= 3.0.0). 108s libsasl2-2:s390x depends on libssl3 (>= 3.0.0). 108s libpython3.12-minimal:s390x depends on libssl3 (>= 3.0.0). 108s libpython3.11-minimal:s390x depends on libssl3 (>= 3.0.0). 108s libnvme1 depends on libssl3 (>= 3.0.0). 108s libkrb5-3:s390x depends on libssl3 (>= 3.0.0). 108s libkmod2:s390x depends on libssl3 (>= 3.0.0). 108s libfido2-1:s390x depends on libssl3 (>= 3.0.0). 108s libcurl4:s390x depends on libssl3 (>= 3.0.0). 108s libcryptsetup12:s390x depends on libssl3 (>= 3.0.0). 108s kmod depends on libssl3 (>= 3.0.0). 108s dhcpcd-base depends on libssl3 (>= 3.0.0). 108s bind9-libs:s390x depends on libssl3 (>= 3.0.0). 108s 108s (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 ... 52170 files and directories currently installed.) 108s Removing libssl3:s390x (3.0.10-1ubuntu4) ... 108s Selecting previously unselected package libssl3t64:s390x. 108s (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 ... 52159 files and directories currently installed.) 108s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_s390x.deb ... 108s Unpacking libssl3t64:s390x (3.0.13-0ubuntu2) ... 108s Preparing to unpack .../libbsd0_0.12.1-1_s390x.deb ... 108s Unpacking libbsd0:s390x (0.12.1-1) over (0.11.8-1) ... 108s Preparing to unpack .../locales_2.39-0ubuntu6_all.deb ... 108s Unpacking locales (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 108s Setting up libssl3t64:s390x (3.0.13-0ubuntu2) ... 108s Setting up locales (2.39-0ubuntu6) ... 109s Generating locales (this might take a while)... 110s en_US.UTF-8... done 110s Generation complete. 110s Setting up openssl (3.0.13-0ubuntu2) ... 110s Setting up libbsd0:s390x (0.12.1-1) ... 110s Processing triggers for man-db (2.12.0-3) ... 111s Processing triggers for libc-bin (2.39-0ubuntu6) ... 111s Reading package lists... 111s Building dependency tree... 111s Reading state information... 111s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 112s Unknown architecture, assuming PC-style ttyS0 112s sh: Attempting to set up Debian/Ubuntu apt sources automatically 112s sh: Distribution appears to be Ubuntu 113s Reading package lists... 113s Building dependency tree... 113s Reading state information... 113s eatmydata is already the newest version (131-1). 113s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 113s Reading package lists... 113s Building dependency tree... 113s Reading state information... 114s dbus is already the newest version (1.14.10-4ubuntu1). 114s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 114s Reading package lists... 114s Building dependency tree... 114s Reading state information... 114s rng-tools-debian is already the newest version (2.4). 114s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 114s Reading package lists... 114s Building dependency tree... 114s Reading state information... 114s The following packages will be REMOVED: 114s cloud-init* python3-configobj* python3-debconf* 115s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 115s After this operation, 3256 kB disk space will be freed. 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 ... 52172 files and directories currently installed.) 115s Removing cloud-init (24.1.2-0ubuntu1) ... 115s Removing python3-configobj (5.0.8-3) ... 115s Removing python3-debconf (1.5.86) ... 115s Processing triggers for man-db (2.12.0-3) ... 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 ... 51783 files and directories currently installed.) 115s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 116s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 116s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 116s invoke-rc.d: policy-rc.d denied execution of try-restart. 116s Reading package lists... 116s Building dependency tree... 116s Reading state information... 117s linux-generic is already the newest version (6.8.0-11.11+1). 117s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 117s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 117s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 117s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 119s Reading package lists... 119s Reading package lists... 119s Building dependency tree... 119s Reading state information... 119s Calculating upgrade... 119s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 119s Reading package lists... 120s Building dependency tree... 120s Reading state information... 120s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 120s autopkgtest [09:33:25]: rebooting testbed after setup commands that affected boot 135s autopkgtest [09:33:40]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024 137s autopkgtest [09:33:42]: @@@@@@@@@@@@@@@@@@@@ apt-source samblaster 139s Get:1 http://ftpmaster.internal/ubuntu noble/universe samblaster 0.1.26-4 (dsc) [2029 B] 139s Get:2 http://ftpmaster.internal/ubuntu noble/universe samblaster 0.1.26-4 (tar) [133 kB] 139s Get:3 http://ftpmaster.internal/ubuntu noble/universe samblaster 0.1.26-4 (diff) [5256 B] 139s gpgv: Signature made Tue Dec 6 14:37:10 2022 UTC 139s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 139s gpgv: issuer "tille@debian.org" 139s gpgv: Can't check signature: No public key 139s dpkg-source: warning: cannot verify inline signature for ./samblaster_0.1.26-4.dsc: no acceptable signature found 139s autopkgtest [09:33:44]: testing package samblaster version 0.1.26-4 139s autopkgtest [09:33:44]: build not needed 140s autopkgtest [09:33:45]: test run-unit-test: preparing testbed 143s Reading package lists... 143s Building dependency tree... 143s Reading state information... 143s Starting pkgProblemResolver with broken count: 0 143s Starting 2 pkgProblemResolver with broken count: 0 143s Done 143s The following additional packages will be installed: 143s libdeflate0 libhts3 libhtscodecs2 samblaster samtools 143s Suggested packages: 143s cwltool 143s The following NEW packages will be installed: 143s autopkgtest-satdep libdeflate0 libhts3 libhtscodecs2 samblaster samtools 143s 0 upgraded, 6 newly installed, 0 to remove and 0 not upgraded. 143s Need to get 1233 kB/1233 kB of archives. 143s After this operation, 2847 kB of additional disk space will be used. 143s Get:1 /tmp/autopkgtest.Yxl7YS/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [712 B] 143s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB] 144s Get:3 http://ftpmaster.internal/ubuntu noble/universe s390x libhtscodecs2 s390x 1.6.0-1 [87.2 kB] 144s Get:4 http://ftpmaster.internal/ubuntu noble/universe s390x libhts3 s390x 1.18+ds-1 [463 kB] 144s Get:5 http://ftpmaster.internal/ubuntu noble/universe s390x samblaster s390x 0.1.26-4 [23.5 kB] 144s Get:6 http://ftpmaster.internal/ubuntu noble/universe s390x samtools s390x 1.19.2-1 [613 kB] 145s Fetched 1233 kB in 2s (817 kB/s) 145s Selecting previously unselected package libdeflate0:s390x. 145s (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 ... 51728 files and directories currently installed.) 145s Preparing to unpack .../0-libdeflate0_1.19-1_s390x.deb ... 145s Unpacking libdeflate0:s390x (1.19-1) ... 145s Selecting previously unselected package libhtscodecs2:s390x. 145s Preparing to unpack .../1-libhtscodecs2_1.6.0-1_s390x.deb ... 145s Unpacking libhtscodecs2:s390x (1.6.0-1) ... 145s Selecting previously unselected package libhts3:s390x. 145s Preparing to unpack .../2-libhts3_1.18+ds-1_s390x.deb ... 145s Unpacking libhts3:s390x (1.18+ds-1) ... 145s Selecting previously unselected package samblaster. 145s Preparing to unpack .../3-samblaster_0.1.26-4_s390x.deb ... 145s Unpacking samblaster (0.1.26-4) ... 145s Selecting previously unselected package samtools. 145s Preparing to unpack .../4-samtools_1.19.2-1_s390x.deb ... 145s Unpacking samtools (1.19.2-1) ... 145s Selecting previously unselected package autopkgtest-satdep. 145s Preparing to unpack .../5-1-autopkgtest-satdep.deb ... 145s Unpacking autopkgtest-satdep (0) ... 145s Setting up libhtscodecs2:s390x (1.6.0-1) ... 145s Setting up samblaster (0.1.26-4) ... 145s Setting up libdeflate0:s390x (1.19-1) ... 145s Setting up libhts3:s390x (1.18+ds-1) ... 145s Setting up samtools (1.19.2-1) ... 145s Setting up autopkgtest-satdep (0) ... 145s Processing triggers for man-db (2.12.0-3) ... 146s Processing triggers for libc-bin (2.39-0ubuntu6) ... 148s (Reading database ... 51843 files and directories currently installed.) 148s Removing autopkgtest-satdep (0) ... 148s autopkgtest [09:33:53]: test run-unit-test: [----------------------- 149s samblaster: Version 0.1.26 149s samblaster: Opening read.sam for read. 149s samblaster: Opening output for write. 149s samblaster: Loaded 2 header sequence entries. 149s Unknown opcode 'P' in CIGAR string: '1S2I6M1P1I1P1I4M2I' 149s Unknown opcode 'P' in CIGAR string: '1S2I6M1P1I1P1I4M2I' 149s samblaster: Found 2 of 12 (16.667%) total read ids are marked paired yet are unmated. 149s samblaster: Please double check that input file is read-id (QNAME) grouped. 149s samblaster: Marked 0 of 12 (0.000%) total read ids as duplicates using 3328k memory in 0.001S CPU seconds and 0S wall time. 149s PASS Test 149s autopkgtest [09:33:54]: test run-unit-test: -----------------------] 149s autopkgtest [09:33:54]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 149s run-unit-test PASS 150s autopkgtest [09:33:55]: @@@@@@@@@@@@@@@@@@@@ summary 150s run-unit-test PASS 160s Creating nova instance adt-noble-s390x-samblaster-20240323-093125-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-s390x-server-20240322.img (UUID c8671f9a-0e89-48e3-af4f-3c79b89294e8)...