0s autopkgtest [20:50:46]: starting date and time: 2024-11-23 20:50:46+0000
  0s autopkgtest [20:50:46]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky
  0s autopkgtest [20:50:46]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.y08m497w/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:sra-sdk --apt-upgrade sra-sdk --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=sra-sdk/3.0.9+dfsg-7ubuntu1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-1.secgroup --name adt-plucky-amd64-sra-sdk-20241123-205046-juju-7f2275-prod-proposed-migration-environment-15-ee11f0bd-dcc2-4ccd-8b8e-c95a0c83af00 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --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/
 45s autopkgtest [20:51:31]: testbed dpkg architecture: amd64
 45s autopkgtest [20:51:31]: testbed apt version: 2.9.8
 45s autopkgtest [20:51:31]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 46s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB]
 46s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [9704 B]
 46s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [925 kB]
 46s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [13.6 kB]
 46s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [53.2 kB]
 46s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [41.5 kB]
 46s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [89.4 kB]
 46s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [40.1 kB]
 46s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/restricted i386 Packages [2408 B]
 46s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [290 kB]
 46s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [800 kB]
 46s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [5528 B]
 46s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [20.0 kB]
 46s Fetched 2364 kB in 1s (2899 kB/s)
 46s Reading package lists...
 49s Reading package lists...
 49s Building dependency tree...
 49s Reading state information...
 49s Calculating upgrade...
 50s The following package was automatically installed and is no longer required:
 50s   libsgutils2-1.46-2
 50s Use 'sudo apt autoremove' to remove it.
 50s The following NEW packages will be installed:
 50s   libsgutils2-1.48
 50s The following packages will be upgraded:
 50s   amd64-microcode bash bpftrace curl debconf debconf-i18n distro-info
 50s   dracut-install fwupd-signed gir1.2-girepository-2.0 gir1.2-glib-2.0 hostname
 50s   intel-microcode libaudit-common libaudit1 libcurl3t64-gnutls libcurl4t64
 50s   libgirepository-1.0-1 libglib2.0-0t64 libglib2.0-data libpam-modules
 50s   libpam-modules-bin libpam-runtime libpam0g libplymouth5 libselinux1
 50s   libsemanage-common libsemanage2 linux-base lxd-installer openssh-client
 50s   openssh-server openssh-sftp-server pinentry-curses plymouth
 50s   plymouth-theme-ubuntu-text python3-blinker python3-dbus python3-debconf
 50s   python3-gi python3-jsonschema-specifications python3-rpds-py python3-yaml
 50s   sg3-utils sg3-utils-udev vim-common vim-tiny xxd
 50s 48 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
 50s Need to get 19.9 MB of archives.
 50s After this operation, 4454 kB of additional disk space will be used.
 50s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 bash amd64 5.2.32-1ubuntu2 [918 kB]
 50s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 hostname amd64 3.25 [11.1 kB]
 50s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit-common all 1:4.0.2-2ubuntu1 [6578 B]
 50s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit1 amd64 1:4.0.2-2ubuntu1 [53.9 kB]
 50s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 debconf-i18n all 1.5.87ubuntu1 [204 kB]
 50s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-debconf all 1.5.87ubuntu1 [4156 B]
 50s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 debconf all 1.5.87ubuntu1 [124 kB]
 50s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libpam0g amd64 1.5.3-7ubuntu4 [69.6 kB]
 50s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libselinux1 amd64 3.7-3ubuntu1 [86.9 kB]
 50s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libpam-modules-bin amd64 1.5.3-7ubuntu4 [53.7 kB]
 50s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libpam-modules amd64 1.5.3-7ubuntu4 [294 kB]
 50s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 openssh-sftp-server amd64 1:9.9p1-3ubuntu2 [41.2 kB]
 50s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 openssh-server amd64 1:9.9p1-3ubuntu2 [625 kB]
 50s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 openssh-client amd64 1:9.9p1-3ubuntu2 [1080 kB]
 50s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libpam-runtime all 1.5.3-7ubuntu4 [40.8 kB]
 50s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libsemanage-common all 3.7-2build1 [7186 B]
 50s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libsemanage2 amd64 3.7-2build1 [105 kB]
 50s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 distro-info amd64 1.12 [20.0 kB]
 50s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-girepository-2.0 amd64 1.82.0-2 [25.3 kB]
 50s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-glib-2.0 amd64 2.82.2-3 [182 kB]
 50s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-0t64 amd64 2.82.2-3 [1655 kB]
 50s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libgirepository-1.0-1 amd64 1.82.0-2 [88.7 kB]
 50s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.82.2-3 [51.7 kB]
 50s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build4 [110 kB]
 50s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-3build1 [293 kB]
 50s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build1 [187 kB]
 50s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 vim-tiny amd64 2:9.1.0861-1ubuntu1 [1037 kB]
 50s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 vim-common all 2:9.1.0861-1ubuntu1 [395 kB]
 50s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 xxd amd64 2:9.1.0861-1ubuntu1 [67.8 kB]
 50s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libplymouth5 amd64 24.004.60-2ubuntu3 [145 kB]
 50s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 plymouth-theme-ubuntu-text amd64 24.004.60-2ubuntu3 [10.3 kB]
 50s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 plymouth amd64 24.004.60-2ubuntu3 [140 kB]
 50s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 bpftrace amd64 0.21.2-2ubuntu3 [1787 kB]
 50s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 curl amd64 8.9.1-2ubuntu3 [243 kB]
 50s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl4t64 amd64 8.9.1-2ubuntu3 [420 kB]
 50s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 dracut-install amd64 105-2ubuntu2 [35.9 kB]
 50s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 fwupd-signed amd64 1.55+1.7-1 [30.6 kB]
 50s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl3t64-gnutls amd64 8.9.1-2ubuntu3 [412 kB]
 50s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libsgutils2-1.48 amd64 1.48-0ubuntu1 [124 kB]
 50s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-base all 4.10.1ubuntu1 [34.8 kB]
 50s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 lxd-installer all 10 [5264 B]
 50s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 pinentry-curses amd64 1.3.1-0ubuntu2 [41.6 kB]
 51s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-blinker all 1.9.0-1 [10.7 kB]
 51s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-rpds-py amd64 0.21.0-2ubuntu1 [323 kB]
 51s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-jsonschema-specifications all 2023.12.1-2 [9116 B]
 51s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 sg3-utils amd64 1.48-0ubuntu1 [1042 kB]
 51s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 sg3-utils-udev all 1.48-0ubuntu1 [6608 B]
 51s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 amd64-microcode amd64 3.20240820.1ubuntu1 [187 kB]
 51s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 intel-microcode amd64 3.20241112.1ubuntu2 [7055 kB]
 51s Preconfiguring packages ...
 51s Fetched 19.9 MB in 1s (14.3 MB/s)
 51s (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 ... 75620 files and directories currently installed.)
 51s Preparing to unpack .../bash_5.2.32-1ubuntu2_amd64.deb ...
 51s Unpacking bash (5.2.32-1ubuntu2) over (5.2.32-1ubuntu1) ...
 51s Setting up bash (5.2.32-1ubuntu2) ...
 51s update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode
 51s (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 ... 75620 files and directories currently installed.)
 52s Preparing to unpack .../hostname_3.25_amd64.deb ...
 52s Unpacking hostname (3.25) over (3.23+nmu2ubuntu2) ...
 52s Setting up hostname (3.25) ...
 52s (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 ... 75620 files and directories currently installed.)
 52s Preparing to unpack .../libaudit-common_1%3a4.0.2-2ubuntu1_all.deb ...
 52s Unpacking libaudit-common (1:4.0.2-2ubuntu1) over (1:4.0.1-1ubuntu2) ...
 52s Setting up libaudit-common (1:4.0.2-2ubuntu1) ...
 52s (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 ... 75620 files and directories currently installed.)
 52s Preparing to unpack .../libaudit1_1%3a4.0.2-2ubuntu1_amd64.deb ...
 52s Unpacking libaudit1:amd64 (1:4.0.2-2ubuntu1) over (1:4.0.1-1ubuntu2) ...
 52s Setting up libaudit1:amd64 (1:4.0.2-2ubuntu1) ...
 52s (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 ... 75620 files and directories currently installed.)
 52s Preparing to unpack .../debconf-i18n_1.5.87ubuntu1_all.deb ...
 52s Unpacking debconf-i18n (1.5.87ubuntu1) over (1.5.86ubuntu1) ...
 52s Preparing to unpack .../python3-debconf_1.5.87ubuntu1_all.deb ...
 52s Unpacking python3-debconf (1.5.87ubuntu1) over (1.5.86ubuntu1) ...
 52s Preparing to unpack .../debconf_1.5.87ubuntu1_all.deb ...
 52s Unpacking debconf (1.5.87ubuntu1) over (1.5.86ubuntu1) ...
 52s Setting up debconf (1.5.87ubuntu1) ...
 52s (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 ... 75620 files and directories currently installed.)
 52s Preparing to unpack .../libpam0g_1.5.3-7ubuntu4_amd64.deb ...
 52s Unpacking libpam0g:amd64 (1.5.3-7ubuntu4) over (1.5.3-7ubuntu2) ...
 52s Setting up libpam0g:amd64 (1.5.3-7ubuntu4) ...
 52s (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 ... 75620 files and directories currently installed.)
 52s Preparing to unpack .../libselinux1_3.7-3ubuntu1_amd64.deb ...
 52s Unpacking libselinux1:amd64 (3.7-3ubuntu1) over (3.5-2ubuntu5) ...
 52s Setting up libselinux1:amd64 (3.7-3ubuntu1) ...
 52s (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 ... 75620 files and directories currently installed.)
 52s Preparing to unpack .../libpam-modules-bin_1.5.3-7ubuntu4_amd64.deb ...
 52s Unpacking libpam-modules-bin (1.5.3-7ubuntu4) over (1.5.3-7ubuntu2) ...
 52s Setting up libpam-modules-bin (1.5.3-7ubuntu4) ...
 53s pam_namespace.service is a disabled or a static unit not running, not starting it.
 53s (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 ... 75620 files and directories currently installed.)
 53s Preparing to unpack .../libpam-modules_1.5.3-7ubuntu4_amd64.deb ...
 53s Unpacking libpam-modules:amd64 (1.5.3-7ubuntu4) over (1.5.3-7ubuntu2) ...
 53s Setting up libpam-modules:amd64 (1.5.3-7ubuntu4) ...
 53s (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 ... 75620 files and directories currently installed.)
 53s Preparing to unpack .../openssh-sftp-server_1%3a9.9p1-3ubuntu2_amd64.deb ...
 53s Unpacking openssh-sftp-server (1:9.9p1-3ubuntu2) over (1:9.7p1-7ubuntu5) ...
 53s Preparing to unpack .../openssh-server_1%3a9.9p1-3ubuntu2_amd64.deb ...
 53s Unpacking openssh-server (1:9.9p1-3ubuntu2) over (1:9.7p1-7ubuntu5) ...
 53s Preparing to unpack .../openssh-client_1%3a9.9p1-3ubuntu2_amd64.deb ...
 53s Unpacking openssh-client (1:9.9p1-3ubuntu2) over (1:9.7p1-7ubuntu5) ...
 53s Preparing to unpack .../libpam-runtime_1.5.3-7ubuntu4_all.deb ...
 53s Unpacking libpam-runtime (1.5.3-7ubuntu4) over (1.5.3-7ubuntu2) ...
 53s Setting up libpam-runtime (1.5.3-7ubuntu4) ...
 53s (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 ... 75622 files and directories currently installed.)
 53s Preparing to unpack .../libsemanage-common_3.7-2build1_all.deb ...
 53s Unpacking libsemanage-common (3.7-2build1) over (3.5-1build6) ...
 53s Setting up libsemanage-common (3.7-2build1) ...
 53s (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 ... 75621 files and directories currently installed.)
 53s Preparing to unpack .../libsemanage2_3.7-2build1_amd64.deb ...
 53s Unpacking libsemanage2:amd64 (3.7-2build1) over (3.5-1build6) ...
 53s Setting up libsemanage2:amd64 (3.7-2build1) ...
 53s (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 ... 75621 files and directories currently installed.)
 53s Preparing to unpack .../00-distro-info_1.12_amd64.deb ...
 53s Unpacking distro-info (1.12) over (1.9) ...
 53s Preparing to unpack .../01-gir1.2-girepository-2.0_1.82.0-2_amd64.deb ...
 53s Unpacking gir1.2-girepository-2.0:amd64 (1.82.0-2) over (1.80.1-4) ...
 54s Preparing to unpack .../02-gir1.2-glib-2.0_2.82.2-3_amd64.deb ...
 54s Unpacking gir1.2-glib-2.0:amd64 (2.82.2-3) over (2.82.1-0ubuntu1) ...
 54s Preparing to unpack .../03-libglib2.0-0t64_2.82.2-3_amd64.deb ...
 54s Unpacking libglib2.0-0t64:amd64 (2.82.2-3) over (2.82.1-0ubuntu1) ...
 54s Preparing to unpack .../04-libgirepository-1.0-1_1.82.0-2_amd64.deb ...
 54s Unpacking libgirepository-1.0-1:amd64 (1.82.0-2) over (1.80.1-4) ...
 54s Preparing to unpack .../05-libglib2.0-data_2.82.2-3_all.deb ...
 54s Unpacking libglib2.0-data (2.82.2-3) over (2.82.1-0ubuntu1) ...
 54s Preparing to unpack .../06-python3-dbus_1.3.2-5build4_amd64.deb ...
 54s Unpacking python3-dbus (1.3.2-5build4) over (1.3.2-5build3) ...
 54s Preparing to unpack .../07-python3-gi_3.50.0-3build1_amd64.deb ...
 54s Unpacking python3-gi (3.50.0-3build1) over (3.50.0-3) ...
 54s Preparing to unpack .../08-python3-yaml_6.0.2-1build1_amd64.deb ...
 54s Unpacking python3-yaml (6.0.2-1build1) over (6.0.2-1) ...
 54s Preparing to unpack .../09-vim-tiny_2%3a9.1.0861-1ubuntu1_amd64.deb ...
 54s Unpacking vim-tiny (2:9.1.0861-1ubuntu1) over (2:9.1.0777-1ubuntu1) ...
 54s Preparing to unpack .../10-vim-common_2%3a9.1.0861-1ubuntu1_all.deb ...
 54s Unpacking vim-common (2:9.1.0861-1ubuntu1) over (2:9.1.0777-1ubuntu1) ...
 54s Preparing to unpack .../11-xxd_2%3a9.1.0861-1ubuntu1_amd64.deb ...
 54s Unpacking xxd (2:9.1.0861-1ubuntu1) over (2:9.1.0777-1ubuntu1) ...
 54s Preparing to unpack .../12-libplymouth5_24.004.60-2ubuntu3_amd64.deb ...
 54s Unpacking libplymouth5:amd64 (24.004.60-2ubuntu3) over (24.004.60-1ubuntu11) ...
 54s Preparing to unpack .../13-plymouth-theme-ubuntu-text_24.004.60-2ubuntu3_amd64.deb ...
 54s Unpacking plymouth-theme-ubuntu-text (24.004.60-2ubuntu3) over (24.004.60-1ubuntu11) ...
 54s Preparing to unpack .../14-plymouth_24.004.60-2ubuntu3_amd64.deb ...
 54s Unpacking plymouth (24.004.60-2ubuntu3) over (24.004.60-1ubuntu11) ...
 54s Preparing to unpack .../15-bpftrace_0.21.2-2ubuntu3_amd64.deb ...
 54s Unpacking bpftrace (0.21.2-2ubuntu3) over (0.21.2-2ubuntu2) ...
 54s Preparing to unpack .../16-curl_8.9.1-2ubuntu3_amd64.deb ...
 54s Unpacking curl (8.9.1-2ubuntu3) over (8.9.1-2ubuntu2) ...
 54s Preparing to unpack .../17-libcurl4t64_8.9.1-2ubuntu3_amd64.deb ...
 54s Unpacking libcurl4t64:amd64 (8.9.1-2ubuntu3) over (8.9.1-2ubuntu2) ...
 54s Preparing to unpack .../18-dracut-install_105-2ubuntu2_amd64.deb ...
 54s Unpacking dracut-install (105-2ubuntu2) over (105-1ubuntu1) ...
 54s Preparing to unpack .../19-fwupd-signed_1.55+1.7-1_amd64.deb ...
 54s Unpacking fwupd-signed (1.55+1.7-1) over (1.54+1.6-1build1) ...
 54s Preparing to unpack .../20-libcurl3t64-gnutls_8.9.1-2ubuntu3_amd64.deb ...
 54s Unpacking libcurl3t64-gnutls:amd64 (8.9.1-2ubuntu3) over (8.9.1-2ubuntu2) ...
 54s Selecting previously unselected package libsgutils2-1.48:amd64.
 54s Preparing to unpack .../21-libsgutils2-1.48_1.48-0ubuntu1_amd64.deb ...
 54s Unpacking libsgutils2-1.48:amd64 (1.48-0ubuntu1) ...
 54s Preparing to unpack .../22-linux-base_4.10.1ubuntu1_all.deb ...
 54s Unpacking linux-base (4.10.1ubuntu1) over (4.5ubuntu9) ...
 54s Preparing to unpack .../23-lxd-installer_10_all.deb ...
 54s Unpacking lxd-installer (10) over (9) ...
 54s Preparing to unpack .../24-pinentry-curses_1.3.1-0ubuntu2_amd64.deb ...
 54s Unpacking pinentry-curses (1.3.1-0ubuntu2) over (1.2.1-3ubuntu5) ...
 54s Preparing to unpack .../25-python3-blinker_1.9.0-1_all.deb ...
 55s Unpacking python3-blinker (1.9.0-1) over (1.8.2-1) ...
 55s Preparing to unpack .../26-python3-rpds-py_0.21.0-2ubuntu1_amd64.deb ...
 55s Unpacking python3-rpds-py (0.21.0-2ubuntu1) over (0.20.0-0ubuntu3) ...
 55s Preparing to unpack .../27-python3-jsonschema-specifications_2023.12.1-2_all.deb ...
 55s Unpacking python3-jsonschema-specifications (2023.12.1-2) over (2023.12.1-1ubuntu1) ...
 55s Preparing to unpack .../28-sg3-utils_1.48-0ubuntu1_amd64.deb ...
 55s Unpacking sg3-utils (1.48-0ubuntu1) over (1.46-3ubuntu5) ...
 55s Preparing to unpack .../29-sg3-utils-udev_1.48-0ubuntu1_all.deb ...
 55s Unpacking sg3-utils-udev (1.48-0ubuntu1) over (1.46-3ubuntu5) ...
 55s Preparing to unpack .../30-amd64-microcode_3.20240820.1ubuntu1_amd64.deb ...
 55s Unpacking amd64-microcode (3.20240820.1ubuntu1) over (3.20240116.2+nmu1ubuntu1.1) ...
 55s Preparing to unpack .../31-intel-microcode_3.20241112.1ubuntu2_amd64.deb ...
 55s Unpacking intel-microcode (3.20241112.1ubuntu2) over (3.20240910.0ubuntu1) ...
 55s Setting up pinentry-curses (1.3.1-0ubuntu2) ...
 55s Setting up distro-info (1.12) ...
 55s Setting up linux-base (4.10.1ubuntu1) ...
 55s Setting up libcurl4t64:amd64 (8.9.1-2ubuntu3) ...
 55s Setting up bpftrace (0.21.2-2ubuntu3) ...
 55s Setting up openssh-client (1:9.9p1-3ubuntu2) ...
 55s Setting up intel-microcode (3.20241112.1ubuntu2) ...
 55s intel-microcode: microcode will be updated at next boot
 55s Setting up python3-debconf (1.5.87ubuntu1) ...
 55s Setting up libcurl3t64-gnutls:amd64 (8.9.1-2ubuntu3) ...
 55s Setting up fwupd-signed (1.55+1.7-1) ...
 55s Setting up libsgutils2-1.48:amd64 (1.48-0ubuntu1) ...
 55s Setting up python3-yaml (6.0.2-1build1) ...
 55s Setting up debconf-i18n (1.5.87ubuntu1) ...
 55s Setting up amd64-microcode (3.20240820.1ubuntu1) ...
 55s amd64-microcode: microcode will be updated at next boot
 55s Setting up xxd (2:9.1.0861-1ubuntu1) ...
 55s Setting up libglib2.0-0t64:amd64 (2.82.2-3) ...
 55s No schema files found: doing nothing.
 55s Setting up libglib2.0-data (2.82.2-3) ...
 55s Setting up vim-common (2:9.1.0861-1ubuntu1) ...
 55s Setting up gir1.2-glib-2.0:amd64 (2.82.2-3) ...
 55s Setting up lxd-installer (10) ...
 56s Setting up python3-rpds-py (0.21.0-2ubuntu1) ...
 56s Setting up dracut-install (105-2ubuntu2) ...
 56s Setting up libplymouth5:amd64 (24.004.60-2ubuntu3) ...
 56s Setting up libgirepository-1.0-1:amd64 (1.82.0-2) ...
 56s Setting up curl (8.9.1-2ubuntu3) ...
 56s Setting up python3-jsonschema-specifications (2023.12.1-2) ...
 56s Setting up sg3-utils (1.48-0ubuntu1) ...
 56s Setting up python3-blinker (1.9.0-1) ...
 56s Setting up openssh-sftp-server (1:9.9p1-3ubuntu2) ...
 56s Setting up python3-dbus (1.3.2-5build4) ...
 56s Setting up openssh-server (1:9.9p1-3ubuntu2) ...
 56s Installing new version of config file /etc/ssh/moduli ...
 56s Replacing config file /etc/ssh/sshd_config with new version
 57s Setting up plymouth (24.004.60-2ubuntu3) ...
 57s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic
 57s W: No lz4 in /usr/bin:/sbin:/bin, using gzip
 65s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
 65s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
 65s Setting up vim-tiny (2:9.1.0861-1ubuntu1) ...
 65s Setting up sg3-utils-udev (1.48-0ubuntu1) ...
 66s update-initramfs: deferring update (trigger activated)
 66s Setting up plymouth-theme-ubuntu-text (24.004.60-2ubuntu3) ...
 66s update-initramfs: deferring update (trigger activated)
 66s Setting up gir1.2-girepository-2.0:amd64 (1.82.0-2) ...
 66s Setting up python3-gi (3.50.0-3build1) ...
 66s Processing triggers for install-info (7.1.1-1) ...
 66s Processing triggers for initramfs-tools (0.142ubuntu35) ...
 66s update-initramfs: Generating /boot/initrd.img-6.11.0-8-generic
 66s W: No lz4 in /usr/bin:/sbin:/bin, using gzip
 72s Processing triggers for libc-bin (2.40-1ubuntu3) ...
 72s Processing triggers for ufw (0.36.2-8) ...
 72s Processing triggers for man-db (2.13.0-1) ...
 74s Processing triggers for debianutils (5.21) ...
 74s Reading package lists...
 74s Building dependency tree...
 74s Reading state information...
 74s The following packages will be REMOVED:
 74s   libsgutils2-1.46-2*
 74s 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded.
 74s After this operation, 294 kB disk space will be freed.
 74s (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 ... 75656 files and directories currently installed.)
 74s Removing libsgutils2-1.46-2:amd64 (1.46-3ubuntu5) ...
 74s Processing triggers for libc-bin (2.40-1ubuntu3) ...
 75s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease
 75s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
 75s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
 75s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
 76s Reading package lists...
 76s Reading package lists...
 76s Building dependency tree...
 76s Reading state information...
 76s Calculating upgrade...
 76s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 76s Reading package lists...
 76s Building dependency tree...
 76s Reading state information...
 77s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 77s autopkgtest [20:52:03]: rebooting testbed after setup commands that affected boot
 81s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds...
 94s autopkgtest [20:52:20]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024
 97s autopkgtest [20:52:23]: @@@@@@@@@@@@@@@@@@@@ apt-source sra-sdk
103s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/universe sra-sdk 3.0.9+dfsg-7ubuntu1 (dsc) [2857 B]
103s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe sra-sdk 3.0.9+dfsg-7ubuntu1 (tar) [34.6 MB]
103s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe sra-sdk 3.0.9+dfsg-7ubuntu1 (diff) [3792 kB]
103s gpgv: Signature made Wed Oct 30 16:47:11 2024 UTC
103s gpgv:                using RSA key 92978A6E195E4921825F7FF0F34F09744E9F5DD9
103s gpgv: Can't check signature: No public key
103s dpkg-source: warning: cannot verify inline signature for ./sra-sdk_3.0.9+dfsg-7ubuntu1.dsc: no acceptable signature found
105s autopkgtest [20:52:31]: testing package sra-sdk version 3.0.9+dfsg-7ubuntu1
106s autopkgtest [20:52:32]: build not needed
113s autopkgtest [20:52:39]: test run-unit-test: preparing testbed
115s Reading package lists...
116s Building dependency tree...
116s Reading state information...
116s Starting pkgProblemResolver with broken count: 0
116s Starting 2 pkgProblemResolver with broken count: 0
116s Done
116s The following additional packages will be installed:
116s   libaec0 libhdf5-103-1t64 libmbedcrypto16 libmbedtls21 libmbedx509-7
116s   libncbi-ngs-dev libncbi-ngs3 libncbi-vdb3 libncbi-wvdb3 libngs-c++-dev
116s   libngs-c++3 libngs-java libngs-java-doc libngs-jni libsz2 ncbi-vdb-data
116s   python3-ngs sra-toolkit
116s Recommended packages:
116s   med-config
116s The following NEW packages will be installed:
116s   autopkgtest-satdep libaec0 libhdf5-103-1t64 libmbedcrypto16 libmbedtls21
116s   libmbedx509-7 libncbi-ngs-dev libncbi-ngs3 libncbi-vdb3 libncbi-wvdb3
116s   libngs-c++-dev libngs-c++3 libngs-java libngs-java-doc libngs-jni libsz2
116s   ncbi-vdb-data python3-ngs sra-toolkit
116s 0 upgraded, 19 newly installed, 0 to remove and 0 not upgraded.
116s Need to get 12.6 MB/12.6 MB of archives.
116s After this operation, 37.1 MB of additional disk space will be used.
116s Get:1 /tmp/autopkgtest.LE41CQ/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [760 B]
116s Get:2 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB]
116s Get:3 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B]
116s Get:4 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4ubuntu3 [1280 kB]
117s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmbedcrypto16 amd64 3.6.2-3ubuntu1 [276 kB]
117s Get:6 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmbedx509-7 amd64 3.6.2-3ubuntu1 [37.1 kB]
117s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmbedtls21 amd64 3.6.2-3ubuntu1 [126 kB]
117s Get:8 http://ftpmaster.internal/ubuntu plucky/universe amd64 ncbi-vdb-data all 3.0.9+dfsg-2 [67.7 kB]
117s Get:9 http://ftpmaster.internal/ubuntu plucky/universe amd64 libncbi-vdb3 amd64 3.0.9+dfsg-2 [1409 kB]
117s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libncbi-ngs3 amd64 3.0.9+dfsg-7ubuntu1 [165 kB]
117s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libngs-c++3 amd64 3.0.9+dfsg-7ubuntu1 [131 kB]
117s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libngs-c++-dev amd64 3.0.9+dfsg-7ubuntu1 [186 kB]
117s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libncbi-ngs-dev amd64 3.0.9+dfsg-7ubuntu1 [181 kB]
117s Get:14 http://ftpmaster.internal/ubuntu plucky/universe amd64 libncbi-wvdb3 amd64 3.0.9+dfsg-2 [1417 kB]
117s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libngs-jni amd64 3.0.9+dfsg-7ubuntu1 [4846 B]
117s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libngs-java amd64 3.0.9+dfsg-7ubuntu1 [91.1 kB]
117s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 libngs-java-doc all 3.0.9+dfsg-7ubuntu1 [95.1 kB]
117s Get:18 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-ngs all 3.0.9+dfsg-7ubuntu1 [24.3 kB]
117s Get:19 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 sra-toolkit amd64 3.0.9+dfsg-7ubuntu1 [7092 kB]
118s Fetched 12.6 MB in 2s (7332 kB/s)
118s Selecting previously unselected package libaec0:amd64.
118s (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 ... 75651 files and directories currently installed.)
118s Preparing to unpack .../00-libaec0_1.1.3-1_amd64.deb ...
118s Unpacking libaec0:amd64 (1.1.3-1) ...
118s Selecting previously unselected package libsz2:amd64.
118s Preparing to unpack .../01-libsz2_1.1.3-1_amd64.deb ...
118s Unpacking libsz2:amd64 (1.1.3-1) ...
118s Selecting previously unselected package libhdf5-103-1t64:amd64.
118s Preparing to unpack .../02-libhdf5-103-1t64_1.10.10+repack-4ubuntu3_amd64.deb ...
118s Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ...
118s Selecting previously unselected package libmbedcrypto16:amd64.
118s Preparing to unpack .../03-libmbedcrypto16_3.6.2-3ubuntu1_amd64.deb ...
118s Unpacking libmbedcrypto16:amd64 (3.6.2-3ubuntu1) ...
118s Selecting previously unselected package libmbedx509-7:amd64.
118s Preparing to unpack .../04-libmbedx509-7_3.6.2-3ubuntu1_amd64.deb ...
118s Unpacking libmbedx509-7:amd64 (3.6.2-3ubuntu1) ...
118s Selecting previously unselected package libmbedtls21:amd64.
118s Preparing to unpack .../05-libmbedtls21_3.6.2-3ubuntu1_amd64.deb ...
118s Unpacking libmbedtls21:amd64 (3.6.2-3ubuntu1) ...
118s Selecting previously unselected package ncbi-vdb-data.
118s Preparing to unpack .../06-ncbi-vdb-data_3.0.9+dfsg-2_all.deb ...
118s Unpacking ncbi-vdb-data (3.0.9+dfsg-2) ...
118s Selecting previously unselected package libncbi-vdb3:amd64.
118s Preparing to unpack .../07-libncbi-vdb3_3.0.9+dfsg-2_amd64.deb ...
118s Unpacking libncbi-vdb3:amd64 (3.0.9+dfsg-2) ...
118s Selecting previously unselected package libncbi-ngs3:amd64.
118s Preparing to unpack .../08-libncbi-ngs3_3.0.9+dfsg-7ubuntu1_amd64.deb ...
118s Unpacking libncbi-ngs3:amd64 (3.0.9+dfsg-7ubuntu1) ...
118s Selecting previously unselected package libngs-c++3:amd64.
118s Preparing to unpack .../09-libngs-c++3_3.0.9+dfsg-7ubuntu1_amd64.deb ...
118s Unpacking libngs-c++3:amd64 (3.0.9+dfsg-7ubuntu1) ...
118s Selecting previously unselected package libngs-c++-dev:amd64.
118s Preparing to unpack .../10-libngs-c++-dev_3.0.9+dfsg-7ubuntu1_amd64.deb ...
118s Unpacking libngs-c++-dev:amd64 (3.0.9+dfsg-7ubuntu1) ...
118s Selecting previously unselected package libncbi-ngs-dev:amd64.
118s Preparing to unpack .../11-libncbi-ngs-dev_3.0.9+dfsg-7ubuntu1_amd64.deb ...
118s Unpacking libncbi-ngs-dev:amd64 (3.0.9+dfsg-7ubuntu1) ...
118s Selecting previously unselected package libncbi-wvdb3:amd64.
119s Preparing to unpack .../12-libncbi-wvdb3_3.0.9+dfsg-2_amd64.deb ...
119s Unpacking libncbi-wvdb3:amd64 (3.0.9+dfsg-2) ...
119s Selecting previously unselected package libngs-jni:amd64.
119s Preparing to unpack .../13-libngs-jni_3.0.9+dfsg-7ubuntu1_amd64.deb ...
119s Unpacking libngs-jni:amd64 (3.0.9+dfsg-7ubuntu1) ...
119s Selecting previously unselected package libngs-java:amd64.
119s Preparing to unpack .../14-libngs-java_3.0.9+dfsg-7ubuntu1_amd64.deb ...
119s Unpacking libngs-java:amd64 (3.0.9+dfsg-7ubuntu1) ...
119s Selecting previously unselected package libngs-java-doc.
119s Preparing to unpack .../15-libngs-java-doc_3.0.9+dfsg-7ubuntu1_all.deb ...
119s Unpacking libngs-java-doc (3.0.9+dfsg-7ubuntu1) ...
119s Selecting previously unselected package python3-ngs.
119s Preparing to unpack .../16-python3-ngs_3.0.9+dfsg-7ubuntu1_all.deb ...
119s Unpacking python3-ngs (3.0.9+dfsg-7ubuntu1) ...
119s Selecting previously unselected package sra-toolkit.
119s Preparing to unpack .../17-sra-toolkit_3.0.9+dfsg-7ubuntu1_amd64.deb ...
119s Unpacking sra-toolkit (3.0.9+dfsg-7ubuntu1) ...
119s Selecting previously unselected package autopkgtest-satdep.
119s Preparing to unpack .../18-1-autopkgtest-satdep.deb ...
119s Unpacking autopkgtest-satdep (0) ...
119s Setting up libaec0:amd64 (1.1.3-1) ...
119s Setting up libngs-c++3:amd64 (3.0.9+dfsg-7ubuntu1) ...
119s Setting up ncbi-vdb-data (3.0.9+dfsg-2) ...
119s Setting up libmbedcrypto16:amd64 (3.6.2-3ubuntu1) ...
119s Setting up libsz2:amd64 (1.1.3-1) ...
119s Setting up libngs-java-doc (3.0.9+dfsg-7ubuntu1) ...
119s Setting up libngs-c++-dev:amd64 (3.0.9+dfsg-7ubuntu1) ...
119s Setting up libmbedx509-7:amd64 (3.6.2-3ubuntu1) ...
119s Setting up libmbedtls21:amd64 (3.6.2-3ubuntu1) ...
119s Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4ubuntu3) ...
119s Setting up libncbi-vdb3:amd64 (3.0.9+dfsg-2) ...
119s Setting up libncbi-wvdb3:amd64 (3.0.9+dfsg-2) ...
119s Setting up libncbi-ngs3:amd64 (3.0.9+dfsg-7ubuntu1) ...
119s Setting up sra-toolkit (3.0.9+dfsg-7ubuntu1) ...
119s Setting up libngs-jni:amd64 (3.0.9+dfsg-7ubuntu1) ...
119s Setting up libngs-java:amd64 (3.0.9+dfsg-7ubuntu1) ...
119s Setting up libncbi-ngs-dev:amd64 (3.0.9+dfsg-7ubuntu1) ...
119s Setting up python3-ngs (3.0.9+dfsg-7ubuntu1) ...
119s /usr/lib/python3/dist-packages/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.'
119s   arr = re.split('\.\s*|\-\s*|\s+', version_str)
119s Setting up autopkgtest-satdep (0) ...
119s Processing triggers for libc-bin (2.40-1ubuntu3) ...
122s (Reading database ... 76149 files and directories currently installed.)
122s Removing autopkgtest-satdep (0) ...
123s autopkgtest [20:52:49]: test run-unit-test: [-----------------------
123s >>>>>Decompressing test-data archive...
123s dbGaP-0/
123s dbGaP-0/SRR2042184.fasta
123s meta/
123s meta/prj_phs710EA_test.ngc
123s meta/SRR6650398_experiment.xml
123s meta/SRR6650398.bam
123s meta/SRR2042184_run.xml
123s meta/SRR2042184_experiment.xml
123s meta/SRR6650398_illumina_run.xml
123s meta/SRR7032226_run.xml
123s meta/SRR7032226_experiment.xml
123s meta/reference.fna
123s meta/SRR6650398_fastq_run.xml
123s public/
123s public/nannot/
123s public/wgs/
123s public/refseq/
123s public/refseq/NC_000962.3
123s public/sra/
123s public/sra/SRR7032226.sra
123s public/sra/SRR6650398.sra
123s public/sra/SRR2042184.sra
123s public/files/
123s >>>>>Running test-sra...
149s 2024-11-23T20:53:15 test-sra.3.0.9 fatal: SIGNAL - Segmentation fault 
150s autopkgtest [20:53:16]: test run-unit-test: -----------------------]
150s run-unit-test        FAIL non-zero exit status 1
150s autopkgtest [20:53:16]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
150s autopkgtest [20:53:16]: @@@@@@@@@@@@@@@@@@@@ summary
150s run-unit-test        FAIL non-zero exit status 1
155s nova [W] Skipping flock for amd64
155s Creating nova instance adt-plucky-amd64-sra-sdk-20241123-205046-juju-7f2275-prod-proposed-migration-environment-15-ee11f0bd-dcc2-4ccd-8b8e-c95a0c83af00 from image adt/ubuntu-plucky-amd64-server-20241119.img (UUID 2e5306de-7efa-448c-bc27-5518979e66f0)...