0s autopkgtest [16:05:32]: starting date and time: 2024-04-08 16:05:32+0000
  0s autopkgtest [16:05:32]: git checkout: 43bc6cdf gitlab-ci: do not include the salsa pipeline
  0s autopkgtest [16:05:32]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.3pvjcfxu/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-cran-igraph --apt-upgrade r-cran-ggm --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=r-cran-igraph/2.0.3-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-96.secgroup --name adt-noble-amd64-r-cran-ggm-20240408-160532-juju-7f2275-prod-proposed-migration-environment-2-52c92eff-8e3b-48a1-98cb-b2abda52a9db --image adt/ubuntu-noble-amd64-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,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/
1116s autopkgtest [16:24:08]: testbed dpkg architecture: amd64
1116s autopkgtest [16:24:08]: testbed apt version: 2.7.14build2
1116s autopkgtest [16:24:08]: @@@@@@@@@@@@@@@@@@@@ test bed setup
1117s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
1117s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [11.3 kB]
1117s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [849 kB]
1117s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [4680 B]
1117s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [94.4 kB]
1117s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main i386 Packages [99.2 kB]
1117s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 Packages [122 kB]
1117s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 c-n-f Metadata [3508 B]
1117s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted i386 Packages [5016 B]
1117s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 Packages [16.3 kB]
1117s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 c-n-f Metadata [116 B]
1117s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 Packages [913 kB]
1117s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe i386 Packages [370 kB]
1117s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 c-n-f Metadata [9396 B]
1117s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 Packages [9220 B]
1117s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/multiverse i386 Packages [1768 B]
1117s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 c-n-f Metadata [196 B]
1119s Fetched 2626 kB in 1s (4972 kB/s)
1119s Reading package lists...
1121s Reading package lists...
1121s Building dependency tree...
1121s Reading state information...
1122s Calculating upgrade...
1122s The following packages will be upgraded:
1122s   grub-common grub-pc grub-pc-bin grub2-common libpython3.12-minimal
1122s   libpython3.12-stdlib libsasl2-2 libsasl2-modules libsasl2-modules-db
1122s   python3-gi python3.12 python3.12-minimal shim-signed
1122s 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1122s Need to get 10.9 MB of archives.
1122s After this operation, 34.8 kB disk space will be freed.
1122s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 python3.12 amd64 3.12.2-5ubuntu3 [644 kB]
1122s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 libpython3.12-stdlib amd64 3.12.2-5ubuntu3 [2067 kB]
1122s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 python3.12-minimal amd64 3.12.2-5ubuntu3 [2337 kB]
1122s Get:4 http://ftpmaster.internal/ubuntu noble/main amd64 libpython3.12-minimal amd64 3.12.2-5ubuntu3 [833 kB]
1122s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 python3-gi amd64 3.48.2-1 [232 kB]
1122s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 grub-pc amd64 2.12-1ubuntu7 [137 kB]
1122s Get:7 http://ftpmaster.internal/ubuntu noble/main amd64 grub2-common amd64 2.12-1ubuntu7 [669 kB]
1122s Get:8 http://ftpmaster.internal/ubuntu noble/main amd64 grub-pc-bin amd64 2.12-1ubuntu7 [1097 kB]
1122s Get:9 http://ftpmaster.internal/ubuntu noble/main amd64 grub-common amd64 2.12-1ubuntu7 [2120 kB]
1122s Get:10 http://ftpmaster.internal/ubuntu noble/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-5ubuntu3 [20.3 kB]
1122s Get:11 http://ftpmaster.internal/ubuntu noble/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-5ubuntu3 [53.2 kB]
1122s Get:12 http://ftpmaster.internal/ubuntu noble/main amd64 libsasl2-modules amd64 2.1.28+dfsg1-5ubuntu3 [69.7 kB]
1122s Get:13 http://ftpmaster.internal/ubuntu noble/main amd64 shim-signed amd64 1.58+15.8-0ubuntu1 [665 kB]
1123s Preconfiguring packages ...
1123s Fetched 10.9 MB in 0s (43.4 MB/s)
1123s (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 ... 105900 files and directories currently installed.)
1123s Preparing to unpack .../00-python3.12_3.12.2-5ubuntu3_amd64.deb ...
1123s Unpacking python3.12 (3.12.2-5ubuntu3) over (3.12.2-4build4) ...
1123s Preparing to unpack .../01-libpython3.12-stdlib_3.12.2-5ubuntu3_amd64.deb ...
1123s Unpacking libpython3.12-stdlib:amd64 (3.12.2-5ubuntu3) over (3.12.2-4build4) ...
1123s Preparing to unpack .../02-python3.12-minimal_3.12.2-5ubuntu3_amd64.deb ...
1123s Unpacking python3.12-minimal (3.12.2-5ubuntu3) over (3.12.2-4build4) ...
1123s Preparing to unpack .../03-libpython3.12-minimal_3.12.2-5ubuntu3_amd64.deb ...
1124s Unpacking libpython3.12-minimal:amd64 (3.12.2-5ubuntu3) over (3.12.2-4build4) ...
1124s Preparing to unpack .../04-python3-gi_3.48.2-1_amd64.deb ...
1124s Unpacking python3-gi (3.48.2-1) over (3.48.1-1build1) ...
1124s Preparing to unpack .../05-grub-pc_2.12-1ubuntu7_amd64.deb ...
1124s Unpacking grub-pc (2.12-1ubuntu7) over (2.12-1ubuntu6) ...
1124s Preparing to unpack .../06-grub2-common_2.12-1ubuntu7_amd64.deb ...
1124s Unpacking grub2-common (2.12-1ubuntu7) over (2.12-1ubuntu6) ...
1124s Preparing to unpack .../07-grub-pc-bin_2.12-1ubuntu7_amd64.deb ...
1124s Unpacking grub-pc-bin (2.12-1ubuntu7) over (2.12-1ubuntu6) ...
1124s Preparing to unpack .../08-grub-common_2.12-1ubuntu7_amd64.deb ...
1124s Unpacking grub-common (2.12-1ubuntu7) over (2.12-1ubuntu6) ...
1124s Preparing to unpack .../09-libsasl2-modules-db_2.1.28+dfsg1-5ubuntu3_amd64.deb ...
1124s Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-5ubuntu3) over (2.1.28+dfsg1-5ubuntu2) ...
1124s Preparing to unpack .../10-libsasl2-2_2.1.28+dfsg1-5ubuntu3_amd64.deb ...
1124s Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-5ubuntu3) over (2.1.28+dfsg1-5ubuntu2) ...
1124s Preparing to unpack .../11-libsasl2-modules_2.1.28+dfsg1-5ubuntu3_amd64.deb ...
1124s Unpacking libsasl2-modules:amd64 (2.1.28+dfsg1-5ubuntu3) over (2.1.28+dfsg1-5ubuntu2) ...
1124s Preparing to unpack .../12-shim-signed_1.58+15.8-0ubuntu1_amd64.deb ...
1124s Unpacking shim-signed (1.58+15.8-0ubuntu1) over (1.57+15.8-0ubuntu1) ...
1125s Setting up libsasl2-modules:amd64 (2.1.28+dfsg1-5ubuntu3) ...
1125s Setting up libpython3.12-minimal:amd64 (3.12.2-5ubuntu3) ...
1125s Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-5ubuntu3) ...
1125s Setting up grub-common (2.12-1ubuntu7) ...
1125s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
1126s Setting up python3-gi (3.48.2-1) ...
1126s Setting up libsasl2-2:amd64 (2.1.28+dfsg1-5ubuntu3) ...
1126s Setting up python3.12-minimal (3.12.2-5ubuntu3) ...
1126s Setting up libpython3.12-stdlib:amd64 (3.12.2-5ubuntu3) ...
1126s Setting up grub2-common (2.12-1ubuntu7) ...
1126s Setting up python3.12 (3.12.2-5ubuntu3) ...
1128s Setting up grub-pc-bin (2.12-1ubuntu7) ...
1128s Setting up shim-signed (1.58+15.8-0ubuntu1) ...
1128s Installing for x86_64-efi platform.
1128s grub-install: warning: EFI variables cannot be set on this system.
1128s grub-install: warning: You will have to complete the GRUB setup manually.
1128s Installation finished. No error reported.
1128s Setting up grub-pc (2.12-1ubuntu7) ...
1128s Installing for i386-pc platform.
1129s Installation finished. No error reported.
1129s Sourcing file `/etc/default/grub'
1129s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
1129s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg'
1129s Generating grub configuration file ...
1129s Found linux image: /boot/vmlinuz-6.8.0-22-generic
1129s Found initrd image: /boot/initrd.img-6.8.0-22-generic
1129s Found linux image: /boot/vmlinuz-6.8.0-11-generic
1129s Found initrd image: /boot/initrd.img-6.8.0-11-generic
1129s Warning: os-prober will not be executed to detect other bootable partitions.
1129s Systems on them will not be added to the GRUB boot configuration.
1129s Check GRUB_DISABLE_OS_PROBER documentation entry.
1129s Adding boot menu entry for UEFI Firmware Settings ...
1129s done
1129s Processing triggers for libc-bin (2.39-0ubuntu8) ...
1129s Processing triggers for systemd (255.4-1ubuntu7) ...
1129s Processing triggers for man-db (2.12.0-4build1) ...
1131s Processing triggers for install-info (7.1-3build2) ...
1131s Reading package lists...
1131s Building dependency tree...
1131s Reading state information...
1132s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1132s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease
1132s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease
1132s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease
1132s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease
1133s Reading package lists...
1133s Reading package lists...
1133s Building dependency tree...
1133s Reading state information...
1134s Calculating upgrade...
1134s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1134s Reading package lists...
1134s Building dependency tree...
1134s Reading state information...
1135s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1135s autopkgtest [16:24:27]: rebooting testbed after setup commands that affected boot
1288s autopkgtest [16:27:00]: testbed running kernel: Linux 6.8.0-22-generic #22-Ubuntu SMP PREEMPT_DYNAMIC Thu Apr  4 22:30:32 UTC 2024
1289s autopkgtest [16:27:01]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-ggm
1290s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-cran-ggm 2.5.1-1 (dsc) [2094 B]
1290s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-cran-ggm 2.5.1-1 (tar) [78.0 kB]
1290s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-cran-ggm 2.5.1-1 (diff) [2332 B]
1290s gpgv: Signature made Mon Jan 29 20:43:29 2024 UTC
1290s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
1290s gpgv:                issuer "tille@debian.org"
1290s gpgv: Can't check signature: No public key
1290s dpkg-source: warning: cannot verify inline signature for ./r-cran-ggm_2.5.1-1.dsc: no acceptable signature found
1290s autopkgtest [16:27:02]: testing package r-cran-ggm version 2.5.1-1
1290s autopkgtest [16:27:02]: build not needed
1291s autopkgtest [16:27:03]: test pkg-r-autopkgtest: preparing testbed
1293s Reading package lists...
1293s Building dependency tree...
1293s Reading state information...
1294s Starting pkgProblemResolver with broken count: 0
1294s Starting 2 pkgProblemResolver with broken count: 0
1294s Done
1294s The following additional packages will be installed:
1294s   build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu
1294s   dctrl-tools fontconfig g++ g++-13 g++-13-x86-64-linux-gnu
1294s   g++-x86-64-linux-gnu gcc gcc-13 gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu
1294s   gfortran gfortran-13 gfortran-13-x86-64-linux-gnu gfortran-x86-64-linux-gnu
1294s   icu-devtools libamd3 libasan8 libatomic1 libblas-dev libblas3 libbz2-dev
1294s   libcairo2 libcc1-0 libcolamd3 libdatrie1 libgcc-13-dev libgfortran-13-dev
1294s   libgfortran5 libglpk40 libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0
1294s   libice6 libicu-dev libisl23 libitm1 libjpeg-dev libjpeg-turbo8-dev
1294s   libjpeg8-dev liblapack-dev liblapack3 liblsan0 libltdl7 liblzma-dev libmpc3
1294s   libncurses-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
1294s   libpaper-utils libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev
1294s   libpcre2-posix3 libpixman-1-0 libpkgconf3 libpng-dev libquadmath0
1294s   libreadline-dev libsm6 libstdc++-13-dev libsuitesparseconfig7 libtcl8.6
1294s   libthai-data libthai0 libtk8.6 libtsan2 libubsan1 libxcb-render0 libxcb-shm0
1294s   libxft2 libxrender1 libxss1 libxt6t64 pkg-config pkg-r-autopkgtest pkgconf
1294s   pkgconf-bin r-base-core r-base-dev r-bioc-biocgenerics r-bioc-graph
1294s   r-cran-biocmanager r-cran-cli r-cran-cpp11 r-cran-ggm r-cran-glue
1294s   r-cran-igraph r-cran-lattice r-cran-lifecycle r-cran-magrittr r-cran-matrix
1294s   r-cran-pkgconfig r-cran-rlang r-cran-vctrs unzip x11-common xdg-utils zip
1294s   zlib1g-dev
1294s Suggested packages:
1294s   cpp-doc gcc-13-locales cpp-13-doc debtags g++-multilib g++-13-multilib
1294s   gcc-13-doc gcc-multilib manpages-dev autoconf automake libtool flex bison
1294s   gdb gcc-doc gcc-13-multilib gdb-x86-64-linux-gnu gfortran-multilib
1294s   gfortran-doc gfortran-13-multilib gfortran-13-doc libcoarrays-dev
1294s   liblapack-doc libiodbc2-dev default-libmysqlclient-dev icu-doc liblzma-doc
1294s   ncurses-doc readline-doc libstdc++-13-doc tcl8.6 tk8.6 elpa-ess r-doc-info
1294s   | r-doc-pdf r-mathlib r-base-html texlive-base texlive-latex-base
1294s   texlive-plain-generic texlive-fonts-recommended texlive-fonts-extra
1294s   texlive-extra-utils texlive-latex-recommended texlive-latex-extra texinfo
1294s   r-bioc-biobase r-bioc-s4vectors r-bioc-iranges r-bioc-genomicranges
1294s   r-bioc-delayedarray r-bioc-biostrings r-bioc-rsamtools r-bioc-annotationdbi
1294s   r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-runit r-cran-sparsem
1294s   r-cran-xml r-bioc-rbgl r-cran-cluster r-bioc-biocstyle r-cran-knitr
1294s   r-cran-covr r-cran-rmarkdown r-cran-testthat
1294s Recommended packages:
1294s   bzip2-doc libpng-tools r-recommended r-doc-html r-bioc-biocversion
1294s   r-cran-remotes r-cran-rmarkdown r-cran-testthat r-cran-withr r-cran-curl
1294s   r-cran-knitr r-cran-callr r-cran-covr r-cran-crayon r-cran-digest
1294s   r-cran-htmltools r-cran-htmlwidgets r-cran-mockery r-cran-processx r-cran-ps
1294s   r-cran-rprojroot r-cran-rstudioapi r-cran-tibble r-cran-whoami r-cran-bench
1294s   r-cran-brio r-cran-decor r-cran-desc r-cran-ggplot2 r-cran-lobstr
1294s   r-cran-progress r-cran-scales r-cran-rcpp r-cran-dbi r-cran-dplyr
1294s   r-cran-rsqlite r-cran-waldo r-cran-ape r-cran-rgl r-cran-vdiffr r-cran-lintr
1294s   r-cran-tidyverse r-cran-fs r-cran-pillar r-cran-usethis r-cran-bit64
1294s   r-cran-generics r-cran-pkgdown r-cran-xml2 r-cran-zeallot
1294s   libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils
1294s   x11-xserver-utils
1294s The following NEW packages will be installed:
1294s   autopkgtest-satdep build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu
1294s   cpp-x86-64-linux-gnu dctrl-tools fontconfig g++ g++-13
1294s   g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-13
1294s   gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-13
1294s   gfortran-13-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools libamd3
1294s   libasan8 libatomic1 libblas-dev libblas3 libbz2-dev libcairo2 libcc1-0
1294s   libcolamd3 libdatrie1 libgcc-13-dev libgfortran-13-dev libgfortran5
1294s   libglpk40 libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0 libice6
1294s   libicu-dev libisl23 libitm1 libjpeg-dev libjpeg-turbo8-dev libjpeg8-dev
1294s   liblapack-dev liblapack3 liblsan0 libltdl7 liblzma-dev libmpc3
1294s   libncurses-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
1294s   libpaper-utils libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev
1294s   libpcre2-posix3 libpixman-1-0 libpkgconf3 libpng-dev libquadmath0
1294s   libreadline-dev libsm6 libstdc++-13-dev libsuitesparseconfig7 libtcl8.6
1294s   libthai-data libthai0 libtk8.6 libtsan2 libubsan1 libxcb-render0 libxcb-shm0
1294s   libxft2 libxrender1 libxss1 libxt6t64 pkg-config pkg-r-autopkgtest pkgconf
1294s   pkgconf-bin r-base-core r-base-dev r-bioc-biocgenerics r-bioc-graph
1294s   r-cran-biocmanager r-cran-cli r-cran-cpp11 r-cran-ggm r-cran-glue
1294s   r-cran-igraph r-cran-lattice r-cran-lifecycle r-cran-magrittr r-cran-matrix
1294s   r-cran-pkgconfig r-cran-rlang r-cran-vctrs unzip x11-common xdg-utils zip
1294s   zlib1g-dev
1294s 0 upgraded, 108 newly installed, 0 to remove and 0 not upgraded.
1294s Need to get 150 MB/150 MB of archives.
1294s After this operation, 458 MB of additional disk space will be used.
1294s Get:1 /tmp/autopkgtest.6leOng/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [716 B]
1294s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 libisl23 amd64 0.26-3 [741 kB]
1294s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 libmpc3 amd64 1.3.1-1 [54.1 kB]
1294s Get:4 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13-x86-64-linux-gnu amd64 13.2.0-23ubuntu3 [11.2 MB]
1295s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13 amd64 13.2.0-23ubuntu3 [1034 B]
1295s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [5326 B]
1295s Get:7 http://ftpmaster.internal/ubuntu noble/main amd64 cpp amd64 4:13.2.0-7ubuntu1 [22.4 kB]
1295s Get:8 http://ftpmaster.internal/ubuntu noble/main amd64 libcc1-0 amd64 14-20240330-1ubuntu2 [47.7 kB]
1295s Get:9 http://ftpmaster.internal/ubuntu noble/main amd64 libgomp1 amd64 14-20240330-1ubuntu2 [147 kB]
1295s Get:10 http://ftpmaster.internal/ubuntu noble/main amd64 libitm1 amd64 14-20240330-1ubuntu2 [29.1 kB]
1295s Get:11 http://ftpmaster.internal/ubuntu noble/main amd64 libatomic1 amd64 14-20240330-1ubuntu2 [10.4 kB]
1295s Get:12 http://ftpmaster.internal/ubuntu noble/main amd64 libasan8 amd64 14-20240330-1ubuntu2 [3020 kB]
1295s Get:13 http://ftpmaster.internal/ubuntu noble/main amd64 liblsan0 amd64 14-20240330-1ubuntu2 [1310 kB]
1295s Get:14 http://ftpmaster.internal/ubuntu noble/main amd64 libtsan2 amd64 14-20240330-1ubuntu2 [2731 kB]
1295s Get:15 http://ftpmaster.internal/ubuntu noble/main amd64 libubsan1 amd64 14-20240330-1ubuntu2 [1172 kB]
1295s Get:16 http://ftpmaster.internal/ubuntu noble/main amd64 libhwasan0 amd64 14-20240330-1ubuntu2 [1629 kB]
1295s Get:17 http://ftpmaster.internal/ubuntu noble/main amd64 libquadmath0 amd64 14-20240330-1ubuntu2 [155 kB]
1295s Get:18 http://ftpmaster.internal/ubuntu noble/main amd64 libgcc-13-dev amd64 13.2.0-23ubuntu3 [2687 kB]
1295s Get:19 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13-x86-64-linux-gnu amd64 13.2.0-23ubuntu3 [21.9 MB]
1295s Get:20 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13 amd64 13.2.0-23ubuntu3 [479 kB]
1295s Get:21 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1212 B]
1295s Get:22 http://ftpmaster.internal/ubuntu noble/main amd64 gcc amd64 4:13.2.0-7ubuntu1 [5018 B]
1295s Get:23 http://ftpmaster.internal/ubuntu noble/main amd64 libstdc++-13-dev amd64 13.2.0-23ubuntu3 [2398 kB]
1295s Get:24 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13-x86-64-linux-gnu amd64 13.2.0-23ubuntu3 [12.5 MB]
1295s Get:25 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13 amd64 13.2.0-23ubuntu3 [14.5 kB]
1295s Get:26 http://ftpmaster.internal/ubuntu noble/main amd64 g++-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [964 B]
1295s Get:27 http://ftpmaster.internal/ubuntu noble/main amd64 g++ amd64 4:13.2.0-7ubuntu1 [1100 B]
1295s Get:28 http://ftpmaster.internal/ubuntu noble/main amd64 build-essential amd64 12.10ubuntu1 [4928 B]
1295s Get:29 http://ftpmaster.internal/ubuntu noble/main amd64 dctrl-tools amd64 2.24-3build2 [66.9 kB]
1295s Get:30 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig amd64 2.15.0-1.1ubuntu2 [180 kB]
1295s Get:31 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran5 amd64 14-20240330-1ubuntu2 [930 kB]
1295s Get:32 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran-13-dev amd64 13.2.0-23ubuntu3 [942 kB]
1295s Get:33 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-13-x86-64-linux-gnu amd64 13.2.0-23ubuntu3 [11.6 MB]
1295s Get:34 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-13 amd64 13.2.0-23ubuntu3 [10.9 kB]
1295s Get:35 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1024 B]
1295s Get:36 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran amd64 4:13.2.0-7ubuntu1 [1176 B]
1295s Get:37 http://ftpmaster.internal/ubuntu noble/main amd64 icu-devtools amd64 74.2-1ubuntu1 [212 kB]
1295s Get:38 http://ftpmaster.internal/ubuntu noble/main amd64 libsuitesparseconfig7 amd64 1:7.6.1+dfsg-1build1 [12.9 kB]
1295s Get:39 http://ftpmaster.internal/ubuntu noble/universe amd64 libamd3 amd64 1:7.6.1+dfsg-1build1 [27.2 kB]
1295s Get:40 http://ftpmaster.internal/ubuntu noble/main amd64 libblas3 amd64 3.12.0-3 [238 kB]
1295s Get:41 http://ftpmaster.internal/ubuntu noble/main amd64 libblas-dev amd64 3.12.0-3 [170 kB]
1295s Get:42 http://ftpmaster.internal/ubuntu noble/main amd64 libbz2-dev amd64 1.0.8-5ubuntu1 [33.6 kB]
1295s Get:43 http://ftpmaster.internal/ubuntu noble/main amd64 libpixman-1-0 amd64 0.42.2-1 [268 kB]
1295s Get:44 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-render0 amd64 1.15-1 [16.3 kB]
1295s Get:45 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-shm0 amd64 1.15-1 [5740 B]
1295s Get:46 http://ftpmaster.internal/ubuntu noble/main amd64 libxrender1 amd64 1:0.9.10-1.1 [20.0 kB]
1295s Get:47 http://ftpmaster.internal/ubuntu noble/main amd64 libcairo2 amd64 1.18.0-3 [566 kB]
1295s Get:48 http://ftpmaster.internal/ubuntu noble/main amd64 libcolamd3 amd64 1:7.6.1+dfsg-1build1 [19.4 kB]
1295s Get:49 http://ftpmaster.internal/ubuntu noble/main amd64 libdatrie1 amd64 0.2.13-3 [20.9 kB]
1295s Get:50 http://ftpmaster.internal/ubuntu noble/main amd64 libltdl7 amd64 2.4.7-7 [40.5 kB]
1295s Get:51 http://ftpmaster.internal/ubuntu noble/universe amd64 libglpk40 amd64 5.0-1build1 [366 kB]
1295s Get:52 http://ftpmaster.internal/ubuntu noble/main amd64 libgraphite2-3 amd64 1.3.14-2 [83.1 kB]
1295s Get:53 http://ftpmaster.internal/ubuntu noble/main amd64 libharfbuzz0b amd64 8.3.0-2build2 [469 kB]
1295s Get:54 http://ftpmaster.internal/ubuntu noble/main amd64 x11-common all 1:7.7+23ubuntu2 [23.4 kB]
1295s Get:55 http://ftpmaster.internal/ubuntu noble/main amd64 libice6 amd64 2:1.0.10-1build2 [42.6 kB]
1295s Get:56 http://ftpmaster.internal/ubuntu noble/main amd64 libicu-dev amd64 74.2-1ubuntu1 [11.9 MB]
1295s Get:57 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-turbo8-dev amd64 2.1.5-2ubuntu1 [294 kB]
1295s Get:58 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B]
1295s Get:59 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B]
1295s Get:60 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack3 amd64 3.12.0-3 [2649 kB]
1295s Get:61 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack-dev amd64 3.12.0-3 [5196 kB]
1295s Get:62 http://ftpmaster.internal/ubuntu noble/main amd64 libncurses-dev amd64 6.4+20240113-1ubuntu1 [384 kB]
1295s Get:63 http://ftpmaster.internal/ubuntu noble/main amd64 libthai-data all 0.1.29-2 [158 kB]
1295s Get:64 http://ftpmaster.internal/ubuntu noble/main amd64 libthai0 amd64 0.1.29-2 [18.8 kB]
1295s Get:65 http://ftpmaster.internal/ubuntu noble/main amd64 libpango-1.0-0 amd64 1.52.1+ds-1build1 [231 kB]
1295s Get:66 http://ftpmaster.internal/ubuntu noble/main amd64 libpangoft2-1.0-0 amd64 1.52.1+ds-1build1 [42.5 kB]
1295s Get:67 http://ftpmaster.internal/ubuntu noble/main amd64 libpangocairo-1.0-0 amd64 1.52.1+ds-1build1 [28.8 kB]
1295s Get:68 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper1 amd64 1.1.29 [13.4 kB]
1295s Get:69 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper-utils amd64 1.1.29 [8658 B]
1295s Get:70 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-16-0 amd64 10.42-4ubuntu1 [211 kB]
1295s Get:71 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-32-0 amd64 10.42-4ubuntu1 [198 kB]
1295s Get:72 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-posix3 amd64 10.42-4ubuntu1 [6808 B]
1295s Get:73 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-dev amd64 10.42-4ubuntu1 [743 kB]
1295s Get:74 http://ftpmaster.internal/ubuntu noble/main amd64 libpkgconf3 amd64 1.8.1-2 [31.1 kB]
1295s Get:75 http://ftpmaster.internal/ubuntu noble/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3.1ubuntu2 [894 kB]
1295s Get:76 http://ftpmaster.internal/ubuntu noble/main amd64 libpng-dev amd64 1.6.43-5build1 [264 kB]
1295s Get:77 http://ftpmaster.internal/ubuntu noble/main amd64 libreadline-dev amd64 8.2-4build1 [167 kB]
1295s Get:78 http://ftpmaster.internal/ubuntu noble/main amd64 libsm6 amd64 2:1.2.3-1build2 [16.7 kB]
1295s Get:79 http://ftpmaster.internal/ubuntu noble/main amd64 libtcl8.6 amd64 8.6.14+dfsg-1build1 [988 kB]
1295s Get:80 http://ftpmaster.internal/ubuntu noble/main amd64 libxft2 amd64 2.3.6-1 [44.5 kB]
1295s Get:81 http://ftpmaster.internal/ubuntu noble/main amd64 libxss1 amd64 1:1.2.3-1build2 [8476 B]
1295s Get:82 http://ftpmaster.internal/ubuntu noble/main amd64 libtk8.6 amd64 8.6.14-1build1 [779 kB]
1295s Get:83 http://ftpmaster.internal/ubuntu noble/main amd64 libxt6t64 amd64 1:1.2.1-1.2build1 [171 kB]
1295s Get:84 http://ftpmaster.internal/ubuntu noble/main amd64 pkgconf-bin amd64 1.8.1-2 [20.7 kB]
1295s Get:85 http://ftpmaster.internal/ubuntu noble/main amd64 pkgconf amd64 1.8.1-2 [16.8 kB]
1295s Get:86 http://ftpmaster.internal/ubuntu noble/main amd64 pkg-config amd64 1.8.1-2 [7170 B]
1295s Get:87 http://ftpmaster.internal/ubuntu noble/main amd64 zip amd64 3.0-13 [176 kB]
1295s Get:88 http://ftpmaster.internal/ubuntu noble/main amd64 unzip amd64 6.0-28ubuntu3 [174 kB]
1295s Get:89 http://ftpmaster.internal/ubuntu noble/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
1295s Get:90 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-core amd64 4.3.3-2build2 [27.1 MB]
1295s Get:91 http://ftpmaster.internal/ubuntu noble/main amd64 liblzma-dev amd64 5.6.1+really5.4.5-1 [176 kB]
1295s Get:92 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-dev all 4.3.3-2build2 [4334 B]
1295s Get:93 http://ftpmaster.internal/ubuntu noble/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
1295s Get:94 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-biocgenerics all 0.48.1-2 [595 kB]
1295s Get:95 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-graph amd64 1.80.0-1 [1289 kB]
1295s Get:96 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-biocmanager all 1.30.22+dfsg-2 [125 kB]
1295s Get:97 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-cli amd64 3.6.2-1 [1380 kB]
1295s Get:98 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-cpp11 all 0.4.7-1 [266 kB]
1295s Get:99 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-glue amd64 1.7.0-1 [154 kB]
1295s Get:100 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rlang amd64 1.1.3-1 [1663 kB]
1295s Get:101 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
1295s Get:102 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB]
1295s Get:103 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-lattice amd64 0.22-5-1 [1342 kB]
1296s Get:104 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-matrix amd64 1.6-5-1 [3830 kB]
1296s Get:105 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
1296s Get:106 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB]
1296s Get:107 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 r-cran-igraph amd64 2.0.3-1 [5098 kB]
1296s Get:108 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-ggm all 2.5.1-1 [440 kB]
1296s Preconfiguring packages ...
1296s Fetched 150 MB in 1s (126 MB/s)
1296s Selecting previously unselected package libisl23:amd64.
1296s (Reading database ... 
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(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 ... 105901 files and directories currently installed.)
1296s Preparing to unpack .../000-libisl23_0.26-3_amd64.deb ...
1296s Unpacking libisl23:amd64 (0.26-3) ...
1296s Selecting previously unselected package libmpc3:amd64.
1296s Preparing to unpack .../001-libmpc3_1.3.1-1_amd64.deb ...
1296s Unpacking libmpc3:amd64 (1.3.1-1) ...
1296s Selecting previously unselected package cpp-13-x86-64-linux-gnu.
1296s Preparing to unpack .../002-cpp-13-x86-64-linux-gnu_13.2.0-23ubuntu3_amd64.deb ...
1296s Unpacking cpp-13-x86-64-linux-gnu (13.2.0-23ubuntu3) ...
1297s Selecting previously unselected package cpp-13.
1297s Preparing to unpack .../003-cpp-13_13.2.0-23ubuntu3_amd64.deb ...
1297s Unpacking cpp-13 (13.2.0-23ubuntu3) ...
1297s Selecting previously unselected package cpp-x86-64-linux-gnu.
1297s Preparing to unpack .../004-cpp-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
1297s Unpacking cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1297s Selecting previously unselected package cpp.
1297s Preparing to unpack .../005-cpp_4%3a13.2.0-7ubuntu1_amd64.deb ...
1297s Unpacking cpp (4:13.2.0-7ubuntu1) ...
1297s Selecting previously unselected package libcc1-0:amd64.
1297s Preparing to unpack .../006-libcc1-0_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libcc1-0:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libgomp1:amd64.
1297s Preparing to unpack .../007-libgomp1_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libgomp1:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libitm1:amd64.
1297s Preparing to unpack .../008-libitm1_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libitm1:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libatomic1:amd64.
1297s Preparing to unpack .../009-libatomic1_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libatomic1:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libasan8:amd64.
1297s Preparing to unpack .../010-libasan8_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libasan8:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package liblsan0:amd64.
1297s Preparing to unpack .../011-liblsan0_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking liblsan0:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libtsan2:amd64.
1297s Preparing to unpack .../012-libtsan2_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libtsan2:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libubsan1:amd64.
1297s Preparing to unpack .../013-libubsan1_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libubsan1:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libhwasan0:amd64.
1297s Preparing to unpack .../014-libhwasan0_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libhwasan0:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libquadmath0:amd64.
1297s Preparing to unpack .../015-libquadmath0_14-20240330-1ubuntu2_amd64.deb ...
1297s Unpacking libquadmath0:amd64 (14-20240330-1ubuntu2) ...
1297s Selecting previously unselected package libgcc-13-dev:amd64.
1297s Preparing to unpack .../016-libgcc-13-dev_13.2.0-23ubuntu3_amd64.deb ...
1297s Unpacking libgcc-13-dev:amd64 (13.2.0-23ubuntu3) ...
1297s Selecting previously unselected package gcc-13-x86-64-linux-gnu.
1297s Preparing to unpack .../017-gcc-13-x86-64-linux-gnu_13.2.0-23ubuntu3_amd64.deb ...
1297s Unpacking gcc-13-x86-64-linux-gnu (13.2.0-23ubuntu3) ...
1298s Selecting previously unselected package gcc-13.
1298s Preparing to unpack .../018-gcc-13_13.2.0-23ubuntu3_amd64.deb ...
1298s Unpacking gcc-13 (13.2.0-23ubuntu3) ...
1298s Selecting previously unselected package gcc-x86-64-linux-gnu.
1298s Preparing to unpack .../019-gcc-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
1298s Unpacking gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1298s Selecting previously unselected package gcc.
1298s Preparing to unpack .../020-gcc_4%3a13.2.0-7ubuntu1_amd64.deb ...
1298s Unpacking gcc (4:13.2.0-7ubuntu1) ...
1298s Selecting previously unselected package libstdc++-13-dev:amd64.
1298s Preparing to unpack .../021-libstdc++-13-dev_13.2.0-23ubuntu3_amd64.deb ...
1298s Unpacking libstdc++-13-dev:amd64 (13.2.0-23ubuntu3) ...
1298s Selecting previously unselected package g++-13-x86-64-linux-gnu.
1298s Preparing to unpack .../022-g++-13-x86-64-linux-gnu_13.2.0-23ubuntu3_amd64.deb ...
1298s Unpacking g++-13-x86-64-linux-gnu (13.2.0-23ubuntu3) ...
1298s Selecting previously unselected package g++-13.
1298s Preparing to unpack .../023-g++-13_13.2.0-23ubuntu3_amd64.deb ...
1298s Unpacking g++-13 (13.2.0-23ubuntu3) ...
1298s Selecting previously unselected package g++-x86-64-linux-gnu.
1298s Preparing to unpack .../024-g++-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
1298s Unpacking g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1298s Selecting previously unselected package g++.
1298s Preparing to unpack .../025-g++_4%3a13.2.0-7ubuntu1_amd64.deb ...
1298s Unpacking g++ (4:13.2.0-7ubuntu1) ...
1298s Selecting previously unselected package build-essential.
1298s Preparing to unpack .../026-build-essential_12.10ubuntu1_amd64.deb ...
1298s Unpacking build-essential (12.10ubuntu1) ...
1298s Selecting previously unselected package dctrl-tools.
1298s Preparing to unpack .../027-dctrl-tools_2.24-3build2_amd64.deb ...
1298s Unpacking dctrl-tools (2.24-3build2) ...
1298s Selecting previously unselected package fontconfig.
1298s Preparing to unpack .../028-fontconfig_2.15.0-1.1ubuntu2_amd64.deb ...
1298s Unpacking fontconfig (2.15.0-1.1ubuntu2) ...
1298s Selecting previously unselected package libgfortran5:amd64.
1298s Preparing to unpack .../029-libgfortran5_14-20240330-1ubuntu2_amd64.deb ...
1298s Unpacking libgfortran5:amd64 (14-20240330-1ubuntu2) ...
1298s Selecting previously unselected package libgfortran-13-dev:amd64.
1298s Preparing to unpack .../030-libgfortran-13-dev_13.2.0-23ubuntu3_amd64.deb ...
1298s Unpacking libgfortran-13-dev:amd64 (13.2.0-23ubuntu3) ...
1298s Selecting previously unselected package gfortran-13-x86-64-linux-gnu.
1298s Preparing to unpack .../031-gfortran-13-x86-64-linux-gnu_13.2.0-23ubuntu3_amd64.deb ...
1298s Unpacking gfortran-13-x86-64-linux-gnu (13.2.0-23ubuntu3) ...
1299s Selecting previously unselected package gfortran-13.
1299s Preparing to unpack .../032-gfortran-13_13.2.0-23ubuntu3_amd64.deb ...
1299s Unpacking gfortran-13 (13.2.0-23ubuntu3) ...
1299s Selecting previously unselected package gfortran-x86-64-linux-gnu.
1299s Preparing to unpack .../033-gfortran-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
1299s Unpacking gfortran-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1299s Selecting previously unselected package gfortran.
1299s Preparing to unpack .../034-gfortran_4%3a13.2.0-7ubuntu1_amd64.deb ...
1299s Unpacking gfortran (4:13.2.0-7ubuntu1) ...
1299s Selecting previously unselected package icu-devtools.
1299s Preparing to unpack .../035-icu-devtools_74.2-1ubuntu1_amd64.deb ...
1299s Unpacking icu-devtools (74.2-1ubuntu1) ...
1299s Selecting previously unselected package libsuitesparseconfig7:amd64.
1299s Preparing to unpack .../036-libsuitesparseconfig7_1%3a7.6.1+dfsg-1build1_amd64.deb ...
1299s Unpacking libsuitesparseconfig7:amd64 (1:7.6.1+dfsg-1build1) ...
1299s Selecting previously unselected package libamd3:amd64.
1299s Preparing to unpack .../037-libamd3_1%3a7.6.1+dfsg-1build1_amd64.deb ...
1299s Unpacking libamd3:amd64 (1:7.6.1+dfsg-1build1) ...
1299s Selecting previously unselected package libblas3:amd64.
1299s Preparing to unpack .../038-libblas3_3.12.0-3_amd64.deb ...
1299s Unpacking libblas3:amd64 (3.12.0-3) ...
1299s Selecting previously unselected package libblas-dev:amd64.
1299s Preparing to unpack .../039-libblas-dev_3.12.0-3_amd64.deb ...
1299s Unpacking libblas-dev:amd64 (3.12.0-3) ...
1299s Selecting previously unselected package libbz2-dev:amd64.
1299s Preparing to unpack .../040-libbz2-dev_1.0.8-5ubuntu1_amd64.deb ...
1299s Unpacking libbz2-dev:amd64 (1.0.8-5ubuntu1) ...
1299s Selecting previously unselected package libpixman-1-0:amd64.
1299s Preparing to unpack .../041-libpixman-1-0_0.42.2-1_amd64.deb ...
1299s Unpacking libpixman-1-0:amd64 (0.42.2-1) ...
1299s Selecting previously unselected package libxcb-render0:amd64.
1299s Preparing to unpack .../042-libxcb-render0_1.15-1_amd64.deb ...
1299s Unpacking libxcb-render0:amd64 (1.15-1) ...
1299s Selecting previously unselected package libxcb-shm0:amd64.
1299s Preparing to unpack .../043-libxcb-shm0_1.15-1_amd64.deb ...
1299s Unpacking libxcb-shm0:amd64 (1.15-1) ...
1299s Selecting previously unselected package libxrender1:amd64.
1299s Preparing to unpack .../044-libxrender1_1%3a0.9.10-1.1_amd64.deb ...
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1299s Preparing to unpack .../045-libcairo2_1.18.0-3_amd64.deb ...
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1299s Selecting previously unselected package libcolamd3:amd64.
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1299s Selecting previously unselected package libdatrie1:amd64.
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1299s Preparing to unpack .../048-libltdl7_2.4.7-7_amd64.deb ...
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1299s Selecting previously unselected package libglpk40:amd64.
1299s Preparing to unpack .../049-libglpk40_5.0-1build1_amd64.deb ...
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1299s Selecting previously unselected package libgraphite2-3:amd64.
1299s Preparing to unpack .../050-libgraphite2-3_1.3.14-2_amd64.deb ...
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1299s Selecting previously unselected package libharfbuzz0b:amd64.
1299s Preparing to unpack .../051-libharfbuzz0b_8.3.0-2build2_amd64.deb ...
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1299s Selecting previously unselected package libice6:amd64.
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1299s Selecting previously unselected package libicu-dev:amd64.
1299s Preparing to unpack .../054-libicu-dev_74.2-1ubuntu1_amd64.deb ...
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1300s Selecting previously unselected package libjpeg-turbo8-dev:amd64.
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1300s Selecting previously unselected package liblapack3:amd64.
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1300s Selecting previously unselected package libpango-1.0-0:amd64.
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1300s Selecting previously unselected package libpangoft2-1.0-0:amd64.
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1300s Selecting previously unselected package libpangocairo-1.0-0:amd64.
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1300s Unpacking libpangocairo-1.0-0:amd64 (1.52.1+ds-1build1) ...
1300s Selecting previously unselected package libpaper1:amd64.
1300s Preparing to unpack .../066-libpaper1_1.1.29_amd64.deb ...
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1300s Selecting previously unselected package libpcre2-16-0:amd64.
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1300s Selecting previously unselected package libpcre2-posix3:amd64.
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1301s Selecting previously unselected package libpkgconf3:amd64.
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1301s Selecting previously unselected package zlib1g-dev:amd64.
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1301s Selecting previously unselected package libpng-dev:amd64.
1301s Preparing to unpack .../074-libpng-dev_1.6.43-5build1_amd64.deb ...
1301s Unpacking libpng-dev:amd64 (1.6.43-5build1) ...
1301s Selecting previously unselected package libreadline-dev:amd64.
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1301s Selecting previously unselected package libsm6:amd64.
1301s Preparing to unpack .../076-libsm6_2%3a1.2.3-1build2_amd64.deb ...
1301s Unpacking libsm6:amd64 (2:1.2.3-1build2) ...
1301s Selecting previously unselected package libtcl8.6:amd64.
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1301s Selecting previously unselected package libxft2:amd64.
1301s Preparing to unpack .../078-libxft2_2.3.6-1_amd64.deb ...
1301s Unpacking libxft2:amd64 (2.3.6-1) ...
1301s Selecting previously unselected package libxss1:amd64.
1301s Preparing to unpack .../079-libxss1_1%3a1.2.3-1build2_amd64.deb ...
1301s Unpacking libxss1:amd64 (1:1.2.3-1build2) ...
1301s Selecting previously unselected package libtk8.6:amd64.
1301s Preparing to unpack .../080-libtk8.6_8.6.14-1build1_amd64.deb ...
1301s Unpacking libtk8.6:amd64 (8.6.14-1build1) ...
1301s Selecting previously unselected package libxt6t64:amd64.
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1301s Unpacking pkgconf:amd64 (1.8.1-2) ...
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1301s Unpacking pkg-config:amd64 (1.8.1-2) ...
1301s Selecting previously unselected package zip.
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1301s Preparing to unpack .../086-unzip_6.0-28ubuntu3_amd64.deb ...
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1301s Selecting previously unselected package xdg-utils.
1301s Preparing to unpack .../087-xdg-utils_1.1.3-4.1ubuntu3_all.deb ...
1301s Unpacking xdg-utils (1.1.3-4.1ubuntu3) ...
1301s Selecting previously unselected package r-base-core.
1301s Preparing to unpack .../088-r-base-core_4.3.3-2build2_amd64.deb ...
1301s Unpacking r-base-core (4.3.3-2build2) ...
1302s Selecting previously unselected package liblzma-dev:amd64.
1302s Preparing to unpack .../089-liblzma-dev_5.6.1+really5.4.5-1_amd64.deb ...
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1302s Preparing to unpack .../090-r-base-dev_4.3.3-2build2_all.deb ...
1302s Unpacking r-base-dev (4.3.3-2build2) ...
1302s Selecting previously unselected package pkg-r-autopkgtest.
1302s Preparing to unpack .../091-pkg-r-autopkgtest_20231212ubuntu1_all.deb ...
1302s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ...
1302s Selecting previously unselected package r-bioc-biocgenerics.
1302s Preparing to unpack .../092-r-bioc-biocgenerics_0.48.1-2_all.deb ...
1302s Unpacking r-bioc-biocgenerics (0.48.1-2) ...
1302s Selecting previously unselected package r-bioc-graph.
1302s Preparing to unpack .../093-r-bioc-graph_1.80.0-1_amd64.deb ...
1302s Unpacking r-bioc-graph (1.80.0-1) ...
1302s Selecting previously unselected package r-cran-biocmanager.
1302s Preparing to unpack .../094-r-cran-biocmanager_1.30.22+dfsg-2_all.deb ...
1302s Unpacking r-cran-biocmanager (1.30.22+dfsg-2) ...
1302s Selecting previously unselected package r-cran-cli.
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1302s Unpacking r-cran-cli (3.6.2-1) ...
1302s Selecting previously unselected package r-cran-cpp11.
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1302s Unpacking r-cran-rlang (1.1.3-1) ...
1302s Selecting previously unselected package r-cran-lifecycle.
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1303s Setting up libgraphite2-3:amd64 (1.3.14-2) ...
1303s Setting up libpixman-1-0:amd64 (0.42.2-1) ...
1303s Setting up libpaper1:amd64 (1.1.29) ...
1303s 
1303s Creating config file /etc/papersize with new version
1303s Setting up fontconfig (2.15.0-1.1ubuntu2) ...
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1305s Setting up libjpeg-turbo8-dev:amd64 (2.1.5-2ubuntu1) ...
1305s Setting up libncurses-dev:amd64 (6.4+20240113-1ubuntu1) ...
1305s Setting up libxrender1:amd64 (1:0.9.10-1.1) ...
1305s Setting up libdatrie1:amd64 (0.2.13-3) ...
1305s Setting up libxcb-render0:amd64 (1.15-1) ...
1305s Setting up unzip (6.0-28ubuntu3) ...
1305s Setting up x11-common (1:7.7+23ubuntu2) ...
1305s Setting up libxcb-shm0:amd64 (1.15-1) ...
1305s Setting up libpaper-utils (1.1.29) ...
1305s Setting up libreadline-dev:amd64 (8.2-4build1) ...
1305s Setting up libgomp1:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up libcairo2:amd64 (1.18.0-3) ...
1305s Setting up libpcre2-16-0:amd64 (10.42-4ubuntu1) ...
1305s Setting up zip (3.0-13) ...
1305s Setting up libpcre2-32-0:amd64 (10.42-4ubuntu1) ...
1305s Setting up libblas3:amd64 (3.12.0-3) ...
1305s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode
1305s Setting up libpkgconf3:amd64 (1.8.1-2) ...
1305s Setting up libquadmath0:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up libmpc3:amd64 (1.3.1-1) ...
1305s Setting up libatomic1:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up libtcl8.6:amd64 (8.6.14+dfsg-1build1) ...
1305s Setting up icu-devtools (74.2-1ubuntu1) ...
1305s Setting up pkgconf-bin (1.8.1-2) ...
1305s Setting up libltdl7:amd64 (2.4.7-7) ...
1305s Setting up libgfortran5:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up liblzma-dev:amd64 (5.6.1+really5.4.5-1) ...
1305s Setting up libubsan1:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up zlib1g-dev:amd64 (1:1.3.dfsg-3.1ubuntu2) ...
1305s Setting up libpcre2-posix3:amd64 (10.42-4ubuntu1) ...
1305s Setting up libhwasan0:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up libasan8:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up libsuitesparseconfig7:amd64 (1:7.6.1+dfsg-1build1) ...
1305s Setting up libharfbuzz0b:amd64 (8.3.0-2build2) ...
1305s Setting up libthai-data (0.1.29-2) ...
1305s Setting up libxss1:amd64 (1:1.2.3-1build2) ...
1305s Setting up libtsan2:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up libjpeg8-dev:amd64 (8c-2ubuntu11) ...
1305s Setting up libisl23:amd64 (0.26-3) ...
1305s Setting up libicu-dev:amd64 (74.2-1ubuntu1) ...
1305s Setting up xdg-utils (1.1.3-4.1ubuntu3) ...
1305s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
1305s Setting up libcc1-0:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up liblsan0:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up libblas-dev:amd64 (3.12.0-3) ...
1305s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode
1305s Setting up dctrl-tools (2.24-3build2) ...
1305s Setting up libitm1:amd64 (14-20240330-1ubuntu2) ...
1305s Setting up libbz2-dev:amd64 (1.0.8-5ubuntu1) ...
1305s Setting up libice6:amd64 (2:1.0.10-1build2) ...
1305s Setting up liblapack3:amd64 (3.12.0-3) ...
1305s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
1305s Setting up libxft2:amd64 (2.3.6-1) ...
1305s Setting up libamd3:amd64 (1:7.6.1+dfsg-1build1) ...
1305s Setting up libpcre2-dev:amd64 (10.42-4ubuntu1) ...
1305s Setting up libcolamd3:amd64 (1:7.6.1+dfsg-1build1) ...
1305s Setting up cpp-13-x86-64-linux-gnu (13.2.0-23ubuntu3) ...
1305s Setting up libtk8.6:amd64 (8.6.14-1build1) ...
1305s Setting up libpng-dev:amd64 (1.6.43-5build1) ...
1305s Setting up libjpeg-dev:amd64 (8c-2ubuntu11) ...
1305s Setting up pkgconf:amd64 (1.8.1-2) ...
1305s Setting up libthai0:amd64 (0.1.29-2) ...
1305s Setting up libglpk40:amd64 (5.0-1build1) ...
1305s Setting up liblapack-dev:amd64 (3.12.0-3) ...
1305s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode
1305s Setting up pkg-config:amd64 (1.8.1-2) ...
1305s Setting up libgcc-13-dev:amd64 (13.2.0-23ubuntu3) ...
1305s Setting up libgfortran-13-dev:amd64 (13.2.0-23ubuntu3) ...
1305s Setting up libsm6:amd64 (2:1.2.3-1build2) ...
1305s Setting up libstdc++-13-dev:amd64 (13.2.0-23ubuntu3) ...
1305s Setting up cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1305s Setting up cpp-13 (13.2.0-23ubuntu3) ...
1305s Setting up gcc-13-x86-64-linux-gnu (13.2.0-23ubuntu3) ...
1305s Setting up libpango-1.0-0:amd64 (1.52.1+ds-1build1) ...
1305s Setting up gfortran-13-x86-64-linux-gnu (13.2.0-23ubuntu3) ...
1305s Setting up libxt6t64:amd64 (1:1.2.1-1.2build1) ...
1305s Setting up gcc-13 (13.2.0-23ubuntu3) ...
1305s Setting up cpp (4:13.2.0-7ubuntu1) ...
1305s Setting up libpangoft2-1.0-0:amd64 (1.52.1+ds-1build1) ...
1305s Setting up libpangocairo-1.0-0:amd64 (1.52.1+ds-1build1) ...
1305s Setting up g++-13-x86-64-linux-gnu (13.2.0-23ubuntu3) ...
1305s Setting up gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1305s Setting up gfortran-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1305s Setting up gcc (4:13.2.0-7ubuntu1) ...
1305s Setting up gfortran-13 (13.2.0-23ubuntu3) ...
1305s Setting up r-base-core (4.3.3-2build2) ...
1306s 
1306s Creating config file /etc/R/Renviron with new version
1306s Setting up r-cran-lattice (0.22-5-1) ...
1306s Setting up g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1306s Setting up r-cran-magrittr (2.0.3-1) ...
1306s Setting up g++-13 (13.2.0-23ubuntu3) ...
1306s Setting up r-bioc-biocgenerics (0.48.1-2) ...
1306s Setting up r-cran-rlang (1.1.3-1) ...
1306s Setting up r-cran-glue (1.7.0-1) ...
1306s Setting up r-cran-cli (3.6.2-1) ...
1306s Setting up gfortran (4:13.2.0-7ubuntu1) ...
1306s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
1306s update-alternatives: warning: skip creation of /usr/share/man/man1/f95.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f95) doesn't exist
1306s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
1306s update-alternatives: warning: skip creation of /usr/share/man/man1/f77.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f77) doesn't exist
1306s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
1306s Setting up r-cran-biocmanager (1.30.22+dfsg-2) ...
1306s Setting up r-cran-pkgconfig (2.0.3-2build1) ...
1306s Setting up r-cran-cpp11 (0.4.7-1) ...
1306s Setting up r-cran-matrix (1.6-5-1) ...
1306s Setting up g++ (4:13.2.0-7ubuntu1) ...
1306s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
1306s Setting up build-essential (12.10ubuntu1) ...
1306s Setting up r-cran-vctrs (0.6.5-1) ...
1306s Setting up r-bioc-graph (1.80.0-1) ...
1306s Setting up r-base-dev (4.3.3-2build2) ...
1306s Setting up r-cran-igraph (2.0.3-1) ...
1306s Setting up r-cran-ggm (2.5.1-1) ...
1306s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
1306s Setting up autopkgtest-satdep (0) ...
1306s Processing triggers for man-db (2.12.0-4build1) ...
1307s Processing triggers for install-info (7.1-3build2) ...
1307s Processing triggers for libc-bin (2.39-0ubuntu8) ...
1311s (Reading database ... 111435 files and directories currently installed.)
1312s Removing autopkgtest-satdep (0) ...
1312s autopkgtest [16:27:24]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
1312s autopkgtest [16:27:24]: test pkg-r-autopkgtest: [-----------------------
1312s Test: Try to load the R library ggm
1312s 
1312s R version 4.3.3 (2024-02-29) -- "Angel Food Cake"
1312s Copyright (C) 2024 The R Foundation for Statistical Computing
1312s Platform: x86_64-pc-linux-gnu (64-bit)
1312s 
1312s R is free software and comes with ABSOLUTELY NO WARRANTY.
1312s You are welcome to redistribute it under certain conditions.
1312s Type 'license()' or 'licence()' for distribution details.
1312s 
1312s R is a collaborative project with many contributors.
1312s Type 'contributors()' for more information and
1312s 'citation()' on how to cite R or R packages in publications.
1312s 
1312s Type 'demo()' for some demos, 'help()' for on-line help, or
1312s 'help.start()' for an HTML browser interface to help.
1312s Type 'q()' to quit R.
1312s 
1312s > library('ggm')
1313s > 
1313s > 
1313s Other tests are currently unsupported!
1313s They will be progressively added.
1313s autopkgtest [16:27:25]: test pkg-r-autopkgtest: -----------------------]
1313s autopkgtest [16:27:25]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
1313s pkg-r-autopkgtest    PASS
1313s autopkgtest [16:27:25]: @@@@@@@@@@@@@@@@@@@@ summary
1313s pkg-r-autopkgtest    PASS
1323s Creating nova instance adt-noble-amd64-r-cran-ggm-20240408-160532-juju-7f2275-prod-proposed-migration-environment-2-52c92eff-8e3b-48a1-98cb-b2abda52a9db from image adt/ubuntu-noble-amd64-server-20240408.img (UUID 30d44b2b-45a1-4839-a24b-65f68dcab139)...