0s autopkgtest [18:43:26]: starting date and time: 2025-03-15 18:43:26+0000
  0s autopkgtest [18:43:26]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production'
  0s autopkgtest [18:43:26]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.t9z2v3_c/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade rsem --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-s390x --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-s390x-23.secgroup --name adt-plucky-s390x-rsem-20250315-184326-juju-7f2275-prod-proposed-migration-environment-2-728e4975-bfed-4ba8-8c2a-e982dc6ad6a8 --image adt/ubuntu-plucky-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration-s390x -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,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/
118s autopkgtest [18:45:24]: testbed dpkg architecture: s390x
118s autopkgtest [18:45:24]: testbed apt version: 2.9.33
119s autopkgtest [18:45:25]: @@@@@@@@@@@@@@@@@@@@ test bed setup
119s autopkgtest [18:45:25]: testbed release detected to be: None
120s autopkgtest [18:45:26]: updating testbed package index (apt update)
120s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB]
121s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
121s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
121s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
121s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB]
121s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB]
121s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB]
121s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x Packages [113 kB]
121s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x c-n-f Metadata [1824 B]
121s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted s390x c-n-f Metadata [116 B]
121s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x Packages [320 kB]
121s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe s390x c-n-f Metadata [13.4 kB]
121s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x Packages [3776 B]
121s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse s390x c-n-f Metadata [240 B]
121s Fetched 1073 kB in 1s (899 kB/s)
122s Reading package lists...
123s Reading package lists...
123s Building dependency tree...
123s Reading state information...
123s Calculating upgrade...
123s Calculating upgrade...
123s The following packages were automatically installed and are no longer required:
123s   libnsl2 libpython3.12-minimal libpython3.12-stdlib libpython3.12t64
123s   linux-headers-6.11.0-8 linux-headers-6.11.0-8-generic
123s   linux-modules-6.11.0-8-generic linux-tools-6.11.0-8
123s   linux-tools-6.11.0-8-generic
123s Use 'sudo apt autoremove' to remove them.
123s The following packages will be upgraded:
123s   pinentry-curses python3-jinja2 strace
123s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
123s Need to get 652 kB of archives.
123s After this operation, 27.6 kB of additional disk space will be used.
123s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x strace s390x 6.13+ds-1ubuntu1 [500 kB]
124s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x pinentry-curses s390x 1.3.1-2ubuntu3 [42.9 kB]
124s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x python3-jinja2 all 3.1.5-2ubuntu1 [109 kB]
124s Fetched 652 kB in 1s (806 kB/s)
124s (Reading database ... 
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 81428 files and directories currently installed.)
124s Preparing to unpack .../strace_6.13+ds-1ubuntu1_s390x.deb ...
124s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ...
124s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_s390x.deb ...
124s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ...
124s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ...
124s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ...
124s Setting up pinentry-curses (1.3.1-2ubuntu3) ...
124s Setting up python3-jinja2 (3.1.5-2ubuntu1) ...
124s Setting up strace (6.13+ds-1ubuntu1) ...
124s Processing triggers for man-db (2.13.0-1) ...
125s Reading package lists...
125s Building dependency tree...
125s Reading state information...
125s Solving dependencies...
125s The following packages will be REMOVED:
125s   libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64*
125s   linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic*
125s   linux-modules-6.11.0-8-generic* linux-tools-6.11.0-8*
125s   linux-tools-6.11.0-8-generic*
126s 0 upgraded, 0 newly installed, 9 to remove and 5 not upgraded.
126s After this operation, 167 MB disk space will be freed.
126s (Reading database ... 
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(Reading database ... 85%
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 81428 files and directories currently installed.)
126s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ...
126s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ...
126s Removing libpython3.12t64:s390x (3.12.9-1) ...
126s Removing libpython3.12-stdlib:s390x (3.12.9-1) ...
126s Removing libnsl2:s390x (1.3.0-3build3) ...
126s Removing libpython3.12-minimal:s390x (3.12.9-1) ...
126s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ...
126s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ...
126s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ...
127s Processing triggers for libc-bin (2.41-1ubuntu1) ...
127s (Reading database ... 
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(Reading database ... 100%
(Reading database ... 56328 files and directories currently installed.)
127s Purging configuration files for libpython3.12-minimal:s390x (3.12.9-1) ...
127s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ...
127s autopkgtest [18:45:33]: upgrading testbed (apt dist-upgrade and autopurge)
127s Reading package lists...
127s Building dependency tree...
127s Reading state information...
127s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
127s Starting 2 pkgProblemResolver with broken count: 0
127s Done
127s Entering ResolveByKeep
128s 
128s Calculating upgrade...
128s The following packages will be upgraded:
128s   libc-bin libc-dev-bin libc6 libc6-dev locales
128s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
128s Need to get 9512 kB of archives.
128s After this operation, 8192 B of additional disk space will be used.
128s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc6-dev s390x 2.41-1ubuntu2 [1678 kB]
129s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc-dev-bin s390x 2.41-1ubuntu2 [24.3 kB]
129s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc6 s390x 2.41-1ubuntu2 [2892 kB]
132s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x libc-bin s390x 2.41-1ubuntu2 [671 kB]
132s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main s390x locales all 2.41-1ubuntu2 [4246 kB]
136s Preconfiguring packages ...
136s Fetched 9512 kB in 8s (1141 kB/s)
136s (Reading database ... 
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(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 56326 files and directories currently installed.)
136s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_s390x.deb ...
136s Unpacking libc6-dev:s390x (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
136s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_s390x.deb ...
136s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
136s Preparing to unpack .../libc6_2.41-1ubuntu2_s390x.deb ...
137s Unpacking libc6:s390x (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
137s Setting up libc6:s390x (2.41-1ubuntu2) ...
137s (Reading database ... 
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(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 ... 56326 files and directories currently installed.)
137s Preparing to unpack .../libc-bin_2.41-1ubuntu2_s390x.deb ...
137s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
137s Setting up libc-bin (2.41-1ubuntu2) ...
137s (Reading database ... 
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 56326 files and directories currently installed.)
137s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ...
137s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
137s Setting up locales (2.41-1ubuntu2) ...
137s Generating locales (this might take a while)...
138s   en_US.UTF-8... done
138s Generation complete.
138s Setting up libc-dev-bin (2.41-1ubuntu2) ...
138s Setting up libc6-dev:s390x (2.41-1ubuntu2) ...
138s Processing triggers for man-db (2.13.0-1) ...
139s Processing triggers for systemd (257.3-1ubuntu3) ...
140s Reading package lists...
140s Building dependency tree...
140s Reading state information...
140s Starting pkgProblemResolver with broken count: 0
140s Starting 2 pkgProblemResolver with broken count: 0
140s Done
140s Solving dependencies...
140s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
140s autopkgtest [18:45:46]: rebooting testbed after setup commands that affected boot
160s autopkgtest [18:46:06]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP Wed Mar 12 14:53:49 UTC 2025
163s autopkgtest [18:46:09]: @@@@@@@@@@@@@@@@@@@@ apt-source rsem
181s Get:1 http://ftpmaster.internal/ubuntu plucky/universe rsem 1.3.3+dfsg-3build1 (dsc) [2129 B]
181s Get:2 http://ftpmaster.internal/ubuntu plucky/universe rsem 1.3.3+dfsg-3build1 (tar) [275 kB]
181s Get:3 http://ftpmaster.internal/ubuntu plucky/universe rsem 1.3.3+dfsg-3build1 (diff) [35.7 MB]
181s gpgv: Signature made Sun Apr 14 18:54:30 2024 UTC
181s gpgv:                using RSA key AC0A4FF12611B6FCCF01C111393587D97D86500B
181s gpgv: Can't check signature: No public key
181s dpkg-source: warning: cannot verify inline signature for ./rsem_1.3.3+dfsg-3build1.dsc: no acceptable signature found
182s autopkgtest [18:46:28]: testing package rsem version 1.3.3+dfsg-3build1
184s autopkgtest [18:46:30]: build not needed
185s autopkgtest [18:46:31]: test run-unit-test: preparing testbed
186s Reading package lists...
186s Building dependency tree...
186s Reading state information...
186s Starting pkgProblemResolver with broken count: 0
186s Starting 2 pkgProblemResolver with broken count: 0
186s Done
186s The following NEW packages will be installed:
186s   bowtie fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
186s   libblas3 libcairo2 libdatrie1 libdeflate0 libfontconfig1 libfreetype6
186s   libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhts3t64 libhtscodecs2
186s   libice6 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 libpango-1.0-0
186s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpixman-1-0
186s   libsharpyuv0 libsm6 libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6
186s   libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64
186s   r-base-core rsem unzip x11-common xdg-utils zip
186s 0 upgraded, 48 newly installed, 0 to remove and 0 not upgraded.
186s Need to get 78.5 MB of archives.
186s After this operation, 125 MB of additional disk space will be used.
186s Get:1 http://ftpmaster.internal/ubuntu plucky/main s390x libfreetype6 s390x 2.13.3+dfsg-1 [431 kB]
187s Get:2 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-mono all 2.37-8 [502 kB]
187s Get:3 http://ftpmaster.internal/ubuntu plucky/main s390x fonts-dejavu-core all 2.37-8 [835 kB]
188s Get:4 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig-config s390x 2.15.0-2ubuntu1 [37.5 kB]
188s Get:5 http://ftpmaster.internal/ubuntu plucky/main s390x libfontconfig1 s390x 2.15.0-2ubuntu1 [150 kB]
188s Get:6 http://ftpmaster.internal/ubuntu plucky/main s390x fontconfig s390x 2.15.0-2ubuntu1 [191 kB]
188s Get:7 http://ftpmaster.internal/ubuntu plucky/main s390x libblas3 s390x 3.12.1-2 [252 kB]
189s Get:8 http://ftpmaster.internal/ubuntu plucky/main s390x libpixman-1-0 s390x 0.44.0-3 [201 kB]
189s Get:9 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-render0 s390x 1.17.0-2 [17.0 kB]
189s Get:10 http://ftpmaster.internal/ubuntu plucky/main s390x libxcb-shm0 s390x 1.17.0-2 [5862 B]
189s Get:11 http://ftpmaster.internal/ubuntu plucky/main s390x libxrender1 s390x 1:0.9.10-1.1build1 [20.4 kB]
189s Get:12 http://ftpmaster.internal/ubuntu plucky/main s390x libcairo2 s390x 1.18.2-2 [580 kB]
189s Get:13 http://ftpmaster.internal/ubuntu plucky/main s390x libdatrie1 s390x 0.2.13-3build1 [20.6 kB]
189s Get:14 http://ftpmaster.internal/ubuntu plucky/main s390x libdeflate0 s390x 1.23-1 [46.1 kB]
189s Get:15 http://ftpmaster.internal/ubuntu plucky/main s390x libgfortran5 s390x 15-20250222-0ubuntu1 [620 kB]
190s Get:16 http://ftpmaster.internal/ubuntu plucky/main s390x libgomp1 s390x 15-20250222-0ubuntu1 [152 kB]
190s Get:17 http://ftpmaster.internal/ubuntu plucky/main s390x libgraphite2-3 s390x 1.3.14-2ubuntu1 [79.8 kB]
190s Get:18 http://ftpmaster.internal/ubuntu plucky/main s390x libharfbuzz0b s390x 10.2.0-1 [538 kB]
190s Get:19 http://ftpmaster.internal/ubuntu plucky/universe s390x libhtscodecs2 s390x 1.6.1-2 [91.0 kB]
190s Get:20 http://ftpmaster.internal/ubuntu plucky/universe s390x libhts3t64 s390x 1.21+ds-1 [479 kB]
191s Get:21 http://ftpmaster.internal/ubuntu plucky/main s390x x11-common all 1:7.7+23ubuntu3 [21.7 kB]
191s Get:22 http://ftpmaster.internal/ubuntu plucky/main s390x libice6 s390x 2:1.1.1-1 [45.4 kB]
191s Get:23 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg-turbo8 s390x 2.1.5-3ubuntu2 [147 kB]
191s Get:24 http://ftpmaster.internal/ubuntu plucky/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B]
191s Get:25 http://ftpmaster.internal/ubuntu plucky/main s390x liblapack3 s390x 3.12.1-2 [2971 kB]
193s Get:26 http://ftpmaster.internal/ubuntu plucky/main s390x libthai-data all 0.1.29-2build1 [158 kB]
193s Get:27 http://ftpmaster.internal/ubuntu plucky/main s390x libthai0 s390x 0.1.29-2build1 [20.7 kB]
193s Get:28 http://ftpmaster.internal/ubuntu plucky/main s390x libpango-1.0-0 s390x 1.56.2-1 [253 kB]
193s Get:29 http://ftpmaster.internal/ubuntu plucky/main s390x libpangoft2-1.0-0 s390x 1.56.2-1 [50.2 kB]
193s Get:30 http://ftpmaster.internal/ubuntu plucky/main s390x libpangocairo-1.0-0 s390x 1.56.2-1 [28.2 kB]
193s Get:31 http://ftpmaster.internal/ubuntu plucky/main s390x libpaper2 s390x 2.2.5-0.3 [17.2 kB]
193s Get:32 http://ftpmaster.internal/ubuntu plucky/main s390x libpaper-utils s390x 2.2.5-0.3 [15.3 kB]
193s Get:33 http://ftpmaster.internal/ubuntu plucky/main s390x libsharpyuv0 s390x 1.5.0-0.1 [16.7 kB]
193s Get:34 http://ftpmaster.internal/ubuntu plucky/main s390x libsm6 s390x 2:1.2.4-1 [18.4 kB]
193s Get:35 http://ftpmaster.internal/ubuntu plucky/main s390x libtcl8.6 s390x 8.6.16+dfsg-1 [1034 kB]
194s Get:36 http://ftpmaster.internal/ubuntu plucky/main s390x libjbig0 s390x 2.1-6.1ubuntu2 [33.1 kB]
194s Get:37 http://ftpmaster.internal/ubuntu plucky/main s390x libwebp7 s390x 1.5.0-0.1 [210 kB]
194s Get:38 http://ftpmaster.internal/ubuntu plucky/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu4 [217 kB]
194s Get:39 http://ftpmaster.internal/ubuntu plucky/main s390x libxft2 s390x 2.3.6-1build1 [49.6 kB]
194s Get:40 http://ftpmaster.internal/ubuntu plucky/main s390x libxss1 s390x 1:1.2.3-1build3 [7396 B]
194s Get:41 http://ftpmaster.internal/ubuntu plucky/main s390x libtk8.6 s390x 8.6.16-1 [830 kB]
195s Get:42 http://ftpmaster.internal/ubuntu plucky/main s390x libxt6t64 s390x 1:1.2.1-1.2build1 [184 kB]
195s Get:43 http://ftpmaster.internal/ubuntu plucky/main s390x zip s390x 3.0-14ubuntu2 [187 kB]
195s Get:44 http://ftpmaster.internal/ubuntu plucky/main s390x unzip s390x 6.0-28ubuntu6 [186 kB]
195s Get:45 http://ftpmaster.internal/ubuntu plucky/main s390x xdg-utils all 1.2.1-2ubuntu1 [66.0 kB]
195s Get:46 http://ftpmaster.internal/ubuntu plucky/universe s390x r-base-core s390x 4.4.3-1 [28.6 MB]
214s Get:47 http://ftpmaster.internal/ubuntu plucky/universe s390x bowtie s390x 1.3.1-3 [1671 kB]
216s Get:48 http://ftpmaster.internal/ubuntu plucky/universe s390x rsem s390x 1.3.3+dfsg-3build1 [36.1 MB]
238s Preconfiguring packages ...
238s Fetched 78.5 MB in 52s (1510 kB/s)
238s Selecting previously unselected package libfreetype6:s390x.
238s (Reading database ... 
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(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 ... 56326 files and directories currently installed.)
238s Preparing to unpack .../00-libfreetype6_2.13.3+dfsg-1_s390x.deb ...
238s Unpacking libfreetype6:s390x (2.13.3+dfsg-1) ...
238s Selecting previously unselected package fonts-dejavu-mono.
238s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ...
238s Unpacking fonts-dejavu-mono (2.37-8) ...
239s Selecting previously unselected package fonts-dejavu-core.
239s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ...
239s Unpacking fonts-dejavu-core (2.37-8) ...
239s Selecting previously unselected package fontconfig-config.
239s Preparing to unpack .../03-fontconfig-config_2.15.0-2ubuntu1_s390x.deb ...
239s Unpacking fontconfig-config (2.15.0-2ubuntu1) ...
239s Selecting previously unselected package libfontconfig1:s390x.
239s Preparing to unpack .../04-libfontconfig1_2.15.0-2ubuntu1_s390x.deb ...
239s Unpacking libfontconfig1:s390x (2.15.0-2ubuntu1) ...
239s Selecting previously unselected package fontconfig.
239s Preparing to unpack .../05-fontconfig_2.15.0-2ubuntu1_s390x.deb ...
239s Unpacking fontconfig (2.15.0-2ubuntu1) ...
239s Selecting previously unselected package libblas3:s390x.
239s Preparing to unpack .../06-libblas3_3.12.1-2_s390x.deb ...
239s Unpacking libblas3:s390x (3.12.1-2) ...
239s Selecting previously unselected package libpixman-1-0:s390x.
239s Preparing to unpack .../07-libpixman-1-0_0.44.0-3_s390x.deb ...
239s Unpacking libpixman-1-0:s390x (0.44.0-3) ...
239s Selecting previously unselected package libxcb-render0:s390x.
239s Preparing to unpack .../08-libxcb-render0_1.17.0-2_s390x.deb ...
239s Unpacking libxcb-render0:s390x (1.17.0-2) ...
239s Selecting previously unselected package libxcb-shm0:s390x.
239s Preparing to unpack .../09-libxcb-shm0_1.17.0-2_s390x.deb ...
239s Unpacking libxcb-shm0:s390x (1.17.0-2) ...
239s Selecting previously unselected package libxrender1:s390x.
239s Preparing to unpack .../10-libxrender1_1%3a0.9.10-1.1build1_s390x.deb ...
239s Unpacking libxrender1:s390x (1:0.9.10-1.1build1) ...
239s Selecting previously unselected package libcairo2:s390x.
239s Preparing to unpack .../11-libcairo2_1.18.2-2_s390x.deb ...
239s Unpacking libcairo2:s390x (1.18.2-2) ...
239s Selecting previously unselected package libdatrie1:s390x.
239s Preparing to unpack .../12-libdatrie1_0.2.13-3build1_s390x.deb ...
239s Unpacking libdatrie1:s390x (0.2.13-3build1) ...
239s Selecting previously unselected package libdeflate0:s390x.
239s Preparing to unpack .../13-libdeflate0_1.23-1_s390x.deb ...
239s Unpacking libdeflate0:s390x (1.23-1) ...
239s Selecting previously unselected package libgfortran5:s390x.
239s Preparing to unpack .../14-libgfortran5_15-20250222-0ubuntu1_s390x.deb ...
239s Unpacking libgfortran5:s390x (15-20250222-0ubuntu1) ...
239s Selecting previously unselected package libgomp1:s390x.
239s Preparing to unpack .../15-libgomp1_15-20250222-0ubuntu1_s390x.deb ...
239s Unpacking libgomp1:s390x (15-20250222-0ubuntu1) ...
239s Selecting previously unselected package libgraphite2-3:s390x.
239s Preparing to unpack .../16-libgraphite2-3_1.3.14-2ubuntu1_s390x.deb ...
239s Unpacking libgraphite2-3:s390x (1.3.14-2ubuntu1) ...
239s Selecting previously unselected package libharfbuzz0b:s390x.
239s Preparing to unpack .../17-libharfbuzz0b_10.2.0-1_s390x.deb ...
239s Unpacking libharfbuzz0b:s390x (10.2.0-1) ...
239s Selecting previously unselected package libhtscodecs2:s390x.
239s Preparing to unpack .../18-libhtscodecs2_1.6.1-2_s390x.deb ...
239s Unpacking libhtscodecs2:s390x (1.6.1-2) ...
239s Selecting previously unselected package libhts3t64:s390x.
239s Preparing to unpack .../19-libhts3t64_1.21+ds-1_s390x.deb ...
239s Unpacking libhts3t64:s390x (1.21+ds-1) ...
239s Selecting previously unselected package x11-common.
239s Preparing to unpack .../20-x11-common_1%3a7.7+23ubuntu3_all.deb ...
239s Unpacking x11-common (1:7.7+23ubuntu3) ...
239s Selecting previously unselected package libice6:s390x.
239s Preparing to unpack .../21-libice6_2%3a1.1.1-1_s390x.deb ...
239s Unpacking libice6:s390x (2:1.1.1-1) ...
239s Selecting previously unselected package libjpeg-turbo8:s390x.
239s Preparing to unpack .../22-libjpeg-turbo8_2.1.5-3ubuntu2_s390x.deb ...
239s Unpacking libjpeg-turbo8:s390x (2.1.5-3ubuntu2) ...
239s Selecting previously unselected package libjpeg8:s390x.
239s Preparing to unpack .../23-libjpeg8_8c-2ubuntu11_s390x.deb ...
239s Unpacking libjpeg8:s390x (8c-2ubuntu11) ...
239s Selecting previously unselected package liblapack3:s390x.
239s Preparing to unpack .../24-liblapack3_3.12.1-2_s390x.deb ...
239s Unpacking liblapack3:s390x (3.12.1-2) ...
239s Selecting previously unselected package libthai-data.
239s Preparing to unpack .../25-libthai-data_0.1.29-2build1_all.deb ...
239s Unpacking libthai-data (0.1.29-2build1) ...
239s Selecting previously unselected package libthai0:s390x.
239s Preparing to unpack .../26-libthai0_0.1.29-2build1_s390x.deb ...
239s Unpacking libthai0:s390x (0.1.29-2build1) ...
239s Selecting previously unselected package libpango-1.0-0:s390x.
239s Preparing to unpack .../27-libpango-1.0-0_1.56.2-1_s390x.deb ...
239s Unpacking libpango-1.0-0:s390x (1.56.2-1) ...
239s Selecting previously unselected package libpangoft2-1.0-0:s390x.
239s Preparing to unpack .../28-libpangoft2-1.0-0_1.56.2-1_s390x.deb ...
239s Unpacking libpangoft2-1.0-0:s390x (1.56.2-1) ...
239s Selecting previously unselected package libpangocairo-1.0-0:s390x.
239s Preparing to unpack .../29-libpangocairo-1.0-0_1.56.2-1_s390x.deb ...
239s Unpacking libpangocairo-1.0-0:s390x (1.56.2-1) ...
239s Selecting previously unselected package libpaper2:s390x.
239s Preparing to unpack .../30-libpaper2_2.2.5-0.3_s390x.deb ...
239s Unpacking libpaper2:s390x (2.2.5-0.3) ...
239s Selecting previously unselected package libpaper-utils.
239s Preparing to unpack .../31-libpaper-utils_2.2.5-0.3_s390x.deb ...
239s Unpacking libpaper-utils (2.2.5-0.3) ...
239s Selecting previously unselected package libsharpyuv0:s390x.
239s Preparing to unpack .../32-libsharpyuv0_1.5.0-0.1_s390x.deb ...
239s Unpacking libsharpyuv0:s390x (1.5.0-0.1) ...
239s Selecting previously unselected package libsm6:s390x.
239s Preparing to unpack .../33-libsm6_2%3a1.2.4-1_s390x.deb ...
239s Unpacking libsm6:s390x (2:1.2.4-1) ...
239s Selecting previously unselected package libtcl8.6:s390x.
239s Preparing to unpack .../34-libtcl8.6_8.6.16+dfsg-1_s390x.deb ...
239s Unpacking libtcl8.6:s390x (8.6.16+dfsg-1) ...
239s Selecting previously unselected package libjbig0:s390x.
239s Preparing to unpack .../35-libjbig0_2.1-6.1ubuntu2_s390x.deb ...
239s Unpacking libjbig0:s390x (2.1-6.1ubuntu2) ...
239s Selecting previously unselected package libwebp7:s390x.
239s Preparing to unpack .../36-libwebp7_1.5.0-0.1_s390x.deb ...
239s Unpacking libwebp7:s390x (1.5.0-0.1) ...
239s Selecting previously unselected package libtiff6:s390x.
239s Preparing to unpack .../37-libtiff6_4.5.1+git230720-4ubuntu4_s390x.deb ...
239s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu4) ...
239s Selecting previously unselected package libxft2:s390x.
239s Preparing to unpack .../38-libxft2_2.3.6-1build1_s390x.deb ...
239s Unpacking libxft2:s390x (2.3.6-1build1) ...
239s Selecting previously unselected package libxss1:s390x.
239s Preparing to unpack .../39-libxss1_1%3a1.2.3-1build3_s390x.deb ...
239s Unpacking libxss1:s390x (1:1.2.3-1build3) ...
239s Selecting previously unselected package libtk8.6:s390x.
239s Preparing to unpack .../40-libtk8.6_8.6.16-1_s390x.deb ...
239s Unpacking libtk8.6:s390x (8.6.16-1) ...
239s Selecting previously unselected package libxt6t64:s390x.
239s Preparing to unpack .../41-libxt6t64_1%3a1.2.1-1.2build1_s390x.deb ...
239s Unpacking libxt6t64:s390x (1:1.2.1-1.2build1) ...
239s Selecting previously unselected package zip.
239s Preparing to unpack .../42-zip_3.0-14ubuntu2_s390x.deb ...
239s Unpacking zip (3.0-14ubuntu2) ...
239s Selecting previously unselected package unzip.
239s Preparing to unpack .../43-unzip_6.0-28ubuntu6_s390x.deb ...
239s Unpacking unzip (6.0-28ubuntu6) ...
239s Selecting previously unselected package xdg-utils.
239s Preparing to unpack .../44-xdg-utils_1.2.1-2ubuntu1_all.deb ...
239s Unpacking xdg-utils (1.2.1-2ubuntu1) ...
239s Selecting previously unselected package r-base-core.
239s Preparing to unpack .../45-r-base-core_4.4.3-1_s390x.deb ...
239s Unpacking r-base-core (4.4.3-1) ...
239s Selecting previously unselected package bowtie.
239s Preparing to unpack .../46-bowtie_1.3.1-3_s390x.deb ...
239s Unpacking bowtie (1.3.1-3) ...
239s Selecting previously unselected package rsem.
239s Preparing to unpack .../47-rsem_1.3.3+dfsg-3build1_s390x.deb ...
239s Unpacking rsem (1.3.3+dfsg-3build1) ...
240s Setting up libhtscodecs2:s390x (1.6.1-2) ...
240s Setting up libgraphite2-3:s390x (1.3.14-2ubuntu1) ...
240s Setting up libpixman-1-0:s390x (0.44.0-3) ...
240s Setting up libsharpyuv0:s390x (1.5.0-0.1) ...
240s Setting up bowtie (1.3.1-3) ...
240s Setting up libxrender1:s390x (1:0.9.10-1.1build1) ...
240s Setting up libdatrie1:s390x (0.2.13-3build1) ...
240s Setting up libxcb-render0:s390x (1.17.0-2) ...
240s Setting up unzip (6.0-28ubuntu6) ...
240s Setting up x11-common (1:7.7+23ubuntu3) ...
240s Setting up libdeflate0:s390x (1.23-1) ...
240s Setting up libxcb-shm0:s390x (1.17.0-2) ...
240s Setting up libgomp1:s390x (15-20250222-0ubuntu1) ...
240s Setting up libjbig0:s390x (2.1-6.1ubuntu2) ...
240s Setting up zip (3.0-14ubuntu2) ...
240s Setting up libblas3:s390x (3.12.1-2) ...
240s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode
240s Setting up libfreetype6:s390x (2.13.3+dfsg-1) ...
240s Setting up fonts-dejavu-mono (2.37-8) ...
240s Setting up libtcl8.6:s390x (8.6.16+dfsg-1) ...
240s Setting up fonts-dejavu-core (2.37-8) ...
240s Setting up libjpeg-turbo8:s390x (2.1.5-3ubuntu2) ...
240s Setting up libgfortran5:s390x (15-20250222-0ubuntu1) ...
240s Setting up libwebp7:s390x (1.5.0-0.1) ...
240s Setting up libhts3t64:s390x (1.21+ds-1) ...
240s Setting up libharfbuzz0b:s390x (10.2.0-1) ...
240s Setting up libthai-data (0.1.29-2build1) ...
240s Setting up libxss1:s390x (1:1.2.3-1build3) ...
240s Setting up libpaper2:s390x (2.2.5-0.3) ...
240s Setting up xdg-utils (1.2.1-2ubuntu1) ...
240s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
240s Setting up libjpeg8:s390x (8c-2ubuntu11) ...
240s Setting up libice6:s390x (2:1.1.1-1) ...
240s Setting up liblapack3:s390x (3.12.1-2) ...
240s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode
240s Setting up fontconfig-config (2.15.0-2ubuntu1) ...
240s Setting up libpaper-utils (2.2.5-0.3) ...
240s Setting up libthai0:s390x (0.1.29-2build1) ...
240s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu4) ...
240s Setting up libfontconfig1:s390x (2.15.0-2ubuntu1) ...
240s Setting up libsm6:s390x (2:1.2.4-1) ...
240s Setting up fontconfig (2.15.0-2ubuntu1) ...
242s Regenerating fonts cache... done.
242s Setting up libxft2:s390x (2.3.6-1build1) ...
242s Setting up libtk8.6:s390x (8.6.16-1) ...
242s Setting up libpango-1.0-0:s390x (1.56.2-1) ...
242s Setting up libcairo2:s390x (1.18.2-2) ...
242s Setting up libxt6t64:s390x (1:1.2.1-1.2build1) ...
242s Setting up libpangoft2-1.0-0:s390x (1.56.2-1) ...
242s Setting up libpangocairo-1.0-0:s390x (1.56.2-1) ...
242s Setting up r-base-core (4.4.3-1) ...
242s Creating config file /etc/R/Renviron with new version
242s Setting up rsem (1.3.3+dfsg-3build1) ...
242s Processing triggers for libc-bin (2.41-1ubuntu2) ...
242s Processing triggers for man-db (2.13.0-1) ...
243s Processing triggers for install-info (7.1.1-1) ...
244s autopkgtest [18:47:30]: test run-unit-test: [-----------------------
244s + pkg=rsem
244s + '[' /tmp/autopkgtest.ndg8xr/autopkgtest_tmp = '' ']'
244s + cp -a /usr/share/doc/rsem/examples/mouse_ref_building_from_transcripts.tar.gz /tmp/autopkgtest.ndg8xr/autopkgtest_tmp
244s + cd /tmp/autopkgtest.ndg8xr/autopkgtest_tmp
244s + tar -C . -xzf mouse_ref_building_from_transcripts.tar.gz
245s + rsem-prepare-reference --transcript-to-gene-map mouse_ref_mapping.txt mouse_ref.fa mouse_ref
245s rsem-synthesis-reference-transcripts mouse_ref 0 1 mouse_ref_mapping.txt mouse_ref.fa
247s Transcript Information File is generated!
247s Group File is generated!
247s Extracted Sequences File is generated!
247s 
247s rsem-preref mouse_ref.transcripts.fa 1 mouse_ref
250s Refs.makeRefs finished!
250s Refs.saveRefs finished!
250s mouse_ref.idx.fa is generated!
250s mouse_ref.n2g.idx.fa is generated!
250s 
251s autopkgtest [18:47:37]: test run-unit-test: -----------------------]
251s run-unit-test        PASS
251s autopkgtest [18:47:37]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
252s autopkgtest [18:47:38]: @@@@@@@@@@@@@@@@@@@@ summary
252s run-unit-test        PASS
270s nova [W] Using flock in prodstack6-s390x
270s Creating nova instance adt-plucky-s390x-rsem-20250315-184326-juju-7f2275-prod-proposed-migration-environment-2-728e4975-bfed-4ba8-8c2a-e982dc6ad6a8 from image adt/ubuntu-plucky-s390x-server-20250315.img (UUID 3d3557fa-fd0f-4bba-9b89-8d5964e09f61)...
270s nova [W] Timed out waiting for 75e8f0bf-d35a-4b5e-8ff2-f494cf2b0147 to get deleted.