0s autopkgtest [16:17:03]: starting date and time: 2025-03-15 16:17:03+0000
  0s autopkgtest [16:17:03]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production'
  0s autopkgtest [16:17:03]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.62juh8ef/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 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-arm64-6.secgroup --name adt-plucky-arm64-rsem-20250315-161702-juju-7f2275-prod-proposed-migration-environment-20-48e197f9-a709-4f5e-ae39-08ae28d95eb7 --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --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,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 [16:19:01]: testbed dpkg architecture: arm64
118s autopkgtest [16:19:01]: testbed apt version: 2.9.33
118s autopkgtest [16:19:01]: @@@@@@@@@@@@@@@@@@@@ test bed setup
118s autopkgtest [16:19:01]: testbed release detected to be: None
119s autopkgtest [16:19:02]: updating testbed package index (apt update)
119s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB]
120s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
120s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
120s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
120s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB]
120s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB]
120s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB]
120s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [111 kB]
121s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 c-n-f Metadata [1856 B]
121s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 c-n-f Metadata [116 B]
121s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [324 kB]
121s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 c-n-f Metadata [14.7 kB]
121s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [4948 B]
121s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 c-n-f Metadata [268 B]
121s Fetched 1078 kB in 2s (617 kB/s)
123s Reading package lists...
123s Reading package lists...
123s Building dependency tree...
123s Reading state information...
124s Calculating upgrade...
124s Calculating upgrade...
124s The following packages will be upgraded:
124s   pinentry-curses python3-jinja2 strace
124s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
124s Need to get 647 kB of archives.
124s After this operation, 11.3 kB of additional disk space will be used.
124s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 strace arm64 6.13+ds-1ubuntu1 [499 kB]
125s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 pinentry-curses arm64 1.3.1-2ubuntu3 [39.2 kB]
125s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB]
126s Fetched 647 kB in 1s (647 kB/s)
126s (Reading database ... 
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(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 117701 files and directories currently installed.)
126s Preparing to unpack .../strace_6.13+ds-1ubuntu1_arm64.deb ...
126s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ...
126s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_arm64.deb ...
126s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ...
126s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ...
126s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ...
126s Setting up pinentry-curses (1.3.1-2ubuntu3) ...
126s Setting up python3-jinja2 (3.1.5-2ubuntu1) ...
127s Setting up strace (6.13+ds-1ubuntu1) ...
127s Processing triggers for man-db (2.13.0-1) ...
128s Reading package lists...
128s Building dependency tree...
128s Reading state information...
128s Solving dependencies...
129s The following packages will be REMOVED:
129s   libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64*
129s   libunwind8* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic*
129s   linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic*
129s   linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic*
129s 0 upgraded, 0 newly installed, 11 to remove and 5 not upgraded.
129s After this operation, 267 MB disk space will be freed.
129s (Reading database ... 
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(Reading database ... 85%
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 117701 files and directories currently installed.)
129s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ...
129s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ...
129s Removing libpython3.12t64:arm64 (3.12.9-1) ...
129s Removing libpython3.12-stdlib:arm64 (3.12.9-1) ...
129s Removing libnsl2:arm64 (1.3.0-3build3) ...
129s Removing libpython3.12-minimal:arm64 (3.12.9-1) ...
129s Removing libunwind8:arm64 (1.6.2-3.1) ...
129s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ...
130s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ...
132s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ...
132s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic
132s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic
132s /etc/kernel/postrm.d/initramfs-tools:
132s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic
132s /etc/kernel/postrm.d/zz-flash-kernel:
132s flash-kernel: Kernel 6.11.0-8-generic has been removed.
132s flash-kernel: A higher version (6.14.0-10-generic) is still installed, no reflashing required.
132s /etc/kernel/postrm.d/zz-update-grub:
132s Sourcing file `/etc/default/grub'
132s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
132s Generating grub configuration file ...
133s Found linux image: /boot/vmlinuz-6.14.0-10-generic
133s Found initrd image: /boot/initrd.img-6.14.0-10-generic
133s Warning: os-prober will not be executed to detect other bootable partitions.
133s Systems on them will not be added to the GRUB boot configuration.
133s Check GRUB_DISABLE_OS_PROBER documentation entry.
133s Adding boot menu entry for UEFI Firmware Settings ...
133s done
133s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ...
133s Processing triggers for libc-bin (2.41-1ubuntu1) ...
134s (Reading database ... 
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(Reading database ... 81650 files and directories currently installed.)
134s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ...
134s Purging configuration files for libpython3.12-minimal:arm64 (3.12.9-1) ...
134s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ...
134s autopkgtest [16:19:17]: upgrading testbed (apt dist-upgrade and autopurge)
134s Reading package lists...
134s Building dependency tree...
134s Reading state information...
135s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
135s Starting 2 pkgProblemResolver with broken count: 0
135s Done
136s Entering ResolveByKeep
136s 
136s Calculating upgrade...
138s The following packages will be upgraded:
138s   libc-bin libc-dev-bin libc6 libc6-dev locales
138s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
138s Need to get 9530 kB of archives.
138s After this operation, 0 B of additional disk space will be used.
138s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6-dev arm64 2.41-1ubuntu2 [1750 kB]
139s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-dev-bin arm64 2.41-1ubuntu2 [24.0 kB]
139s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6 arm64 2.41-1ubuntu2 [2910 kB]
142s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-bin arm64 2.41-1ubuntu2 [600 kB]
142s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 locales all 2.41-1ubuntu2 [4246 kB]
146s Preconfiguring packages ...
146s Fetched 9530 kB in 9s (1061 kB/s)
146s (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 ... 81647 files and directories currently installed.)
146s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_arm64.deb ...
146s Unpacking libc6-dev:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
147s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_arm64.deb ...
147s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
147s Preparing to unpack .../libc6_2.41-1ubuntu2_arm64.deb ...
147s Unpacking libc6:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
147s Setting up libc6:arm64 (2.41-1ubuntu2) ...
147s (Reading database ... 
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(Reading database ... 70%
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(Reading database ... 80%
(Reading database ... 85%
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 81647 files and directories currently installed.)
147s Preparing to unpack .../libc-bin_2.41-1ubuntu2_arm64.deb ...
147s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
147s Setting up libc-bin (2.41-1ubuntu2) ...
147s (Reading database ... 
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 81647 files and directories currently installed.)
147s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ...
147s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
148s Setting up locales (2.41-1ubuntu2) ...
149s Generating locales (this might take a while)...
151s   en_US.UTF-8... done
151s Generation complete.
151s Setting up libc-dev-bin (2.41-1ubuntu2) ...
151s Setting up libc6-dev:arm64 (2.41-1ubuntu2) ...
151s Processing triggers for man-db (2.13.0-1) ...
152s Processing triggers for systemd (257.3-1ubuntu3) ...
153s Reading package lists...
153s Building dependency tree...
153s Reading state information...
154s Starting pkgProblemResolver with broken count: 0
154s Starting 2 pkgProblemResolver with broken count: 0
154s Done
154s Solving dependencies...
155s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
155s autopkgtest [16:19:38]: rebooting testbed after setup commands that affected boot
178s autopkgtest [16:20:01]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 15:45:31 UTC 2025
181s autopkgtest [16:20:04]: @@@@@@@@@@@@@@@@@@@@ apt-source rsem
218s Get:1 http://ftpmaster.internal/ubuntu plucky/universe rsem 1.3.3+dfsg-3build1 (dsc) [2129 B]
218s Get:2 http://ftpmaster.internal/ubuntu plucky/universe rsem 1.3.3+dfsg-3build1 (tar) [275 kB]
218s Get:3 http://ftpmaster.internal/ubuntu plucky/universe rsem 1.3.3+dfsg-3build1 (diff) [35.7 MB]
219s gpgv: Signature made Sun Apr 14 18:54:30 2024 UTC
219s gpgv:                using RSA key AC0A4FF12611B6FCCF01C111393587D97D86500B
219s gpgv: Can't check signature: No public key
219s dpkg-source: warning: cannot verify inline signature for ./rsem_1.3.3+dfsg-3build1.dsc: no acceptable signature found
219s autopkgtest [16:20:42]: testing package rsem version 1.3.3+dfsg-3build1
221s autopkgtest [16:20:44]: build not needed
223s autopkgtest [16:20:46]: test run-unit-test: preparing testbed
223s Reading package lists...
224s Building dependency tree...
224s Reading state information...
224s Starting pkgProblemResolver with broken count: 0
224s Starting 2 pkgProblemResolver with broken count: 0
224s Done
225s The following NEW packages will be installed:
225s   bowtie fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
225s   libblas3 libcairo2 libdatrie1 libdeflate0 libfontconfig1 libgfortran5
225s   libgomp1 libgraphite2-3 libharfbuzz0b libhts3t64 libhtscodecs2 libice6
225s   libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 libpango-1.0-0
225s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpixman-1-0
225s   libsharpyuv0 libsm6 libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6
225s   libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64
225s   r-base-core rsem unzip x11-common xdg-utils zip
225s 0 upgraded, 48 newly installed, 0 to remove and 0 not upgraded.
225s Need to get 76.3 MB of archives.
225s After this operation, 124 MB of additional disk space will be used.
225s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB]
226s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB]
227s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-2ubuntu1 [37.5 kB]
227s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-2ubuntu1 [144 kB]
227s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig arm64 2.15.0-2ubuntu1 [191 kB]
227s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.1-2 [161 kB]
227s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB]
228s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB]
228s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B]
228s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB]
228s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB]
229s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 libdatrie1 arm64 0.2.13-3build1 [19.2 kB]
229s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.23-1 [46.2 kB]
229s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 15-20250222-0ubuntu1 [444 kB]
229s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 15-20250222-0ubuntu1 [146 kB]
229s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB]
229s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.2.0-1 [490 kB]
230s Get:18 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhtscodecs2 arm64 1.6.1-2 [82.7 kB]
230s Get:19 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhts3t64 arm64 1.21+ds-1 [441 kB]
231s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB]
231s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 libice6 arm64 2:1.1.1-1 [42.3 kB]
231s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-3ubuntu2 [165 kB]
231s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B]
231s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.1-2 [2307 kB]
234s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu1 [167 kB]
234s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai-data all 0.1.29-2build1 [158 kB]
234s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai0 arm64 0.1.29-2build1 [18.2 kB]
234s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 libpango-1.0-0 arm64 1.56.2-1 [237 kB]
234s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangoft2-1.0-0 arm64 1.56.2-1 [49.5 kB]
235s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangocairo-1.0-0 arm64 1.56.2-1 [27.6 kB]
235s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper2 arm64 2.2.5-0.3 [17.3 kB]
235s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper-utils arm64 2.2.5-0.3 [15.4 kB]
235s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [16.9 kB]
235s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 libsm6 arm64 2:1.2.4-1 [16.4 kB]
235s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 libtcl8.6 arm64 8.6.16+dfsg-1 [987 kB]
236s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB]
236s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.5.0-0.1 [194 kB]
236s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB]
236s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB]
236s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B]
236s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 libtk8.6 arm64 8.6.16-1 [776 kB]
237s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 libxt6t64 arm64 1:1.2.1-1.2build1 [168 kB]
237s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 zip arm64 3.0-14ubuntu2 [173 kB]
237s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 unzip arm64 6.0-28ubuntu6 [178 kB]
238s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB]
238s Get:46 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-base-core arm64 4.4.3-1 [28.4 MB]
274s Get:47 http://ftpmaster.internal/ubuntu plucky/universe arm64 bowtie arm64 1.3.1-3 [1346 kB]
275s Get:48 http://ftpmaster.internal/ubuntu plucky/universe arm64 rsem arm64 1.3.3+dfsg-3build1 [36.0 MB]
318s Preconfiguring packages ...
318s Fetched 76.3 MB in 1min 33s (821 kB/s)
318s Selecting previously unselected package fonts-dejavu-mono.
319s (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 ... 81647 files and directories currently installed.)
319s Preparing to unpack .../00-fonts-dejavu-mono_2.37-8_all.deb ...
319s Unpacking fonts-dejavu-mono (2.37-8) ...
319s Selecting previously unselected package fonts-dejavu-core.
319s Preparing to unpack .../01-fonts-dejavu-core_2.37-8_all.deb ...
319s Unpacking fonts-dejavu-core (2.37-8) ...
319s Selecting previously unselected package fontconfig-config.
319s Preparing to unpack .../02-fontconfig-config_2.15.0-2ubuntu1_arm64.deb ...
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319s Selecting previously unselected package libfontconfig1:arm64.
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319s Unpacking libfontconfig1:arm64 (2.15.0-2ubuntu1) ...
319s Selecting previously unselected package fontconfig.
319s Preparing to unpack .../04-fontconfig_2.15.0-2ubuntu1_arm64.deb ...
319s Unpacking fontconfig (2.15.0-2ubuntu1) ...
319s Selecting previously unselected package libblas3:arm64.
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319s Unpacking libblas3:arm64 (3.12.1-2) ...
319s Selecting previously unselected package libpixman-1-0:arm64.
319s Preparing to unpack .../06-libpixman-1-0_0.44.0-3_arm64.deb ...
319s Unpacking libpixman-1-0:arm64 (0.44.0-3) ...
319s Selecting previously unselected package libxcb-render0:arm64.
319s Preparing to unpack .../07-libxcb-render0_1.17.0-2_arm64.deb ...
319s Unpacking libxcb-render0:arm64 (1.17.0-2) ...
319s Selecting previously unselected package libxcb-shm0:arm64.
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319s Unpacking libxcb-shm0:arm64 (1.17.0-2) ...
320s Selecting previously unselected package libxrender1:arm64.
320s Preparing to unpack .../09-libxrender1_1%3a0.9.10-1.1build1_arm64.deb ...
320s Unpacking libxrender1:arm64 (1:0.9.10-1.1build1) ...
320s Selecting previously unselected package libcairo2:arm64.
320s Preparing to unpack .../10-libcairo2_1.18.2-2_arm64.deb ...
320s Unpacking libcairo2:arm64 (1.18.2-2) ...
320s Selecting previously unselected package libdatrie1:arm64.
320s Preparing to unpack .../11-libdatrie1_0.2.13-3build1_arm64.deb ...
320s Unpacking libdatrie1:arm64 (0.2.13-3build1) ...
320s Selecting previously unselected package libdeflate0:arm64.
320s Preparing to unpack .../12-libdeflate0_1.23-1_arm64.deb ...
320s Unpacking libdeflate0:arm64 (1.23-1) ...
320s Selecting previously unselected package libgfortran5:arm64.
320s Preparing to unpack .../13-libgfortran5_15-20250222-0ubuntu1_arm64.deb ...
320s Unpacking libgfortran5:arm64 (15-20250222-0ubuntu1) ...
320s Selecting previously unselected package libgomp1:arm64.
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320s Unpacking libgomp1:arm64 (15-20250222-0ubuntu1) ...
320s Selecting previously unselected package libgraphite2-3:arm64.
320s Preparing to unpack .../15-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ...
320s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
320s Selecting previously unselected package libharfbuzz0b:arm64.
320s Preparing to unpack .../16-libharfbuzz0b_10.2.0-1_arm64.deb ...
320s Unpacking libharfbuzz0b:arm64 (10.2.0-1) ...
320s Selecting previously unselected package libhtscodecs2:arm64.
320s Preparing to unpack .../17-libhtscodecs2_1.6.1-2_arm64.deb ...
320s Unpacking libhtscodecs2:arm64 (1.6.1-2) ...
320s Selecting previously unselected package libhts3t64:arm64.
320s Preparing to unpack .../18-libhts3t64_1.21+ds-1_arm64.deb ...
320s Unpacking libhts3t64:arm64 (1.21+ds-1) ...
320s Selecting previously unselected package x11-common.
320s Preparing to unpack .../19-x11-common_1%3a7.7+23ubuntu3_all.deb ...
320s Unpacking x11-common (1:7.7+23ubuntu3) ...
320s Selecting previously unselected package libice6:arm64.
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320s Unpacking libice6:arm64 (2:1.1.1-1) ...
320s Selecting previously unselected package libjpeg-turbo8:arm64.
320s Preparing to unpack .../21-libjpeg-turbo8_2.1.5-3ubuntu2_arm64.deb ...
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320s Preparing to unpack .../22-libjpeg8_8c-2ubuntu11_arm64.deb ...
320s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ...
320s Selecting previously unselected package liblapack3:arm64.
320s Preparing to unpack .../23-liblapack3_3.12.1-2_arm64.deb ...
320s Unpacking liblapack3:arm64 (3.12.1-2) ...
320s Selecting previously unselected package liblerc4:arm64.
320s Preparing to unpack .../24-liblerc4_4.0.0+ds-5ubuntu1_arm64.deb ...
320s Unpacking liblerc4:arm64 (4.0.0+ds-5ubuntu1) ...
320s Selecting previously unselected package libthai-data.
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320s Selecting previously unselected package libthai0:arm64.
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320s Unpacking libthai0:arm64 (0.1.29-2build1) ...
321s Selecting previously unselected package libpango-1.0-0:arm64.
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321s Selecting previously unselected package libpangocairo-1.0-0:arm64.
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321s Selecting previously unselected package libxft2:arm64.
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321s Selecting previously unselected package libxss1:arm64.
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321s Unpacking libxss1:arm64 (1:1.2.3-1build3) ...
321s Selecting previously unselected package libtk8.6:arm64.
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321s Unpacking unzip (6.0-28ubuntu6) ...
321s Selecting previously unselected package xdg-utils.
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321s Unpacking xdg-utils (1.2.1-2ubuntu1) ...
321s Selecting previously unselected package r-base-core.
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321s Unpacking r-base-core (4.4.3-1) ...
322s Selecting previously unselected package bowtie.
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322s Unpacking bowtie (1.3.1-3) ...
322s Selecting previously unselected package rsem.
322s Preparing to unpack .../47-rsem_1.3.3+dfsg-3build1_arm64.deb ...
322s Unpacking rsem (1.3.3+dfsg-3build1) ...
322s Setting up libhtscodecs2:arm64 (1.6.1-2) ...
322s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
322s Setting up libpixman-1-0:arm64 (0.44.0-3) ...
322s Setting up libsharpyuv0:arm64 (1.5.0-0.1) ...
322s Setting up liblerc4:arm64 (4.0.0+ds-5ubuntu1) ...
322s Setting up bowtie (1.3.1-3) ...
322s Setting up libxrender1:arm64 (1:0.9.10-1.1build1) ...
322s Setting up libdatrie1:arm64 (0.2.13-3build1) ...
322s Setting up libxcb-render0:arm64 (1.17.0-2) ...
322s Setting up unzip (6.0-28ubuntu6) ...
322s Setting up x11-common (1:7.7+23ubuntu3) ...
322s Setting up libdeflate0:arm64 (1.23-1) ...
322s Setting up libxcb-shm0:arm64 (1.17.0-2) ...
322s Setting up libgomp1:arm64 (15-20250222-0ubuntu1) ...
322s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ...
322s Setting up zip (3.0-14ubuntu2) ...
322s Setting up libblas3:arm64 (3.12.1-2) ...
322s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode
322s Setting up fonts-dejavu-mono (2.37-8) ...
322s Setting up libtcl8.6:arm64 (8.6.16+dfsg-1) ...
322s Setting up fonts-dejavu-core (2.37-8) ...
322s Setting up libjpeg-turbo8:arm64 (2.1.5-3ubuntu2) ...
322s Setting up libgfortran5:arm64 (15-20250222-0ubuntu1) ...
322s Setting up libwebp7:arm64 (1.5.0-0.1) ...
322s Setting up libhts3t64:arm64 (1.21+ds-1) ...
322s Setting up libharfbuzz0b:arm64 (10.2.0-1) ...
322s Setting up libthai-data (0.1.29-2build1) ...
322s Setting up libxss1:arm64 (1:1.2.3-1build3) ...
322s Setting up libpaper2:arm64 (2.2.5-0.3) ...
323s Setting up xdg-utils (1.2.1-2ubuntu1) ...
323s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
323s Setting up libjpeg8:arm64 (8c-2ubuntu11) ...
323s Setting up libice6:arm64 (2:1.1.1-1) ...
323s Setting up liblapack3:arm64 (3.12.1-2) ...
323s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode
323s Setting up fontconfig-config (2.15.0-2ubuntu1) ...
323s Setting up libpaper-utils (2.2.5-0.3) ...
323s Setting up libthai0:arm64 (0.1.29-2build1) ...
323s Setting up libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ...
323s Setting up libfontconfig1:arm64 (2.15.0-2ubuntu1) ...
323s Setting up libsm6:arm64 (2:1.2.4-1) ...
323s Setting up fontconfig (2.15.0-2ubuntu1) ...
325s Regenerating fonts cache... done.
325s Setting up libxft2:arm64 (2.3.6-1build1) ...
325s Setting up libtk8.6:arm64 (8.6.16-1) ...
325s Setting up libpango-1.0-0:arm64 (1.56.2-1) ...
325s Setting up libcairo2:arm64 (1.18.2-2) ...
325s Setting up libxt6t64:arm64 (1:1.2.1-1.2build1) ...
325s Setting up libpangoft2-1.0-0:arm64 (1.56.2-1) ...
325s Setting up libpangocairo-1.0-0:arm64 (1.56.2-1) ...
325s Setting up r-base-core (4.4.3-1) ...
325s Creating config file /etc/R/Renviron with new version
325s Setting up rsem (1.3.3+dfsg-3build1) ...
325s Processing triggers for libc-bin (2.41-1ubuntu2) ...
325s Processing triggers for man-db (2.13.0-1) ...
327s Processing triggers for install-info (7.1.1-1) ...
328s autopkgtest [16:22:31]: test run-unit-test: [-----------------------
328s + pkg=rsem
328s + '[' /tmp/autopkgtest.peh5eR/autopkgtest_tmp = '' ']'
328s + cp -a /usr/share/doc/rsem/examples/mouse_ref_building_from_transcripts.tar.gz /tmp/autopkgtest.peh5eR/autopkgtest_tmp
328s + cd /tmp/autopkgtest.peh5eR/autopkgtest_tmp
328s + tar -C . -xzf mouse_ref_building_from_transcripts.tar.gz
329s + rsem-prepare-reference --transcript-to-gene-map mouse_ref_mapping.txt mouse_ref.fa mouse_ref
329s rsem-synthesis-reference-transcripts mouse_ref 0 1 mouse_ref_mapping.txt mouse_ref.fa
334s Transcript Information File is generated!
334s Group File is generated!
334s Extracted Sequences File is generated!
334s 
334s rsem-preref mouse_ref.transcripts.fa 1 mouse_ref
337s Refs.makeRefs finished!
337s Refs.saveRefs finished!
337s mouse_ref.idx.fa is generated!
337s mouse_ref.n2g.idx.fa is generated!
337s 
338s autopkgtest [16:22:41]: test run-unit-test: -----------------------]
339s autopkgtest [16:22:42]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
339s run-unit-test        PASS
339s autopkgtest [16:22:42]: @@@@@@@@@@@@@@@@@@@@ summary
339s run-unit-test        PASS
356s nova [W] Using flock in prodstack6-arm64
356s Creating nova instance adt-plucky-arm64-rsem-20250315-161702-juju-7f2275-prod-proposed-migration-environment-20-48e197f9-a709-4f5e-ae39-08ae28d95eb7 from image adt/ubuntu-plucky-arm64-server-20250315.img (UUID bd6e766c-b51f-4b53-86d6-23aa4d18f524)...
356s nova [W] Timed out waiting for 9831a568-e497-4a52-b62c-4489c56180f6 to get deleted.