0s autopkgtest [09:27:49]: starting date and time: 2024-03-23 09:27:49+0000 0s autopkgtest [09:27:49]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [09:27:49]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.p5tja67l/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 hisat2 --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-s390x-19.secgroup --name adt-noble-s390x-hisat2-20240323-092748-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-s390x-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/ 143s autopkgtest [09:30:12]: testbed dpkg architecture: s390x 143s autopkgtest [09:30:12]: testbed apt version: 2.7.12 143s autopkgtest [09:30:12]: @@@@@@@@@@@@@@@@@@@@ test bed setup 144s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 145s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [494 kB] 145s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.9 kB] 145s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3972 kB] 145s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 145s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [651 kB] 145s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 145s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 145s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 145s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4148 kB] 146s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 146s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [46.8 kB] 146s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 147s Fetched 9504 kB in 2s (3966 kB/s) 148s Reading package lists... 150s Reading package lists... 151s Building dependency tree... 151s Reading state information... 151s Calculating upgrade... 151s The following packages will be REMOVED: 151s libssl3 151s The following NEW packages will be installed: 151s libssl3t64 151s The following packages have been kept back: 151s curl 151s The following packages will be upgraded: 151s libbsd0 libc-bin libc6 locales openssl 151s 5 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 151s Need to get 10.5 MB of archives. 151s After this operation, 241 kB of additional disk space will be used. 151s Get:1 http://ftpmaster.internal/ubuntu noble/main s390x libc6 s390x 2.39-0ubuntu6 [2847 kB] 152s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x libc-bin s390x 2.39-0ubuntu6 [654 kB] 153s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssl s390x 3.0.13-0ubuntu2 [1010 kB] 153s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl3t64 s390x 3.0.13-0ubuntu2 [1675 kB] 153s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libbsd0 s390x 0.12.1-1 [46.7 kB] 153s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x locales all 2.39-0ubuntu6 [4232 kB] 154s Preconfiguring packages ... 154s Fetched 10.5 MB in 3s (3912 kB/s) 154s (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.) 154s Preparing to unpack .../libc6_2.39-0ubuntu6_s390x.deb ... 154s Unpacking libc6:s390x (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 155s Setting up libc6:s390x (2.39-0ubuntu6) ... 155s (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.) 155s Preparing to unpack .../libc-bin_2.39-0ubuntu6_s390x.deb ... 155s Unpacking libc-bin (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 155s Setting up libc-bin (2.39-0ubuntu6) ... 155s (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.) 155s Preparing to unpack .../openssl_3.0.13-0ubuntu2_s390x.deb ... 155s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 156s dpkg: libssl3:s390x: dependency problems, but removing anyway as you requested: 156s wget depends on libssl3 (>= 3.0.0). 156s tnftp depends on libssl3 (>= 3.0.0). 156s tcpdump depends on libssl3 (>= 3.0.0). 156s systemd-resolved depends on libssl3 (>= 3.0.0). 156s systemd depends on libssl3 (>= 3.0.0). 156s sudo depends on libssl3 (>= 3.0.0). 156s s390-tools depends on libssl3 (>= 3.0.0). 156s rsync depends on libssl3 (>= 3.0.0). 156s python3-cryptography depends on libssl3 (>= 3.0.0). 156s openssh-server depends on libssl3 (>= 3.0.10). 156s openssh-client depends on libssl3 (>= 3.0.10). 156s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 156s libsystemd-shared:s390x depends on libssl3 (>= 3.0.0). 156s libssh-4:s390x depends on libssl3 (>= 3.0.0). 156s libsasl2-modules:s390x depends on libssl3 (>= 3.0.0). 156s libsasl2-2:s390x depends on libssl3 (>= 3.0.0). 156s libpython3.12-minimal:s390x depends on libssl3 (>= 3.0.0). 156s libpython3.11-minimal:s390x depends on libssl3 (>= 3.0.0). 156s libnvme1 depends on libssl3 (>= 3.0.0). 156s libkrb5-3:s390x depends on libssl3 (>= 3.0.0). 156s libkmod2:s390x depends on libssl3 (>= 3.0.0). 156s libfido2-1:s390x depends on libssl3 (>= 3.0.0). 156s libcurl4:s390x depends on libssl3 (>= 3.0.0). 156s libcryptsetup12:s390x depends on libssl3 (>= 3.0.0). 156s kmod depends on libssl3 (>= 3.0.0). 156s dhcpcd-base depends on libssl3 (>= 3.0.0). 156s bind9-libs:s390x depends on libssl3 (>= 3.0.0). 156s 156s (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.) 156s Removing libssl3:s390x (3.0.10-1ubuntu4) ... 156s Selecting previously unselected package libssl3t64:s390x. 156s (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.) 156s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_s390x.deb ... 156s Unpacking libssl3t64:s390x (3.0.13-0ubuntu2) ... 156s Preparing to unpack .../libbsd0_0.12.1-1_s390x.deb ... 156s Unpacking libbsd0:s390x (0.12.1-1) over (0.11.8-1) ... 156s Preparing to unpack .../locales_2.39-0ubuntu6_all.deb ... 156s Unpacking locales (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 156s Setting up libssl3t64:s390x (3.0.13-0ubuntu2) ... 156s Setting up locales (2.39-0ubuntu6) ... 156s Generating locales (this might take a while)... 158s en_US.UTF-8... done 158s Generation complete. 158s Setting up openssl (3.0.13-0ubuntu2) ... 158s Setting up libbsd0:s390x (0.12.1-1) ... 158s Processing triggers for man-db (2.12.0-3) ... 159s Processing triggers for libc-bin (2.39-0ubuntu6) ... 159s Reading package lists... 159s Building dependency tree... 159s Reading state information... 159s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 160s Unknown architecture, assuming PC-style ttyS0 160s sh: Attempting to set up Debian/Ubuntu apt sources automatically 160s sh: Distribution appears to be Ubuntu 161s Reading package lists... 161s Building dependency tree... 161s Reading state information... 161s eatmydata is already the newest version (131-1). 161s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 161s Reading package lists... 161s Building dependency tree... 161s Reading state information... 161s dbus is already the newest version (1.14.10-4ubuntu1). 161s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 161s Reading package lists... 161s Building dependency tree... 161s Reading state information... 162s rng-tools-debian is already the newest version (2.4). 162s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 162s Reading package lists... 162s Building dependency tree... 162s Reading state information... 162s The following packages will be REMOVED: 162s cloud-init* python3-configobj* python3-debconf* 162s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 162s After this operation, 3256 kB disk space will be freed. 162s (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.) 162s Removing cloud-init (24.1.2-0ubuntu1) ... 163s Removing python3-configobj (5.0.8-3) ... 163s Removing python3-debconf (1.5.86) ... 163s Processing triggers for man-db (2.12.0-3) ... 163s (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.) 163s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 164s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 164s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 164s invoke-rc.d: policy-rc.d denied execution of try-restart. 164s Reading package lists... 164s Building dependency tree... 164s Reading state information... 164s linux-generic is already the newest version (6.8.0-11.11+1). 164s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 165s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 165s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 165s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 166s Reading package lists... 167s Reading package lists... 167s Building dependency tree... 167s Reading state information... 167s Calculating upgrade... 167s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 167s Reading package lists... 167s Building dependency tree... 167s Reading state information... 167s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 167s autopkgtest [09:30:36]: rebooting testbed after setup commands that affected boot 184s autopkgtest [09:30:53]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024 187s autopkgtest [09:30:56]: @@@@@@@@@@@@@@@@@@@@ apt-source hisat2 190s Get:1 http://ftpmaster.internal/ubuntu noble/universe hisat2 2.2.1-4 (dsc) [2129 B] 190s Get:2 http://ftpmaster.internal/ubuntu noble/universe hisat2 2.2.1-4 (tar) [6761 kB] 190s Get:3 http://ftpmaster.internal/ubuntu noble/universe hisat2 2.2.1-4 (diff) [29.1 kB] 190s gpgv: Signature made Fri Oct 14 18:23:54 2022 UTC 190s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 190s gpgv: issuer "tille@debian.org" 190s gpgv: Can't check signature: No public key 190s dpkg-source: warning: cannot verify inline signature for ./hisat2_2.2.1-4.dsc: no acceptable signature found 190s autopkgtest [09:30:59]: testing package hisat2 version 2.2.1-4 191s autopkgtest [09:31:00]: build not needed 192s autopkgtest [09:31:01]: test run-unit-tests: preparing testbed 193s Reading package lists... 193s Building dependency tree... 193s Reading state information... 193s Starting pkgProblemResolver with broken count: 1 193s Starting 2 pkgProblemResolver with broken count: 1 193s Investigating (0) autopkgtest-satdep:s390x < none -> 0 @un puN Ib > 193s Broken autopkgtest-satdep:s390x Depends on hisat2:s390x < none | 2.2.1-4 @un uH > 193s Considering hisat2:s390x 1 as a solution to autopkgtest-satdep:s390x 9998 193s Re-Instated hisat2:s390x 193s Broken autopkgtest-satdep:s390x Depends on python3-hisat2:s390x < none | 2.2.1-4 @un uH > 193s Considering python3-hisat2:s390x 1 as a solution to autopkgtest-satdep:s390x 9998 193s Re-Instated python3-hisat2:s390x 193s Broken autopkgtest-satdep:s390x Depends on samtools:s390x < none | 1.19.2-1 @un uH > 193s Considering samtools:s390x 1 as a solution to autopkgtest-satdep:s390x 9998 193s Re-Instated libdeflate0:s390x 193s Re-Instated libhtscodecs2:s390x 193s Re-Instated libhts3:s390x 193s Re-Instated samtools:s390x 193s Broken autopkgtest-satdep:s390x Depends on bcftools:s390x < none @un H > 193s Done 193s Some packages could not be installed. This may mean that you have 193s requested an impossible situation or if you are using the unstable 193s distribution that some required packages have not yet been created 193s or been moved out of Incoming. 193s The following information may help to resolve the situation: 193s 193s The following packages have unmet dependencies: 193s autopkgtest-satdep : Depends: bcftools but it is not installable 193s E: Unable to correct problems, you have held broken packages. 193s autopkgtest: WARNING: Test dependencies are unsatisfiable with using apt pinning. Retrying with using all packages from noble-proposed 194s Reading package lists... 194s Building dependency tree... 194s Reading state information... 194s Starting pkgProblemResolver with broken count: 1 194s Starting 2 pkgProblemResolver with broken count: 1 194s Investigating (0) autopkgtest-satdep:s390x < none -> 0 @un puN Ib > 194s Broken autopkgtest-satdep:s390x Depends on hisat2:s390x < none | 2.2.1-4 @un uH > 194s Considering hisat2:s390x 1 as a solution to autopkgtest-satdep:s390x 9998 194s Re-Instated hisat2:s390x 194s Broken autopkgtest-satdep:s390x Depends on python3-hisat2:s390x < none | 2.2.1-4 @un uH > 194s Considering python3-hisat2:s390x 1 as a solution to autopkgtest-satdep:s390x 9998 194s Re-Instated python3-hisat2:s390x 194s Broken autopkgtest-satdep:s390x Depends on samtools:s390x < none | 1.19.2-1 @un uH > 194s Considering samtools:s390x 1 as a solution to autopkgtest-satdep:s390x 9998 194s Re-Instated libdeflate0:s390x 194s Re-Instated libhtscodecs2:s390x 194s Re-Instated libhts3:s390x 194s Re-Instated samtools:s390x 194s Broken autopkgtest-satdep:s390x Depends on bcftools:s390x < none @un H > 194s Done 194s Some packages could not be installed. This may mean that you have 194s requested an impossible situation or if you are using the unstable 194s distribution that some required packages have not yet been created 194s or been moved out of Incoming. 194s The following information may help to resolve the situation: 194s 194s The following packages have unmet dependencies: 195s autopkgtest-satdep : Depends: bcftools but it is not installable 195s E: Unable to correct problems, you have held broken packages. 195s autopkgtest: WARNING: Test dependencies are unsatisfiable - calling apt install on test deps directly for further data about failing dependencies in test logs 195s Reading package lists... 195s Building dependency tree... 195s Reading state information... 195s Package bcftools is not available, but is referred to by another package. 195s This may mean that the package is missing, has been obsoleted, or 195s is only available from another source 195s 195s E: Package 'bcftools' has no installation candidate 195s run-unit-tests FAIL badpkg 195s blame: hisat2 195s badpkg: Test dependencies are unsatisfiable. A common reason is that your testbed is out of date with respect to the archive, and you need to use a current testbed or run apt-get update or use -U. 195s autopkgtest [09:31:04]: @@@@@@@@@@@@@@@@@@@@ summary 195s run-unit-tests FAIL badpkg 195s blame: hisat2 195s badpkg: Test dependencies are unsatisfiable. A common reason is that your testbed is out of date with respect to the archive, and you need to use a current testbed or run apt-get update or use -U. 206s Creating nova instance adt-noble-s390x-hisat2-20240323-092748-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240322.img (UUID c8671f9a-0e89-48e3-af4f-3c79b89294e8)...