0s autopkgtest [17:43:59]: starting date and time: 2026-01-29 17:43:59+0000 0s autopkgtest [17:43:59]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op 0s autopkgtest [17:43:59]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.bgp1aepd/out --timeout-copy=6000 --needs-internet=try -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-cran-rappdirs --apt-upgrade r-bioc-gypsum --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=r-cran-rappdirs/0.3.4-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-amd64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@sto01-6.secgroup --name adt-resolute-i386-r-bioc-gypsum-20260129-174359-juju-7f2275-prod-proposed-migration-environment-2-f4146829-5dab-48e7-aba8-48a8b978d7a5 --image adt/ubuntu-resolute-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-autopkgtest-workers-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 4s Creating nova instance adt-resolute-i386-r-bioc-gypsum-20260129-174359-juju-7f2275-prod-proposed-migration-environment-2-f4146829-5dab-48e7-aba8-48a8b978d7a5 from image adt/ubuntu-resolute-amd64-server-20260129.img (UUID c052dd91-e629-41e8-9bf0-bad94c4bd713)... 83s autopkgtest [17:45:22]: testbed dpkg architecture: amd64 84s autopkgtest [17:45:23]: testbed apt version: 3.1.14 84s autopkgtest [17:45:23]: @@@@@@@@@@@@@@@@@@@@ test bed setup 85s autopkgtest [17:45:24]: testbed release detected to be: None 85s autopkgtest [17:45:24]: updating testbed package index (apt update) 86s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB] 86s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 86s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 86s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 86s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [25.4 kB] 86s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [106 kB] 86s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1073 kB] 86s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/restricted Sources [2820 B] 87s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [115 kB] 87s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [133 kB] 87s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 c-n-f Metadata [4360 B] 87s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 Packages [12.3 kB] 87s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/restricted i386 Packages [3696 B] 87s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 c-n-f Metadata [336 B] 87s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [874 kB] 87s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [357 kB] 87s Get:17 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 c-n-f Metadata [23.0 kB] 87s Get:18 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [23.2 kB] 87s Get:19 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [3336 B] 87s Get:20 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 c-n-f Metadata [1036 B] 88s Fetched 2882 kB in 2s (1790 kB/s) 88s Reading package lists... 89s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease 89s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease 89s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease 89s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease 90s Reading package lists... 90s Reading package lists... 90s Building dependency tree... 90s Reading state information... 90s Calculating upgrade... 90s The following packages will be upgraded: 90s libsgutils2-1.48 sg3-utils sg3-utils-udev 90s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 90s Need to get 1147 kB of archives. 90s After this operation, 0 B of additional disk space will be used. 90s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 libsgutils2-1.48 amd64 1.48-3ubuntu2 [120 kB] 90s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 sg3-utils amd64 1.48-3ubuntu2 [1020 kB] 91s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 sg3-utils-udev all 1.48-3ubuntu2 [6610 B] 91s dpkg-preconfigure: unable to re-open stdin: No such file or directory 91s Fetched 1147 kB in 1s (1569 kB/s) 91s (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 ... 124211 files and directories currently installed.) 91s Preparing to unpack .../libsgutils2-1.48_1.48-3ubuntu2_amd64.deb ... 91s Unpacking libsgutils2-1.48:amd64 (1.48-3ubuntu2) over (1.48-3ubuntu1) ... 91s Preparing to unpack .../sg3-utils_1.48-3ubuntu2_amd64.deb ... 91s Unpacking sg3-utils (1.48-3ubuntu2) over (1.48-3ubuntu1) ... 91s Preparing to unpack .../sg3-utils-udev_1.48-3ubuntu2_all.deb ... 91s Unpacking sg3-utils-udev (1.48-3ubuntu2) over (1.48-3ubuntu1) ... 92s Setting up libsgutils2-1.48:amd64 (1.48-3ubuntu2) ... 92s Setting up sg3-utils (1.48-3ubuntu2) ... 92s Setting up sg3-utils-udev (1.48-3ubuntu2) ... 92s update-initramfs: deferring update (trigger activated) 92s Processing triggers for libc-bin (2.42-2ubuntu4) ... 92s Processing triggers for man-db (2.13.1-1) ... 92s Processing triggers for initramfs-tools (0.150ubuntu7) ... 92s update-initramfs: Generating /boot/initrd.img-6.18.0-9-generic 97s autopkgtest [17:45:36]: upgrading testbed (apt dist-upgrade and autopurge) 97s Reading package lists... 97s Building dependency tree... 97s Reading state information... 97s Calculating upgrade... 97s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 97s Reading package lists... 98s Building dependency tree... 98s Reading state information... 98s Solving dependencies... 98s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 98s autopkgtest [17:45:37]: rebooting testbed after setup commands that affected boot 127s autopkgtest [17:46:06]: testbed running kernel: Linux 6.18.0-9-generic #9-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 12 16:49:02 UTC 2026 130s autopkgtest [17:46:09]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-gypsum 131s Get:1 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-gypsum 1.2.0+ds-2 (dsc) [2128 B] 131s Get:2 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-gypsum 1.2.0+ds-2 (tar) [43.1 kB] 131s Get:3 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-gypsum 1.2.0+ds-2 (diff) [3256 B] 131s gpgv: Signature made Sat Jan 11 16:44:20 2025 UTC 131s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 131s gpgv: issuer "crusoe@debian.org" 131s gpgv: Can't check signature: No public key 131s dpkg-source: warning: cannot verify inline signature for ./r-bioc-gypsum_1.2.0+ds-2.dsc: no acceptable signature found 131s autopkgtest [17:46:10]: testing package r-bioc-gypsum version 1.2.0+ds-2 131s autopkgtest [17:46:10]: build not needed 133s autopkgtest [17:46:12]: test pkg-r-autopkgtest: preparing testbed 133s Reading package lists... 134s Building dependency tree... 134s Reading state information... 134s Solving dependencies... 134s The following NEW packages will be installed: 134s build-essential cpp cpp-15 cpp-15-x86-64-linux-gnu cpp-x86-64-linux-gnu 134s dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 134s fonts-font-awesome fonts-glyphicons-halflings fonts-lmodern fonts-mathjax 134s g++ g++-15 g++-15-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-15 134s gcc-15-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-15 134s gfortran-15-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools 134s javascript-common libasan8 libbibtex-parser-perl libblas-dev libblas3 134s libbz2-dev libcairo2 libcc1-0 libdatrie1 libdeflate-dev libdeflate0 134s libfontconfig1 libgcc-15-dev libgfortran-15-dev libgfortran5 libgomp1 134s libgraphite2-3 libharfbuzz0b libhwasan0 libice6 libicu-dev libio-string-perl 134s libisl23 libitm1 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev 134s libjpeg8 libjpeg8-dev libjs-bootstrap libjs-bootstrap4 libjs-d3 134s libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables 134s libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-lunr 134s libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js 134s libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker 134s libkpathsea6 liblapack-dev liblapack3 liblatex-tounicode-perl liblerc4 134s liblsan0 liblua5.4-0 liblzma-dev libmpc3 libmpfi0 libncurses-dev 134s libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils 134s libpaper2 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 134s libpixman-1-0 libpkgconf3 libpng-dev libpotrace0 libptexenc1 libquadmath0 134s libreadline-dev libsharpyuv0 libsm6 libstdc++-15-dev libsynctex2 libtcl8.6 134s libteckit0 libtexlua53-5 libthai-data libthai0 libtiff6 libtirpc-dev 134s libtk8.6 libtsan2 libubsan1 libwebp7 libxaw7 libxcb-render0 libxcb-shm0 134s libxft2 libxi6 libxmu6 libxpm4 libxrender1 libxss1 libxt6t64 libzstd-dev 134s libzzip-0-13t64 node-bootstrap-sass node-html5shiv node-normalize.css pandoc 134s pandoc-data pkg-r-autopkgtest pkgconf pkgconf-bin r-base-core r-base-dev 134s r-bioc-biocgenerics r-bioc-biocstyle r-bioc-biocversion r-bioc-gypsum 134s r-bioc-s4vectors r-cran-askpass r-cran-base64enc r-cran-biocmanager 134s r-cran-bit r-cran-bit64 r-cran-blob r-cran-bookdown r-cran-brio r-cran-bslib 134s r-cran-cachem r-cran-callr r-cran-cli r-cran-commonmark r-cran-cpp11 134s r-cran-crayon r-cran-curl r-cran-dbi r-cran-desc r-cran-diffobj 134s r-cran-digest r-cran-evaluate r-cran-fastmap r-cran-filelock 134s r-cran-fontawesome r-cran-fs r-cran-glue r-cran-highr r-cran-htmltools 134s r-cran-httpuv r-cran-httr2 r-cran-jquerylib r-cran-jsonlite r-cran-knitr 134s r-cran-later r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-memoise 134s r-cran-mime r-cran-openssl r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten 134s r-cran-pkgload r-cran-plogr r-cran-praise r-cran-processx r-cran-promises 134s r-cran-ps r-cran-r6 r-cran-rappdirs r-cran-rcpp r-cran-rlang 134s r-cran-rmarkdown r-cran-rprojroot r-cran-rsqlite r-cran-sass r-cran-shiny 134s r-cran-sourcetools r-cran-sys r-cran-testthat r-cran-tinytex r-cran-vctrs 134s r-cran-waldo r-cran-withr r-cran-xfun r-cran-xtable r-cran-yaml t1utils 134s tex-common texlive-base texlive-bibtex-extra texlive-binaries 134s texlive-latex-base unzip x11-common xdg-utils zip zlib1g-dev 134s 0 upgraded, 223 newly installed, 0 to remove and 0 not upgraded. 134s Need to get 345 MB of archives. 134s After this operation, 1076 MB of additional disk space will be used. 134s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 libisl23 amd64 0.27-1build1 [691 kB] 134s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 libmpc3 amd64 1.3.1-2 [54.8 kB] 134s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15-x86-64-linux-gnu amd64 15.2.0-11ubuntu1 [12.9 MB] 135s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15 amd64 15.2.0-11ubuntu1 [1030 B] 135s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [5746 B] 135s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp amd64 4:15.2.0-4ubuntu1 [22.4 kB] 135s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 libcc1-0 amd64 15.2.0-11ubuntu1 [47.4 kB] 135s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 15.2.0-11ubuntu1 [151 kB] 135s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 libitm1 amd64 15.2.0-11ubuntu1 [29.5 kB] 135s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 libasan8 amd64 15.2.0-11ubuntu1 [3070 kB] 135s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsan0 amd64 15.2.0-11ubuntu1 [1360 kB] 135s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libtsan2 amd64 15.2.0-11ubuntu1 [2757 kB] 135s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 libubsan1 amd64 15.2.0-11ubuntu1 [1210 kB] 135s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 libhwasan0 amd64 15.2.0-11ubuntu1 [1685 kB] 135s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 libquadmath0 amd64 15.2.0-11ubuntu1 [153 kB] 135s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 libgcc-15-dev amd64 15.2.0-11ubuntu1 [2863 kB] 135s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15-x86-64-linux-gnu amd64 15.2.0-11ubuntu1 [25.4 MB] 137s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15 amd64 15.2.0-11ubuntu1 [528 kB] 137s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1208 B] 137s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc amd64 4:15.2.0-4ubuntu1 [5024 B] 137s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libstdc++-15-dev amd64 15.2.0-11ubuntu1 [2574 kB] 137s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-15-x86-64-linux-gnu amd64 15.2.0-11ubuntu1 [14.4 MB] 138s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-15 amd64 15.2.0-11ubuntu1 [24.6 kB] 138s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [966 B] 138s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 g++ amd64 4:15.2.0-4ubuntu1 [1100 B] 138s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 build-essential amd64 12.12ubuntu2 [5256 B] 138s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 dctrl-tools amd64 2.24-3build4 [104 kB] 138s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-mono all 2.37-8build1 [502 kB] 138s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-core all 2.37-8build1 [834 kB] 138s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig-config amd64 2.17.1-3ubuntu1 [38.5 kB] 138s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontconfig1 amd64 2.17.1-3ubuntu1 [144 kB] 138s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig amd64 2.17.1-3ubuntu1 [180 kB] 138s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1build1 [531 kB] 138s Get:34 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-6 [119 kB] 138s Get:35 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-lmodern all 2.005-1build1 [4788 kB] 139s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-mathjax all 2.7.9+dfsg-1build1 [2283 kB] 139s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 15.2.0-11ubuntu1 [939 kB] 139s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran-15-dev amd64 15.2.0-11ubuntu1 [972 kB] 139s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-15-x86-64-linux-gnu amd64 15.2.0-11ubuntu1 [13.6 MB] 140s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-15 amd64 15.2.0-11ubuntu1 [17.9 kB] 140s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1014 B] 140s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran amd64 4:15.2.0-4ubuntu1 [1172 B] 140s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 icu-devtools amd64 78.2-1ubuntu1 [214 kB] 140s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 javascript-common all 12+nmu1 [4828 B] 140s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 libio-string-perl all 1.08-4 [11.1 kB] 140s Get:46 http://ftpmaster.internal/ubuntu resolute/universe amd64 liblatex-tounicode-perl all 1.93-1 [29.2 kB] 140s Get:47 http://ftpmaster.internal/ubuntu resolute/universe amd64 libbibtex-parser-perl all 1.93+dfsg-1 [17.4 kB] 140s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-7ubuntu1 [260 kB] 140s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas-dev amd64 3.12.1-7ubuntu1 [235 kB] 140s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 libbz2-dev amd64 1.0.8-6build1 [37.0 kB] 140s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 libpixman-1-0 amd64 0.46.4-1 [287 kB] 140s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-render0 amd64 1.17.0-2ubuntu1 [16.2 kB] 140s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-shm0 amd64 1.17.0-2ubuntu1 [5808 B] 140s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 libxrender1 amd64 1:0.9.12-1 [19.8 kB] 140s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 libcairo2 amd64 1.18.4-3 [579 kB] 140s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 libdatrie1 amd64 0.2.14-1 [19.8 kB] 140s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate0 amd64 1.23-2 [49.9 kB] 140s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate-dev amd64 1.23-2 [56.8 kB] 140s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 libgraphite2-3 amd64 1.3.14-11ubuntu1 [73.7 kB] 140s Get:60 http://ftpmaster.internal/ubuntu resolute/main amd64 libharfbuzz0b amd64 12.3.1-1 [519 kB] 140s Get:61 http://ftpmaster.internal/ubuntu resolute/main amd64 x11-common all 1:7.7+24ubuntu1 [22.4 kB] 140s Get:62 http://ftpmaster.internal/ubuntu resolute/main amd64 libice6 amd64 2:1.1.1-1build1 [44.0 kB] 140s Get:63 http://ftpmaster.internal/ubuntu resolute/main amd64 libicu-dev amd64 78.2-1ubuntu1 [12.5 MB] 141s Get:64 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8 amd64 2.1.5-4ubuntu2 [152 kB] 141s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8-dev amd64 2.1.5-4ubuntu2 [296 kB] 141s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 141s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B] 141s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B] 141s Get:69 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap all 3.4.1+dfsg-6 [129 kB] 141s Get:70 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-popper.js all 1.16.1+ds-6build1 [53.8 kB] 141s Get:71 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap4 all 4.6.2+dfsg-1 [532 kB] 142s Get:72 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-d3 all 3.5.17-4build1 [136 kB] 142s Get:73 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB] 142s Get:74 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-highlight.js all 10.7.3+dfsg-2 [144 kB] 142s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1build1 [321 kB] 142s Get:76 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2build1 [145 kB] 142s Get:77 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB] 142s Get:78 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-2 [3946 B] 142s Get:79 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB] 142s Get:80 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1build1 [251 kB] 142s Get:81 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-json all 0~20221030+~1.0.8-1build1 [20.6 kB] 142s Get:82 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-lunr all 2.3.9~dfsg-2 [66.8 kB] 142s Get:83 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-prettify all 2015.12.04+dfsg-2 [41.3 kB] 142s Get:84 http://ftpmaster.internal/ubuntu resolute/universe amd64 libkpathsea6 amd64 2025.20250727.75242+ds-5build1 [66.0 kB] 142s Get:85 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-7ubuntu1 [2739 kB] 142s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack-dev amd64 3.12.1-7ubuntu1 [5433 kB] 143s Get:87 http://ftpmaster.internal/ubuntu resolute/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu2 [207 kB] 143s Get:88 http://ftpmaster.internal/ubuntu resolute/main amd64 liblua5.4-0 amd64 5.4.8-1 [174 kB] 143s Get:89 http://ftpmaster.internal/ubuntu resolute/universe amd64 libmpfi0 amd64 1.5.4+ds-4build1 [36.6 kB] 143s Get:90 http://ftpmaster.internal/ubuntu resolute/main amd64 libncurses-dev amd64 6.6+20251231-1 [389 kB] 143s Get:91 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai-data all 0.1.30-1 [155 kB] 143s Get:92 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai0 amd64 0.1.30-1 [19.2 kB] 143s Get:93 http://ftpmaster.internal/ubuntu resolute/main amd64 libpango-1.0-0 amd64 1.57.0-1 [241 kB] 143s Get:94 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangoft2-1.0-0 amd64 1.57.0-1 [53.3 kB] 143s Get:95 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangocairo-1.0-0 amd64 1.57.0-1 [29.0 kB] 143s Get:96 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper2 amd64 2.2.5-0.3build1 [17.3 kB] 143s Get:97 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper-utils amd64 2.2.5-0.3build1 [15.6 kB] 143s Get:98 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-16-0 amd64 10.46-1 [243 kB] 143s Get:99 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-32-0 amd64 10.46-1 [230 kB] 143s Get:100 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-posix3 amd64 10.46-1 [7354 B] 143s Get:101 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-dev amd64 10.46-1 [832 kB] 143s Get:102 http://ftpmaster.internal/ubuntu resolute/main amd64 libpkgconf3 amd64 1.8.1-4build1 [32.8 kB] 143s Get:103 http://ftpmaster.internal/ubuntu resolute/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu2 [898 kB] 144s Get:104 http://ftpmaster.internal/ubuntu resolute/main amd64 libpng-dev amd64 1.6.54-1 [273 kB] 144s Get:105 http://ftpmaster.internal/ubuntu resolute/universe amd64 libpotrace0 amd64 1.16-2build2 [17.9 kB] 144s Get:106 http://ftpmaster.internal/ubuntu resolute/universe amd64 libptexenc1 amd64 2025.20250727.75242+ds-5build1 [46.4 kB] 144s Get:107 http://ftpmaster.internal/ubuntu resolute/main amd64 libreadline-dev amd64 8.3-3 [189 kB] 144s Get:108 http://ftpmaster.internal/ubuntu resolute/main amd64 libsharpyuv0 amd64 1.5.0-0.1build1 [17.6 kB] 144s Get:109 http://ftpmaster.internal/ubuntu resolute/main amd64 libsm6 amd64 2:1.2.6-1 [16.4 kB] 144s Get:110 http://ftpmaster.internal/ubuntu resolute/universe amd64 libsynctex2 amd64 2025.20250727.75242+ds-5build1 [62.1 kB] 144s Get:111 http://ftpmaster.internal/ubuntu resolute/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1 [1036 kB] 144s Get:112 http://ftpmaster.internal/ubuntu resolute/universe amd64 libteckit0 amd64 2.5.13+ds-1 [431 kB] 144s Get:113 http://ftpmaster.internal/ubuntu resolute/universe amd64 libtexlua53-5 amd64 2025.20250727.75242+ds-5build1 [125 kB] 144s Get:114 http://ftpmaster.internal/ubuntu resolute/main amd64 libjbig0 amd64 2.1-6.1ubuntu3 [30.0 kB] 144s Get:115 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebp7 amd64 1.5.0-0.1build1 [264 kB] 144s Get:116 http://ftpmaster.internal/ubuntu resolute/main amd64 libtiff6 amd64 4.7.0-3ubuntu3 [209 kB] 144s Get:117 http://ftpmaster.internal/ubuntu resolute/main amd64 libxft2 amd64 2.3.6-1build2 [45.1 kB] 144s Get:118 http://ftpmaster.internal/ubuntu resolute/main amd64 libxss1 amd64 1:1.2.3-1build4 [7084 B] 144s Get:119 http://ftpmaster.internal/ubuntu resolute/main amd64 libtk8.6 amd64 8.6.17-1 [823 kB] 144s Get:120 http://ftpmaster.internal/ubuntu resolute/main amd64 libxt6t64 amd64 1:1.2.1-1.3 [173 kB] 144s Get:121 http://ftpmaster.internal/ubuntu resolute/main amd64 libxmu6 amd64 2:1.1.3-4 [48.9 kB] 144s Get:122 http://ftpmaster.internal/ubuntu resolute/main amd64 libxpm4 amd64 1:3.5.17-1build3 [37.3 kB] 144s Get:123 http://ftpmaster.internal/ubuntu resolute/main amd64 libxaw7 amd64 2:1.0.16-1build1 [190 kB] 144s Get:124 http://ftpmaster.internal/ubuntu resolute/main amd64 libxi6 amd64 2:1.8.2-2 [33.1 kB] 144s Get:125 http://ftpmaster.internal/ubuntu resolute/main amd64 libzstd-dev amd64 1.5.7+dfsg-2 [376 kB] 144s Get:126 http://ftpmaster.internal/ubuntu resolute/universe amd64 libzzip-0-13t64 amd64 0.13.78+dfsg.1-0.2 [30.1 kB] 144s Get:127 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB] 144s Get:128 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB] 144s Get:129 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-normalize.css all 8.0.1-5.1 [10.4 kB] 144s Get:130 http://ftpmaster.internal/ubuntu resolute/universe amd64 pandoc-data all 3.1.11.1-3build1 [78.8 kB] 144s Get:131 http://ftpmaster.internal/ubuntu resolute/universe amd64 pandoc amd64 3.1.11.1+ds-4 [27.2 MB] 147s Get:132 http://ftpmaster.internal/ubuntu resolute/main amd64 zip amd64 3.0-15ubuntu2 [178 kB] 147s Get:133 http://ftpmaster.internal/ubuntu resolute/main amd64 unzip amd64 6.0-29ubuntu1 [180 kB] 147s Get:134 http://ftpmaster.internal/ubuntu resolute/main amd64 xdg-utils all 1.2.1-2ubuntu2 [66.1 kB] 147s Get:135 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-core amd64 4.5.2-1ubuntu2 [28.8 MB] 150s Get:136 http://ftpmaster.internal/ubuntu resolute/main amd64 liblzma-dev amd64 5.8.2-2 [179 kB] 150s Get:137 http://ftpmaster.internal/ubuntu resolute/main amd64 pkgconf-bin amd64 1.8.1-4build1 [21.7 kB] 150s Get:138 http://ftpmaster.internal/ubuntu resolute/main amd64 pkgconf amd64 1.8.1-4build1 [16.8 kB] 150s Get:139 http://ftpmaster.internal/ubuntu resolute/main amd64 libtirpc-dev amd64 1.3.6+ds-1 [195 kB] 150s Get:140 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-dev all 4.5.2-1ubuntu2 [1880 B] 150s Get:141 http://ftpmaster.internal/ubuntu resolute/universe amd64 pkg-r-autopkgtest all 20250812 [6158 B] 150s Get:142 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocgenerics all 0.52.0-2 [624 kB] 150s Get:143 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-base64enc amd64 0.1-3-3build1 [28.5 kB] 150s Get:144 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-digest amd64 0.6.39-1 [203 kB] 150s Get:145 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fastmap amd64 1.2.0-1 [73.8 kB] 150s Get:146 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rlang amd64 1.1.5-3 [1721 kB] 150s Get:147 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB] 150s Get:148 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-evaluate all 1.0.3-1 [114 kB] 150s Get:149 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xfun amd64 0.55+dfsg-1 [587 kB] 150s Get:150 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-highr all 0.11+dfsg-1 [38.5 kB] 150s Get:151 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-yaml amd64 2.3.10-1 [109 kB] 150s Get:152 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-mathjax all 2.7.9+dfsg-1build1 [6017 kB] 151s Get:153 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-knitr all 1.51+dfsg-1 [847 kB] 151s Get:154 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cachem amd64 1.1.0-1 [74.1 kB] 151s Get:155 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-5 [13.7 kB] 151s Get:156 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jsonlite amd64 1.9.1+dfsg-1 [447 kB] 151s Get:157 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cli amd64 3.6.4-1 [1394 kB] 152s Get:158 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lifecycle all 1.0.5+dfsg-1 [120 kB] 152s Get:159 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-memoise all 2.0.1-1build1 [54.5 kB] 152s Get:160 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB] 152s Get:161 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fs amd64 1.6.5+dfsg-1 [246 kB] 152s Get:162 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-r6 all 2.6.1-1 [101 kB] 152s Get:163 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 r-cran-rappdirs amd64 0.3.4-1 [50.1 kB] 152s Get:164 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB] 152s Get:165 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bslib all 0.9.0+dfsg-3build1 [4560 kB] 153s Get:166 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fontawesome all 0.5.3-1 [1331 kB] 153s Get:167 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tinytex all 0.58-1 [148 kB] 153s Get:168 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-modernizr all 3.13.0-0.1build1 [100 kB] 153s Get:169 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-littler amd64 0.3.21-2 [84.4 kB] 153s Get:170 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB] 153s Get:171 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcpp amd64 1.1.0-1 [2021 kB] 153s Get:172 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-later amd64 1.4.1+dfsg-1 [154 kB] 153s Get:173 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB] 153s Get:174 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-promises amd64 1.3.2+dfsg-1 [291 kB] 153s Get:175 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB] 153s Get:176 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xtable all 1:1.8-4-2build1 [691 kB] 153s Get:177 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB] 153s Get:178 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-crayon all 1.5.3-1 [165 kB] 153s Get:179 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-withr all 3.0.2+dfsg-1 [214 kB] 153s Get:180 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-commonmark amd64 1.9.5-1 [138 kB] 153s Get:181 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-glue amd64 1.8.0-1 [164 kB] 153s Get:182 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB] 153s Get:183 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-shiny all 1.10.0+dfsg-2 [3124 kB] 154s Get:184 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rmarkdown all 2.29+dfsg-1 [1501 kB] 154s Get:185 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bookdown all 0.42+dfsg-1 [1409 kB] 154s Get:186 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB] 154s Get:187 http://ftpmaster.internal/ubuntu resolute/universe amd64 tex-common all 6.20 [30.0 kB] 154s Get:188 http://ftpmaster.internal/ubuntu resolute/main amd64 t1utils amd64 1.41-4build4 [62.7 kB] 154s Get:189 http://ftpmaster.internal/ubuntu resolute/universe amd64 texlive-binaries amd64 2025.20250727.75242+ds-5build1 [8747 kB] 156s Get:190 http://ftpmaster.internal/ubuntu resolute/universe amd64 texlive-base all 2025.20260124-1 [22.8 MB] 158s Get:191 http://ftpmaster.internal/ubuntu resolute/universe amd64 texlive-latex-base all 2025.20260124-1 [1321 kB] 159s Get:192 http://ftpmaster.internal/ubuntu resolute/universe amd64 texlive-bibtex-extra all 2025.20260124-1 [80.6 MB] 169s Get:193 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocversion all 3.20.0-2 [11.1 kB] 169s Get:194 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocstyle all 2.34.0+dfsg-1 [451 kB] 169s Get:195 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-curl amd64 7.0.0+dfsg-1 [202 kB] 169s Get:196 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sys amd64 3.4.3-1 [45.3 kB] 169s Get:197 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-askpass amd64 1.2.1-1 [24.9 kB] 169s Get:198 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-openssl amd64 2.3.2+dfsg-1 [407 kB] 169s Get:199 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB] 169s Get:200 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-httr2 all 1.1.1-2 [752 kB] 169s Get:201 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-filelock amd64 1.0.3-1 [29.6 kB] 169s Get:202 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-gypsum all 1.2.0+ds-2 [212 kB] 169s Get:203 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-s4vectors amd64 0.44.0+dfsg-2 [2065 kB] 169s Get:204 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bit amd64 4.6.0+dfsg-1 [466 kB] 169s Get:205 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bit64 amd64 4.6.0-1-4 [491 kB] 169s Get:206 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-blob all 1.3.0-1 [54.1 kB] 169s Get:207 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-brio amd64 1.1.5-1 [39.0 kB] 169s Get:208 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ps amd64 1.9.0-1 [408 kB] 169s Get:209 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-processx amd64 3.8.6-1 [365 kB] 169s Get:210 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-callr all 3.7.6-1 [458 kB] 169s Get:211 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cpp11 all 0.5.3-1 [242 kB] 169s Get:212 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dbi all 1.2.3-1build1 [855 kB] 169s Get:213 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-desc all 1.4.3-1 [359 kB] 169s Get:214 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-diffobj amd64 0.3.5-1build1 [1156 kB] 170s Get:215 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgbuild all 1.4.8-1 [219 kB] 170s Get:216 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgconfig all 2.0.3-2build2 [20.4 kB] 170s Get:217 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rprojroot all 2.1.1-1 [131 kB] 170s Get:218 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgload all 1.4.1-1 [252 kB] 170s Get:219 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-plogr all 0.2.0-3build2 [15.8 kB] 170s Get:220 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-praise all 1.0.0-4build2 [20.9 kB] 170s Get:221 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rsqlite amd64 2.3.9-1 [1467 kB] 170s Get:222 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-waldo all 0.6.2-1 [153 kB] 170s Get:223 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-testthat amd64 3.2.3-1 [1651 kB] 171s Preconfiguring packages ... 171s Fetched 345 MB in 36s (9518 kB/s) 171s Selecting previously unselected package libisl23:amd64. 171s (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 ... 124211 files and directories currently installed.) 171s Preparing to unpack .../000-libisl23_0.27-1build1_amd64.deb ... 171s Unpacking libisl23:amd64 (0.27-1build1) ... 171s Selecting previously unselected package libmpc3:amd64. 171s Preparing to unpack .../001-libmpc3_1.3.1-2_amd64.deb ... 171s Unpacking libmpc3:amd64 (1.3.1-2) ... 171s Selecting previously unselected package cpp-15-x86-64-linux-gnu. 171s Preparing to unpack .../002-cpp-15-x86-64-linux-gnu_15.2.0-11ubuntu1_amd64.deb ... 171s Unpacking cpp-15-x86-64-linux-gnu (15.2.0-11ubuntu1) ... 171s Selecting previously unselected package cpp-15. 171s Preparing to unpack .../003-cpp-15_15.2.0-11ubuntu1_amd64.deb ... 171s Unpacking cpp-15 (15.2.0-11ubuntu1) ... 171s Selecting previously unselected package cpp-x86-64-linux-gnu. 171s Preparing to unpack .../004-cpp-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ... 171s Unpacking cpp-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ... 171s Selecting previously unselected package cpp. 171s Preparing to unpack .../005-cpp_4%3a15.2.0-4ubuntu1_amd64.deb ... 171s Unpacking cpp (4:15.2.0-4ubuntu1) ... 171s Selecting previously unselected package libcc1-0:amd64. 171s Preparing to unpack .../006-libcc1-0_15.2.0-11ubuntu1_amd64.deb ... 171s Unpacking libcc1-0:amd64 (15.2.0-11ubuntu1) ... 171s Selecting previously unselected package libgomp1:amd64. 171s Preparing to unpack .../007-libgomp1_15.2.0-11ubuntu1_amd64.deb ... 171s 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previously unselected package libhwasan0:amd64. 171s Preparing to unpack .../013-libhwasan0_15.2.0-11ubuntu1_amd64.deb ... 171s Unpacking libhwasan0:amd64 (15.2.0-11ubuntu1) ... 171s Selecting previously unselected package libquadmath0:amd64. 171s Preparing to unpack .../014-libquadmath0_15.2.0-11ubuntu1_amd64.deb ... 171s Unpacking libquadmath0:amd64 (15.2.0-11ubuntu1) ... 171s Selecting previously unselected package libgcc-15-dev:amd64. 171s Preparing to unpack .../015-libgcc-15-dev_15.2.0-11ubuntu1_amd64.deb ... 171s Unpacking libgcc-15-dev:amd64 (15.2.0-11ubuntu1) ... 171s Selecting previously unselected package gcc-15-x86-64-linux-gnu. 171s Preparing to unpack .../016-gcc-15-x86-64-linux-gnu_15.2.0-11ubuntu1_amd64.deb ... 171s Unpacking gcc-15-x86-64-linux-gnu (15.2.0-11ubuntu1) ... 172s Selecting previously unselected package gcc-15. 172s Preparing to unpack .../017-gcc-15_15.2.0-11ubuntu1_amd64.deb ... 172s Unpacking gcc-15 (15.2.0-11ubuntu1) ... 172s Selecting previously unselected package gcc-x86-64-linux-gnu. 172s Preparing to unpack .../018-gcc-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ... 172s Unpacking gcc-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ... 172s Selecting previously unselected package gcc. 172s Preparing to unpack .../019-gcc_4%3a15.2.0-4ubuntu1_amd64.deb ... 172s Unpacking gcc (4:15.2.0-4ubuntu1) ... 172s Selecting previously unselected package libstdc++-15-dev:amd64. 172s Preparing to unpack .../020-libstdc++-15-dev_15.2.0-11ubuntu1_amd64.deb ... 172s Unpacking libstdc++-15-dev:amd64 (15.2.0-11ubuntu1) ... 172s Selecting previously unselected package g++-15-x86-64-linux-gnu. 172s Preparing to unpack .../021-g++-15-x86-64-linux-gnu_15.2.0-11ubuntu1_amd64.deb ... 172s Unpacking g++-15-x86-64-linux-gnu (15.2.0-11ubuntu1) ... 172s Selecting previously unselected package g++-15. 172s Preparing to unpack .../022-g++-15_15.2.0-11ubuntu1_amd64.deb ... 172s Unpacking g++-15 (15.2.0-11ubuntu1) ... 172s Selecting previously unselected package g++-x86-64-linux-gnu. 172s Preparing to unpack .../023-g++-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ... 172s Unpacking g++-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ... 172s Selecting previously unselected package g++. 172s Preparing to unpack .../024-g++_4%3a15.2.0-4ubuntu1_amd64.deb ... 172s Unpacking g++ (4:15.2.0-4ubuntu1) ... 172s Selecting previously unselected package build-essential. 172s Preparing to unpack .../025-build-essential_12.12ubuntu2_amd64.deb ... 172s Unpacking build-essential (12.12ubuntu2) ... 172s Selecting previously unselected package dctrl-tools. 172s Preparing to unpack .../026-dctrl-tools_2.24-3build4_amd64.deb ... 172s Unpacking dctrl-tools (2.24-3build4) ... 172s Selecting previously unselected package fonts-dejavu-mono. 172s Preparing to unpack .../027-fonts-dejavu-mono_2.37-8build1_all.deb ... 172s Unpacking fonts-dejavu-mono (2.37-8build1) ... 172s Selecting previously unselected package fonts-dejavu-core. 172s Preparing to unpack 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Preparing to unpack .../033-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-6_all.deb ... 172s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-6) ... 172s Selecting previously unselected package fonts-lmodern. 172s Preparing to unpack .../034-fonts-lmodern_2.005-1build1_all.deb ... 172s Unpacking fonts-lmodern (2.005-1build1) ... 172s Selecting previously unselected package fonts-mathjax. 172s Preparing to unpack .../035-fonts-mathjax_2.7.9+dfsg-1build1_all.deb ... 172s Unpacking fonts-mathjax (2.7.9+dfsg-1build1) ... 172s Selecting previously unselected package libgfortran5:amd64. 172s Preparing to unpack .../036-libgfortran5_15.2.0-11ubuntu1_amd64.deb ... 172s Unpacking libgfortran5:amd64 (15.2.0-11ubuntu1) ... 172s Selecting previously unselected package libgfortran-15-dev:amd64. 172s Preparing to unpack .../037-libgfortran-15-dev_15.2.0-11ubuntu1_amd64.deb ... 172s Unpacking libgfortran-15-dev:amd64 (15.2.0-11ubuntu1) ... 173s Selecting previously unselected package gfortran-15-x86-64-linux-gnu. 173s Preparing to unpack .../038-gfortran-15-x86-64-linux-gnu_15.2.0-11ubuntu1_amd64.deb ... 173s Unpacking gfortran-15-x86-64-linux-gnu (15.2.0-11ubuntu1) ... 173s Selecting previously unselected package gfortran-15. 173s Preparing to unpack .../039-gfortran-15_15.2.0-11ubuntu1_amd64.deb ... 173s Unpacking gfortran-15 (15.2.0-11ubuntu1) ... 173s Selecting previously unselected package gfortran-x86-64-linux-gnu. 173s Preparing to unpack .../040-gfortran-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ... 173s Unpacking gfortran-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ... 173s Selecting previously unselected package gfortran. 173s Preparing to unpack .../041-gfortran_4%3a15.2.0-4ubuntu1_amd64.deb ... 173s Unpacking gfortran (4:15.2.0-4ubuntu1) ... 173s Selecting previously unselected package icu-devtools. 173s Preparing to unpack .../042-icu-devtools_78.2-1ubuntu1_amd64.deb ... 173s Unpacking icu-devtools (78.2-1ubuntu1) ... 173s Selecting previously unselected package javascript-common. 173s Preparing to unpack .../043-javascript-common_12+nmu1_all.deb ... 173s Unpacking javascript-common (12+nmu1) ... 173s Selecting previously unselected package libio-string-perl. 173s Preparing to unpack .../044-libio-string-perl_1.08-4_all.deb ... 173s Unpacking libio-string-perl (1.08-4) ... 173s Selecting previously unselected package liblatex-tounicode-perl. 173s Preparing to unpack .../045-liblatex-tounicode-perl_1.93-1_all.deb ... 173s Unpacking liblatex-tounicode-perl (1.93-1) ... 173s Selecting previously unselected package libbibtex-parser-perl. 173s Preparing to unpack .../046-libbibtex-parser-perl_1.93+dfsg-1_all.deb ... 173s Unpacking libbibtex-parser-perl (1.93+dfsg-1) ... 173s Selecting previously unselected package libblas3:amd64. 173s Preparing to unpack .../047-libblas3_3.12.1-7ubuntu1_amd64.deb ... 173s Unpacking libblas3:amd64 (3.12.1-7ubuntu1) ... 173s Selecting previously unselected package libblas-dev:amd64. 173s Preparing to unpack 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.../053-libxrender1_1%3a0.9.12-1_amd64.deb ... 173s Unpacking libxrender1:amd64 (1:0.9.12-1) ... 173s Selecting previously unselected package libcairo2:amd64. 173s Preparing to unpack .../054-libcairo2_1.18.4-3_amd64.deb ... 173s Unpacking libcairo2:amd64 (1.18.4-3) ... 173s Selecting previously unselected package libdatrie1:amd64. 173s Preparing to unpack .../055-libdatrie1_0.2.14-1_amd64.deb ... 173s Unpacking libdatrie1:amd64 (0.2.14-1) ... 173s Selecting previously unselected package libdeflate0:amd64. 173s Preparing to unpack .../056-libdeflate0_1.23-2_amd64.deb ... 173s Unpacking libdeflate0:amd64 (1.23-2) ... 173s Selecting previously unselected package libdeflate-dev:amd64. 173s Preparing to unpack .../057-libdeflate-dev_1.23-2_amd64.deb ... 173s Unpacking libdeflate-dev:amd64 (1.23-2) ... 173s Selecting previously unselected package libgraphite2-3:amd64. 173s Preparing to unpack .../058-libgraphite2-3_1.3.14-11ubuntu1_amd64.deb ... 173s Unpacking libgraphite2-3:amd64 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package libjpeg-turbo8-dev:amd64. 173s Preparing to unpack .../064-libjpeg-turbo8-dev_2.1.5-4ubuntu2_amd64.deb ... 173s Unpacking libjpeg-turbo8-dev:amd64 (2.1.5-4ubuntu2) ... 173s Selecting previously unselected package libjpeg8:amd64. 173s Preparing to unpack .../065-libjpeg8_8c-2ubuntu11_amd64.deb ... 173s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 173s Selecting previously unselected package libjpeg8-dev:amd64. 173s Preparing to unpack .../066-libjpeg8-dev_8c-2ubuntu11_amd64.deb ... 173s Unpacking libjpeg8-dev:amd64 (8c-2ubuntu11) ... 173s Selecting previously unselected package libjpeg-dev:amd64. 173s Preparing to unpack .../067-libjpeg-dev_8c-2ubuntu11_amd64.deb ... 173s Unpacking libjpeg-dev:amd64 (8c-2ubuntu11) ... 173s Selecting previously unselected package libjs-bootstrap. 173s Preparing to unpack .../068-libjs-bootstrap_3.4.1+dfsg-6_all.deb ... 173s Unpacking libjs-bootstrap (3.4.1+dfsg-6) ... 173s Selecting previously unselected package libjs-popper.js. 173s Preparing to unpack .../069-libjs-popper.js_1.16.1+ds-6build1_all.deb ... 173s Unpacking libjs-popper.js (1.16.1+ds-6build1) ... 173s Selecting previously unselected package libjs-bootstrap4. 173s Preparing to unpack .../070-libjs-bootstrap4_4.6.2+dfsg-1_all.deb ... 173s Unpacking libjs-bootstrap4 (4.6.2+dfsg-1) ... 173s Selecting previously unselected package libjs-d3. 173s Preparing to unpack .../071-libjs-d3_3.5.17-4build1_all.deb ... 173s Unpacking libjs-d3 (3.5.17-4build1) ... 173s Selecting previously unselected package libjs-es5-shim. 173s Preparing to unpack .../072-libjs-es5-shim_4.6.7-2_all.deb ... 173s Unpacking libjs-es5-shim (4.6.7-2) ... 173s Selecting previously unselected package libjs-highlight.js. 173s Preparing to unpack .../073-libjs-highlight.js_10.7.3+dfsg-2_all.deb ... 173s Unpacking libjs-highlight.js (10.7.3+dfsg-2) ... 173s Selecting previously unselected package libjs-jquery. 173s Preparing to unpack .../074-libjs-jquery_3.7.1+dfsg+~3.5.33-1build1_all.deb ... 173s 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Selecting previously unselected package libpaper2:amd64. 174s Preparing to unpack .../095-libpaper2_2.2.5-0.3build1_amd64.deb ... 174s Unpacking libpaper2:amd64 (2.2.5-0.3build1) ... 174s Selecting previously unselected package libpaper-utils. 174s Preparing to unpack .../096-libpaper-utils_2.2.5-0.3build1_amd64.deb ... 174s Unpacking libpaper-utils (2.2.5-0.3build1) ... 174s Selecting previously unselected package libpcre2-16-0:amd64. 174s Preparing to unpack .../097-libpcre2-16-0_10.46-1_amd64.deb ... 174s Unpacking libpcre2-16-0:amd64 (10.46-1) ... 174s Selecting previously unselected package libpcre2-32-0:amd64. 174s Preparing to unpack .../098-libpcre2-32-0_10.46-1_amd64.deb ... 174s Unpacking libpcre2-32-0:amd64 (10.46-1) ... 174s Selecting previously unselected package libpcre2-posix3:amd64. 174s Preparing to unpack .../099-libpcre2-posix3_10.46-1_amd64.deb ... 174s Unpacking libpcre2-posix3:amd64 (10.46-1) ... 174s Selecting previously unselected package libpcre2-dev:amd64. 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previously unselected package libxpm4:amd64. 174s Preparing to unpack .../121-libxpm4_1%3a3.5.17-1build3_amd64.deb ... 174s Unpacking libxpm4:amd64 (1:3.5.17-1build3) ... 174s Selecting previously unselected package libxaw7:amd64. 174s Preparing to unpack .../122-libxaw7_2%3a1.0.16-1build1_amd64.deb ... 174s Unpacking libxaw7:amd64 (2:1.0.16-1build1) ... 174s Selecting previously unselected package libxi6:amd64. 174s Preparing to unpack .../123-libxi6_2%3a1.8.2-2_amd64.deb ... 174s Unpacking libxi6:amd64 (2:1.8.2-2) ... 174s Selecting previously unselected package libzstd-dev:amd64. 174s Preparing to unpack .../124-libzstd-dev_1.5.7+dfsg-2_amd64.deb ... 174s Unpacking libzstd-dev:amd64 (1.5.7+dfsg-2) ... 175s Selecting previously unselected package libzzip-0-13t64:amd64. 175s Preparing to unpack .../125-libzzip-0-13t64_0.13.78+dfsg.1-0.2_amd64.deb ... 175s Unpacking libzzip-0-13t64:amd64 (0.13.78+dfsg.1-0.2) ... 175s Selecting previously unselected package node-bootstrap-sass. 175s Preparing to unpack .../126-node-bootstrap-sass_3.4.3-2_all.deb ... 175s Unpacking node-bootstrap-sass (3.4.3-2) ... 175s Selecting previously unselected package node-html5shiv. 175s Preparing to unpack .../127-node-html5shiv_3.7.3+dfsg-5_all.deb ... 175s Unpacking node-html5shiv (3.7.3+dfsg-5) ... 175s Selecting previously unselected package node-normalize.css. 175s Preparing to unpack .../128-node-normalize.css_8.0.1-5.1_all.deb ... 175s Unpacking node-normalize.css (8.0.1-5.1) ... 175s Selecting previously unselected package pandoc-data. 175s Preparing to unpack .../129-pandoc-data_3.1.11.1-3build1_all.deb ... 175s Unpacking pandoc-data (3.1.11.1-3build1) ... 175s Selecting previously unselected package pandoc. 175s Preparing to unpack .../130-pandoc_3.1.11.1+ds-4_amd64.deb ... 175s Unpacking pandoc (3.1.11.1+ds-4) ... 175s Selecting previously unselected package zip. 175s Preparing to unpack .../131-zip_3.0-15ubuntu2_amd64.deb ... 175s Unpacking zip (3.0-15ubuntu2) ... 175s Selecting previously unselected package unzip. 175s Preparing to unpack .../132-unzip_6.0-29ubuntu1_amd64.deb ... 175s Unpacking unzip (6.0-29ubuntu1) ... 175s Selecting previously unselected package xdg-utils. 175s Preparing to unpack .../133-xdg-utils_1.2.1-2ubuntu2_all.deb ... 175s Unpacking xdg-utils (1.2.1-2ubuntu2) ... 175s Selecting previously unselected package r-base-core. 175s Preparing to unpack .../134-r-base-core_4.5.2-1ubuntu2_amd64.deb ... 175s Unpacking r-base-core (4.5.2-1ubuntu2) ... 175s Selecting previously unselected package liblzma-dev:amd64. 175s Preparing to unpack .../135-liblzma-dev_5.8.2-2_amd64.deb ... 175s Unpacking liblzma-dev:amd64 (5.8.2-2) ... 175s Selecting previously unselected package pkgconf-bin. 175s Preparing to unpack .../136-pkgconf-bin_1.8.1-4build1_amd64.deb ... 175s Unpacking pkgconf-bin (1.8.1-4build1) ... 175s Selecting previously unselected package pkgconf:amd64. 175s Preparing to unpack .../137-pkgconf_1.8.1-4build1_amd64.deb ... 175s Unpacking pkgconf:amd64 (1.8.1-4build1) ... 175s Selecting previously unselected package libtirpc-dev:amd64. 175s Preparing to unpack .../138-libtirpc-dev_1.3.6+ds-1_amd64.deb ... 175s Unpacking libtirpc-dev:amd64 (1.3.6+ds-1) ... 175s Selecting previously unselected package r-base-dev. 175s Preparing to unpack .../139-r-base-dev_4.5.2-1ubuntu2_all.deb ... 175s Unpacking r-base-dev (4.5.2-1ubuntu2) ... 175s Selecting previously unselected package pkg-r-autopkgtest. 175s Preparing to unpack .../140-pkg-r-autopkgtest_20250812_all.deb ... 175s Unpacking pkg-r-autopkgtest (20250812) ... 175s Selecting previously unselected package r-bioc-biocgenerics. 175s Preparing to unpack .../141-r-bioc-biocgenerics_0.52.0-2_all.deb ... 175s Unpacking r-bioc-biocgenerics (0.52.0-2) ... 175s Selecting previously unselected package r-cran-base64enc. 175s Preparing to unpack .../142-r-cran-base64enc_0.1-3-3build1_amd64.deb ... 175s Unpacking r-cran-base64enc (0.1-3-3build1) ... 175s Selecting previously unselected package r-cran-digest. 175s Preparing to unpack .../143-r-cran-digest_0.6.39-1_amd64.deb ... 175s Unpacking r-cran-digest (0.6.39-1) ... 175s Selecting previously unselected package r-cran-fastmap. 175s Preparing to unpack .../144-r-cran-fastmap_1.2.0-1_amd64.deb ... 175s Unpacking r-cran-fastmap (1.2.0-1) ... 175s Selecting previously unselected package r-cran-rlang. 175s Preparing to unpack .../145-r-cran-rlang_1.1.5-3_amd64.deb ... 175s Unpacking r-cran-rlang (1.1.5-3) ... 175s Selecting previously unselected package r-cran-htmltools. 175s Preparing to unpack .../146-r-cran-htmltools_0.5.8.1-1_amd64.deb ... 175s Unpacking r-cran-htmltools (0.5.8.1-1) ... 176s Selecting previously unselected package r-cran-evaluate. 176s Preparing to unpack .../147-r-cran-evaluate_1.0.3-1_all.deb ... 176s Unpacking r-cran-evaluate (1.0.3-1) ... 176s Selecting previously unselected package r-cran-xfun. 176s Preparing to unpack .../148-r-cran-xfun_0.55+dfsg-1_amd64.deb ... 176s Unpacking r-cran-xfun (0.55+dfsg-1) ... 176s Selecting previously unselected package r-cran-highr. 176s Preparing to unpack .../149-r-cran-highr_0.11+dfsg-1_all.deb ... 176s Unpacking r-cran-highr (0.11+dfsg-1) ... 176s Selecting previously unselected package r-cran-yaml. 176s Preparing to unpack .../150-r-cran-yaml_2.3.10-1_amd64.deb ... 176s Unpacking r-cran-yaml (2.3.10-1) ... 176s Selecting previously unselected package libjs-mathjax. 176s Preparing to unpack .../151-libjs-mathjax_2.7.9+dfsg-1build1_all.deb ... 176s Unpacking libjs-mathjax (2.7.9+dfsg-1build1) ... 176s Selecting previously unselected package r-cran-knitr. 176s Preparing to unpack .../152-r-cran-knitr_1.51+dfsg-1_all.deb ... 176s Unpacking r-cran-knitr (1.51+dfsg-1) ... 176s Selecting previously unselected package r-cran-cachem. 176s Preparing to unpack .../153-r-cran-cachem_1.1.0-1_amd64.deb ... 176s Unpacking r-cran-cachem (1.1.0-1) ... 176s Selecting previously unselected package r-cran-jquerylib. 176s Preparing to unpack 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Selecting previously unselected package r-cran-fs. 176s Preparing to unpack .../160-r-cran-fs_1.6.5+dfsg-1_amd64.deb ... 176s Unpacking r-cran-fs (1.6.5+dfsg-1) ... 176s Selecting previously unselected package r-cran-r6. 176s Preparing to unpack .../161-r-cran-r6_2.6.1-1_all.deb ... 176s Unpacking r-cran-r6 (2.6.1-1) ... 176s Selecting previously unselected package r-cran-rappdirs. 176s Preparing to unpack .../162-r-cran-rappdirs_0.3.4-1_amd64.deb ... 176s Unpacking r-cran-rappdirs (0.3.4-1) ... 176s Selecting previously unselected package r-cran-sass. 176s Preparing to unpack .../163-r-cran-sass_0.4.9+dfsg-1_amd64.deb ... 176s Unpacking r-cran-sass (0.4.9+dfsg-1) ... 176s Selecting previously unselected package r-cran-bslib. 176s Preparing to unpack .../164-r-cran-bslib_0.9.0+dfsg-3build1_all.deb ... 176s Unpacking r-cran-bslib (0.9.0+dfsg-3build1) ... 176s Selecting previously unselected package r-cran-fontawesome. 176s Preparing to unpack .../165-r-cran-fontawesome_0.5.3-1_all.deb 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176s Preparing to unpack .../171-r-cran-later_1.4.1+dfsg-1_amd64.deb ... 176s Unpacking r-cran-later (1.4.1+dfsg-1) ... 176s Selecting previously unselected package r-cran-magrittr. 176s Preparing to unpack .../172-r-cran-magrittr_2.0.3-1_amd64.deb ... 176s Unpacking r-cran-magrittr (2.0.3-1) ... 176s Selecting previously unselected package r-cran-promises. 176s Preparing to unpack .../173-r-cran-promises_1.3.2+dfsg-1_amd64.deb ... 176s Unpacking r-cran-promises (1.3.2+dfsg-1) ... 176s Selecting previously unselected package r-cran-httpuv. 176s Preparing to unpack .../174-r-cran-httpuv_1.6.15+dfsg-1_amd64.deb ... 176s Unpacking r-cran-httpuv (1.6.15+dfsg-1) ... 176s Selecting previously unselected package r-cran-xtable. 176s Preparing to unpack .../175-r-cran-xtable_1%3a1.8-4-2build1_all.deb ... 176s Unpacking r-cran-xtable (1:1.8-4-2build1) ... 176s Selecting previously unselected package r-cran-sourcetools. 176s Preparing to unpack .../176-r-cran-sourcetools_0.1.7-1-1_amd64.deb ... 176s Unpacking r-cran-sourcetools (0.1.7-1-1) ... 176s Selecting previously unselected package r-cran-crayon. 177s Preparing to unpack .../177-r-cran-crayon_1.5.3-1_all.deb ... 177s Unpacking r-cran-crayon (1.5.3-1) ... 177s Selecting previously unselected package r-cran-withr. 177s Preparing to unpack .../178-r-cran-withr_3.0.2+dfsg-1_all.deb ... 177s Unpacking r-cran-withr (3.0.2+dfsg-1) ... 177s Selecting previously unselected package r-cran-commonmark. 177s Preparing to unpack .../179-r-cran-commonmark_1.9.5-1_amd64.deb ... 177s Unpacking r-cran-commonmark (1.9.5-1) ... 177s Selecting previously unselected package r-cran-glue. 177s Preparing to unpack .../180-r-cran-glue_1.8.0-1_amd64.deb ... 177s Unpacking r-cran-glue (1.8.0-1) ... 177s Selecting previously unselected package libjs-twitter-bootstrap-datepicker. 177s Preparing to unpack .../181-libjs-twitter-bootstrap-datepicker_1.3.1+dfsg1-4.1_all.deb ... 177s Unpacking libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 177s Selecting previously unselected package r-cran-shiny. 177s Preparing to unpack .../182-r-cran-shiny_1.10.0+dfsg-2_all.deb ... 177s Unpacking r-cran-shiny (1.10.0+dfsg-2) ... 177s Selecting previously unselected package r-cran-rmarkdown. 177s Preparing to unpack .../183-r-cran-rmarkdown_2.29+dfsg-1_all.deb ... 177s Unpacking r-cran-rmarkdown (2.29+dfsg-1) ... 177s Selecting previously unselected package r-cran-bookdown. 177s Preparing to unpack .../184-r-cran-bookdown_0.42+dfsg-1_all.deb ... 177s Unpacking r-cran-bookdown (0.42+dfsg-1) ... 177s Selecting previously unselected package r-cran-biocmanager. 177s Preparing to unpack .../185-r-cran-biocmanager_1.30.25+dfsg-1_all.deb ... 177s Unpacking r-cran-biocmanager (1.30.25+dfsg-1) ... 177s Selecting previously unselected package tex-common. 177s Preparing to unpack .../186-tex-common_6.20_all.deb ... 177s Unpacking tex-common (6.20) ... 177s Selecting previously unselected package t1utils. 177s Preparing to unpack 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/usr/share/man/man1/f77.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f77) doesn't exist 184s Setting up r-cran-lifecycle (1.0.5+dfsg-1) ... 184s Setting up r-bioc-biocversion (3.20.0-2) ... 184s Setting up r-cran-rprojroot (2.1.1-1) ... 184s Setting up r-cran-bit64 (4.6.0-1-4) ... 184s Setting up r-cran-biocmanager (1.30.25+dfsg-1) ... 184s Setting up r-cran-askpass (1.2.1-1) ... 184s Setting up r-cran-fastmap (1.2.0-1) ... 184s Setting up r-cran-jsonlite (1.9.1+dfsg-1) ... 184s Setting up r-cran-pkgconfig (2.0.3-2build2) ... 184s Setting up texlive-latex-base (2025.20260124-1) ... 184s Setting up r-cran-cpp11 (0.5.3-1) ... 184s Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ... 184s Setting up r-cran-waldo (0.6.2-1) ... 184s Setting up r-cran-later (1.4.1+dfsg-1) ... 184s Setting up r-cran-htmltools (0.5.8.1-1) ... 184s Setting up r-cran-tinytex (0.58-1) ... 184s Setting up r-cran-knitr (1.51+dfsg-1) ... 184s Setting up r-cran-cachem (1.1.0-1) ... 184s Setting up r-cran-sass (0.4.9+dfsg-1) ... 184s Setting up r-cran-vctrs (0.6.5-1) ... 184s Setting up r-cran-openssl (2.3.2+dfsg-1) ... 184s Setting up r-base-dev (4.5.2-1ubuntu2) ... 184s Setting up r-cran-callr (3.7.6-1) ... 184s Setting up r-cran-desc (1.4.3-1) ... 184s Setting up r-cran-fontawesome (0.5.3-1) ... 184s Setting up r-cran-jquerylib (0.1.4+dfsg-5) ... 184s Setting up texlive-bibtex-extra (2025.20260124-1) ... 184s Setting up r-cran-httr2 (1.1.1-2) ... 184s Setting up r-bioc-gypsum (1.2.0+ds-2) ... 184s Setting up r-cran-memoise (2.0.1-1build1) ... 184s Setting up r-cran-promises (1.3.2+dfsg-1) ... 184s Setting up r-cran-blob (1.3.0-1) ... 184s Setting up pkg-r-autopkgtest (20250812) ... 184s Setting up r-cran-pkgbuild (1.4.8-1) ... 184s Setting up r-cran-rsqlite (2.3.9-1) ... 184s Setting up r-cran-pkgload (1.4.1-1) ... 184s Setting up r-cran-httpuv (1.6.15+dfsg-1) ... 184s Setting up r-cran-testthat (3.2.3-1) ... 184s Setting up r-cran-bslib (0.9.0+dfsg-3build1) ... 184s Setting up r-cran-shiny (1.10.0+dfsg-2) ... 184s Setting up r-cran-rmarkdown (2.29+dfsg-1) ... 184s Setting up r-cran-bookdown (0.42+dfsg-1) ... 184s Setting up r-bioc-biocstyle (2.34.0+dfsg-1) ... 184s Processing triggers for libc-bin (2.42-2ubuntu4) ... 184s Processing triggers for man-db (2.13.1-1) ... 185s Processing triggers for install-info (7.2-5) ... 185s Processing triggers for tex-common (6.20) ... 185s Running updmap-sys. This may take some time... done. 185s Running mktexlsr /var/lib/texmf ... done. 185s Building format(s) --all. 201s This may take some time... done. 202s autopkgtest [17:47:21]: test environment configured for cross building 202s autopkgtest [17:47:21]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest 202s autopkgtest [17:47:21]: test pkg-r-autopkgtest: [----------------------- 202s Test: Try to load the R library gypsum 202s 202s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 202s Copyright (C) 2025 The R Foundation for Statistical Computing 202s Platform: x86_64-pc-linux-gnu 202s 202s R is free software and comes with ABSOLUTELY NO WARRANTY. 202s You are welcome to redistribute it under certain conditions. 202s Type 'license()' or 'licence()' for distribution details. 202s 202s R is a collaborative project with many contributors. 202s Type 'contributors()' for more information and 202s 'citation()' on how to cite R or R packages in publications. 202s 202s Type 'demo()' for some demos, 'help()' for on-line help, or 202s 'help.start()' for an HTML browser interface to help. 202s Type 'q()' to quit R. 202s 203s > library('gypsum') 203s > 203s Test: Run tests for gypsum 203s Start: testthat.R 203s 203s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 203s Copyright (C) 2025 The R Foundation for Statistical Computing 203s Platform: x86_64-pc-linux-gnu 203s 203s R is free software and comes with ABSOLUTELY NO WARRANTY. 203s You are welcome to redistribute it under certain conditions. 203s Type 'license()' or 'licence()' for distribution details. 203s 203s R is a collaborative project with many contributors. 203s Type 'contributors()' for more information and 203s 'citation()' on how to cite R or R packages in publications. 203s 203s Type 'demo()' for some demos, 'help()' for on-line help, or 203s 'help.start()' for an HTML browser interface to help. 203s Type 'q()' to quit R. 203s 203s > library(testthat) 203s > library(gypsum) 203s > test_check("gypsum") 223s [ FAIL 1 | WARN 0 | SKIP 13 | PASS 248 ] 223s 223s ══ Skipped tests (13) ══════════════════════════════════════════════════════════ 223s • is.na(gh_token) is TRUE (13): 'test-accessToken.R:5:5', 'test-latest.R:5:5', 223s 'test-permissions.R:5:5', 'test-probation.R:5:5', 'test-probation.R:28:5', 223s 'test-quota.R:5:5', 'test-quota.R:23:5', 'test-remove.R:5:5', 223s 'test-unlockProject.R:5:5', 'test-upload.R:5:5', 'test-upload.R:55:5', 223s 'test-upload.R:89:5', 'test-upload.R:107:5' 223s 223s ══ Failed tests ════════════════════════════════════════════════════════════════ 223s ── Error ('test-save.R:29:5'): saveFile works via links ──────────────────────── 223s Error in `save_file(tobject, tdestination, overwrite = overwrite, url = url)`: failed to save 'test-R/basic/v1/foo/bar.txt'; HTTP 500 Internal Server Error. 223s • get: Unspecified error (0) 223s Backtrace: 223s ▆ 223s 1. └─gypsum::saveFile("test-R", "basic", "v2", "foo/bar.txt", cache = cache) at test-save.R:29:5 223s 2. └─gypsum:::resolve_single_link(...) 223s 3. └─gypsum:::save_file(...) 223s 223s [ FAIL 1 | WARN 0 | SKIP 13 | PASS 248 ] 224s Error: Test failures 224s Execution halted 224s autopkgtest [17:47:43]: test pkg-r-autopkgtest: -----------------------] 224s pkg-r-autopkgtest FAIL non-zero exit status 1 224s autopkgtest [17:47:43]: test pkg-r-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 224s autopkgtest [17:47:43]: @@@@@@@@@@@@@@@@@@@@ summary 224s pkg-r-autopkgtest FAIL non-zero exit status 1