0s autopkgtest [13:58:10]: starting date and time: 2025-01-17 13:58:10+0000
  0s autopkgtest [13:58:10]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production'
  0s autopkgtest [13:58:10]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.4tifp9p1/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/1608-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-arm64-7.secgroup --name adt-plucky-arm64-nanook-20250117-135810-juju-7f2275-prod-proposed-migration-environment-20-405198a5-d764-4059-9c65-1f519bbdcd78 --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/
144s autopkgtest [14:00:34]: testbed dpkg architecture: arm64
144s autopkgtest [14:00:34]: testbed apt version: 2.9.18
144s autopkgtest [14:00:34]: @@@@@@@@@@@@@@@@@@@@ test bed setup
145s autopkgtest [14:00:35]: testbed release detected to be: None
146s autopkgtest [14:00:36]: updating testbed package index (apt update)
146s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB]
146s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
146s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
146s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
146s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [9708 B]
146s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [177 kB]
146s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.7 kB]
146s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [877 kB]
147s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [318 kB]
147s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [57.8 kB]
147s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [1079 kB]
147s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [11.2 kB]
147s Fetched 2618 kB in 1s (2524 kB/s)
148s Reading package lists...
148s Reading package lists...
149s Building dependency tree...
149s Reading state information...
149s Calculating upgrade...
150s The following packages will be upgraded:
150s   libgudev-1.0-0 usb.ids
150s 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
150s Need to get 238 kB of archives.
150s After this operation, 1024 B of additional disk space will be used.
150s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 usb.ids all 2025.01.14-1 [223 kB]
150s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libgudev-1.0-0 arm64 1:238-6 [14.9 kB]
151s Fetched 238 kB in 1s (475 kB/s)
151s (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 ... 80204 files and directories currently installed.)
151s Preparing to unpack .../usb.ids_2025.01.14-1_all.deb ...
151s Unpacking usb.ids (2025.01.14-1) over (2024.12.04-1) ...
151s Preparing to unpack .../libgudev-1.0-0_1%3a238-6_arm64.deb ...
151s Unpacking libgudev-1.0-0:arm64 (1:238-6) over (1:238-5ubuntu1) ...
151s Setting up usb.ids (2025.01.14-1) ...
151s Setting up libgudev-1.0-0:arm64 (1:238-6) ...
151s Processing triggers for libc-bin (2.40-4ubuntu1) ...
151s Reading package lists...
151s Building dependency tree...
151s Reading state information...
152s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
152s autopkgtest [14:00:42]: upgrading testbed (apt dist-upgrade and autopurge)
152s Reading package lists...
153s Building dependency tree...
153s Reading state information...
153s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
153s Starting 2 pkgProblemResolver with broken count: 0
153s Done
154s Entering ResolveByKeep
154s 
155s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
155s 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
156s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
159s autopkgtest [14:00:49]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024
159s autopkgtest [14:00:49]: @@@@@@@@@@@@@@@@@@@@ apt-source nanook
161s Get:1 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (dsc) [2220 B]
161s Get:2 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (tar) [95.2 kB]
161s Get:3 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (diff) [1818 kB]
162s gpgv: Signature made Wed Dec 18 14:21:48 2024 UTC
162s gpgv:                using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
162s gpgv:                issuer "emollier@debian.org"
162s gpgv: Can't check signature: No public key
162s dpkg-source: warning: cannot verify inline signature for ./nanook_1.33+dfsg-6.dsc: no acceptable signature found
162s autopkgtest [14:00:52]: testing package nanook version 1.33+dfsg-6
162s autopkgtest [14:00:52]: build not needed
163s autopkgtest [14:00:53]: test run-unit-test: preparing testbed
163s Reading package lists...
163s Building dependency tree...
163s Reading state information...
163s Starting pkgProblemResolver with broken count: 0
164s Starting 2 pkgProblemResolver with broken count: 0
164s Done
164s The following NEW packages will be installed:
164s   ca-certificates-java default-jre-headless fontconfig fontconfig-config
164s   fonts-dejavu-core fonts-dejavu-mono fonts-lmodern hdf5-tools java-common
164s   last-align libaec0 libapache-pom-java libblas3 libcairo2 libcommons-io-java
164s   libcommons-parent-java libdatrie1 libdeflate0 libfontconfig1 libgfortran5
164s   libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-103-1t64 libice6 libjbig0
164s   libjpeg-turbo8 libjpeg8 libkpathsea6 liblapack3 liblcms2-2 liblerc4 libmpfi0
164s   libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
164s   libpaper2 libpcsclite1 libpixman-1-0 libpotrace0 libptexenc1 libsharpyuv0
164s   libsm6 libsynctex2 libsz2 libtcl8.6 libteckit0 libtexlua53-5 libthai-data
164s   libthai0 libtiff6 libtk8.6 libwebp7 libxaw7 libxcb-render0 libxcb-shm0
164s   libxft2 libxi6 libxmu6 libxpm4 libxrender1 libxss1 libxt6t64 libzzip-0-13t64
164s   littler nanook nanook-examples openjdk-21-jre-headless r-base-core
164s   r-cran-cli r-cran-colorspace r-cran-fansi r-cran-farver r-cran-ggplot2
164s   r-cran-glue r-cran-gridextra r-cran-gtable r-cran-isoband r-cran-labeling
164s   r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass
164s   r-cran-matrix r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pillar
164s   r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr r-cran-r6 r-cran-rcolorbrewer
164s   r-cran-rcpp r-cran-reshape r-cran-rlang r-cran-scales r-cran-tibble
164s   r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr t1utils tex-common
164s   texlive-base texlive-binaries texlive-latex-base unzip x11-common xdg-utils
164s   zip
165s 0 upgraded, 113 newly installed, 0 to remove and 0 not upgraded.
165s Need to get 161 MB of archives.
165s After this operation, 469 MB of additional disk space will be used.
165s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 ca-certificates-java all 20240118 [11.6 kB]
165s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 java-common all 0.76 [6852 B]
165s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 liblcms2-2 arm64 2.16-2 [170 kB]
165s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-3ubuntu2 [165 kB]
165s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B]
165s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 libpcsclite1 arm64 2.3.0-3 [24.8 kB]
165s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 openjdk-21-jre-headless arm64 21.0.5+11-1 [45.7 MB]
168s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 default-jre-headless arm64 2:1.21-76 [3176 B]
168s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB]
168s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB]
168s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-1.1ubuntu2 [37.4 kB]
168s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-1.1ubuntu2 [142 kB]
168s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig arm64 2.15.0-1.1ubuntu2 [190 kB]
168s Get:14 http://ftpmaster.internal/ubuntu plucky/universe arm64 fonts-lmodern all 2.005-1 [4799 kB]
168s Get:15 http://ftpmaster.internal/ubuntu plucky/universe arm64 libaec0 arm64 1.1.3-1 [22.0 kB]
168s Get:16 http://ftpmaster.internal/ubuntu plucky/universe arm64 libsz2 arm64 1.1.3-1 [5254 B]
168s Get:17 http://ftpmaster.internal/ubuntu plucky/universe arm64 libhdf5-103-1t64 arm64 1.10.10+repack-5ubuntu1 [1210 kB]
168s Get:18 http://ftpmaster.internal/ubuntu plucky/universe arm64 hdf5-tools arm64 1.10.10+repack-5ubuntu1 [320 kB]
168s Get:19 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 last-align arm64 1608-1 [841 kB]
168s Get:20 http://ftpmaster.internal/ubuntu plucky/universe arm64 libapache-pom-java all 33-2 [5874 B]
168s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-4 [152 kB]
168s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB]
168s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB]
168s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B]
168s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB]
168s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB]
168s Get:27 http://ftpmaster.internal/ubuntu plucky/universe arm64 libcommons-parent-java all 56-1 [10.7 kB]
168s Get:28 http://ftpmaster.internal/ubuntu plucky/universe arm64 libcommons-io-java all 2.17.0-1 [457 kB]
168s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 libdatrie1 arm64 0.2.13-3build1 [19.2 kB]
168s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.22-1 [46.2 kB]
168s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-12ubuntu1 [437 kB]
168s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-12ubuntu1 [145 kB]
168s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB]
168s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.1.0-1 [489 kB]
168s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB]
168s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 libice6 arm64 2:1.1.1-1 [42.3 kB]
168s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 libkpathsea6 arm64 2024.20240313.70630+ds-5build2 [64.3 kB]
168s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-4 [2305 kB]
168s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu1 [167 kB]
168s Get:40 http://ftpmaster.internal/ubuntu plucky/universe arm64 libmpfi0 arm64 1.5.4+ds-4 [35.3 kB]
168s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai-data all 0.1.29-2build1 [158 kB]
168s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai0 arm64 0.1.29-2build1 [18.2 kB]
168s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 libpango-1.0-0 arm64 1.55.0+ds-3 [237 kB]
168s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangoft2-1.0-0 arm64 1.55.0+ds-3 [48.9 kB]
168s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangocairo-1.0-0 arm64 1.55.0+ds-3 [27.5 kB]
168s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper2 arm64 2.2.5-0.3 [17.3 kB]
168s Get:47 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper-utils arm64 2.2.5-0.3 [15.4 kB]
168s Get:48 http://ftpmaster.internal/ubuntu plucky/universe arm64 libpotrace0 arm64 1.16-2build1 [16.0 kB]
168s Get:49 http://ftpmaster.internal/ubuntu plucky/main arm64 libptexenc1 arm64 2024.20240313.70630+ds-5build2 [41.7 kB]
168s Get:50 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [16.3 kB]
168s Get:51 http://ftpmaster.internal/ubuntu plucky/main arm64 libsm6 arm64 2:1.2.4-1 [16.4 kB]
168s Get:52 http://ftpmaster.internal/ubuntu plucky/main arm64 libsynctex2 arm64 2024.20240313.70630+ds-5build2 [60.3 kB]
168s Get:53 http://ftpmaster.internal/ubuntu plucky/main arm64 libtcl8.6 arm64 8.6.15+dfsg-2 [987 kB]
168s Get:54 http://ftpmaster.internal/ubuntu plucky/universe arm64 libteckit0 arm64 2.5.12+ds1-1 [405 kB]
168s Get:55 http://ftpmaster.internal/ubuntu plucky/main arm64 libtexlua53-5 arm64 2024.20240313.70630+ds-5build2 [122 kB]
168s Get:56 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB]
168s Get:57 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.4.0-0.1 [192 kB]
168s Get:58 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB]
168s Get:59 http://ftpmaster.internal/ubuntu plucky/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB]
168s Get:60 http://ftpmaster.internal/ubuntu plucky/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B]
168s Get:61 http://ftpmaster.internal/ubuntu plucky/main arm64 libtk8.6 arm64 8.6.15-1 [774 kB]
168s Get:62 http://ftpmaster.internal/ubuntu plucky/main arm64 libxt6t64 arm64 1:1.2.1-1.2build1 [168 kB]
168s Get:63 http://ftpmaster.internal/ubuntu plucky/main arm64 libxmu6 arm64 2:1.1.3-3build2 [47.5 kB]
169s Get:64 http://ftpmaster.internal/ubuntu plucky/main arm64 libxpm4 arm64 1:3.5.17-1build2 [35.1 kB]
169s Get:65 http://ftpmaster.internal/ubuntu plucky/main arm64 libxaw7 arm64 2:1.0.16-1 [184 kB]
169s Get:66 http://ftpmaster.internal/ubuntu plucky/main arm64 libxi6 arm64 2:1.8.2-1 [32.4 kB]
169s Get:67 http://ftpmaster.internal/ubuntu plucky/universe arm64 libzzip-0-13t64 arm64 0.13.72+dfsg.1-1.2build1 [29.2 kB]
169s Get:68 http://ftpmaster.internal/ubuntu plucky/main arm64 zip arm64 3.0-14ubuntu1 [172 kB]
169s Get:69 http://ftpmaster.internal/ubuntu plucky/main arm64 unzip arm64 6.0-28ubuntu6 [178 kB]
169s Get:70 http://ftpmaster.internal/ubuntu plucky/main arm64 xdg-utils all 1.2.1-0ubuntu1 [67.5 kB]
169s Get:71 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-base-core arm64 4.4.2-1 [28.4 MB]
170s Get:72 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-littler arm64 0.3.20-2 [96.1 kB]
170s Get:73 http://ftpmaster.internal/ubuntu plucky/universe arm64 littler all 0.3.20-2 [2554 B]
170s Get:74 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-cli arm64 3.6.3-1 [1347 kB]
170s Get:75 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-glue arm64 1.8.0-1 [163 kB]
170s Get:76 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rlang arm64 1.1.4-1 [1707 kB]
170s Get:77 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
170s Get:78 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-gtable all 0.3.6+dfsg-1 [199 kB]
170s Get:79 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-isoband arm64 0.2.7-1 [1481 kB]
170s Get:80 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-mass arm64 7.3-63-1 [1110 kB]
170s Get:81 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-lattice arm64 0.22-6-1 [1363 kB]
170s Get:82 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-nlme arm64 3.1.166-1 [2312 kB]
170s Get:83 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-matrix arm64 1.7-1-1 [4138 kB]
170s Get:84 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-mgcv arm64 1.9-1-1 [3248 kB]
170s Get:85 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-farver arm64 2.1.2-1 [1344 kB]
170s Get:86 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-labeling all 0.4.3-1 [62.1 kB]
170s Get:87 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-colorspace arm64 2.1-1+dfsg-1 [1563 kB]
170s Get:88 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-munsell all 0.5.1-1 [213 kB]
170s Get:89 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-r6 all 2.5.1-1 [99.0 kB]
170s Get:90 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB]
170s Get:91 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-viridislite all 0.4.2-2 [1088 kB]
170s Get:92 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-scales all 1.3.0-1 [603 kB]
170s Get:93 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-fansi arm64 1.0.5-1 [616 kB]
170s Get:94 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-magrittr arm64 2.0.3-1 [154 kB]
170s Get:95 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-utf8 arm64 1.2.4-1 [140 kB]
170s Get:96 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-vctrs arm64 0.6.5-1 [1327 kB]
170s Get:97 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-pillar all 1.9.0+dfsg-1 [464 kB]
170s Get:98 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
170s Get:99 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-tibble arm64 3.2.1+dfsg-2 [415 kB]
170s Get:100 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-withr all 3.0.2+dfsg-1 [214 kB]
170s Get:101 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3940 kB]
171s Get:102 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-gridextra all 2.3-3build1 [1024 kB]
171s Get:103 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB]
171s Get:104 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rcpp arm64 1.0.13-1-1 [1973 kB]
171s Get:105 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-plyr arm64 1.8.9-1 [831 kB]
171s Get:106 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-reshape all 0.8.9-1 [168 kB]
171s Get:107 http://ftpmaster.internal/ubuntu plucky/universe arm64 tex-common all 6.18 [32.8 kB]
171s Get:108 http://ftpmaster.internal/ubuntu plucky/main arm64 t1utils arm64 1.41-4build3 [61.0 kB]
171s Get:109 http://ftpmaster.internal/ubuntu plucky/universe arm64 texlive-binaries arm64 2024.20240313.70630+ds-5build2 [8328 kB]
172s Get:110 http://ftpmaster.internal/ubuntu plucky/universe arm64 texlive-base all 2024.20241115-1 [22.5 MB]
172s Get:111 http://ftpmaster.internal/ubuntu plucky/universe arm64 texlive-latex-base all 2024.20241115-1 [1260 kB]
173s Get:112 http://ftpmaster.internal/ubuntu plucky/universe arm64 nanook all 1.33+dfsg-6 [195 kB]
173s Get:113 http://ftpmaster.internal/ubuntu plucky/universe arm64 nanook-examples all 1.33+dfsg-6 [1814 kB]
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179s Selecting previously unselected package r-cran-gridextra.
179s Preparing to unpack .../101-r-cran-gridextra_2.3-3build1_all.deb ...
179s Unpacking r-cran-gridextra (2.3-3build1) ...
179s Selecting previously unselected package r-cran-pkgkitten.
179s Preparing to unpack .../102-r-cran-pkgkitten_0.2.4-1_all.deb ...
179s Unpacking r-cran-pkgkitten (0.2.4-1) ...
179s Selecting previously unselected package r-cran-rcpp.
179s Preparing to unpack .../103-r-cran-rcpp_1.0.13-1-1_arm64.deb ...
179s Unpacking r-cran-rcpp (1.0.13-1-1) ...
179s Selecting previously unselected package r-cran-plyr.
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179s Unpacking r-cran-plyr (1.8.9-1) ...
179s Selecting previously unselected package r-cran-reshape.
179s Preparing to unpack .../105-r-cran-reshape_0.8.9-1_all.deb ...
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179s Selecting previously unselected package tex-common.
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180s Selecting previously unselected package texlive-base.
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181s Selecting previously unselected package texlive-latex-base.
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181s Unpacking texlive-latex-base (2024.20241115-1) ...
181s Selecting previously unselected package nanook.
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181s Unpacking nanook (1.33+dfsg-6) ...
181s Selecting previously unselected package nanook-examples.
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181s Unpacking nanook-examples (1.33+dfsg-6) ...
181s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
181s Setting up liblcms2-2:arm64 (2.16-2) ...
181s Setting up libpixman-1-0:arm64 (0.44.0-3) ...
181s Setting up libsharpyuv0:arm64 (1.4.0-0.1) ...
181s Setting up nanook-examples (1.33+dfsg-6) ...
181s Setting up liblerc4:arm64 (4.0.0+ds-5ubuntu1) ...
181s Setting up libxpm4:arm64 (1:3.5.17-1build2) ...
181s Setting up libxi6:arm64 (2:1.8.2-1) ...
181s Setting up java-common (0.76) ...
181s Setting up libxrender1:arm64 (1:0.9.10-1.1build1) ...
181s Setting up libdatrie1:arm64 (0.2.13-3build1) ...
181s Setting up libxcb-render0:arm64 (1.17.0-2) ...
181s Setting up unzip (6.0-28ubuntu6) ...
181s Setting up x11-common (1:7.7+23ubuntu3) ...
182s Setting up libdeflate0:arm64 (1.22-1) ...
182s Setting up libxcb-shm0:arm64 (1.17.0-2) ...
182s Setting up libgomp1:arm64 (14.2.0-12ubuntu1) ...
182s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ...
182s Setting up libaec0:arm64 (1.1.3-1) ...
182s Setting up last-align (1608-1) ...
182s Setting up tex-common (6.18) ...
183s update-language: texlive-base not installed and configured, doing nothing!
183s Setting up zip (3.0-14ubuntu1) ...
183s Setting up libblas3:arm64 (3.12.0-4) ...
183s 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
183s Setting up libzzip-0-13t64:arm64 (0.13.72+dfsg.1-1.2build1) ...
183s Setting up libteckit0:arm64 (2.5.12+ds1-1) ...
183s Setting up libapache-pom-java (33-2) ...
183s Setting up t1utils (1.41-4build3) ...
183s Setting up libtexlua53-5:arm64 (2024.20240313.70630+ds-5build2) ...
183s Setting up fonts-dejavu-mono (2.37-8) ...
183s Setting up libtcl8.6:arm64 (8.6.15+dfsg-2) ...
183s Setting up libmpfi0:arm64 (1.5.4+ds-4) ...
183s Setting up fonts-dejavu-core (2.37-8) ...
183s Setting up libpcsclite1:arm64 (2.3.0-3) ...
183s Setting up libjpeg-turbo8:arm64 (2.1.5-3ubuntu2) ...
183s Setting up libkpathsea6:arm64 (2024.20240313.70630+ds-5build2) ...
183s Setting up libgfortran5:arm64 (14.2.0-12ubuntu1) ...
183s Setting up libwebp7:arm64 (1.4.0-0.1) ...
183s Setting up fonts-lmodern (2.005-1) ...
183s Setting up libharfbuzz0b:arm64 (10.1.0-1) ...
183s Setting up libthai-data (0.1.29-2build1) ...
183s Setting up libxss1:arm64 (1:1.2.3-1build3) ...
183s Setting up libpaper2:arm64 (2.2.5-0.3) ...
183s Setting up ca-certificates-java (20240118) ...
183s No JRE found. Skipping Java certificates setup.
183s Setting up xdg-utils (1.2.1-0ubuntu1) ...
183s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
183s Setting up libsz2:arm64 (1.1.3-1) ...
183s Setting up libsynctex2:arm64 (2024.20240313.70630+ds-5build2) ...
183s Setting up libpotrace0:arm64 (1.16-2build1) ...
183s Setting up libjpeg8:arm64 (8c-2ubuntu11) ...
183s Setting up libice6:arm64 (2:1.1.1-1) ...
183s Setting up liblapack3:arm64 (3.12.0-4) ...
183s 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
183s Setting up openjdk-21-jre-headless:arm64 (21.0.5+11-1) ...
183s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/java to provide /usr/bin/java (java) in auto mode
183s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode
183s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode
183s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode
183s update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode
183s Setting up fontconfig-config (2.15.0-1.1ubuntu2) ...
183s Setting up libcommons-parent-java (56-1) ...
183s Setting up libpaper-utils (2.2.5-0.3) ...
183s Setting up libthai0:arm64 (0.1.29-2build1) ...
183s Setting up libptexenc1:arm64 (2024.20240313.70630+ds-5build2) ...
183s Setting up libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ...
183s Setting up libfontconfig1:arm64 (2.15.0-1.1ubuntu2) ...
183s Setting up libhdf5-103-1t64:arm64 (1.10.10+repack-5ubuntu1) ...
183s Setting up libsm6:arm64 (2:1.2.4-1) ...
183s Setting up fontconfig (2.15.0-1.1ubuntu2) ...
184s Regenerating fonts cache... done.
184s Setting up libxft2:arm64 (2.3.6-1build1) ...
184s Setting up libcommons-io-java (2.17.0-1) ...
184s Setting up libtk8.6:arm64 (8.6.15-1) ...
184s Setting up libpango-1.0-0:arm64 (1.55.0+ds-3) ...
184s Setting up libcairo2:arm64 (1.18.2-2) ...
184s Setting up hdf5-tools (1.10.10+repack-5ubuntu1) ...
184s Setting up libxt6t64:arm64 (1:1.2.1-1.2build1) ...
184s Setting up libpangoft2-1.0-0:arm64 (1.55.0+ds-3) ...
184s Setting up libpangocairo-1.0-0:arm64 (1.55.0+ds-3) ...
184s Setting up libxmu6:arm64 (2:1.1.3-3build2) ...
184s Setting up libxaw7:arm64 (2:1.0.16-1) ...
184s Setting up r-base-core (4.4.2-1) ...
185s Creating config file /etc/R/Renviron with new version
185s Setting up r-cran-labeling (0.4.3-1) ...
185s Setting up r-cran-lattice (0.22-6-1) ...
185s Setting up r-cran-nlme (3.1.166-1) ...
185s Setting up r-cran-farver (2.1.2-1) ...
185s Setting up r-cran-viridislite (0.4.2-2) ...
185s Setting up texlive-binaries (2024.20240313.70630+ds-5build2) ...
185s update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode
185s update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode
185s Setting up r-cran-r6 (2.5.1-1) ...
185s Setting up r-cran-pkgkitten (0.2.4-1) ...
185s Setting up texlive-base (2024.20241115-1) ...
186s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps
186s tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg
186s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper
186s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex
187s Setting up r-cran-magrittr (2.0.3-1) ...
187s Setting up r-cran-littler (0.3.20-2) ...
187s Setting up r-cran-rcpp (1.0.13-1-1) ...
187s Setting up r-cran-rlang (1.1.4-1) ...
187s Setting up littler (0.3.20-2) ...
187s Setting up r-cran-withr (3.0.2+dfsg-1) ...
187s Setting up r-cran-fansi (1.0.5-1) ...
187s Setting up r-cran-mass (7.3-63-1) ...
187s Setting up r-cran-glue (1.8.0-1) ...
187s Setting up r-cran-cli (3.6.3-1) ...
187s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
187s Setting up r-cran-pkgconfig (2.0.3-2build1) ...
187s Setting up r-cran-utf8 (1.2.4-1) ...
187s Setting up r-cran-colorspace (2.1-1+dfsg-1) ...
187s Setting up texlive-latex-base (2024.20241115-1) ...
187s Setting up r-cran-plyr (1.8.9-1) ...
187s Setting up r-cran-rcolorbrewer (1.1-3-1build1) ...
187s Setting up r-cran-isoband (0.2.7-1) ...
187s Setting up r-cran-gtable (0.3.6+dfsg-1) ...
187s Setting up r-cran-matrix (1.7-1-1) ...
187s Setting up r-cran-mgcv (1.9-1-1) ...
187s Setting up r-cran-vctrs (0.6.5-1) ...
187s Setting up r-cran-pillar (1.9.0+dfsg-1) ...
187s Setting up r-cran-reshape (0.8.9-1) ...
187s Setting up r-cran-munsell (0.5.1-1) ...
187s Setting up r-cran-tibble (3.2.1+dfsg-2) ...
187s Setting up r-cran-gridextra (2.3-3build1) ...
187s Setting up r-cran-scales (1.3.0-1) ...
187s Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ...
187s Processing triggers for libc-bin (2.40-4ubuntu1) ...
187s Processing triggers for man-db (2.13.0-1) ...
188s Processing triggers for install-info (7.1.1-1) ...
188s Processing triggers for ca-certificates-java (20240118) ...
189s Adding debian:ACCVRAIZ1.pem
189s Adding debian:AC_RAIZ_FNMT-RCM.pem
189s Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem
189s Adding debian:ANF_Secure_Server_Root_CA.pem
189s Adding debian:Actalis_Authentication_Root_CA.pem
189s Adding debian:AffirmTrust_Commercial.pem
189s Adding debian:AffirmTrust_Networking.pem
189s Adding debian:AffirmTrust_Premium.pem
189s Adding debian:AffirmTrust_Premium_ECC.pem
189s Adding debian:Amazon_Root_CA_1.pem
189s Adding debian:Amazon_Root_CA_2.pem
189s Adding debian:Amazon_Root_CA_3.pem
189s Adding debian:Amazon_Root_CA_4.pem
189s Adding debian:Atos_TrustedRoot_2011.pem
189s Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem
189s Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem
189s Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem
189s Adding debian:BJCA_Global_Root_CA1.pem
189s Adding debian:BJCA_Global_Root_CA2.pem
189s Adding debian:Baltimore_CyberTrust_Root.pem
189s Adding debian:Buypass_Class_2_Root_CA.pem
189s Adding debian:Buypass_Class_3_Root_CA.pem
189s Adding debian:CA_Disig_Root_R2.pem
189s Adding debian:CFCA_EV_ROOT.pem
189s Adding debian:COMODO_Certification_Authority.pem
189s Adding debian:COMODO_ECC_Certification_Authority.pem
189s Adding debian:COMODO_RSA_Certification_Authority.pem
189s Adding debian:Certainly_Root_E1.pem
189s Adding debian:Certainly_Root_R1.pem
189s Adding debian:Certigna.pem
189s Adding debian:Certigna_Root_CA.pem
189s Adding debian:Certum_EC-384_CA.pem
189s Adding debian:Certum_Trusted_Network_CA.pem
189s Adding debian:Certum_Trusted_Network_CA_2.pem
189s Adding debian:Certum_Trusted_Root_CA.pem
189s Adding debian:CommScope_Public_Trust_ECC_Root-01.pem
189s Adding debian:CommScope_Public_Trust_ECC_Root-02.pem
189s Adding debian:CommScope_Public_Trust_RSA_Root-01.pem
189s Adding debian:CommScope_Public_Trust_RSA_Root-02.pem
189s Adding debian:Comodo_AAA_Services_root.pem
189s Adding debian:D-TRUST_BR_Root_CA_1_2020.pem
189s Adding debian:D-TRUST_EV_Root_CA_1_2020.pem
189s Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem
189s Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem
189s Adding debian:DigiCert_Assured_ID_Root_CA.pem
189s Adding debian:DigiCert_Assured_ID_Root_G2.pem
189s Adding debian:DigiCert_Assured_ID_Root_G3.pem
189s Adding debian:DigiCert_Global_Root_CA.pem
189s Adding debian:DigiCert_Global_Root_G2.pem
189s Adding debian:DigiCert_Global_Root_G3.pem
189s Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem
189s Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem
189s Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem
189s Adding debian:DigiCert_Trusted_Root_G4.pem
189s Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem
189s Adding debian:Entrust_Root_Certification_Authority.pem
189s Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem
189s Adding debian:Entrust_Root_Certification_Authority_-_G2.pem
189s Adding debian:Entrust_Root_Certification_Authority_-_G4.pem
189s Adding debian:GDCA_TrustAUTH_R5_ROOT.pem
189s Adding debian:GLOBALTRUST_2020.pem
189s Adding debian:GTS_Root_R1.pem
189s Adding debian:GTS_Root_R2.pem
189s Adding debian:GTS_Root_R3.pem
189s Adding debian:GTS_Root_R4.pem
189s Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem
189s Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem
189s Adding debian:GlobalSign_Root_CA.pem
189s Adding debian:GlobalSign_Root_CA_-_R3.pem
189s Adding debian:GlobalSign_Root_CA_-_R6.pem
189s Adding debian:GlobalSign_Root_E46.pem
189s Adding debian:GlobalSign_Root_R46.pem
189s Adding debian:Go_Daddy_Class_2_CA.pem
189s Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem
189s Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem
189s Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem
189s Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem
189s Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem
189s Adding debian:HiPKI_Root_CA_-_G1.pem
189s Adding debian:Hongkong_Post_Root_CA_3.pem
189s Adding debian:ISRG_Root_X1.pem
189s Adding debian:ISRG_Root_X2.pem
189s Adding debian:IdenTrust_Commercial_Root_CA_1.pem
189s Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem
189s Adding debian:Izenpe.com.pem
189s Adding debian:Microsec_e-Szigno_Root_CA_2009.pem
189s Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem
189s Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem
189s Adding debian:NAVER_Global_Root_Certification_Authority.pem
189s Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem
189s Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem
189s Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem
189s Adding debian:QuoVadis_Root_CA_1_G3.pem
189s Adding debian:QuoVadis_Root_CA_2.pem
189s Adding debian:QuoVadis_Root_CA_2_G3.pem
189s Adding debian:QuoVadis_Root_CA_3.pem
189s Adding debian:QuoVadis_Root_CA_3_G3.pem
189s Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem
189s Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem
189s Adding debian:SSL.com_Root_Certification_Authority_ECC.pem
189s Adding debian:SSL.com_Root_Certification_Authority_RSA.pem
189s Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem
189s Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem
189s Adding debian:SZAFIR_ROOT_CA2.pem
189s Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem
189s Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem
189s Adding debian:SecureSign_RootCA11.pem
189s Adding debian:SecureTrust_CA.pem
189s Adding debian:Secure_Global_CA.pem
189s Adding debian:Security_Communication_ECC_RootCA1.pem
189s Adding debian:Security_Communication_RootCA2.pem
189s Adding debian:Security_Communication_RootCA3.pem
189s Adding debian:Security_Communication_Root_CA.pem
189s Adding debian:Starfield_Class_2_CA.pem
189s Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem
189s Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem
189s Adding debian:SwissSign_Gold_CA_-_G2.pem
189s Adding debian:SwissSign_Silver_CA_-_G2.pem
189s Adding debian:T-TeleSec_GlobalRoot_Class_2.pem
189s Adding debian:T-TeleSec_GlobalRoot_Class_3.pem
189s Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem
189s Adding debian:TWCA_Global_Root_CA.pem
189s Adding debian:TWCA_Root_Certification_Authority.pem
189s Adding debian:TeliaSonera_Root_CA_v1.pem
189s Adding debian:Telia_Root_CA_v2.pem
189s Adding debian:TrustAsia_Global_Root_CA_G3.pem
189s Adding debian:TrustAsia_Global_Root_CA_G4.pem
189s Adding debian:Trustwave_Global_Certification_Authority.pem
189s Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem
189s Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem
189s Adding debian:TunTrust_Root_CA.pem
189s Adding debian:UCA_Extended_Validation_Root.pem
189s Adding debian:UCA_Global_G2_Root.pem
189s Adding debian:USERTrust_ECC_Certification_Authority.pem
189s Adding debian:USERTrust_RSA_Certification_Authority.pem
189s Adding debian:XRamp_Global_CA_Root.pem
189s Adding debian:certSIGN_ROOT_CA.pem
189s Adding debian:certSIGN_Root_CA_G2.pem
189s Adding debian:e-Szigno_Root_CA_2017.pem
189s Adding debian:ePKI_Root_Certification_Authority.pem
189s Adding debian:emSign_ECC_Root_CA_-_C3.pem
189s Adding debian:emSign_ECC_Root_CA_-_G3.pem
189s Adding debian:emSign_Root_CA_-_C1.pem
189s Adding debian:emSign_Root_CA_-_G1.pem
189s Adding debian:vTrus_ECC_Root_CA.pem
189s Adding debian:vTrus_Root_CA.pem
189s done.
189s Setting up default-jre-headless (2:1.21-76) ...
189s Setting up nanook (1.33+dfsg-6) ...
189s Processing triggers for tex-common (6.18) ...
190s Running updmap-sys. This may take some time... done.
190s Running mktexlsr /var/lib/texmf ... done.
190s Building format(s) --all.
224s 	This may take some time... done.
225s autopkgtest [14:01:55]: test run-unit-test: [-----------------------
237s 
237s NanoOK v1.33
237s 
237s Comments/bugs to: richard.leggett@earlham.ac.uk
237s Follow NanoOK on twitter: @NanoOK_Software
237s 
237s Scripts dir: /usr/share/nanook/bin
237s 
237s Checking dependencies
237s *** ERROR: Couldn't find Rscript - is R installed? ***
237s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
237s h5dump: Version 1.10.10
237s 
237s Making directory /tmp/autopkgtest.C89ghZ/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/fasta
237s Checking FAST5 directory structure...
237s   Using pass/fail dirs: yes
237s       Using batch dirs: no
237s         Using barcodes: no
237s 
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240s 
240s DONE
240s 
240s NanoOK v1.33
240s 
240s Comments/bugs to: richard.leggett@earlham.ac.uk
240s Follow NanoOK on twitter: @NanoOK_Software
240s 
240s Scripts dir: /usr/share/nanook/bin
240s 
240s Checking dependencies
240s *** ERROR: Couldn't find Rscript - is R installed? ***
240s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
240s h5dump: Version 1.10.10
240s 
240s Making directory /tmp/autopkgtest.C89ghZ/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/last
240s Making directory /tmp/autopkgtest.C89ghZ/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/logs/last
240s Checking FASTA/Q directory structure...
240s   Using pass/fail dirs: yes
240s       Using batch dirs: no
240s         Using barcodes: no
240s 
243s 
Processing [                                                  ] 0/3
Processing [================                                  ] 1/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
243s 
243s DONE
243s 
243s NanoOK v1.33
243s 
243s Comments/bugs to: richard.leggett@earlham.ac.uk
243s Follow NanoOK on twitter: @NanoOK_Software
243s 
243s Scripts dir: /usr/share/nanook/bin
243s 
243s Checking dependencies
243s *** ERROR: Couldn't find Rscript - is R installed? ***
243s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
243s h5dump: Version 1.10.10
243s 
243s Checking FASTA/Q directory structure...
243s   Using pass/fail dirs: yes
243s       Using batch dirs: no
243s         Using barcodes: no
243s 
243s Using .sizes file ecoli_dh10b_cs.fasta.sizes
243s Note: if you have changed the reference file, you need to delete the .sizes file and re-run.
243s 
243s Reading reference sizes and making directories
243s 	Escherichia_coli	4686137
243s 	Control_sequence	3560
243s 
243s Calculating reference GC
243s 	Escherichia_coli
244s 	Control_sequence
244s 
244s Parsing Template
244s 
[                                                  ] 0/1
[==================================================] 1/1
244s 
244s Error: unable to find any Template alignments to process.
244s Common reasons for this:
244s 1. Failure to index the reference with the alignment tool, resulting in alignment files of 0 bytes
244s 2. Wrong reference specified to the align stage, resulting in no alignments
244s 3. When indexing with LAST, the output prefix needs to be the same as the reference FASTA file, minus the .fasta extension
244s    e.g. lastdb -Q 0 referencename referencename.fasta
244s 
245s autopkgtest [14:02:15]: test run-unit-test: -----------------------]
245s autopkgtest [14:02:15]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
245s run-unit-test        FAIL non-zero exit status 1
245s autopkgtest [14:02:15]: @@@@@@@@@@@@@@@@@@@@ summary
245s run-unit-test        FAIL non-zero exit status 1
263s nova [W] Using flock in prodstack6-arm64
263s flock: timeout while waiting to get lock
263s Creating nova instance adt-plucky-arm64-nanook-20250117-135810-juju-7f2275-prod-proposed-migration-environment-20-405198a5-d764-4059-9c65-1f519bbdcd78 from image adt/ubuntu-plucky-arm64-server-20250117.img (UUID 16a981e8-12f4-4912-806e-ebb4c2361146)...
263s nova [W] Timed out waiting for 111dd325-68f6-4825-b2f7-2eb94851192f to get deleted.