0s autopkgtest [10:59:18]: starting date and time: 2025-03-13 10:59:18+0000
  0s autopkgtest [10:59:18]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production'
  0s autopkgtest [10:59:18]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.phto808j/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:last-align --apt-upgrade nanook --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=last-align/1609-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-33.secgroup --name adt-plucky-arm64-nanook-20250313-104351-juju-7f2275-prod-proposed-migration-environment-2-f457e37e-eea8-4287-b40d-1a15f6dd6f7c --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,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/
128s autopkgtest [11:01:26]: testbed dpkg architecture: arm64
128s autopkgtest [11:01:26]: testbed apt version: 2.9.32ubuntu1
129s autopkgtest [11:01:27]: @@@@@@@@@@@@@@@@@@@@ test bed setup
129s autopkgtest [11:01:27]: testbed release detected to be: None
130s autopkgtest [11:01:28]: updating testbed package index (apt update)
130s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB]
131s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
131s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
131s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
131s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [11.5 kB]
131s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [43.9 kB]
131s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [396 kB]
131s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [54.8 kB]
131s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [340 kB]
131s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [3244 B]
131s Fetched 960 kB in 1s (1151 kB/s)
132s Reading package lists...
133s Reading package lists...
134s Building dependency tree...
134s Reading state information...
135s Calculating upgrade...
135s Calculating upgrade...
136s The following packages will be upgraded:
136s   gir1.2-glib-2.0 htop libglib2.0-0t64 libglib2.0-data
136s 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
136s Need to get 1982 kB of archives.
136s After this operation, 0 B of additional disk space will be used.
136s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 gir1.2-glib-2.0 arm64 2.84.0-1 [185 kB]
137s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libglib2.0-0t64 arm64 2.84.0-1 [1571 kB]
137s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libglib2.0-data all 2.84.0-1 [53.0 kB]
137s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 htop arm64 3.4.0-2 [173 kB]
138s Fetched 1982 kB in 1s (3147 kB/s)
138s (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 ... 117763 files and directories currently installed.)
138s Preparing to unpack .../gir1.2-glib-2.0_2.84.0-1_arm64.deb ...
138s Unpacking gir1.2-glib-2.0:arm64 (2.84.0-1) over (2.83.5-1) ...
138s Preparing to unpack .../libglib2.0-0t64_2.84.0-1_arm64.deb ...
138s Unpacking libglib2.0-0t64:arm64 (2.84.0-1) over (2.83.5-1) ...
138s Preparing to unpack .../libglib2.0-data_2.84.0-1_all.deb ...
138s Unpacking libglib2.0-data (2.84.0-1) over (2.83.5-1) ...
138s Preparing to unpack .../htop_3.4.0-2_arm64.deb ...
138s Unpacking htop (3.4.0-2) over (3.4.0-1) ...
138s Setting up htop (3.4.0-2) ...
138s Setting up libglib2.0-0t64:arm64 (2.84.0-1) ...
138s No schema files found: doing nothing.
138s Setting up libglib2.0-data (2.84.0-1) ...
138s Setting up gir1.2-glib-2.0:arm64 (2.84.0-1) ...
138s Processing triggers for man-db (2.13.0-1) ...
139s Processing triggers for libc-bin (2.41-1ubuntu1) ...
139s Reading package lists...
140s Building dependency tree...
140s Reading state information...
140s Solving dependencies...
141s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
141s autopkgtest [11:01:39]: upgrading testbed (apt dist-upgrade and autopurge)
141s Reading package lists...
141s Building dependency tree...
141s Reading state information...
142s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
142s Starting 2 pkgProblemResolver with broken count: 0
143s Done
143s Entering ResolveByKeep
144s 
144s Calculating upgrade...
145s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
145s Reading package lists...
145s Building dependency tree...
145s Reading state information...
146s Starting pkgProblemResolver with broken count: 0
146s Starting 2 pkgProblemResolver with broken count: 0
146s Done
146s Solving dependencies...
147s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
150s autopkgtest [11:01:48]: testbed running kernel: Linux 6.14.0-7-generic #7-Ubuntu SMP PREEMPT_DYNAMIC Fri Feb 28 11:47:29 UTC 2025
150s autopkgtest [11:01:48]: @@@@@@@@@@@@@@@@@@@@ apt-source nanook
152s Get:1 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (dsc) [2220 B]
152s Get:2 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (tar) [95.2 kB]
152s Get:3 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (diff) [1818 kB]
153s gpgv: Signature made Wed Dec 18 14:21:48 2024 UTC
153s gpgv:                using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
153s gpgv:                issuer "emollier@debian.org"
153s gpgv: Can't check signature: No public key
153s dpkg-source: warning: cannot verify inline signature for ./nanook_1.33+dfsg-6.dsc: no acceptable signature found
153s autopkgtest [11:01:51]: testing package nanook version 1.33+dfsg-6
153s autopkgtest [11:01:51]: build not needed
154s autopkgtest [11:01:52]: test run-unit-test: preparing testbed
154s Reading package lists...
155s Building dependency tree...
155s Reading state information...
155s Starting pkgProblemResolver with broken count: 0
156s Starting 2 pkgProblemResolver with broken count: 0
156s Done
157s The following NEW packages will be installed:
157s   ca-certificates-java default-jre-headless fontconfig fontconfig-config
157s   fonts-dejavu-core fonts-dejavu-mono fonts-lmodern hdf5-tools java-common
157s   last-align libaec0 libapache-pom-java libblas3 libcairo2 libcommons-io-java
157s   libcommons-parent-java libdatrie1 libdeflate0 libfontconfig1 libgfortran5
157s   libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-310 libhdf5-hl-310 libice6
157s   libjbig0 libjpeg-turbo8 libjpeg8 libkpathsea6 liblapack3 liblcms2-2 liblerc4
157s   libmpfi0 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
157s   libpaper2 libpcsclite1 libpixman-1-0 libpotrace0 libptexenc1 libsharpyuv0
157s   libsm6 libsynctex2 libsz2 libtcl8.6 libteckit0 libtexlua53-5 libthai-data
157s   libthai0 libtiff6 libtk8.6 libwebp7 libxaw7 libxcb-render0 libxcb-shm0
157s   libxft2 libxi6 libxmu6 libxpm4 libxrender1 libxss1 libxt6t64 libzzip-0-13t64
157s   littler nanook nanook-examples openjdk-21-jre-headless r-base-core
157s   r-cran-cli r-cran-colorspace r-cran-fansi r-cran-farver r-cran-ggplot2
157s   r-cran-glue r-cran-gridextra r-cran-gtable r-cran-isoband r-cran-labeling
157s   r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass
157s   r-cran-matrix r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pillar
157s   r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr r-cran-r6 r-cran-rcolorbrewer
157s   r-cran-rcpp r-cran-reshape r-cran-rlang r-cran-scales r-cran-tibble
157s   r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr t1utils tex-common
157s   texlive-base texlive-binaries texlive-latex-base unzip x11-common xdg-utils
157s   zip
157s 0 upgraded, 114 newly installed, 0 to remove and 0 not upgraded.
157s Need to get 161 MB of archives.
157s After this operation, 471 MB of additional disk space will be used.
157s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 ca-certificates-java all 20240118 [11.6 kB]
157s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 java-common all 0.76 [6852 B]
157s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 liblcms2-2 arm64 2.16-2 [170 kB]
157s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-3ubuntu2 [165 kB]
157s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B]
157s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 libpcsclite1 arm64 2.3.1-1 [25.0 kB]
157s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 openjdk-21-jre-headless arm64 21.0.6+7-1 [45.7 MB]
159s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 default-jre-headless arm64 2:1.21-76 [3176 B]
159s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB]
159s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB]
159s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-2ubuntu1 [37.5 kB]
159s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-2ubuntu1 [144 kB]
159s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig arm64 2.15.0-2ubuntu1 [191 kB]
159s Get:14 http://ftpmaster.internal/ubuntu plucky/universe arm64 fonts-lmodern all 2.005-1 [4799 kB]
159s Get:15 http://ftpmaster.internal/ubuntu plucky/universe arm64 libaec0 arm64 1.1.3-1 [22.0 kB]
159s Get:16 http://ftpmaster.internal/ubuntu plucky/universe arm64 libsz2 arm64 1.1.3-1 [5254 B]
159s Get:17 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhdf5-310 arm64 1.14.5+repack-3 [1331 kB]
159s Get:18 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhdf5-hl-310 arm64 1.14.5+repack-3 [59.8 kB]
159s Get:19 http://ftpmaster.internal/ubuntu plucky/universe arm64 hdf5-tools arm64 1.14.5+repack-3 [366 kB]
159s Get:20 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 last-align arm64 1609-1 [842 kB]
159s Get:21 http://ftpmaster.internal/ubuntu plucky/universe arm64 libapache-pom-java all 33-2 [5874 B]
159s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.1-2 [161 kB]
159s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB]
159s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB]
159s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B]
159s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB]
159s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB]
159s Get:28 http://ftpmaster.internal/ubuntu plucky/universe arm64 libcommons-parent-java all 56-1 [10.7 kB]
159s Get:29 http://ftpmaster.internal/ubuntu plucky/universe arm64 libcommons-io-java all 2.18.0-1 [477 kB]
159s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 libdatrie1 arm64 0.2.13-3build1 [19.2 kB]
159s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.23-1 [46.2 kB]
159s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 15-20250222-0ubuntu1 [444 kB]
159s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 15-20250222-0ubuntu1 [146 kB]
159s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB]
159s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.2.0-1 [490 kB]
159s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB]
159s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 libice6 arm64 2:1.1.1-1 [42.3 kB]
159s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 libkpathsea6 arm64 2024.20240313.70630+ds-5build2 [64.3 kB]
159s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.1-2 [2307 kB]
159s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu1 [167 kB]
159s Get:41 http://ftpmaster.internal/ubuntu plucky/universe arm64 libmpfi0 arm64 1.5.4+ds-4 [35.3 kB]
159s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai-data all 0.1.29-2build1 [158 kB]
159s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai0 arm64 0.1.29-2build1 [18.2 kB]
159s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 libpango-1.0-0 arm64 1.56.1-1 [238 kB]
159s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangoft2-1.0-0 arm64 1.56.1-1 [49.6 kB]
159s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangocairo-1.0-0 arm64 1.56.1-1 [27.6 kB]
159s Get:47 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper2 arm64 2.2.5-0.3 [17.3 kB]
159s Get:48 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper-utils arm64 2.2.5-0.3 [15.4 kB]
159s Get:49 http://ftpmaster.internal/ubuntu plucky/universe arm64 libpotrace0 arm64 1.16-2build1 [16.0 kB]
159s Get:50 http://ftpmaster.internal/ubuntu plucky/main arm64 libptexenc1 arm64 2024.20240313.70630+ds-5build2 [41.7 kB]
159s Get:51 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [16.9 kB]
159s Get:52 http://ftpmaster.internal/ubuntu plucky/main arm64 libsm6 arm64 2:1.2.4-1 [16.4 kB]
159s Get:53 http://ftpmaster.internal/ubuntu plucky/main arm64 libsynctex2 arm64 2024.20240313.70630+ds-5build2 [60.3 kB]
159s Get:54 http://ftpmaster.internal/ubuntu plucky/main arm64 libtcl8.6 arm64 8.6.16+dfsg-1 [987 kB]
159s Get:55 http://ftpmaster.internal/ubuntu plucky/universe arm64 libteckit0 arm64 2.5.12+ds1-1 [405 kB]
159s Get:56 http://ftpmaster.internal/ubuntu plucky/main arm64 libtexlua53-5 arm64 2024.20240313.70630+ds-5build2 [122 kB]
160s Get:57 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB]
160s Get:58 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.5.0-0.1 [194 kB]
160s Get:59 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB]
160s Get:60 http://ftpmaster.internal/ubuntu plucky/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB]
160s Get:61 http://ftpmaster.internal/ubuntu plucky/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B]
160s Get:62 http://ftpmaster.internal/ubuntu plucky/main arm64 libtk8.6 arm64 8.6.16-1 [776 kB]
160s Get:63 http://ftpmaster.internal/ubuntu plucky/main arm64 libxt6t64 arm64 1:1.2.1-1.2build1 [168 kB]
160s Get:64 http://ftpmaster.internal/ubuntu plucky/main arm64 libxmu6 arm64 2:1.1.3-3build2 [47.5 kB]
160s Get:65 http://ftpmaster.internal/ubuntu plucky/main arm64 libxpm4 arm64 1:3.5.17-1build2 [35.1 kB]
160s Get:66 http://ftpmaster.internal/ubuntu plucky/main arm64 libxaw7 arm64 2:1.0.16-1 [184 kB]
160s Get:67 http://ftpmaster.internal/ubuntu plucky/main arm64 libxi6 arm64 2:1.8.2-1 [32.4 kB]
160s Get:68 http://ftpmaster.internal/ubuntu plucky/universe arm64 libzzip-0-13t64 arm64 0.13.78+dfsg.1-0.1 [30.8 kB]
160s Get:69 http://ftpmaster.internal/ubuntu plucky/main arm64 zip arm64 3.0-14ubuntu2 [173 kB]
160s Get:70 http://ftpmaster.internal/ubuntu plucky/main arm64 unzip arm64 6.0-28ubuntu6 [178 kB]
160s Get:71 http://ftpmaster.internal/ubuntu plucky/main arm64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB]
160s Get:72 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-base-core arm64 4.4.3-1 [28.4 MB]
160s Get:73 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-littler arm64 0.3.20-2 [96.1 kB]
160s Get:74 http://ftpmaster.internal/ubuntu plucky/universe arm64 littler all 0.3.20-2 [2554 B]
160s Get:75 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-cli arm64 3.6.4-1 [1374 kB]
160s Get:76 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-glue arm64 1.8.0-1 [163 kB]
160s Get:77 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rlang arm64 1.1.5-1 [1707 kB]
160s Get:78 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
160s Get:79 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-gtable all 0.3.6+dfsg-1 [199 kB]
160s Get:80 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-isoband arm64 0.2.7-1 [1481 kB]
160s Get:81 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-mass arm64 7.3-64-1 [1110 kB]
160s Get:82 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-lattice arm64 0.22-6-1 [1363 kB]
160s Get:83 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-nlme arm64 3.1.167-1 [2311 kB]
160s Get:84 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-matrix arm64 1.7-2-1 [4153 kB]
161s Get:85 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-mgcv arm64 1.9-1-1 [3248 kB]
161s Get:86 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-farver arm64 2.1.2-1 [1344 kB]
161s Get:87 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-labeling all 0.4.3-1 [62.1 kB]
161s Get:88 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-colorspace arm64 2.1-1+dfsg-1 [1563 kB]
161s Get:89 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-munsell all 0.5.1-1 [213 kB]
161s Get:90 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-r6 all 2.6.1-1 [101 kB]
161s Get:91 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB]
161s Get:92 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-viridislite all 0.4.2-2 [1088 kB]
161s Get:93 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-scales all 1.3.0-1 [603 kB]
161s Get:94 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-fansi arm64 1.0.5-1 [616 kB]
161s Get:95 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-magrittr arm64 2.0.3-1 [154 kB]
161s Get:96 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-utf8 arm64 1.2.4-1 [140 kB]
161s Get:97 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-vctrs arm64 0.6.5-1 [1327 kB]
161s Get:98 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-pillar all 1.10.1+dfsg-1 [453 kB]
161s Get:99 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
161s Get:100 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-tibble arm64 3.2.1+dfsg-3 [420 kB]
161s Get:101 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-withr all 3.0.2+dfsg-1 [214 kB]
161s Get:102 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3940 kB]
162s Get:103 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-gridextra all 2.3-3build1 [1024 kB]
162s Get:104 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB]
162s Get:105 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rcpp arm64 1.0.14-1 [1978 kB]
162s Get:106 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-plyr arm64 1.8.9-1 [831 kB]
162s Get:107 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-reshape all 0.8.9-1 [168 kB]
162s Get:108 http://ftpmaster.internal/ubuntu plucky/universe arm64 tex-common all 6.19 [29.8 kB]
162s Get:109 http://ftpmaster.internal/ubuntu plucky/main arm64 t1utils arm64 1.41-4build3 [61.0 kB]
162s Get:110 http://ftpmaster.internal/ubuntu plucky/universe arm64 texlive-binaries arm64 2024.20240313.70630+ds-5build2 [8328 kB]
162s Get:111 http://ftpmaster.internal/ubuntu plucky/universe arm64 texlive-base all 2024.20250114-1 [22.5 MB]
163s Get:112 http://ftpmaster.internal/ubuntu plucky/universe arm64 texlive-latex-base all 2024.20250114-1 [1264 kB]
163s Get:113 http://ftpmaster.internal/ubuntu plucky/universe arm64 nanook all 1.33+dfsg-6 [195 kB]
163s Get:114 http://ftpmaster.internal/ubuntu plucky/universe arm64 nanook-examples all 1.33+dfsg-6 [1814 kB]
163s Preconfiguring packages ...
163s Fetched 161 MB in 6s (28.2 MB/s)
164s Selecting previously unselected package ca-certificates-java.
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164s Preparing to unpack .../000-ca-certificates-java_20240118_all.deb ...
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164s Selecting previously unselected package java-common.
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164s Selecting previously unselected package liblcms2-2:arm64.
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164s Selecting previously unselected package libjpeg-turbo8:arm64.
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164s Selecting previously unselected package libjpeg8:arm64.
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164s Selecting previously unselected package openjdk-21-jre-headless:arm64.
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166s Selecting previously unselected package fonts-dejavu-mono.
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167s Selecting previously unselected package libfontconfig1:arm64.
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167s Selecting previously unselected package libaec0:arm64.
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167s Selecting previously unselected package libblas3:arm64.
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168s Selecting previously unselected package libxcb-render0:arm64.
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168s Selecting previously unselected package libxrender1:arm64.
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168s Selecting previously unselected package libcairo2:arm64.
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168s Selecting previously unselected package libcommons-parent-java.
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168s Selecting previously unselected package libcommons-io-java.
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168s Selecting previously unselected package libdatrie1:arm64.
168s Preparing to unpack .../029-libdatrie1_0.2.13-3build1_arm64.deb ...
168s Unpacking libdatrie1:arm64 (0.2.13-3build1) ...
168s Selecting previously unselected package libdeflate0:arm64.
168s Preparing to unpack .../030-libdeflate0_1.23-1_arm64.deb ...
168s Unpacking libdeflate0:arm64 (1.23-1) ...
168s Selecting previously unselected package libgfortran5:arm64.
168s Preparing to unpack .../031-libgfortran5_15-20250222-0ubuntu1_arm64.deb ...
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168s Selecting previously unselected package libgomp1:arm64.
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168s Selecting previously unselected package libgraphite2-3:arm64.
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168s Selecting previously unselected package libharfbuzz0b:arm64.
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168s Selecting previously unselected package x11-common.
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168s Selecting previously unselected package libice6:arm64.
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169s Selecting previously unselected package liblapack3:arm64.
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169s Selecting previously unselected package liblerc4:arm64.
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169s Selecting previously unselected package libmpfi0:arm64.
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169s Selecting previously unselected package libthai0:arm64.
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169s Selecting previously unselected package libpango-1.0-0:arm64.
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169s Selecting previously unselected package libpangoft2-1.0-0:arm64.
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169s Selecting previously unselected package libpangocairo-1.0-0:arm64.
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169s Selecting previously unselected package libpaper2:arm64.
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169s Selecting previously unselected package libpaper-utils.
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169s Selecting previously unselected package libpotrace0:arm64.
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169s Selecting previously unselected package libptexenc1:arm64.
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169s Selecting previously unselected package libsharpyuv0:arm64.
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170s Selecting previously unselected package libtcl8.6:arm64.
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170s Selecting previously unselected package libtexlua53-5:arm64.
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170s Selecting previously unselected package libjbig0:arm64.
170s Preparing to unpack .../056-libjbig0_2.1-6.1ubuntu2_arm64.deb ...
170s Unpacking libjbig0:arm64 (2.1-6.1ubuntu2) ...
170s Selecting previously unselected package libwebp7:arm64.
170s Preparing to unpack .../057-libwebp7_1.5.0-0.1_arm64.deb ...
170s Unpacking libwebp7:arm64 (1.5.0-0.1) ...
170s Selecting previously unselected package libtiff6:arm64.
170s Preparing to unpack .../058-libtiff6_4.5.1+git230720-4ubuntu4_arm64.deb ...
170s Unpacking libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ...
170s Selecting previously unselected package libxft2:arm64.
170s Preparing to unpack .../059-libxft2_2.3.6-1build1_arm64.deb ...
170s Unpacking libxft2:arm64 (2.3.6-1build1) ...
170s Selecting previously unselected package libxss1:arm64.
170s Preparing to unpack .../060-libxss1_1%3a1.2.3-1build3_arm64.deb ...
170s Unpacking libxss1:arm64 (1:1.2.3-1build3) ...
170s Selecting previously unselected package libtk8.6:arm64.
170s Preparing to unpack .../061-libtk8.6_8.6.16-1_arm64.deb ...
170s Unpacking libtk8.6:arm64 (8.6.16-1) ...
170s Selecting previously unselected package libxt6t64:arm64.
170s Preparing to unpack .../062-libxt6t64_1%3a1.2.1-1.2build1_arm64.deb ...
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170s Selecting previously unselected package libxmu6:arm64.
170s Preparing to unpack .../063-libxmu6_2%3a1.1.3-3build2_arm64.deb ...
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170s Selecting previously unselected package libxpm4:arm64.
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170s Selecting previously unselected package libxaw7:arm64.
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170s Selecting previously unselected package libxi6:arm64.
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171s Selecting previously unselected package libzzip-0-13t64:arm64.
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171s Selecting previously unselected package zip.
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171s Selecting previously unselected package unzip.
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171s Selecting previously unselected package xdg-utils.
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171s Unpacking xdg-utils (1.2.1-2ubuntu1) ...
171s Selecting previously unselected package r-base-core.
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171s Unpacking r-base-core (4.4.3-1) ...
171s Selecting previously unselected package r-cran-littler.
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171s Unpacking r-cran-littler (0.3.20-2) ...
171s Selecting previously unselected package littler.
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171s Unpacking littler (0.3.20-2) ...
171s Selecting previously unselected package r-cran-cli.
171s Preparing to unpack .../074-r-cran-cli_3.6.4-1_arm64.deb ...
171s Unpacking r-cran-cli (3.6.4-1) ...
171s Selecting previously unselected package r-cran-glue.
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171s Unpacking r-cran-glue (1.8.0-1) ...
172s Selecting previously unselected package r-cran-rlang.
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172s Unpacking r-cran-rlang (1.1.5-1) ...
172s Selecting previously unselected package r-cran-lifecycle.
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172s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ...
172s Selecting previously unselected package r-cran-gtable.
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172s Unpacking r-cran-gtable (0.3.6+dfsg-1) ...
172s Selecting previously unselected package r-cran-isoband.
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172s Unpacking r-cran-isoband (0.2.7-1) ...
172s Selecting previously unselected package r-cran-mass.
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172s Selecting previously unselected package r-cran-nlme.
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172s Unpacking r-cran-nlme (3.1.167-1) ...
172s Selecting previously unselected package r-cran-matrix.
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172s Unpacking r-cran-matrix (1.7-2-1) ...
172s Selecting previously unselected package r-cran-mgcv.
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172s Unpacking r-cran-mgcv (1.9-1-1) ...
172s Selecting previously unselected package r-cran-farver.
172s Preparing to unpack .../085-r-cran-farver_2.1.2-1_arm64.deb ...
172s Unpacking r-cran-farver (2.1.2-1) ...
172s Selecting previously unselected package r-cran-labeling.
172s Preparing to unpack .../086-r-cran-labeling_0.4.3-1_all.deb ...
172s Unpacking r-cran-labeling (0.4.3-1) ...
172s Selecting previously unselected package r-cran-colorspace.
172s Preparing to unpack .../087-r-cran-colorspace_2.1-1+dfsg-1_arm64.deb ...
172s Unpacking r-cran-colorspace (2.1-1+dfsg-1) ...
173s Selecting previously unselected package r-cran-munsell.
173s Preparing to unpack .../088-r-cran-munsell_0.5.1-1_all.deb ...
173s Unpacking r-cran-munsell (0.5.1-1) ...
173s Selecting previously unselected package r-cran-r6.
173s Preparing to unpack .../089-r-cran-r6_2.6.1-1_all.deb ...
173s Unpacking r-cran-r6 (2.6.1-1) ...
173s Selecting previously unselected package r-cran-rcolorbrewer.
173s Preparing to unpack .../090-r-cran-rcolorbrewer_1.1-3-1build1_all.deb ...
173s Unpacking r-cran-rcolorbrewer (1.1-3-1build1) ...
173s Selecting previously unselected package r-cran-viridislite.
173s Preparing to unpack .../091-r-cran-viridislite_0.4.2-2_all.deb ...
173s Unpacking r-cran-viridislite (0.4.2-2) ...
173s Selecting previously unselected package r-cran-scales.
173s Preparing to unpack .../092-r-cran-scales_1.3.0-1_all.deb ...
173s Unpacking r-cran-scales (1.3.0-1) ...
173s Selecting previously unselected package r-cran-fansi.
173s Preparing to unpack .../093-r-cran-fansi_1.0.5-1_arm64.deb ...
173s Unpacking r-cran-fansi (1.0.5-1) ...
173s Selecting previously unselected package r-cran-magrittr.
173s Preparing to unpack .../094-r-cran-magrittr_2.0.3-1_arm64.deb ...
173s Unpacking r-cran-magrittr (2.0.3-1) ...
173s Selecting previously unselected package r-cran-utf8.
173s Preparing to unpack .../095-r-cran-utf8_1.2.4-1_arm64.deb ...
173s Unpacking r-cran-utf8 (1.2.4-1) ...
173s Selecting previously unselected package r-cran-vctrs.
173s Preparing to unpack .../096-r-cran-vctrs_0.6.5-1_arm64.deb ...
173s Unpacking r-cran-vctrs (0.6.5-1) ...
173s Selecting previously unselected package r-cran-pillar.
173s Preparing to unpack .../097-r-cran-pillar_1.10.1+dfsg-1_all.deb ...
173s Unpacking r-cran-pillar (1.10.1+dfsg-1) ...
173s Selecting previously unselected package r-cran-pkgconfig.
173s Preparing to unpack .../098-r-cran-pkgconfig_2.0.3-2build1_all.deb ...
173s Unpacking r-cran-pkgconfig (2.0.3-2build1) ...
173s Selecting previously unselected package r-cran-tibble.
173s Preparing to unpack .../099-r-cran-tibble_3.2.1+dfsg-3_arm64.deb ...
173s Unpacking r-cran-tibble (3.2.1+dfsg-3) ...
173s Selecting previously unselected package r-cran-withr.
174s Preparing to unpack .../100-r-cran-withr_3.0.2+dfsg-1_all.deb ...
174s Unpacking r-cran-withr (3.0.2+dfsg-1) ...
174s Selecting previously unselected package r-cran-ggplot2.
174s Preparing to unpack .../101-r-cran-ggplot2_3.5.1+dfsg-1_all.deb ...
174s Unpacking r-cran-ggplot2 (3.5.1+dfsg-1) ...
174s Selecting previously unselected package r-cran-gridextra.
174s Preparing to unpack .../102-r-cran-gridextra_2.3-3build1_all.deb ...
174s Unpacking r-cran-gridextra (2.3-3build1) ...
174s Selecting previously unselected package r-cran-pkgkitten.
174s Preparing to unpack .../103-r-cran-pkgkitten_0.2.4-1_all.deb ...
174s Unpacking r-cran-pkgkitten (0.2.4-1) ...
174s Selecting previously unselected package r-cran-rcpp.
174s Preparing to unpack .../104-r-cran-rcpp_1.0.14-1_arm64.deb ...
174s Unpacking r-cran-rcpp (1.0.14-1) ...
174s Selecting previously unselected package r-cran-plyr.
174s Preparing to unpack .../105-r-cran-plyr_1.8.9-1_arm64.deb ...
174s Unpacking r-cran-plyr (1.8.9-1) ...
174s Selecting previously unselected package r-cran-reshape.
174s Preparing to unpack .../106-r-cran-reshape_0.8.9-1_all.deb ...
174s Unpacking r-cran-reshape (0.8.9-1) ...
174s Selecting previously unselected package tex-common.
174s Preparing to unpack .../107-tex-common_6.19_all.deb ...
174s Unpacking tex-common (6.19) ...
174s Selecting previously unselected package t1utils.
174s Preparing to unpack .../108-t1utils_1.41-4build3_arm64.deb ...
174s Unpacking t1utils (1.41-4build3) ...
174s Selecting previously unselected package texlive-binaries.
175s Preparing to unpack .../109-texlive-binaries_2024.20240313.70630+ds-5build2_arm64.deb ...
175s Unpacking texlive-binaries (2024.20240313.70630+ds-5build2) ...
175s Selecting previously unselected package texlive-base.
175s Preparing to unpack .../110-texlive-base_2024.20250114-1_all.deb ...
175s Unpacking texlive-base (2024.20250114-1) ...
176s Selecting previously unselected package texlive-latex-base.
176s Preparing to unpack .../111-texlive-latex-base_2024.20250114-1_all.deb ...
176s Unpacking texlive-latex-base (2024.20250114-1) ...
177s Selecting previously unselected package nanook.
177s Preparing to unpack .../112-nanook_1.33+dfsg-6_all.deb ...
177s Unpacking nanook (1.33+dfsg-6) ...
177s Selecting previously unselected package nanook-examples.
177s Preparing to unpack .../113-nanook-examples_1.33+dfsg-6_all.deb ...
177s Unpacking nanook-examples (1.33+dfsg-6) ...
177s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
177s Setting up liblcms2-2:arm64 (2.16-2) ...
177s Setting up libpixman-1-0:arm64 (0.44.0-3) ...
177s Setting up libsharpyuv0:arm64 (1.5.0-0.1) ...
177s Setting up nanook-examples (1.33+dfsg-6) ...
177s Setting up liblerc4:arm64 (4.0.0+ds-5ubuntu1) ...
177s Setting up libxpm4:arm64 (1:3.5.17-1build2) ...
177s Setting up libxi6:arm64 (2:1.8.2-1) ...
177s Setting up java-common (0.76) ...
177s Setting up libxrender1:arm64 (1:0.9.10-1.1build1) ...
177s Setting up libdatrie1:arm64 (0.2.13-3build1) ...
177s Setting up libxcb-render0:arm64 (1.17.0-2) ...
177s Setting up unzip (6.0-28ubuntu6) ...
177s Setting up x11-common (1:7.7+23ubuntu3) ...
177s Setting up libdeflate0:arm64 (1.23-1) ...
177s Setting up libxcb-shm0:arm64 (1.17.0-2) ...
177s Setting up libgomp1:arm64 (15-20250222-0ubuntu1) ...
177s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ...
177s Setting up libaec0:arm64 (1.1.3-1) ...
177s Setting up last-align (1609-1) ...
177s Setting up tex-common (6.19) ...
178s update-language: texlive-base not installed and configured, doing nothing!
178s Setting up zip (3.0-14ubuntu2) ...
178s Setting up libblas3:arm64 (3.12.1-2) ...
178s 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
178s Setting up libzzip-0-13t64:arm64 (0.13.78+dfsg.1-0.1) ...
178s Setting up libteckit0:arm64 (2.5.12+ds1-1) ...
178s Setting up libapache-pom-java (33-2) ...
178s Setting up t1utils (1.41-4build3) ...
178s Setting up libtexlua53-5:arm64 (2024.20240313.70630+ds-5build2) ...
178s Setting up fonts-dejavu-mono (2.37-8) ...
178s Setting up libtcl8.6:arm64 (8.6.16+dfsg-1) ...
178s Setting up libmpfi0:arm64 (1.5.4+ds-4) ...
178s Setting up fonts-dejavu-core (2.37-8) ...
178s Setting up libpcsclite1:arm64 (2.3.1-1) ...
178s Setting up libjpeg-turbo8:arm64 (2.1.5-3ubuntu2) ...
178s Setting up libkpathsea6:arm64 (2024.20240313.70630+ds-5build2) ...
178s Setting up libgfortran5:arm64 (15-20250222-0ubuntu1) ...
178s Setting up libwebp7:arm64 (1.5.0-0.1) ...
178s Setting up fonts-lmodern (2.005-1) ...
178s Setting up libharfbuzz0b:arm64 (10.2.0-1) ...
178s Setting up libthai-data (0.1.29-2build1) ...
178s Setting up libxss1:arm64 (1:1.2.3-1build3) ...
178s Setting up libpaper2:arm64 (2.2.5-0.3) ...
178s Setting up ca-certificates-java (20240118) ...
178s No JRE found. Skipping Java certificates setup.
178s Setting up xdg-utils (1.2.1-2ubuntu1) ...
178s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
178s Setting up libsz2:arm64 (1.1.3-1) ...
178s Setting up libsynctex2:arm64 (2024.20240313.70630+ds-5build2) ...
178s Setting up libpotrace0:arm64 (1.16-2build1) ...
178s Setting up libjpeg8:arm64 (8c-2ubuntu11) ...
178s Setting up libice6:arm64 (2:1.1.1-1) ...
178s Setting up liblapack3:arm64 (3.12.1-2) ...
178s 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
178s Setting up openjdk-21-jre-headless:arm64 (21.0.6+7-1) ...
178s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/java to provide /usr/bin/java (java) in auto mode
178s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode
178s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode
178s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode
178s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode
178s Setting up fontconfig-config (2.15.0-2ubuntu1) ...
178s Setting up libcommons-parent-java (56-1) ...
178s Setting up libpaper-utils (2.2.5-0.3) ...
178s Setting up libthai0:arm64 (0.1.29-2build1) ...
178s Setting up libptexenc1:arm64 (2024.20240313.70630+ds-5build2) ...
178s Setting up libhdf5-310:arm64 (1.14.5+repack-3) ...
178s Setting up libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ...
178s Setting up libfontconfig1:arm64 (2.15.0-2ubuntu1) ...
178s Setting up libsm6:arm64 (2:1.2.4-1) ...
178s Setting up libhdf5-hl-310:arm64 (1.14.5+repack-3) ...
178s Setting up fontconfig (2.15.0-2ubuntu1) ...
180s Regenerating fonts cache... done.
180s Setting up libxft2:arm64 (2.3.6-1build1) ...
180s Setting up libcommons-io-java (2.18.0-1) ...
180s Setting up libtk8.6:arm64 (8.6.16-1) ...
180s Setting up libpango-1.0-0:arm64 (1.56.1-1) ...
180s Setting up libcairo2:arm64 (1.18.2-2) ...
180s Setting up hdf5-tools (1.14.5+repack-3) ...
180s Setting up libxt6t64:arm64 (1:1.2.1-1.2build1) ...
180s Setting up libpangoft2-1.0-0:arm64 (1.56.1-1) ...
180s Setting up libpangocairo-1.0-0:arm64 (1.56.1-1) ...
180s Setting up libxmu6:arm64 (2:1.1.3-3build2) ...
180s Setting up libxaw7:arm64 (2:1.0.16-1) ...
180s Setting up r-base-core (4.4.3-1) ...
181s Creating config file /etc/R/Renviron with new version
181s Setting up r-cran-labeling (0.4.3-1) ...
181s Setting up r-cran-lattice (0.22-6-1) ...
181s Setting up r-cran-nlme (3.1.167-1) ...
181s Setting up r-cran-farver (2.1.2-1) ...
181s Setting up r-cran-viridislite (0.4.2-2) ...
181s Setting up texlive-binaries (2024.20240313.70630+ds-5build2) ...
181s update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode
181s update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode
181s Setting up r-cran-r6 (2.6.1-1) ...
181s Setting up r-cran-pkgkitten (0.2.4-1) ...
181s Setting up texlive-base (2024.20250114-1) ...
182s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps
182s tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg
182s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper
183s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex
183s Setting up r-cran-magrittr (2.0.3-1) ...
183s Setting up r-cran-littler (0.3.20-2) ...
183s Setting up r-cran-rcpp (1.0.14-1) ...
183s Setting up r-cran-rlang (1.1.5-1) ...
183s Setting up littler (0.3.20-2) ...
183s Setting up r-cran-withr (3.0.2+dfsg-1) ...
183s Setting up r-cran-fansi (1.0.5-1) ...
183s Setting up r-cran-mass (7.3-64-1) ...
183s Setting up r-cran-glue (1.8.0-1) ...
183s Setting up r-cran-cli (3.6.4-1) ...
183s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
183s Setting up r-cran-pkgconfig (2.0.3-2build1) ...
183s Setting up r-cran-utf8 (1.2.4-1) ...
183s Setting up r-cran-colorspace (2.1-1+dfsg-1) ...
183s Setting up texlive-latex-base (2024.20250114-1) ...
183s Setting up r-cran-plyr (1.8.9-1) ...
183s Setting up r-cran-rcolorbrewer (1.1-3-1build1) ...
183s Setting up r-cran-isoband (0.2.7-1) ...
183s Setting up r-cran-gtable (0.3.6+dfsg-1) ...
183s Setting up r-cran-matrix (1.7-2-1) ...
183s Setting up r-cran-mgcv (1.9-1-1) ...
183s Setting up r-cran-vctrs (0.6.5-1) ...
183s Setting up r-cran-pillar (1.10.1+dfsg-1) ...
183s Setting up r-cran-reshape (0.8.9-1) ...
183s Setting up r-cran-munsell (0.5.1-1) ...
183s Setting up r-cran-tibble (3.2.1+dfsg-3) ...
183s Setting up r-cran-gridextra (2.3-3build1) ...
183s Setting up r-cran-scales (1.3.0-1) ...
183s Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ...
183s Processing triggers for libc-bin (2.41-1ubuntu1) ...
183s Processing triggers for man-db (2.13.0-1) ...
184s Processing triggers for install-info (7.1.1-1) ...
185s Processing triggers for ca-certificates-java (20240118) ...
185s Adding debian:ACCVRAIZ1.pem
185s Adding debian:AC_RAIZ_FNMT-RCM.pem
185s Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem
185s Adding debian:ANF_Secure_Server_Root_CA.pem
185s Adding debian:Actalis_Authentication_Root_CA.pem
185s Adding debian:AffirmTrust_Commercial.pem
185s Adding debian:AffirmTrust_Networking.pem
185s Adding debian:AffirmTrust_Premium.pem
185s Adding debian:AffirmTrust_Premium_ECC.pem
185s Adding debian:Amazon_Root_CA_1.pem
185s Adding debian:Amazon_Root_CA_2.pem
185s Adding debian:Amazon_Root_CA_3.pem
185s Adding debian:Amazon_Root_CA_4.pem
185s Adding debian:Atos_TrustedRoot_2011.pem
185s Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem
185s Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem
185s Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem
185s Adding debian:BJCA_Global_Root_CA1.pem
185s Adding debian:BJCA_Global_Root_CA2.pem
185s Adding debian:Baltimore_CyberTrust_Root.pem
185s Adding debian:Buypass_Class_2_Root_CA.pem
185s Adding debian:Buypass_Class_3_Root_CA.pem
185s Adding debian:CA_Disig_Root_R2.pem
185s Adding debian:CFCA_EV_ROOT.pem
185s Adding debian:COMODO_Certification_Authority.pem
185s Adding debian:COMODO_ECC_Certification_Authority.pem
185s Adding debian:COMODO_RSA_Certification_Authority.pem
185s Adding debian:Certainly_Root_E1.pem
185s Adding debian:Certainly_Root_R1.pem
185s Adding debian:Certigna.pem
185s Adding debian:Certigna_Root_CA.pem
185s Adding debian:Certum_EC-384_CA.pem
185s Adding debian:Certum_Trusted_Network_CA.pem
185s Adding debian:Certum_Trusted_Network_CA_2.pem
185s Adding debian:Certum_Trusted_Root_CA.pem
185s Adding debian:CommScope_Public_Trust_ECC_Root-01.pem
185s Adding debian:CommScope_Public_Trust_ECC_Root-02.pem
185s Adding debian:CommScope_Public_Trust_RSA_Root-01.pem
185s Adding debian:CommScope_Public_Trust_RSA_Root-02.pem
185s Adding debian:Comodo_AAA_Services_root.pem
185s Adding debian:D-TRUST_BR_Root_CA_1_2020.pem
185s Adding debian:D-TRUST_EV_Root_CA_1_2020.pem
185s Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem
185s Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem
185s Adding debian:DigiCert_Assured_ID_Root_CA.pem
185s Adding debian:DigiCert_Assured_ID_Root_G2.pem
185s Adding debian:DigiCert_Assured_ID_Root_G3.pem
185s Adding debian:DigiCert_Global_Root_CA.pem
185s Adding debian:DigiCert_Global_Root_G2.pem
185s Adding debian:DigiCert_Global_Root_G3.pem
185s Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem
185s Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem
185s Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem
185s Adding debian:DigiCert_Trusted_Root_G4.pem
185s Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem
185s Adding debian:Entrust_Root_Certification_Authority.pem
185s Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem
185s Adding debian:Entrust_Root_Certification_Authority_-_G2.pem
185s Adding debian:Entrust_Root_Certification_Authority_-_G4.pem
185s Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem
185s Adding debian:GDCA_TrustAUTH_R5_ROOT.pem
185s Adding debian:GLOBALTRUST_2020.pem
185s Adding debian:GTS_Root_R1.pem
186s Adding debian:GTS_Root_R2.pem
186s Adding debian:GTS_Root_R3.pem
186s Adding debian:GTS_Root_R4.pem
186s Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem
186s Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem
186s Adding debian:GlobalSign_Root_CA.pem
186s Adding debian:GlobalSign_Root_CA_-_R3.pem
186s Adding debian:GlobalSign_Root_CA_-_R6.pem
186s Adding debian:GlobalSign_Root_E46.pem
186s Adding debian:GlobalSign_Root_R46.pem
186s Adding debian:Go_Daddy_Class_2_CA.pem
186s Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem
186s Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem
186s Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem
186s Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem
186s Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem
186s Adding debian:HiPKI_Root_CA_-_G1.pem
186s Adding debian:Hongkong_Post_Root_CA_3.pem
186s Adding debian:ISRG_Root_X1.pem
186s Adding debian:ISRG_Root_X2.pem
186s Adding debian:IdenTrust_Commercial_Root_CA_1.pem
186s Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem
186s Adding debian:Izenpe.com.pem
186s Adding debian:Microsec_e-Szigno_Root_CA_2009.pem
186s Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem
186s Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem
186s Adding debian:NAVER_Global_Root_Certification_Authority.pem
186s Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem
186s Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem
186s Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem
186s Adding debian:QuoVadis_Root_CA_1_G3.pem
186s Adding debian:QuoVadis_Root_CA_2.pem
186s Adding debian:QuoVadis_Root_CA_2_G3.pem
186s Adding debian:QuoVadis_Root_CA_3.pem
186s Adding debian:QuoVadis_Root_CA_3_G3.pem
186s Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem
186s Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem
186s Adding debian:SSL.com_Root_Certification_Authority_ECC.pem
186s Adding debian:SSL.com_Root_Certification_Authority_RSA.pem
186s Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem
186s Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem
186s Adding debian:SZAFIR_ROOT_CA2.pem
186s Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem
186s Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem
186s Adding debian:SecureSign_RootCA11.pem
186s Adding debian:SecureSign_Root_CA12.pem
186s Adding debian:SecureSign_Root_CA14.pem
186s Adding debian:SecureSign_Root_CA15.pem
186s Adding debian:SecureTrust_CA.pem
186s Adding debian:Secure_Global_CA.pem
186s Adding debian:Security_Communication_ECC_RootCA1.pem
186s Adding debian:Security_Communication_RootCA2.pem
186s Adding debian:Security_Communication_RootCA3.pem
186s Adding debian:Starfield_Class_2_CA.pem
186s Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem
186s Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem
186s Adding debian:SwissSign_Gold_CA_-_G2.pem
186s Adding debian:SwissSign_Silver_CA_-_G2.pem
186s Adding debian:T-TeleSec_GlobalRoot_Class_2.pem
186s Adding debian:T-TeleSec_GlobalRoot_Class_3.pem
186s Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem
186s Adding debian:TWCA_CYBER_Root_CA.pem
186s Adding debian:TWCA_Global_Root_CA.pem
186s Adding debian:TWCA_Root_Certification_Authority.pem
186s Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem
186s Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem
186s Adding debian:TeliaSonera_Root_CA_v1.pem
186s Adding debian:Telia_Root_CA_v2.pem
186s Adding debian:TrustAsia_Global_Root_CA_G3.pem
186s Adding debian:TrustAsia_Global_Root_CA_G4.pem
186s Adding debian:Trustwave_Global_Certification_Authority.pem
186s Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem
186s Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem
186s Adding debian:TunTrust_Root_CA.pem
186s Adding debian:UCA_Extended_Validation_Root.pem
186s Adding debian:UCA_Global_G2_Root.pem
186s Adding debian:USERTrust_ECC_Certification_Authority.pem
186s Adding debian:USERTrust_RSA_Certification_Authority.pem
186s Adding debian:XRamp_Global_CA_Root.pem
186s Adding debian:certSIGN_ROOT_CA.pem
186s Adding debian:certSIGN_Root_CA_G2.pem
186s Adding debian:e-Szigno_Root_CA_2017.pem
186s Adding debian:ePKI_Root_Certification_Authority.pem
186s Adding debian:emSign_ECC_Root_CA_-_C3.pem
186s Adding debian:emSign_ECC_Root_CA_-_G3.pem
186s Adding debian:emSign_Root_CA_-_C1.pem
186s Adding debian:emSign_Root_CA_-_G1.pem
186s Adding debian:vTrus_ECC_Root_CA.pem
186s Adding debian:vTrus_Root_CA.pem
186s done.
186s Setting up default-jre-headless (2:1.21-76) ...
186s Setting up nanook (1.33+dfsg-6) ...
186s Processing triggers for tex-common (6.19) ...
186s Running updmap-sys. This may take some time... done.
186s Running mktexlsr /var/lib/texmf ... done.
187s Building format(s) --all.
226s 	This may take some time... done.
227s autopkgtest [11:03:05]: test run-unit-test: [-----------------------
238s 
238s NanoOK v1.33
238s 
238s Comments/bugs to: richard.leggett@earlham.ac.uk
238s Follow NanoOK on twitter: @NanoOK_Software
238s 
238s Scripts dir: /usr/share/nanook/bin
238s 
238s Checking dependencies
239s *** ERROR: Couldn't find Rscript - is R installed? ***
239s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
239s h5dump: Version 1.14.5
239s 
239s Making directory /tmp/autopkgtest.Ps42Jt/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/fasta
239s Checking FAST5 directory structure...
239s   Using pass/fail dirs: yes
239s       Using batch dirs: no
239s         Using barcodes: no
239s 
242s 
Processing [                                                  ] 0/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
242s 
242s DONE
242s 
242s NanoOK v1.33
242s 
242s Comments/bugs to: richard.leggett@earlham.ac.uk
242s Follow NanoOK on twitter: @NanoOK_Software
242s 
242s Scripts dir: /usr/share/nanook/bin
242s 
242s Checking dependencies
242s *** ERROR: Couldn't find Rscript - is R installed? ***
242s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
242s h5dump: Version 1.14.5
242s 
242s Making directory /tmp/autopkgtest.Ps42Jt/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/last
242s Making directory /tmp/autopkgtest.Ps42Jt/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/logs/last
242s Checking FASTA/Q directory structure...
242s   Using pass/fail dirs: yes
242s       Using batch dirs: no
242s         Using barcodes: no
242s 
245s 
Processing [                                                  ] 0/3
Processing [================                                  ] 1/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
245s 
245s DONE
245s 
245s NanoOK v1.33
245s 
245s Comments/bugs to: richard.leggett@earlham.ac.uk
245s Follow NanoOK on twitter: @NanoOK_Software
245s 
245s Scripts dir: /usr/share/nanook/bin
245s 
245s Checking dependencies
245s *** ERROR: Couldn't find Rscript - is R installed? ***
245s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
245s h5dump: Version 1.14.5
245s 
245s Checking FASTA/Q directory structure...
245s   Using pass/fail dirs: yes
245s       Using batch dirs: no
245s         Using barcodes: no
245s 
245s Using .sizes file ecoli_dh10b_cs.fasta.sizes
245s Note: if you have changed the reference file, you need to delete the .sizes file and re-run.
245s 
245s Reading reference sizes and making directories
245s 	Escherichia_coli	4686137
245s 	Control_sequence	3560
245s 
245s Calculating reference GC
245s 	Escherichia_coli
246s 	Control_sequence
246s 
246s Parsing Template
246s 
[                                                  ] 0/1
[==================================================] 1/1
246s 
246s Error: unable to find any Template alignments to process.
246s Common reasons for this:
246s 1. Failure to index the reference with the alignment tool, resulting in alignment files of 0 bytes
246s 2. Wrong reference specified to the align stage, resulting in no alignments
246s 3. When indexing with LAST, the output prefix needs to be the same as the reference FASTA file, minus the .fasta extension
246s    e.g. lastdb -Q 0 referencename referencename.fasta
246s 
246s autopkgtest [11:03:24]: test run-unit-test: -----------------------]
247s run-unit-test        FAIL non-zero exit status 1
247s autopkgtest [11:03:25]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
247s autopkgtest [11:03:25]: @@@@@@@@@@@@@@@@@@@@ summary
247s run-unit-test        FAIL non-zero exit status 1
265s nova [W] Using flock in prodstack6-arm64
265s flock: timeout while waiting to get lock
265s Creating nova instance adt-plucky-arm64-nanook-20250313-104351-juju-7f2275-prod-proposed-migration-environment-2-f457e37e-eea8-4287-b40d-1a15f6dd6f7c from image adt/ubuntu-plucky-arm64-server-20250313.img (UUID 1e0d5b46-827c-482e-8813-f0c13efee277)...
265s nova [W] Timed out waiting for 2240b96e-d62d-4ca4-808e-72fe7d74ff99 to get deleted.