0s autopkgtest [11:18:54]: starting date and time: 2025-03-13 11:18:54+0000
  0s autopkgtest [11:18:54]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production'
  0s autopkgtest [11:18:54]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.oryvdqqc/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-ppc64el --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-ppc64el-7.secgroup --name adt-plucky-ppc64el-nanook-20250313-111854-juju-7f2275-prod-proposed-migration-environment-20-36c1f27f-f760-45fd-ba5e-a500f89bbf34 --image adt/ubuntu-plucky-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --net-id=net_prod-proposed-migration-ppc64el -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/
 68s autopkgtest [11:20:02]: testbed dpkg architecture: ppc64el
 68s autopkgtest [11:20:02]: testbed apt version: 2.9.32ubuntu1
 68s autopkgtest [11:20:02]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 68s autopkgtest [11:20:02]: testbed release detected to be: None
 69s autopkgtest [11:20:03]: updating testbed package index (apt update)
 69s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [110 kB]
 70s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease
 70s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease
 70s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease
 70s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [43.9 kB]
 70s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [11.5 kB]
 70s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [396 kB]
 70s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el Packages [56.8 kB]
 70s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe ppc64el Packages [328 kB]
 70s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse ppc64el Packages [3020 B]
 70s Fetched 950 kB in 1s (1117 kB/s)
 71s Reading package lists...
 71s Reading package lists...
 72s Building dependency tree...
 72s Reading state information...
 72s Calculating upgrade...
 72s Calculating upgrade...
 72s The following NEW packages will be installed:
 72s   pnp.ids
 72s The following packages will be upgraded:
 72s   gir1.2-glib-2.0 htop hwdata libglib2.0-0t64 libglib2.0-data
 72s 5 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
 72s Need to get 2297 kB of archives.
 72s After this operation, 11.3 kB of additional disk space will be used.
 72s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el gir1.2-glib-2.0 ppc64el 2.84.0-1 [184 kB]
 73s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el libglib2.0-0t64 ppc64el 2.84.0-1 [1802 kB]
 73s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el libglib2.0-data all 2.84.0-1 [53.0 kB]
 73s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el htop ppc64el 3.4.0-2 [227 kB]
 73s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el hwdata all 0.393-3 [1562 B]
 73s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el pnp.ids all 0.393-3 [29.5 kB]
 74s Fetched 2297 kB in 1s (2322 kB/s)
 74s (Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 107190 files and directories currently installed.)
 74s Preparing to unpack .../0-gir1.2-glib-2.0_2.84.0-1_ppc64el.deb ...
 74s Unpacking gir1.2-glib-2.0:ppc64el (2.84.0-1) over (2.83.5-1) ...
 74s Preparing to unpack .../1-libglib2.0-0t64_2.84.0-1_ppc64el.deb ...
 74s Unpacking libglib2.0-0t64:ppc64el (2.84.0-1) over (2.83.5-1) ...
 74s Preparing to unpack .../2-libglib2.0-data_2.84.0-1_all.deb ...
 74s Unpacking libglib2.0-data (2.84.0-1) over (2.83.5-1) ...
 74s Preparing to unpack .../3-htop_3.4.0-2_ppc64el.deb ...
 74s Unpacking htop (3.4.0-2) over (3.4.0-1) ...
 74s Preparing to unpack .../4-hwdata_0.393-3_all.deb ...
 74s Unpacking hwdata (0.393-3) over (0.393-1) ...
 74s Selecting previously unselected package pnp.ids.
 74s Preparing to unpack .../5-pnp.ids_0.393-3_all.deb ...
 74s Unpacking pnp.ids (0.393-3) ...
 74s Setting up htop (3.4.0-2) ...
 74s Setting up libglib2.0-0t64:ppc64el (2.84.0-1) ...
 74s No schema files found: doing nothing.
 74s Setting up libglib2.0-data (2.84.0-1) ...
 74s Setting up gir1.2-glib-2.0:ppc64el (2.84.0-1) ...
 74s Setting up pnp.ids (0.393-3) ...
 74s Setting up hwdata (0.393-3) ...
 74s Processing triggers for man-db (2.13.0-1) ...
 75s Processing triggers for libc-bin (2.41-1ubuntu1) ...
 75s Reading package lists...
 75s Building dependency tree...
 75s Reading state information...
 75s Solving dependencies...
 75s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 75s autopkgtest [11:20:09]: upgrading testbed (apt dist-upgrade and autopurge)
 76s Reading package lists...
 76s Building dependency tree...
 76s Reading state information...
 76s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
 76s Starting 2 pkgProblemResolver with broken count: 0
 76s Done
 76s Entering ResolveByKeep
 77s 
 77s Calculating upgrade...
 77s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 77s Reading package lists...
 77s Building dependency tree...
 77s Reading state information...
 77s Starting pkgProblemResolver with broken count: 0
 77s Starting 2 pkgProblemResolver with broken count: 0
 77s Done
 78s Solving dependencies...
 78s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 80s autopkgtest [11:20:14]: testbed running kernel: Linux 6.14.0-7-generic #7-Ubuntu SMP Fri Feb 28 12:06:33 UTC 2025
 81s autopkgtest [11:20:15]: @@@@@@@@@@@@@@@@@@@@ apt-source nanook
 83s Get:1 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (dsc) [2220 B]
 83s Get:2 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (tar) [95.2 kB]
 83s Get:3 http://ftpmaster.internal/ubuntu plucky/universe nanook 1.33+dfsg-6 (diff) [1818 kB]
 83s gpgv: Signature made Wed Dec 18 14:21:48 2024 UTC
 83s gpgv:                using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
 83s gpgv:                issuer "emollier@debian.org"
 83s gpgv: Can't check signature: No public key
 83s dpkg-source: warning: cannot verify inline signature for ./nanook_1.33+dfsg-6.dsc: no acceptable signature found
 83s autopkgtest [11:20:17]: testing package nanook version 1.33+dfsg-6
 84s autopkgtest [11:20:18]: build not needed
 84s autopkgtest [11:20:18]: test run-unit-test: preparing testbed
 85s Reading package lists...
 85s Building dependency tree...
 85s Reading state information...
 85s Starting pkgProblemResolver with broken count: 0
 85s Starting 2 pkgProblemResolver with broken count: 0
 85s Done
 85s The following NEW packages will be installed:
 85s   ca-certificates-java default-jre-headless fontconfig fontconfig-config
 85s   fonts-dejavu-core fonts-dejavu-mono fonts-lmodern hdf5-tools java-common
 85s   last-align libaec0 libapache-pom-java libblas3 libcairo2 libcommons-io-java
 85s   libcommons-parent-java libdatrie1 libdeflate0 libfontconfig1 libgfortran5
 85s   libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-310 libhdf5-hl-310 libice6
 85s   libjbig0 libjpeg-turbo8 libjpeg8 libkpathsea6 liblapack3 liblcms2-2 liblerc4
 85s   libmpfi0 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
 85s   libpaper2 libpcsclite1 libpixman-1-0 libpotrace0 libptexenc1 libsharpyuv0
 85s   libsm6 libsynctex2 libsz2 libtcl8.6 libteckit0 libtexlua53-5 libthai-data
 85s   libthai0 libtiff6 libtk8.6 libwebp7 libxaw7 libxcb-render0 libxcb-shm0
 85s   libxft2 libxi6 libxmu6 libxpm4 libxrender1 libxss1 libxt6t64 libzzip-0-13t64
 85s   littler nanook nanook-examples openjdk-21-jre-headless r-base-core
 85s   r-cran-cli r-cran-colorspace r-cran-fansi r-cran-farver r-cran-ggplot2
 85s   r-cran-glue r-cran-gridextra r-cran-gtable r-cran-isoband r-cran-labeling
 85s   r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-mass
 85s   r-cran-matrix r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pillar
 85s   r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr r-cran-r6 r-cran-rcolorbrewer
 85s   r-cran-rcpp r-cran-reshape r-cran-rlang r-cran-scales r-cran-tibble
 85s   r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr t1utils tex-common
 85s   texlive-base texlive-binaries texlive-latex-base unzip x11-common xdg-utils
 85s   zip
 85s 0 upgraded, 114 newly installed, 0 to remove and 0 not upgraded.
 85s Need to get 169 MB of archives.
 85s After this operation, 497 MB of additional disk space will be used.
 85s Get:1 http://ftpmaster.internal/ubuntu plucky/main ppc64el ca-certificates-java all 20240118 [11.6 kB]
 85s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el java-common all 0.76 [6852 B]
 85s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblcms2-2 ppc64el 2.16-2 [243 kB]
 86s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-3ubuntu2 [215 kB]
 86s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B]
 86s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpcsclite1 ppc64el 2.3.1-1 [31.4 kB]
 86s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el openjdk-21-jre-headless ppc64el 21.0.6+7-1 [45.6 MB]
 87s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el default-jre-headless ppc64el 2:1.21-76 [3184 B]
 87s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB]
 87s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB]
 87s Get:11 http://ftpmaster.internal/ubuntu plucky/main ppc64el fontconfig-config ppc64el 2.15.0-2ubuntu1 [37.5 kB]
 87s Get:12 http://ftpmaster.internal/ubuntu plucky/main ppc64el libfontconfig1 ppc64el 2.15.0-2ubuntu1 [188 kB]
 87s Get:13 http://ftpmaster.internal/ubuntu plucky/main ppc64el fontconfig ppc64el 2.15.0-2ubuntu1 [192 kB]
 87s Get:14 http://ftpmaster.internal/ubuntu plucky/universe ppc64el fonts-lmodern all 2.005-1 [4799 kB]
 87s Get:15 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libaec0 ppc64el 1.1.3-1 [30.1 kB]
 87s Get:16 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libsz2 ppc64el 1.1.3-1 [5566 B]
 87s Get:17 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libhdf5-310 ppc64el 1.14.5+repack-3 [1523 kB]
 87s Get:18 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libhdf5-hl-310 ppc64el 1.14.5+repack-3 [74.9 kB]
 87s Get:19 http://ftpmaster.internal/ubuntu plucky/universe ppc64el hdf5-tools ppc64el 1.14.5+repack-3 [403 kB]
 87s Get:20 http://ftpmaster.internal/ubuntu plucky-proposed/universe ppc64el last-align ppc64el 1609-1 [914 kB]
 87s Get:21 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libapache-pom-java all 33-2 [5874 B]
 87s Get:22 http://ftpmaster.internal/ubuntu plucky/main ppc64el libblas3 ppc64el 3.12.1-2 [239 kB]
 87s Get:23 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpixman-1-0 ppc64el 0.44.0-3 [334 kB]
 87s Get:24 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxcb-render0 ppc64el 1.17.0-2 [17.2 kB]
 87s Get:25 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxcb-shm0 ppc64el 1.17.0-2 [5980 B]
 87s Get:26 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1build1 [23.1 kB]
 88s Get:27 http://ftpmaster.internal/ubuntu plucky/main ppc64el libcairo2 ppc64el 1.18.2-2 [747 kB]
 88s Get:28 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libcommons-parent-java all 56-1 [10.7 kB]
 88s Get:29 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libcommons-io-java all 2.18.0-1 [477 kB]
 88s Get:30 http://ftpmaster.internal/ubuntu plucky/main ppc64el libdatrie1 ppc64el 0.2.13-3build1 [22.7 kB]
 88s Get:31 http://ftpmaster.internal/ubuntu plucky/main ppc64el libdeflate0 ppc64el 1.23-1 [63.4 kB]
 88s Get:32 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgfortran5 ppc64el 15-20250222-0ubuntu1 [612 kB]
 88s Get:33 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgomp1 ppc64el 15-20250222-0ubuntu1 [168 kB]
 88s Get:34 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgraphite2-3 ppc64el 1.3.14-2ubuntu1 [84.6 kB]
 88s Get:35 http://ftpmaster.internal/ubuntu plucky/main ppc64el libharfbuzz0b ppc64el 10.2.0-1 [598 kB]
 88s Get:36 http://ftpmaster.internal/ubuntu plucky/main ppc64el x11-common all 1:7.7+23ubuntu3 [21.7 kB]
 88s Get:37 http://ftpmaster.internal/ubuntu plucky/main ppc64el libice6 ppc64el 2:1.1.1-1 [49.9 kB]
 88s Get:38 http://ftpmaster.internal/ubuntu plucky/main ppc64el libkpathsea6 ppc64el 2024.20240313.70630+ds-5build2 [72.2 kB]
 88s Get:39 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblapack3 ppc64el 3.12.1-2 [2813 kB]
 88s Get:40 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblerc4 ppc64el 4.0.0+ds-5ubuntu1 [298 kB]
 88s Get:41 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libmpfi0 ppc64el 1.5.4+ds-4 [38.6 kB]
 88s Get:42 http://ftpmaster.internal/ubuntu plucky/main ppc64el libthai-data all 0.1.29-2build1 [158 kB]
 88s Get:43 http://ftpmaster.internal/ubuntu plucky/main ppc64el libthai0 ppc64el 0.1.29-2build1 [21.8 kB]
 88s Get:44 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpango-1.0-0 ppc64el 1.56.1-1 [277 kB]
 88s Get:45 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpangoft2-1.0-0 ppc64el 1.56.1-1 [58.6 kB]
 88s Get:46 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpangocairo-1.0-0 ppc64el 1.56.1-1 [30.6 kB]
 88s Get:47 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpaper2 ppc64el 2.2.5-0.3 [18.0 kB]
 88s Get:48 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpaper-utils ppc64el 2.2.5-0.3 [15.6 kB]
 88s Get:49 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libpotrace0 ppc64el 1.16-2build1 [23.0 kB]
 88s Get:50 http://ftpmaster.internal/ubuntu plucky/main ppc64el libptexenc1 ppc64el 2024.20240313.70630+ds-5build2 [45.0 kB]
 88s Get:51 http://ftpmaster.internal/ubuntu plucky/main ppc64el libsharpyuv0 ppc64el 1.5.0-0.1 [22.3 kB]
 88s Get:52 http://ftpmaster.internal/ubuntu plucky/main ppc64el libsm6 ppc64el 2:1.2.4-1 [18.4 kB]
 88s Get:53 http://ftpmaster.internal/ubuntu plucky/main ppc64el libsynctex2 ppc64el 2024.20240313.70630+ds-5build2 [68.2 kB]
 88s Get:54 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtcl8.6 ppc64el 8.6.16+dfsg-1 [1201 kB]
 88s Get:55 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libteckit0 ppc64el 2.5.12+ds1-1 [399 kB]
 88s Get:56 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtexlua53-5 ppc64el 2024.20240313.70630+ds-5build2 [163 kB]
 88s Get:57 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu2 [35.9 kB]
 88s Get:58 http://ftpmaster.internal/ubuntu plucky/main ppc64el libwebp7 ppc64el 1.5.0-0.1 [315 kB]
 88s Get:59 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtiff6 ppc64el 4.5.1+git230720-4ubuntu4 [272 kB]
 88s Get:60 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxft2 ppc64el 2.3.6-1build1 [61.5 kB]
 88s Get:61 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxss1 ppc64el 1:1.2.3-1build3 [7980 B]
 88s Get:62 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtk8.6 ppc64el 8.6.16-1 [946 kB]
 88s Get:63 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxt6t64 ppc64el 1:1.2.1-1.2build1 [202 kB]
 88s Get:64 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxmu6 ppc64el 2:1.1.3-3build2 [56.8 kB]
 88s Get:65 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxpm4 ppc64el 1:3.5.17-1build2 [49.9 kB]
 88s Get:66 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxaw7 ppc64el 2:1.0.16-1 [230 kB]
 88s Get:67 http://ftpmaster.internal/ubuntu plucky/main ppc64el libxi6 ppc64el 2:1.8.2-1 [37.9 kB]
 88s Get:68 http://ftpmaster.internal/ubuntu plucky/universe ppc64el libzzip-0-13t64 ppc64el 0.13.78+dfsg.1-0.1 [33.4 kB]
 88s Get:69 http://ftpmaster.internal/ubuntu plucky/main ppc64el zip ppc64el 3.0-14ubuntu2 [196 kB]
 88s Get:70 http://ftpmaster.internal/ubuntu plucky/main ppc64el unzip ppc64el 6.0-28ubuntu6 [200 kB]
 88s Get:71 http://ftpmaster.internal/ubuntu plucky/main ppc64el xdg-utils all 1.2.1-2ubuntu1 [66.0 kB]
 88s Get:72 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-base-core ppc64el 4.4.3-1 [29.0 MB]
 89s Get:73 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-littler ppc64el 0.3.20-2 [97.3 kB]
 89s Get:74 http://ftpmaster.internal/ubuntu plucky/universe ppc64el littler all 0.3.20-2 [2554 B]
 89s Get:75 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-cli ppc64el 3.6.4-1 [1411 kB]
 89s Get:76 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-glue ppc64el 1.8.0-1 [165 kB]
 89s Get:77 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-rlang ppc64el 1.1.5-1 [1740 kB]
 89s Get:78 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
 89s Get:79 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-gtable all 0.3.6+dfsg-1 [199 kB]
 89s Get:80 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-isoband ppc64el 0.2.7-1 [1486 kB]
 89s Get:81 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-mass ppc64el 7.3-64-1 [1117 kB]
 89s Get:82 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-lattice ppc64el 0.22-6-1 [1340 kB]
 89s Get:83 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-nlme ppc64el 3.1.167-1 [2329 kB]
 89s Get:84 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-matrix ppc64el 1.7-2-1 [4536 kB]
 89s Get:85 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-mgcv ppc64el 1.9-1-1 [3393 kB]
 89s Get:86 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-farver ppc64el 2.1.2-1 [1389 kB]
 90s Get:87 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-labeling all 0.4.3-1 [62.1 kB]
 90s Get:88 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-colorspace ppc64el 2.1-1+dfsg-1 [1570 kB]
 90s Get:89 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-munsell all 0.5.1-1 [213 kB]
 90s Get:90 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-r6 all 2.6.1-1 [101 kB]
 90s Get:91 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB]
 90s Get:92 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-viridislite all 0.4.2-2 [1088 kB]
 90s Get:93 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-scales all 1.3.0-1 [603 kB]
 90s Get:94 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-fansi ppc64el 1.0.5-1 [627 kB]
 90s Get:95 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-magrittr ppc64el 2.0.3-1 [154 kB]
 90s Get:96 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-utf8 ppc64el 1.2.4-1 [148 kB]
 90s Get:97 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-vctrs ppc64el 0.6.5-1 [1399 kB]
 90s Get:98 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-pillar all 1.10.1+dfsg-1 [453 kB]
 90s Get:99 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
 90s Get:100 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-tibble ppc64el 3.2.1+dfsg-3 [420 kB]
 90s Get:101 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-withr all 3.0.2+dfsg-1 [214 kB]
 90s Get:102 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-ggplot2 all 3.5.1+dfsg-1 [3940 kB]
 90s Get:103 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-gridextra all 2.3-3build1 [1024 kB]
 90s Get:104 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-pkgkitten all 0.2.4-1 [27.2 kB]
 90s Get:105 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-rcpp ppc64el 1.0.14-1 [2006 kB]
 91s Get:106 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-plyr ppc64el 1.8.9-1 [834 kB]
 91s Get:107 http://ftpmaster.internal/ubuntu plucky/universe ppc64el r-cran-reshape all 0.8.9-1 [168 kB]
 91s Get:108 http://ftpmaster.internal/ubuntu plucky/universe ppc64el tex-common all 6.19 [29.8 kB]
 91s Get:109 http://ftpmaster.internal/ubuntu plucky/main ppc64el t1utils ppc64el 1.41-4build3 [69.7 kB]
 91s Get:110 http://ftpmaster.internal/ubuntu plucky/universe ppc64el texlive-binaries ppc64el 2024.20240313.70630+ds-5build2 [12.4 MB]
 91s Get:111 http://ftpmaster.internal/ubuntu plucky/universe ppc64el texlive-base all 2024.20250114-1 [22.5 MB]
 92s Get:112 http://ftpmaster.internal/ubuntu plucky/universe ppc64el texlive-latex-base all 2024.20250114-1 [1264 kB]
 92s Get:113 http://ftpmaster.internal/ubuntu plucky/universe ppc64el nanook all 1.33+dfsg-6 [195 kB]
 92s Get:114 http://ftpmaster.internal/ubuntu plucky/universe ppc64el nanook-examples all 1.33+dfsg-6 [1814 kB]
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100s Setting up libgraphite2-3:ppc64el (1.3.14-2ubuntu1) ...
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100s Setting up nanook-examples (1.33+dfsg-6) ...
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100s Setting up libxi6:ppc64el (2:1.8.2-1) ...
100s Setting up java-common (0.76) ...
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100s Setting up libdatrie1:ppc64el (0.2.13-3build1) ...
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100s Setting up libdeflate0:ppc64el (1.23-1) ...
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100s Setting up libgomp1:ppc64el (15-20250222-0ubuntu1) ...
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100s Setting up libaec0:ppc64el (1.1.3-1) ...
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100s Setting up tex-common (6.19) ...
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100s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode
100s Setting up libzzip-0-13t64:ppc64el (0.13.78+dfsg.1-0.1) ...
100s Setting up libteckit0:ppc64el (2.5.12+ds1-1) ...
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100s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
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100s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode
100s Setting up openjdk-21-jre-headless:ppc64el (21.0.6+7-1) ...
100s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/bin/java to provide /usr/bin/java (java) in auto mode
100s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode
100s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode
100s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode
100s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode
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103s Setting up libcairo2:ppc64el (1.18.2-2) ...
103s Setting up hdf5-tools (1.14.5+repack-3) ...
103s Setting up libxt6t64:ppc64el (1:1.2.1-1.2build1) ...
103s Setting up libpangoft2-1.0-0:ppc64el (1.56.1-1) ...
103s Setting up libpangocairo-1.0-0:ppc64el (1.56.1-1) ...
103s Setting up libxmu6:ppc64el (2:1.1.3-3build2) ...
103s Setting up libxaw7:ppc64el (2:1.0.16-1) ...
103s Setting up r-base-core (4.4.3-1) ...
103s Creating config file /etc/R/Renviron with new version
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103s Setting up r-cran-lattice (0.22-6-1) ...
103s Setting up r-cran-nlme (3.1.167-1) ...
103s Setting up r-cran-farver (2.1.2-1) ...
103s Setting up r-cran-viridislite (0.4.2-2) ...
103s Setting up texlive-binaries (2024.20240313.70630+ds-5build2) ...
103s update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode
103s update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode
103s Setting up r-cran-r6 (2.6.1-1) ...
103s Setting up r-cran-pkgkitten (0.2.4-1) ...
103s Setting up texlive-base (2024.20250114-1) ...
103s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps
104s tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg
104s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper
104s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex
105s Setting up r-cran-magrittr (2.0.3-1) ...
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105s Setting up r-cran-rcpp (1.0.14-1) ...
105s Setting up r-cran-rlang (1.1.5-1) ...
105s Setting up littler (0.3.20-2) ...
105s Setting up r-cran-withr (3.0.2+dfsg-1) ...
105s Setting up r-cran-fansi (1.0.5-1) ...
105s Setting up r-cran-mass (7.3-64-1) ...
105s Setting up r-cran-glue (1.8.0-1) ...
105s Setting up r-cran-cli (3.6.4-1) ...
105s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
105s Setting up r-cran-pkgconfig (2.0.3-2build1) ...
105s Setting up r-cran-utf8 (1.2.4-1) ...
105s Setting up r-cran-colorspace (2.1-1+dfsg-1) ...
105s Setting up texlive-latex-base (2024.20250114-1) ...
105s Setting up r-cran-plyr (1.8.9-1) ...
105s Setting up r-cran-rcolorbrewer (1.1-3-1build1) ...
105s Setting up r-cran-isoband (0.2.7-1) ...
105s Setting up r-cran-gtable (0.3.6+dfsg-1) ...
105s Setting up r-cran-matrix (1.7-2-1) ...
105s Setting up r-cran-mgcv (1.9-1-1) ...
105s Setting up r-cran-vctrs (0.6.5-1) ...
105s Setting up r-cran-pillar (1.10.1+dfsg-1) ...
105s Setting up r-cran-reshape (0.8.9-1) ...
105s Setting up r-cran-munsell (0.5.1-1) ...
105s Setting up r-cran-tibble (3.2.1+dfsg-3) ...
105s Setting up r-cran-gridextra (2.3-3build1) ...
105s Setting up r-cran-scales (1.3.0-1) ...
105s Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ...
105s Processing triggers for libc-bin (2.41-1ubuntu1) ...
105s Processing triggers for man-db (2.13.0-1) ...
106s Processing triggers for install-info (7.1.1-1) ...
106s Processing triggers for ca-certificates-java (20240118) ...
106s Adding debian:ACCVRAIZ1.pem
106s Adding debian:AC_RAIZ_FNMT-RCM.pem
106s Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem
106s Adding debian:ANF_Secure_Server_Root_CA.pem
106s Adding debian:Actalis_Authentication_Root_CA.pem
106s Adding debian:AffirmTrust_Commercial.pem
106s Adding debian:AffirmTrust_Networking.pem
106s Adding debian:AffirmTrust_Premium.pem
106s Adding debian:AffirmTrust_Premium_ECC.pem
106s Adding debian:Amazon_Root_CA_1.pem
106s Adding debian:Amazon_Root_CA_2.pem
106s Adding debian:Amazon_Root_CA_3.pem
106s Adding debian:Amazon_Root_CA_4.pem
106s Adding debian:Atos_TrustedRoot_2011.pem
106s Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem
106s Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem
106s Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem
106s Adding debian:BJCA_Global_Root_CA1.pem
106s Adding debian:BJCA_Global_Root_CA2.pem
106s Adding debian:Baltimore_CyberTrust_Root.pem
106s Adding debian:Buypass_Class_2_Root_CA.pem
106s Adding debian:Buypass_Class_3_Root_CA.pem
106s Adding debian:CA_Disig_Root_R2.pem
107s Adding debian:CFCA_EV_ROOT.pem
107s Adding debian:COMODO_Certification_Authority.pem
107s Adding debian:COMODO_ECC_Certification_Authority.pem
107s Adding debian:COMODO_RSA_Certification_Authority.pem
107s Adding debian:Certainly_Root_E1.pem
107s Adding debian:Certainly_Root_R1.pem
107s Adding debian:Certigna.pem
107s Adding debian:Certigna_Root_CA.pem
107s Adding debian:Certum_EC-384_CA.pem
107s Adding debian:Certum_Trusted_Network_CA.pem
107s Adding debian:Certum_Trusted_Network_CA_2.pem
107s Adding debian:Certum_Trusted_Root_CA.pem
107s Adding debian:CommScope_Public_Trust_ECC_Root-01.pem
107s Adding debian:CommScope_Public_Trust_ECC_Root-02.pem
107s Adding debian:CommScope_Public_Trust_RSA_Root-01.pem
107s Adding debian:CommScope_Public_Trust_RSA_Root-02.pem
107s Adding debian:Comodo_AAA_Services_root.pem
107s Adding debian:D-TRUST_BR_Root_CA_1_2020.pem
107s Adding debian:D-TRUST_EV_Root_CA_1_2020.pem
107s Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem
107s Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem
107s Adding debian:DigiCert_Assured_ID_Root_CA.pem
107s Adding debian:DigiCert_Assured_ID_Root_G2.pem
107s Adding debian:DigiCert_Assured_ID_Root_G3.pem
107s Adding debian:DigiCert_Global_Root_CA.pem
107s Adding debian:DigiCert_Global_Root_G2.pem
107s Adding debian:DigiCert_Global_Root_G3.pem
107s Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem
107s Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem
107s Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem
107s Adding debian:DigiCert_Trusted_Root_G4.pem
107s Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem
107s Adding debian:Entrust_Root_Certification_Authority.pem
107s Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem
107s Adding debian:Entrust_Root_Certification_Authority_-_G2.pem
107s Adding debian:Entrust_Root_Certification_Authority_-_G4.pem
107s Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem
107s Adding debian:GDCA_TrustAUTH_R5_ROOT.pem
107s Adding debian:GLOBALTRUST_2020.pem
107s Adding debian:GTS_Root_R1.pem
107s Adding debian:GTS_Root_R2.pem
107s Adding debian:GTS_Root_R3.pem
107s Adding debian:GTS_Root_R4.pem
107s Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem
107s Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem
107s Adding debian:GlobalSign_Root_CA.pem
107s Adding debian:GlobalSign_Root_CA_-_R3.pem
107s Adding debian:GlobalSign_Root_CA_-_R6.pem
107s Adding debian:GlobalSign_Root_E46.pem
107s Adding debian:GlobalSign_Root_R46.pem
107s Adding debian:Go_Daddy_Class_2_CA.pem
107s Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem
107s Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem
107s Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem
107s Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem
107s Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem
107s Adding debian:HiPKI_Root_CA_-_G1.pem
107s Adding debian:Hongkong_Post_Root_CA_3.pem
107s Adding debian:ISRG_Root_X1.pem
107s Adding debian:ISRG_Root_X2.pem
107s Adding debian:IdenTrust_Commercial_Root_CA_1.pem
107s Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem
107s Adding debian:Izenpe.com.pem
107s Adding debian:Microsec_e-Szigno_Root_CA_2009.pem
107s Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem
107s Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem
107s Adding debian:NAVER_Global_Root_Certification_Authority.pem
107s Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem
107s Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem
107s Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem
107s Adding debian:QuoVadis_Root_CA_1_G3.pem
107s Adding debian:QuoVadis_Root_CA_2.pem
107s Adding debian:QuoVadis_Root_CA_2_G3.pem
107s Adding debian:QuoVadis_Root_CA_3.pem
107s Adding debian:QuoVadis_Root_CA_3_G3.pem
107s Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem
107s Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem
107s Adding debian:SSL.com_Root_Certification_Authority_ECC.pem
107s Adding debian:SSL.com_Root_Certification_Authority_RSA.pem
107s Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem
107s Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem
107s Adding debian:SZAFIR_ROOT_CA2.pem
107s Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem
107s Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem
107s Adding debian:SecureSign_RootCA11.pem
107s Adding debian:SecureSign_Root_CA12.pem
107s Adding debian:SecureSign_Root_CA14.pem
107s Adding debian:SecureSign_Root_CA15.pem
107s Adding debian:SecureTrust_CA.pem
107s Adding debian:Secure_Global_CA.pem
107s Adding debian:Security_Communication_ECC_RootCA1.pem
107s Adding debian:Security_Communication_RootCA2.pem
107s Adding debian:Security_Communication_RootCA3.pem
107s Adding debian:Starfield_Class_2_CA.pem
107s Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem
107s Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem
107s Adding debian:SwissSign_Gold_CA_-_G2.pem
107s Adding debian:SwissSign_Silver_CA_-_G2.pem
107s Adding debian:T-TeleSec_GlobalRoot_Class_2.pem
107s Adding debian:T-TeleSec_GlobalRoot_Class_3.pem
107s Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem
107s Adding debian:TWCA_CYBER_Root_CA.pem
107s Adding debian:TWCA_Global_Root_CA.pem
107s Adding debian:TWCA_Root_Certification_Authority.pem
107s Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem
107s Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem
107s Adding debian:TeliaSonera_Root_CA_v1.pem
107s Adding debian:Telia_Root_CA_v2.pem
107s Adding debian:TrustAsia_Global_Root_CA_G3.pem
107s Adding debian:TrustAsia_Global_Root_CA_G4.pem
107s Adding debian:Trustwave_Global_Certification_Authority.pem
107s Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem
107s Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem
107s Adding debian:TunTrust_Root_CA.pem
107s Adding debian:UCA_Extended_Validation_Root.pem
107s Adding debian:UCA_Global_G2_Root.pem
107s Adding debian:USERTrust_ECC_Certification_Authority.pem
107s Adding debian:USERTrust_RSA_Certification_Authority.pem
107s Adding debian:XRamp_Global_CA_Root.pem
107s Adding debian:certSIGN_ROOT_CA.pem
107s Adding debian:certSIGN_Root_CA_G2.pem
107s Adding debian:e-Szigno_Root_CA_2017.pem
107s Adding debian:ePKI_Root_Certification_Authority.pem
107s Adding debian:emSign_ECC_Root_CA_-_C3.pem
107s Adding debian:emSign_ECC_Root_CA_-_G3.pem
107s Adding debian:emSign_Root_CA_-_C1.pem
107s Adding debian:emSign_Root_CA_-_G1.pem
107s Adding debian:vTrus_ECC_Root_CA.pem
107s Adding debian:vTrus_Root_CA.pem
107s done.
107s Setting up default-jre-headless (2:1.21-76) ...
107s Setting up nanook (1.33+dfsg-6) ...
107s Processing triggers for tex-common (6.19) ...
107s Running updmap-sys. This may take some time... done.
107s Running mktexlsr /var/lib/texmf ... done.
107s Building format(s) --all.
152s 	This may take some time... done.
153s autopkgtest [11:21:27]: test run-unit-test: [-----------------------
167s 
167s NanoOK v1.33
167s 
167s Comments/bugs to: richard.leggett@earlham.ac.uk
167s Follow NanoOK on twitter: @NanoOK_Software
167s 
167s Scripts dir: /usr/share/nanook/bin
167s 
167s Checking dependencies
167s *** ERROR: Couldn't find Rscript - is R installed? ***
167s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
167s h5dump: Version 1.14.5
167s 
167s Making directory /tmp/autopkgtest.d4VAzz/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/fasta
167s Checking FAST5 directory structure...
167s   Using pass/fail dirs: yes
167s       Using batch dirs: no
167s         Using barcodes: no
167s 
170s 
Processing [                                                  ] 0/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
Processing [==================================================] 1/1
170s 
170s DONE
170s 
170s NanoOK v1.33
170s 
170s Comments/bugs to: richard.leggett@earlham.ac.uk
170s Follow NanoOK on twitter: @NanoOK_Software
170s 
170s Scripts dir: /usr/share/nanook/bin
170s 
170s Checking dependencies
170s *** ERROR: Couldn't find Rscript - is R installed? ***
170s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
170s h5dump: Version 1.14.5
170s 
170s Making directory /tmp/autopkgtest.d4VAzz/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/last
170s Making directory /tmp/autopkgtest.d4VAzz/autopkgtest_tmp/data/nanook_ecoli_500/N79596_dh10b_8kb_11022015/logs/last
170s Checking FASTA/Q directory structure...
170s   Using pass/fail dirs: yes
170s       Using batch dirs: no
170s         Using barcodes: no
170s 
173s 
Processing [                                                  ] 1/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
Processing [==================================================] 3/3
173s 
173s DONE
173s 
173s NanoOK v1.33
173s 
173s Comments/bugs to: richard.leggett@earlham.ac.uk
173s Follow NanoOK on twitter: @NanoOK_Software
173s 
173s Scripts dir: /usr/share/nanook/bin
173s 
173s Checking dependencies
173s *** ERROR: Couldn't find Rscript - is R installed? ***
173s pdfTeX 3.141592653-2.6-1.40.26 (TeX Live 2025/dev/Debian)
173s h5dump: Version 1.14.5
173s 
174s Checking FASTA/Q directory structure...
174s   Using pass/fail dirs: yes
174s       Using batch dirs: no
174s         Using barcodes: no
174s 
174s Using .sizes file ecoli_dh10b_cs.fasta.sizes
174s Note: if you have changed the reference file, you need to delete the .sizes file and re-run.
174s 
174s Reading reference sizes and making directories
174s 	Escherichia_coli	4686137
174s 	Control_sequence	3560
174s 
174s Calculating reference GC
174s 	Escherichia_coli
175s 	Control_sequence
175s 
175s Parsing Template
175s 
[                                                  ] 0/1
[==================================================] 1/1
175s 
175s Error: unable to find any Template alignments to process.
175s Common reasons for this:
175s 1. Failure to index the reference with the alignment tool, resulting in alignment files of 0 bytes
175s 2. Wrong reference specified to the align stage, resulting in no alignments
175s 3. When indexing with LAST, the output prefix needs to be the same as the reference FASTA file, minus the .fasta extension
175s    e.g. lastdb -Q 0 referencename referencename.fasta
175s 
176s autopkgtest [11:21:50]: test run-unit-test: -----------------------]
176s run-unit-test        FAIL non-zero exit status 1
176s autopkgtest [11:21:50]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
176s autopkgtest [11:21:50]: @@@@@@@@@@@@@@@@@@@@ summary
176s run-unit-test        FAIL non-zero exit status 1
181s nova [W] Using flock in prodstack6-ppc64el
181s Creating nova instance adt-plucky-ppc64el-nanook-20250313-111854-juju-7f2275-prod-proposed-migration-environment-20-36c1f27f-f760-45fd-ba5e-a500f89bbf34 from image adt/ubuntu-plucky-ppc64el-server-20250313.img (UUID 039b69e3-5f2d-4af8-9d4f-d440c2e5edc9)...
181s nova [W] Timed out waiting for 3df1bc3d-98fb-4620-8804-918c60eacd20 to get deleted.