0s autopkgtest [22:16:07]: starting date and time: 2025-05-03 22:16:07+0000 0s autopkgtest [22:16:07]: git checkout: 9986aa8c Merge branch 'skia/fix_network_interface' into 'ubuntu/production' 0s autopkgtest [22:16:07]: host juju-7f2275-prod-proposed-migration-environment-23; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.paxg35ge/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-base,src:r-bioc-bioccheck,src:r-bioc-graph,src:r-bioc-iranges,src:r-bioc-pwalign,src:r-cran-rlang,src:r-cran-seurat,src:r-cran-sf --apt-upgrade r-bioc-rtracklayer --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=r-base/4.5.0-3 r-bioc-bioccheck/1.42.1+dfsg-2 r-bioc-graph/1.84.1-2 r-bioc-iranges/2.40.1-3 r-bioc-pwalign/1.2.0-3 r-cran-rlang/1.1.5-3 r-cran-seurat/5.2.1-5 r-cran-sf/1.0-19+dfsg-2' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-23@bos03-11.secgroup --name adt-questing-amd64-r-bioc-rtracklayer-20250503-221607-juju-7f2275-prod-proposed-migration-environment-23-98c73cd3-760b-464f-950e-3465a9c4ef9a --image adt/ubuntu-questing-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-23 --net-id=net_prod-proposed-migration-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/ 352s autopkgtest [22:21:59]: testbed dpkg architecture: amd64 353s autopkgtest [22:22:00]: testbed apt version: 3.0.0 353s autopkgtest [22:22:00]: @@@@@@@@@@@@@@@@@@@@ test bed setup 353s autopkgtest [22:22:00]: testbed release detected to be: None 354s autopkgtest [22:22:01]: updating testbed package index (apt update) 354s Get:1 http://ftpmaster.internal/ubuntu questing-proposed InRelease [110 kB] 354s Hit:2 http://ftpmaster.internal/ubuntu questing InRelease 355s Hit:3 http://ftpmaster.internal/ubuntu questing-updates InRelease 355s Hit:4 http://ftpmaster.internal/ubuntu questing-security InRelease 355s Get:5 http://ftpmaster.internal/ubuntu questing-proposed/main Sources [147 kB] 355s Get:6 http://ftpmaster.internal/ubuntu questing-proposed/universe Sources [1412 kB] 355s Get:7 http://ftpmaster.internal/ubuntu questing-proposed/multiverse Sources [33.6 kB] 355s Get:8 http://ftpmaster.internal/ubuntu questing-proposed/main i386 Packages [145 kB] 355s Get:9 http://ftpmaster.internal/ubuntu questing-proposed/main amd64 Packages [201 kB] 355s Get:10 http://ftpmaster.internal/ubuntu questing-proposed/universe i386 Packages [573 kB] 355s Get:11 http://ftpmaster.internal/ubuntu questing-proposed/universe amd64 Packages [1422 kB] 355s Get:12 http://ftpmaster.internal/ubuntu questing-proposed/multiverse amd64 Packages [51.1 kB] 355s Get:13 http://ftpmaster.internal/ubuntu questing-proposed/multiverse i386 Packages [24.0 kB] 355s Fetched 4118 kB in 1s (3721 kB/s) 356s Reading package lists... 357s autopkgtest [22:22:04]: upgrading testbed (apt dist-upgrade and autopurge) 357s Reading package lists... 357s Building dependency tree... 357s Reading state information... 357s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 357s Starting 2 pkgProblemResolver with broken count: 0 357s Done 358s Entering ResolveByKeep 358s 358s Calculating upgrade... 358s The following packages will be upgraded: 358s cloud-init cloud-init-base debianutils libmbim-glib4 libmbim-proxy 358s libnftnl11 libqmi-glib5 libqmi-proxy libsepol2 python3-lazr.restfulclient 358s sos 359s 11 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 359s Need to get 2693 kB of archives. 359s After this operation, 104 kB disk space will be freed. 359s Get:1 http://ftpmaster.internal/ubuntu questing/main amd64 debianutils amd64 5.22 [93.0 kB] 359s Get:2 http://ftpmaster.internal/ubuntu questing/main amd64 libsepol2 amd64 3.8.1-1 [327 kB] 359s Get:3 http://ftpmaster.internal/ubuntu questing/main amd64 libnftnl11 amd64 1.2.9-1 [69.1 kB] 359s Get:4 http://ftpmaster.internal/ubuntu questing/main amd64 cloud-init-base all 25.2~1g7a0265d3-0ubuntu1 [619 kB] 359s Get:5 http://ftpmaster.internal/ubuntu questing/main amd64 libmbim-proxy amd64 1.32.0-1 [6276 B] 359s Get:6 http://ftpmaster.internal/ubuntu questing/main amd64 libmbim-glib4 amd64 1.32.0-1 [233 kB] 359s Get:7 http://ftpmaster.internal/ubuntu questing/main amd64 libqmi-proxy amd64 1.36.0-1 [6220 B] 359s Get:8 http://ftpmaster.internal/ubuntu questing/main amd64 libqmi-glib5 amd64 1.36.0-1 [920 kB] 359s Get:9 http://ftpmaster.internal/ubuntu questing/main amd64 python3-lazr.restfulclient all 0.14.6-3 [51.0 kB] 359s Get:10 http://ftpmaster.internal/ubuntu questing/main amd64 sos all 4.9.1-1 [367 kB] 359s Get:11 http://ftpmaster.internal/ubuntu questing/main amd64 cloud-init all 25.2~1g7a0265d3-0ubuntu1 [2106 B] 359s Preconfiguring packages ... 359s Fetched 2693 kB in 1s (4363 kB/s) 360s (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 ... 80514 files and directories currently installed.) 360s Preparing to unpack .../debianutils_5.22_amd64.deb ... 360s Unpacking debianutils (5.22) over (5.21) ... 360s Setting up debianutils (5.22) ... 360s (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 ... 80514 files and directories currently installed.) 360s Preparing to unpack .../libsepol2_3.8.1-1_amd64.deb ... 360s Unpacking libsepol2:amd64 (3.8.1-1) over (3.7-1) ... 360s Setting up libsepol2:amd64 (3.8.1-1) ... 360s (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 ... 80514 files and directories currently installed.) 360s Preparing to unpack .../0-libnftnl11_1.2.9-1_amd64.deb ... 360s Unpacking libnftnl11:amd64 (1.2.9-1) over (1.2.8-1) ... 360s Preparing to unpack .../1-cloud-init-base_25.2~1g7a0265d3-0ubuntu1_all.deb ... 360s Unpacking cloud-init-base (25.2~1g7a0265d3-0ubuntu1) over (25.1.1-0ubuntu2) ... 360s Preparing to unpack .../2-libmbim-proxy_1.32.0-1_amd64.deb ... 360s Unpacking libmbim-proxy (1.32.0-1) over (1.31.2-0ubuntu4) ... 360s Preparing to unpack .../3-libmbim-glib4_1.32.0-1_amd64.deb ... 360s Unpacking libmbim-glib4:amd64 (1.32.0-1) over (1.31.2-0ubuntu4) ... 360s Preparing to unpack .../4-libqmi-proxy_1.36.0-1_amd64.deb ... 360s Unpacking libqmi-proxy (1.36.0-1) over (1.35.6-1) ... 360s Preparing to unpack .../5-libqmi-glib5_1.36.0-1_amd64.deb ... 360s Unpacking libqmi-glib5:amd64 (1.36.0-1) over (1.35.6-1) ... 360s Preparing to unpack .../6-python3-lazr.restfulclient_0.14.6-3_all.deb ... 360s Unpacking python3-lazr.restfulclient (0.14.6-3) over (0.14.6-2) ... 361s Preparing to unpack .../7-sos_4.9.1-1_all.deb ... 361s Unpacking sos (4.9.1-1) over (4.9.0-6) ... 361s Preparing to unpack .../8-cloud-init_25.2~1g7a0265d3-0ubuntu1_all.deb ... 361s Unpacking cloud-init (25.2~1g7a0265d3-0ubuntu1) over (25.1.1-0ubuntu2) ... 361s Setting up sos (4.9.1-1) ... 361s Setting up libnftnl11:amd64 (1.2.9-1) ... 361s Setting up cloud-init-base (25.2~1g7a0265d3-0ubuntu1) ... 363s Setting up python3-lazr.restfulclient (0.14.6-3) ... 363s Setting up libmbim-glib4:amd64 (1.32.0-1) ... 363s Setting up cloud-init (25.2~1g7a0265d3-0ubuntu1) ... 363s Setting up libmbim-proxy (1.32.0-1) ... 363s Setting up libqmi-glib5:amd64 (1.36.0-1) ... 363s Setting up libqmi-proxy (1.36.0-1) ... 363s Processing triggers for libc-bin (2.41-6ubuntu1) ... 363s Processing triggers for rsyslog (8.2412.0-2ubuntu2) ... 363s Processing triggers for man-db (2.13.0-1) ... 365s Reading package lists... 365s Building dependency tree... 365s Reading state information... 366s Starting pkgProblemResolver with broken count: 0 366s Starting 2 pkgProblemResolver with broken count: 0 366s Done 366s Solving dependencies... 366s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 366s autopkgtest [22:22:13]: rebooting testbed after setup commands that affected boot 389s autopkgtest [22:22:36]: testbed running kernel: Linux 6.14.0-15-generic #15-Ubuntu SMP PREEMPT_DYNAMIC Sun Apr 6 15:05:05 UTC 2025 392s autopkgtest [22:22:39]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-rtracklayer 394s Get:1 http://ftpmaster.internal/ubuntu questing/universe r-bioc-rtracklayer 1.66.0-2 (dsc) [2459 B] 394s Get:2 http://ftpmaster.internal/ubuntu questing/universe r-bioc-rtracklayer 1.66.0-2 (tar) [4113 kB] 394s Get:3 http://ftpmaster.internal/ubuntu questing/universe r-bioc-rtracklayer 1.66.0-2 (diff) [27.5 kB] 394s gpgv: Signature made Mon Jan 13 14:23:45 2025 UTC 394s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 394s gpgv: issuer "crusoe@debian.org" 394s gpgv: Can't check signature: No public key 394s dpkg-source: warning: cannot verify inline signature for ./r-bioc-rtracklayer_1.66.0-2.dsc: no acceptable signature found 394s autopkgtest [22:22:41]: testing package r-bioc-rtracklayer version 1.66.0-2 395s autopkgtest [22:22:42]: build not needed 396s autopkgtest [22:22:43]: test pkg-r-autopkgtest: preparing testbed 397s Reading package lists... 397s Building dependency tree... 397s Reading state information... 397s Starting pkgProblemResolver with broken count: 0 397s Starting 2 pkgProblemResolver with broken count: 0 397s Done 398s The following NEW packages will be installed: 398s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 398s dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 398s g++ g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 398s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-14 398s gfortran-14-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools libasan8 398s libblas-dev libblas3 libboost-dev libboost1.83-dev libbz2-dev libcairo2 398s libcc1-0 libdatrie1 libdeflate-dev libdeflate0 libfontconfig1 libgcc-14-dev 398s libgfortran-14-dev libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 398s libhwasan0 libice6 libicu-dev libisl23 libitm1 libjbig0 libjpeg-dev 398s libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev 398s liblapack3 liblerc4 liblsan0 liblzma-dev libmpc3 libncurses-dev 398s libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils 398s libpaper2 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 398s libpixman-1-0 libpkgconf3 libpng-dev libquadmath0 libreadline-dev 398s libsharpyuv0 libsm6 libstdc++-14-dev libtcl8.6 libthai-data libthai0 398s libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1 libwebp7 libxcb-render0 398s libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64 libzstd-dev 398s pkg-r-autopkgtest pkgconf pkgconf-bin r-base-core r-base-dev r-bioc-annotate 398s r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio 398s r-bioc-biocparallel r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray 398s r-bioc-genefilter r-bioc-genomeinfodb r-bioc-genomeinfodbdata 398s r-bioc-genomicalignments r-bioc-genomicfeatures r-bioc-genomicranges 398s r-bioc-iranges r-bioc-keggrest r-bioc-limma r-bioc-matrixgenerics 398s r-bioc-org.hs.eg.db r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer 398s r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray 398s r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc 398s r-cran-abind r-cran-askpass r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops 398s r-cran-blob r-cran-cachem r-cran-cli r-cran-codetools r-cran-cpp11 398s r-cran-crayon r-cran-curl r-cran-dbi r-cran-fastmap r-cran-formatr 398s r-cran-futile.logger r-cran-futile.options r-cran-glue r-cran-httr 398s r-cran-jsonlite r-cran-lambda.r r-cran-lattice r-cran-lifecycle 398s r-cran-matrix r-cran-matrixstats r-cran-memoise r-cran-mime r-cran-openssl 398s r-cran-pkgconfig r-cran-plogr r-cran-png r-cran-r6 r-cran-rcurl 398s r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rsqlite r-cran-runit 398s r-cran-snow r-cran-statmod r-cran-survival r-cran-sys r-cran-vctrs 398s r-cran-xml r-cran-xtable r-cran-yaml unzip x11-common xdg-utils zip 398s zlib1g-dev 398s 0 upgraded, 179 newly installed, 0 to remove and 0 not upgraded. 398s Need to get 327 MB of archives. 398s After this operation, 1158 MB of additional disk space will be used. 398s Get:1 http://ftpmaster.internal/ubuntu questing/main amd64 libisl23 amd64 0.27-1 [685 kB] 398s Get:2 http://ftpmaster.internal/ubuntu questing/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 398s Get:3 http://ftpmaster.internal/ubuntu questing/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-19ubuntu2 [11.9 MB] 399s Get:4 http://ftpmaster.internal/ubuntu questing/main amd64 cpp-14 amd64 14.2.0-19ubuntu2 [1030 B] 399s Get:5 http://ftpmaster.internal/ubuntu questing/main amd64 cpp-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [5586 B] 399s Get:6 http://ftpmaster.internal/ubuntu questing/main amd64 cpp amd64 4:14.2.0-1ubuntu1 [22.4 kB] 399s Get:7 http://ftpmaster.internal/ubuntu questing/main amd64 libcc1-0 amd64 15-20250404-0ubuntu1 [47.1 kB] 399s Get:8 http://ftpmaster.internal/ubuntu questing/main amd64 libgomp1 amd64 15-20250404-0ubuntu1 [151 kB] 399s Get:9 http://ftpmaster.internal/ubuntu questing/main amd64 libitm1 amd64 15-20250404-0ubuntu1 [29.5 kB] 399s Get:10 http://ftpmaster.internal/ubuntu questing/main amd64 libasan8 amd64 15-20250404-0ubuntu1 [3076 kB] 399s Get:11 http://ftpmaster.internal/ubuntu questing/main amd64 liblsan0 amd64 15-20250404-0ubuntu1 [1362 kB] 399s Get:12 http://ftpmaster.internal/ubuntu questing/main amd64 libtsan2 amd64 15-20250404-0ubuntu1 [2760 kB] 399s Get:13 http://ftpmaster.internal/ubuntu questing/main amd64 libubsan1 amd64 15-20250404-0ubuntu1 [1211 kB] 399s Get:14 http://ftpmaster.internal/ubuntu questing/main amd64 libhwasan0 amd64 15-20250404-0ubuntu1 [1687 kB] 399s Get:15 http://ftpmaster.internal/ubuntu questing/main amd64 libquadmath0 amd64 15-20250404-0ubuntu1 [153 kB] 399s Get:16 http://ftpmaster.internal/ubuntu questing/main amd64 libgcc-14-dev amd64 14.2.0-19ubuntu2 [2815 kB] 399s Get:17 http://ftpmaster.internal/ubuntu questing/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-19ubuntu2 [23.3 MB] 399s Get:18 http://ftpmaster.internal/ubuntu questing/main amd64 gcc-14 amd64 14.2.0-19ubuntu2 [540 kB] 399s Get:19 http://ftpmaster.internal/ubuntu questing/main amd64 gcc-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1208 B] 399s Get:20 http://ftpmaster.internal/ubuntu questing/main amd64 gcc amd64 4:14.2.0-1ubuntu1 [5004 B] 399s Get:21 http://ftpmaster.internal/ubuntu questing/main amd64 libstdc++-14-dev amd64 14.2.0-19ubuntu2 [2510 kB] 399s Get:22 http://ftpmaster.internal/ubuntu questing/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-19ubuntu2 [13.4 MB] 400s Get:23 http://ftpmaster.internal/ubuntu questing/main amd64 g++-14 amd64 14.2.0-19ubuntu2 [23.0 kB] 400s Get:24 http://ftpmaster.internal/ubuntu questing/main amd64 g++-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [968 B] 400s Get:25 http://ftpmaster.internal/ubuntu questing/main amd64 g++ amd64 4:14.2.0-1ubuntu1 [1100 B] 400s Get:26 http://ftpmaster.internal/ubuntu questing/main amd64 build-essential amd64 12.12ubuntu1 [5080 B] 400s Get:27 http://ftpmaster.internal/ubuntu questing/main amd64 dctrl-tools amd64 2.24-3build3 [106 kB] 400s Get:28 http://ftpmaster.internal/ubuntu questing/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 400s Get:29 http://ftpmaster.internal/ubuntu questing/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 400s Get:30 http://ftpmaster.internal/ubuntu questing/main amd64 fontconfig-config amd64 2.15.0-2.2ubuntu1 [37.8 kB] 400s Get:31 http://ftpmaster.internal/ubuntu questing/main amd64 libfontconfig1 amd64 2.15.0-2.2ubuntu1 [164 kB] 400s Get:32 http://ftpmaster.internal/ubuntu questing/main amd64 fontconfig amd64 2.15.0-2.2ubuntu1 [180 kB] 400s Get:33 http://ftpmaster.internal/ubuntu questing/main amd64 libgfortran5 amd64 15-20250404-0ubuntu1 [926 kB] 400s Get:34 http://ftpmaster.internal/ubuntu questing/main amd64 libgfortran-14-dev amd64 14.2.0-19ubuntu2 [967 kB] 400s Get:35 http://ftpmaster.internal/ubuntu questing/main amd64 gfortran-14-x86-64-linux-gnu amd64 14.2.0-19ubuntu2 [12.5 MB] 400s Get:36 http://ftpmaster.internal/ubuntu questing/main amd64 gfortran-14 amd64 14.2.0-19ubuntu2 [14.2 kB] 400s Get:37 http://ftpmaster.internal/ubuntu questing/main amd64 gfortran-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1022 B] 400s Get:38 http://ftpmaster.internal/ubuntu questing/main amd64 gfortran amd64 4:14.2.0-1ubuntu1 [1174 B] 400s Get:39 http://ftpmaster.internal/ubuntu questing/main amd64 icu-devtools amd64 76.1-1ubuntu2 [237 kB] 400s Get:40 http://ftpmaster.internal/ubuntu questing/main amd64 libblas3 amd64 3.12.1-2 [359 kB] 400s Get:41 http://ftpmaster.internal/ubuntu questing/main amd64 libblas-dev amd64 3.12.1-2 [338 kB] 400s Get:42 http://ftpmaster.internal/ubuntu questing/main amd64 libboost1.83-dev amd64 1.83.0-4.2ubuntu1 [10.7 MB] 400s Get:43 http://ftpmaster.internal/ubuntu questing/main amd64 libboost-dev amd64 1.83.0.2ubuntu1 [4468 B] 400s Get:44 http://ftpmaster.internal/ubuntu questing/main amd64 libbz2-dev amd64 1.0.8-6 [33.8 kB] 400s Get:45 http://ftpmaster.internal/ubuntu questing/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 400s Get:46 http://ftpmaster.internal/ubuntu questing/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 400s Get:47 http://ftpmaster.internal/ubuntu questing/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 400s Get:48 http://ftpmaster.internal/ubuntu questing/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 400s Get:49 http://ftpmaster.internal/ubuntu questing/main amd64 libcairo2 amd64 1.18.4-1 [662 kB] 400s Get:50 http://ftpmaster.internal/ubuntu questing/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB] 400s Get:51 http://ftpmaster.internal/ubuntu questing/main amd64 libdeflate0 amd64 1.23-2 [49.9 kB] 401s Get:52 http://ftpmaster.internal/ubuntu questing/main amd64 libdeflate-dev amd64 1.23-2 [56.8 kB] 401s Get:53 http://ftpmaster.internal/ubuntu questing/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 401s Get:54 http://ftpmaster.internal/ubuntu questing/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB] 401s Get:55 http://ftpmaster.internal/ubuntu questing/main amd64 x11-common all 1:7.7+23ubuntu4 [21.8 kB] 401s Get:56 http://ftpmaster.internal/ubuntu questing/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB] 401s Get:57 http://ftpmaster.internal/ubuntu questing/main amd64 libicu-dev amd64 76.1-1ubuntu2 [12.6 MB] 401s Get:58 http://ftpmaster.internal/ubuntu questing/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB] 401s Get:59 http://ftpmaster.internal/ubuntu questing/main amd64 libjpeg-turbo8-dev amd64 2.1.5-3ubuntu2 [324 kB] 401s Get:60 http://ftpmaster.internal/ubuntu questing/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 401s Get:61 http://ftpmaster.internal/ubuntu questing/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B] 401s Get:62 http://ftpmaster.internal/ubuntu questing/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B] 401s Get:63 http://ftpmaster.internal/ubuntu questing/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB] 401s Get:64 http://ftpmaster.internal/ubuntu questing/main amd64 liblapack-dev amd64 3.12.1-2 [6489 kB] 401s Get:65 http://ftpmaster.internal/ubuntu questing/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB] 401s Get:66 http://ftpmaster.internal/ubuntu questing/main amd64 libncurses-dev amd64 6.5+20250216-2 [424 kB] 401s Get:67 http://ftpmaster.internal/ubuntu questing/main amd64 libthai-data all 0.1.29-2build1 [158 kB] 401s Get:68 http://ftpmaster.internal/ubuntu questing/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB] 401s Get:69 http://ftpmaster.internal/ubuntu questing/main amd64 libpango-1.0-0 amd64 1.56.3-1 [256 kB] 401s Get:70 http://ftpmaster.internal/ubuntu questing/main amd64 libpangoft2-1.0-0 amd64 1.56.3-1 [52.9 kB] 401s Get:71 http://ftpmaster.internal/ubuntu questing/main amd64 libpangocairo-1.0-0 amd64 1.56.3-1 [29.1 kB] 401s Get:72 http://ftpmaster.internal/ubuntu questing/main amd64 libpaper2 amd64 2.2.5-0.3 [17.4 kB] 401s Get:73 http://ftpmaster.internal/ubuntu questing/main amd64 libpaper-utils amd64 2.2.5-0.3 [15.5 kB] 401s Get:74 http://ftpmaster.internal/ubuntu questing/main amd64 libpcre2-16-0 amd64 10.45-1 [268 kB] 401s Get:75 http://ftpmaster.internal/ubuntu questing/main amd64 libpcre2-32-0 amd64 10.45-1 [251 kB] 401s Get:76 http://ftpmaster.internal/ubuntu questing/main amd64 libpcre2-posix3 amd64 10.45-1 [7204 B] 401s Get:77 http://ftpmaster.internal/ubuntu questing/main amd64 libpcre2-dev amd64 10.45-1 [908 kB] 401s Get:78 http://ftpmaster.internal/ubuntu questing/main amd64 libpkgconf3 amd64 1.8.1-4 [32.3 kB] 401s Get:79 http://ftpmaster.internal/ubuntu questing/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB] 401s Get:80 http://ftpmaster.internal/ubuntu questing/main amd64 libpng-dev amd64 1.6.47-1.1 [298 kB] 401s Get:81 http://ftpmaster.internal/ubuntu questing/main amd64 libreadline-dev amd64 8.2-6 [184 kB] 401s Get:82 http://ftpmaster.internal/ubuntu questing/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB] 401s Get:83 http://ftpmaster.internal/ubuntu questing/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB] 401s Get:84 http://ftpmaster.internal/ubuntu questing/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1086 kB] 401s Get:85 http://ftpmaster.internal/ubuntu questing/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 401s Get:86 http://ftpmaster.internal/ubuntu questing/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB] 401s Get:87 http://ftpmaster.internal/ubuntu questing/main amd64 libtiff6 amd64 4.7.0-3ubuntu1 [204 kB] 401s Get:88 http://ftpmaster.internal/ubuntu questing/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 401s Get:89 http://ftpmaster.internal/ubuntu questing/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 401s Get:90 http://ftpmaster.internal/ubuntu questing/main amd64 libtk8.6 amd64 8.6.16-1 [868 kB] 402s Get:91 http://ftpmaster.internal/ubuntu questing/main amd64 libxt6t64 amd64 1:1.2.1-1.2build1 [171 kB] 402s Get:92 http://ftpmaster.internal/ubuntu questing/main amd64 libzstd-dev amd64 1.5.6+dfsg-2 [444 kB] 402s Get:93 http://ftpmaster.internal/ubuntu questing/main amd64 zip amd64 3.0-14ubuntu2 [185 kB] 402s Get:94 http://ftpmaster.internal/ubuntu questing/main amd64 unzip amd64 6.0-28ubuntu6 [181 kB] 402s Get:95 http://ftpmaster.internal/ubuntu questing/main amd64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 402s Get:96 http://ftpmaster.internal/ubuntu questing-proposed/universe amd64 r-base-core amd64 4.5.0-3 [28.9 MB] 402s Get:97 http://ftpmaster.internal/ubuntu questing/main amd64 liblzma-dev amd64 5.6.4-1ubuntu1 [189 kB] 402s Get:98 http://ftpmaster.internal/ubuntu questing/main amd64 pkgconf-bin amd64 1.8.1-4 [21.6 kB] 402s Get:99 http://ftpmaster.internal/ubuntu questing/main amd64 pkgconf amd64 1.8.1-4 [16.8 kB] 402s Get:100 http://ftpmaster.internal/ubuntu questing/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [193 kB] 402s Get:101 http://ftpmaster.internal/ubuntu questing-proposed/universe amd64 r-base-dev all 4.5.0-3 [4188 B] 403s Get:102 http://ftpmaster.internal/ubuntu questing/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B] 403s Get:103 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-biocgenerics all 0.52.0-2 [624 kB] 403s Get:104 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-biobase amd64 2.66.0-2 [2332 kB] 403s Get:105 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-s4vectors amd64 0.44.0+dfsg-2 [2065 kB] 403s Get:106 http://ftpmaster.internal/ubuntu questing-proposed/universe amd64 r-bioc-iranges amd64 2.40.1-3 [2309 kB] 403s Get:107 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-dbi all 1.2.3-1 [853 kB] 403s Get:108 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-bit amd64 4.6.0+dfsg-1 [466 kB] 403s Get:109 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-bit64 amd64 4.6.0-1-1ubuntu2 [501 kB] 404s Get:110 http://ftpmaster.internal/ubuntu questing-proposed/universe amd64 r-cran-rlang amd64 1.1.5-3 [1721 kB] 404s Get:111 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-cli amd64 3.6.4-1 [1394 kB] 404s Get:112 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-glue amd64 1.8.0-1 [164 kB] 404s Get:113 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 404s Get:114 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB] 404s Get:115 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-blob all 1.2.4-1 [49.8 kB] 404s Get:116 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-fastmap amd64 1.2.0-1 [73.8 kB] 404s Get:117 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-cachem amd64 1.1.0-1 [74.1 kB] 404s Get:118 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB] 404s Get:119 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 404s Get:120 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-plogr all 0.2.0-3build1 [15.1 kB] 404s Get:121 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-cpp11 all 0.5.2-1 [233 kB] 404s Get:122 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-rsqlite amd64 2.3.9-1 [1467 kB] 404s Get:123 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-curl amd64 6.2.1+dfsg-1ubuntu1 [197 kB] 404s Get:124 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-jsonlite amd64 1.9.1+dfsg-1 [447 kB] 404s Get:125 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB] 404s Get:126 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-sys amd64 3.4.3-1 [45.3 kB] 404s Get:127 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-askpass amd64 1.2.1-1 [24.9 kB] 404s Get:128 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-openssl amd64 2.3.2+dfsg-1 [407 kB] 404s Get:129 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-r6 all 2.6.1-1 [101 kB] 404s Get:130 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] 404s Get:131 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-png amd64 0.1-8-1build2 [40.6 kB] 404s Get:132 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [10.2 kB] 404s Get:133 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-xvector amd64 0.46.0-2 [620 kB] 404s Get:134 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.2 kB] 404s Get:135 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB] 405s Get:136 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3887 kB] 405s Get:137 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-crayon all 1.5.3-1 [165 kB] 405s Get:138 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-biostrings amd64 2.74.1+dfsg-2 [13.3 MB] 406s Get:139 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-keggrest all 1.46.0+dfsg-2 [183 kB] 406s Get:140 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-annotationdbi all 1.68.0-2 [4857 kB] 407s Get:141 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-xml amd64 3.99-0.18-1 [1748 kB] 407s Get:142 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] 407s Get:143 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-annotate all 1.84.0+dfsg-2 [1870 kB] 407s Get:144 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-biocio all 1.16.0+dfsg-2 [209 kB] 407s Get:145 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-formatr all 1.14-2 [152 kB] 407s Get:146 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-lambda.r all 1.2.4-2build1 [119 kB] 407s Get:147 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-futile.options all 1.0.1-3build1 [20.2 kB] 407s Get:148 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-futile.logger all 1.4.3-4build1 [99.3 kB] 407s Get:149 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-snow all 1:0.4.4-2 [97.6 kB] 407s Get:150 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-codetools all 0.2-20-1 [90.5 kB] 407s Get:151 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-bh all 1.84.0-1 [5962 B] 407s Get:152 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-biocparallel amd64 1.40.0-2 [1337 kB] 407s Get:153 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-genomicranges amd64 1.58.0+dfsg-2 [2083 kB] 407s Get:154 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-bitops amd64 1.0-9-1 [30.3 kB] 407s Get:155 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-rhtslib amd64 3.2.0+dfsg-2 [1499 kB] 407s Get:156 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-rsamtools amd64 2.22.0+dfsg-2 [3745 kB] 408s Get:157 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-matrixstats amd64 1.5.0-1 [542 kB] 408s Get:158 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-matrixgenerics all 1.18.1-1 [450 kB] 408s Get:159 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-lattice amd64 0.22-6-1 [1340 kB] 408s Get:160 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-matrix amd64 1.7-3-1 [4349 kB] 408s Get:161 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-abind all 1.4-8-1 [66.9 kB] 408s Get:162 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-s4arrays amd64 1.6.0+dfsg-2 [698 kB] 408s Get:163 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-sparsearray amd64 1.6.2+dfsg-1 [1392 kB] 408s Get:164 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-delayedarray amd64 0.32.0+dfsg-2 [2064 kB] 408s Get:165 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1109 kB] 408s Get:166 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-genomicalignments amd64 1.42.0-2 [2165 kB] 408s Get:167 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-rcurl amd64 1.98-1.16+dfsg-1 [807 kB] 409s Get:168 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-rjson amd64 0.2.23-1 [104 kB] 409s Get:169 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-yaml amd64 2.3.10-1 [109 kB] 409s Get:170 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-restfulr amd64 0.0.15-1 [380 kB] 409s Get:171 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-rtracklayer amd64 1.66.0-2 [5227 kB] 409s Get:172 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-bsgenome all 1.74.0-2 [7001 kB] 409s Get:173 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-survival amd64 3.8-3-1 [8239 kB] 410s Get:174 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-genefilter amd64 1.88.0-2 [1243 kB] 410s Get:175 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-genomicfeatures all 1.58.0+dfsg-2 [937 kB] 410s Get:176 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-statmod amd64 1.5.0-1 [295 kB] 410s Get:177 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-limma amd64 3.62.2+dfsg-1 [1969 kB] 410s Get:178 http://ftpmaster.internal/ubuntu questing/universe amd64 r-bioc-org.hs.eg.db all 3.20.0-3 [63.1 MB] 415s Get:179 http://ftpmaster.internal/ubuntu questing/universe amd64 r-cran-runit all 0.4.33-1 [377 kB] 415s Preconfiguring packages ... 415s Fetched 327 MB in 17s (19.5 MB/s) 415s Selecting previously unselected package libisl23:amd64. 415s (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 ... 80518 files and directories currently installed.) 415s Preparing to unpack .../000-libisl23_0.27-1_amd64.deb ... 415s Unpacking libisl23:amd64 (0.27-1) ... 415s Selecting previously unselected package libmpc3:amd64. 415s Preparing to unpack .../001-libmpc3_1.3.1-1build2_amd64.deb ... 415s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 415s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 415s Preparing to unpack .../002-cpp-14-x86-64-linux-gnu_14.2.0-19ubuntu2_amd64.deb ... 415s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-19ubuntu2) ... 416s Selecting previously unselected package cpp-14. 416s Preparing to unpack .../003-cpp-14_14.2.0-19ubuntu2_amd64.deb ... 416s Unpacking cpp-14 (14.2.0-19ubuntu2) ... 416s Selecting previously unselected package cpp-x86-64-linux-gnu. 416s Preparing to unpack .../004-cpp-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 416s Unpacking cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 416s Selecting previously unselected package cpp. 416s Preparing to unpack .../005-cpp_4%3a14.2.0-1ubuntu1_amd64.deb ... 416s Unpacking cpp (4:14.2.0-1ubuntu1) ... 416s Selecting previously unselected package libcc1-0:amd64. 416s Preparing to unpack .../006-libcc1-0_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking libcc1-0:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package libgomp1:amd64. 416s Preparing to unpack .../007-libgomp1_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking libgomp1:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package libitm1:amd64. 416s Preparing to unpack .../008-libitm1_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking libitm1:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package libasan8:amd64. 416s Preparing to unpack .../009-libasan8_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking libasan8:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package liblsan0:amd64. 416s Preparing to unpack .../010-liblsan0_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking liblsan0:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package libtsan2:amd64. 416s Preparing to unpack .../011-libtsan2_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking libtsan2:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package libubsan1:amd64. 416s Preparing to unpack .../012-libubsan1_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking libubsan1:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package libhwasan0:amd64. 416s Preparing to unpack .../013-libhwasan0_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking libhwasan0:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package libquadmath0:amd64. 416s Preparing to unpack .../014-libquadmath0_15-20250404-0ubuntu1_amd64.deb ... 416s Unpacking libquadmath0:amd64 (15-20250404-0ubuntu1) ... 416s Selecting previously unselected package libgcc-14-dev:amd64. 416s Preparing to unpack .../015-libgcc-14-dev_14.2.0-19ubuntu2_amd64.deb ... 416s Unpacking libgcc-14-dev:amd64 (14.2.0-19ubuntu2) ... 416s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 416s Preparing to unpack .../016-gcc-14-x86-64-linux-gnu_14.2.0-19ubuntu2_amd64.deb ... 416s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-19ubuntu2) ... 417s Selecting previously unselected package gcc-14. 417s Preparing to unpack .../017-gcc-14_14.2.0-19ubuntu2_amd64.deb ... 417s Unpacking gcc-14 (14.2.0-19ubuntu2) ... 417s Selecting previously unselected package gcc-x86-64-linux-gnu. 417s Preparing to unpack .../018-gcc-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 417s Unpacking gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 417s Selecting previously unselected package gcc. 417s Preparing to unpack .../019-gcc_4%3a14.2.0-1ubuntu1_amd64.deb ... 417s Unpacking gcc (4:14.2.0-1ubuntu1) ... 417s Selecting previously unselected package libstdc++-14-dev:amd64. 417s Preparing to unpack .../020-libstdc++-14-dev_14.2.0-19ubuntu2_amd64.deb ... 417s Unpacking libstdc++-14-dev:amd64 (14.2.0-19ubuntu2) ... 417s Selecting previously unselected package g++-14-x86-64-linux-gnu. 417s Preparing to unpack .../021-g++-14-x86-64-linux-gnu_14.2.0-19ubuntu2_amd64.deb ... 417s Unpacking g++-14-x86-64-linux-gnu (14.2.0-19ubuntu2) ... 417s Selecting previously unselected package g++-14. 417s Preparing to unpack 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previously unselected package libbz2-dev:amd64. 420s Preparing to unpack .../043-libbz2-dev_1.0.8-6_amd64.deb ... 420s Unpacking libbz2-dev:amd64 (1.0.8-6) ... 420s Selecting previously unselected package libpixman-1-0:amd64. 420s Preparing to unpack .../044-libpixman-1-0_0.44.0-3_amd64.deb ... 420s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 420s Selecting previously unselected package libxcb-render0:amd64. 420s Preparing to unpack .../045-libxcb-render0_1.17.0-2_amd64.deb ... 420s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 420s Selecting previously unselected package libxcb-shm0:amd64. 420s Preparing to unpack .../046-libxcb-shm0_1.17.0-2_amd64.deb ... 420s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 420s Selecting previously unselected package libxrender1:amd64. 420s Preparing to unpack .../047-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 420s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 420s Selecting previously unselected package libcairo2:amd64. 420s Preparing to unpack .../048-libcairo2_1.18.4-1_amd64.deb ... 420s Unpacking libcairo2:amd64 (1.18.4-1) ... 420s Selecting previously unselected package libdatrie1:amd64. 420s Preparing to unpack .../049-libdatrie1_0.2.13-3build1_amd64.deb ... 420s Unpacking libdatrie1:amd64 (0.2.13-3build1) ... 420s Selecting previously unselected package libdeflate0:amd64. 420s Preparing to unpack .../050-libdeflate0_1.23-2_amd64.deb ... 420s Unpacking libdeflate0:amd64 (1.23-2) ... 420s Selecting previously unselected package libdeflate-dev:amd64. 420s Preparing to unpack .../051-libdeflate-dev_1.23-2_amd64.deb ... 420s Unpacking libdeflate-dev:amd64 (1.23-2) ... 420s Selecting previously unselected package libgraphite2-3:amd64. 420s Preparing to unpack .../052-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 420s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 420s Selecting previously unselected package libharfbuzz0b:amd64. 420s Preparing to unpack .../053-libharfbuzz0b_10.2.0-1_amd64.deb ... 420s Unpacking 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unpack .../064-liblerc4_4.0.0+ds-5ubuntu1_amd64.deb ... 421s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 421s Selecting previously unselected package libncurses-dev:amd64. 421s Preparing to unpack .../065-libncurses-dev_6.5+20250216-2_amd64.deb ... 421s Unpacking libncurses-dev:amd64 (6.5+20250216-2) ... 421s Selecting previously unselected package libthai-data. 421s Preparing to unpack .../066-libthai-data_0.1.29-2build1_all.deb ... 421s Unpacking libthai-data (0.1.29-2build1) ... 421s Selecting previously unselected package libthai0:amd64. 421s Preparing to unpack .../067-libthai0_0.1.29-2build1_amd64.deb ... 421s Unpacking libthai0:amd64 (0.1.29-2build1) ... 421s Selecting previously unselected package libpango-1.0-0:amd64. 421s Preparing to unpack .../068-libpango-1.0-0_1.56.3-1_amd64.deb ... 421s Unpacking libpango-1.0-0:amd64 (1.56.3-1) ... 421s Selecting previously unselected package libpangoft2-1.0-0:amd64. 421s Preparing to unpack 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422s Selecting previously unselected package libzstd-dev:amd64. 422s Preparing to unpack .../091-libzstd-dev_1.5.6+dfsg-2_amd64.deb ... 422s Unpacking libzstd-dev:amd64 (1.5.6+dfsg-2) ... 422s Selecting previously unselected package zip. 422s Preparing to unpack .../092-zip_3.0-14ubuntu2_amd64.deb ... 422s Unpacking zip (3.0-14ubuntu2) ... 422s Selecting previously unselected package unzip. 422s Preparing to unpack .../093-unzip_6.0-28ubuntu6_amd64.deb ... 422s Unpacking unzip (6.0-28ubuntu6) ... 422s Selecting previously unselected package xdg-utils. 422s Preparing to unpack .../094-xdg-utils_1.2.1-2ubuntu1_all.deb ... 422s Unpacking xdg-utils (1.2.1-2ubuntu1) ... 422s Selecting previously unselected package r-base-core. 422s Preparing to unpack .../095-r-base-core_4.5.0-3_amd64.deb ... 422s Unpacking r-base-core (4.5.0-3) ... 423s Selecting previously unselected package liblzma-dev:amd64. 423s Preparing to unpack .../096-liblzma-dev_5.6.4-1ubuntu1_amd64.deb ... 423s Unpacking liblzma-dev:amd64 (5.6.4-1ubuntu1) ... 423s Selecting previously unselected package pkgconf-bin. 423s Preparing to unpack .../097-pkgconf-bin_1.8.1-4_amd64.deb ... 423s Unpacking pkgconf-bin (1.8.1-4) ... 423s Selecting previously unselected package pkgconf:amd64. 423s Preparing to unpack .../098-pkgconf_1.8.1-4_amd64.deb ... 423s Unpacking pkgconf:amd64 (1.8.1-4) ... 423s Selecting previously unselected package libtirpc-dev:amd64. 423s Preparing to unpack .../099-libtirpc-dev_1.3.4+ds-1.3_amd64.deb ... 423s Unpacking libtirpc-dev:amd64 (1.3.4+ds-1.3) ... 423s Selecting previously unselected package r-base-dev. 423s Preparing to unpack .../100-r-base-dev_4.5.0-3_all.deb ... 423s Unpacking r-base-dev (4.5.0-3) ... 423s Selecting previously unselected package pkg-r-autopkgtest. 423s Preparing to unpack .../101-pkg-r-autopkgtest_20231212ubuntu1_all.deb ... 423s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ... 423s Selecting previously unselected package r-bioc-biocgenerics. 423s 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423s Unpacking r-cran-vctrs (0.6.5-1) ... 423s Selecting previously unselected package r-cran-blob. 423s Preparing to unpack .../114-r-cran-blob_1.2.4-1_all.deb ... 423s Unpacking r-cran-blob (1.2.4-1) ... 423s Selecting previously unselected package r-cran-fastmap. 423s Preparing to unpack .../115-r-cran-fastmap_1.2.0-1_amd64.deb ... 423s Unpacking r-cran-fastmap (1.2.0-1) ... 423s Selecting previously unselected package r-cran-cachem. 424s Preparing to unpack .../116-r-cran-cachem_1.1.0-1_amd64.deb ... 424s Unpacking r-cran-cachem (1.1.0-1) ... 424s Selecting previously unselected package r-cran-memoise. 424s Preparing to unpack .../117-r-cran-memoise_2.0.1-1_all.deb ... 424s Unpacking r-cran-memoise (2.0.1-1) ... 424s Selecting previously unselected package r-cran-pkgconfig. 424s Preparing to unpack .../118-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 424s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 424s Selecting previously unselected package r-cran-plogr. 424s Preparing to unpack .../119-r-cran-plogr_0.2.0-3build1_all.deb ... 424s Unpacking r-cran-plogr (0.2.0-3build1) ... 424s Selecting previously unselected package r-cran-cpp11. 424s Preparing to unpack .../120-r-cran-cpp11_0.5.2-1_all.deb ... 424s Unpacking r-cran-cpp11 (0.5.2-1) ... 424s Selecting previously unselected package r-cran-rsqlite. 424s Preparing to unpack .../121-r-cran-rsqlite_2.3.9-1_amd64.deb ... 424s Unpacking r-cran-rsqlite (2.3.9-1) ... 424s Selecting previously unselected package r-cran-curl. 424s Preparing to unpack .../122-r-cran-curl_6.2.1+dfsg-1ubuntu1_amd64.deb ... 424s Unpacking r-cran-curl (6.2.1+dfsg-1ubuntu1) ... 424s Selecting previously unselected package r-cran-jsonlite. 424s Preparing to unpack .../123-r-cran-jsonlite_1.9.1+dfsg-1_amd64.deb ... 424s Unpacking r-cran-jsonlite (1.9.1+dfsg-1) ... 424s Selecting previously unselected package r-cran-mime. 424s Preparing to unpack .../124-r-cran-mime_0.12-2_amd64.deb ... 424s Unpacking r-cran-mime (0.12-2) ... 424s Selecting previously unselected package r-cran-sys. 424s Preparing to unpack .../125-r-cran-sys_3.4.3-1_amd64.deb ... 424s Unpacking r-cran-sys (3.4.3-1) ... 424s Selecting previously unselected package r-cran-askpass. 424s Preparing to unpack .../126-r-cran-askpass_1.2.1-1_amd64.deb ... 424s Unpacking r-cran-askpass (1.2.1-1) ... 424s Selecting previously unselected package r-cran-openssl. 424s Preparing to unpack .../127-r-cran-openssl_2.3.2+dfsg-1_amd64.deb ... 424s Unpacking r-cran-openssl (2.3.2+dfsg-1) ... 424s Selecting previously unselected package r-cran-r6. 424s Preparing to unpack .../128-r-cran-r6_2.6.1-1_all.deb ... 424s Unpacking r-cran-r6 (2.6.1-1) ... 424s Selecting previously unselected package r-cran-httr. 424s Preparing to unpack .../129-r-cran-httr_1.4.7+dfsg-1_all.deb ... 424s Unpacking r-cran-httr (1.4.7+dfsg-1) ... 424s Selecting previously unselected package r-cran-png. 424s Preparing to unpack .../130-r-cran-png_0.1-8-1build2_amd64.deb ... 424s Unpacking r-cran-png (0.1-8-1build2) ... 424s Selecting previously unselected package r-bioc-zlibbioc. 424s Preparing to unpack .../131-r-bioc-zlibbioc_1.52.0+dfsg-2_all.deb ... 424s Unpacking r-bioc-zlibbioc (1.52.0+dfsg-2) ... 424s Selecting previously unselected package r-bioc-xvector. 424s Preparing to unpack .../132-r-bioc-xvector_0.46.0-2_amd64.deb ... 424s Unpacking r-bioc-xvector (0.46.0-2) ... 424s Selecting previously unselected package r-bioc-ucsc.utils. 424s Preparing to unpack .../133-r-bioc-ucsc.utils_1.2.0+ds-2_all.deb ... 424s Unpacking r-bioc-ucsc.utils (1.2.0+ds-2) ... 424s Selecting previously unselected package r-bioc-genomeinfodbdata. 424s Preparing to unpack .../134-r-bioc-genomeinfodbdata_1.2.13-2_all.deb ... 424s Unpacking r-bioc-genomeinfodbdata (1.2.13-2) ... 424s Selecting previously unselected package r-bioc-genomeinfodb. 424s Preparing to unpack .../135-r-bioc-genomeinfodb_1.42.3+dfsg-1_all.deb ... 424s Unpacking r-bioc-genomeinfodb (1.42.3+dfsg-1) ... 424s Selecting previously unselected package r-cran-crayon. 424s Preparing to unpack .../136-r-cran-crayon_1.5.3-1_all.deb ... 424s Unpacking r-cran-crayon (1.5.3-1) ... 424s Selecting previously unselected package r-bioc-biostrings. 424s Preparing to unpack .../137-r-bioc-biostrings_2.74.1+dfsg-2_amd64.deb ... 424s Unpacking r-bioc-biostrings (2.74.1+dfsg-2) ... 424s Selecting previously unselected package r-bioc-keggrest. 424s Preparing to unpack .../138-r-bioc-keggrest_1.46.0+dfsg-2_all.deb ... 424s Unpacking r-bioc-keggrest (1.46.0+dfsg-2) ... 424s Selecting previously unselected package r-bioc-annotationdbi. 424s Preparing to unpack .../139-r-bioc-annotationdbi_1.68.0-2_all.deb ... 424s Unpacking r-bioc-annotationdbi (1.68.0-2) ... 425s Selecting previously unselected package r-cran-xml. 425s Preparing to unpack .../140-r-cran-xml_3.99-0.18-1_amd64.deb ... 425s Unpacking r-cran-xml (3.99-0.18-1) ... 425s Selecting previously unselected package r-cran-xtable. 425s Preparing to unpack .../141-r-cran-xtable_1%3a1.8-4-2_all.deb ... 425s Unpacking r-cran-xtable (1:1.8-4-2) ... 425s Selecting previously unselected package r-bioc-annotate. 425s Preparing to unpack .../142-r-bioc-annotate_1.84.0+dfsg-2_all.deb ... 425s Unpacking r-bioc-annotate (1.84.0+dfsg-2) ... 425s Selecting previously unselected package r-bioc-biocio. 425s Preparing to unpack .../143-r-bioc-biocio_1.16.0+dfsg-2_all.deb ... 425s Unpacking r-bioc-biocio (1.16.0+dfsg-2) ... 425s Selecting previously unselected package r-cran-formatr. 425s Preparing to unpack .../144-r-cran-formatr_1.14-2_all.deb ... 425s Unpacking r-cran-formatr (1.14-2) ... 425s Selecting previously unselected package r-cran-lambda.r. 425s Preparing to unpack .../145-r-cran-lambda.r_1.2.4-2build1_all.deb ... 425s Unpacking r-cran-lambda.r (1.2.4-2build1) ... 425s Selecting previously unselected package r-cran-futile.options. 425s Preparing to unpack .../146-r-cran-futile.options_1.0.1-3build1_all.deb ... 425s Unpacking r-cran-futile.options (1.0.1-3build1) ... 425s Selecting previously unselected package r-cran-futile.logger. 425s Preparing to unpack .../147-r-cran-futile.logger_1.4.3-4build1_all.deb ... 425s Unpacking r-cran-futile.logger (1.4.3-4build1) ... 425s Selecting previously unselected package r-cran-snow. 425s Preparing to unpack .../148-r-cran-snow_1%3a0.4.4-2_all.deb ... 425s Unpacking r-cran-snow (1:0.4.4-2) ... 425s Selecting previously unselected package r-cran-codetools. 425s Preparing to unpack .../149-r-cran-codetools_0.2-20-1_all.deb ... 425s Unpacking r-cran-codetools (0.2-20-1) ... 425s Selecting previously unselected package r-cran-bh. 425s Preparing to unpack .../150-r-cran-bh_1.84.0-1_all.deb ... 425s Unpacking r-cran-bh (1.84.0-1) ... 425s Selecting previously unselected package r-bioc-biocparallel. 425s Preparing to unpack .../151-r-bioc-biocparallel_1.40.0-2_amd64.deb ... 425s Unpacking r-bioc-biocparallel (1.40.0-2) ... 425s Selecting previously unselected package r-bioc-genomicranges. 425s Preparing to unpack .../152-r-bioc-genomicranges_1.58.0+dfsg-2_amd64.deb ... 425s Unpacking r-bioc-genomicranges (1.58.0+dfsg-2) ... 425s Selecting previously unselected package r-cran-bitops. 425s Preparing to unpack .../153-r-cran-bitops_1.0-9-1_amd64.deb ... 425s Unpacking r-cran-bitops (1.0-9-1) ... 425s Selecting previously unselected package r-bioc-rhtslib. 425s Preparing to unpack .../154-r-bioc-rhtslib_3.2.0+dfsg-2_amd64.deb ... 425s Unpacking r-bioc-rhtslib (3.2.0+dfsg-2) ... 425s Selecting previously unselected package r-bioc-rsamtools. 425s Preparing to unpack .../155-r-bioc-rsamtools_2.22.0+dfsg-2_amd64.deb ... 425s Unpacking r-bioc-rsamtools (2.22.0+dfsg-2) ... 425s Selecting previously unselected package r-cran-matrixstats. 425s Preparing to unpack .../156-r-cran-matrixstats_1.5.0-1_amd64.deb ... 425s Unpacking r-cran-matrixstats (1.5.0-1) ... 425s Selecting previously unselected package r-bioc-matrixgenerics. 425s Preparing to unpack .../157-r-bioc-matrixgenerics_1.18.1-1_all.deb ... 425s Unpacking r-bioc-matrixgenerics (1.18.1-1) ... 425s Selecting previously unselected package r-cran-lattice. 425s Preparing to unpack .../158-r-cran-lattice_0.22-6-1_amd64.deb ... 425s Unpacking r-cran-lattice (0.22-6-1) ... 425s Selecting previously unselected package r-cran-matrix. 425s Preparing to unpack .../159-r-cran-matrix_1.7-3-1_amd64.deb ... 425s Unpacking r-cran-matrix (1.7-3-1) ... 425s Selecting previously unselected package r-cran-abind. 425s Preparing to unpack .../160-r-cran-abind_1.4-8-1_all.deb ... 425s Unpacking r-cran-abind (1.4-8-1) ... 425s Selecting previously unselected package r-bioc-s4arrays. 426s Preparing to unpack .../161-r-bioc-s4arrays_1.6.0+dfsg-2_amd64.deb ... 426s Unpacking r-bioc-s4arrays (1.6.0+dfsg-2) ... 426s Selecting previously unselected package r-bioc-sparsearray. 426s Preparing to unpack .../162-r-bioc-sparsearray_1.6.2+dfsg-1_amd64.deb ... 426s Unpacking r-bioc-sparsearray (1.6.2+dfsg-1) ... 426s Selecting previously unselected package r-bioc-delayedarray. 426s Preparing to unpack .../163-r-bioc-delayedarray_0.32.0+dfsg-2_amd64.deb ... 426s Unpacking r-bioc-delayedarray (0.32.0+dfsg-2) ... 426s Selecting previously unselected package r-bioc-summarizedexperiment. 426s Preparing to unpack .../164-r-bioc-summarizedexperiment_1.36.0+dfsg-2_all.deb ... 426s Unpacking r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... 426s Selecting previously unselected package r-bioc-genomicalignments. 426s Preparing to unpack .../165-r-bioc-genomicalignments_1.42.0-2_amd64.deb ... 426s Unpacking r-bioc-genomicalignments (1.42.0-2) ... 426s Selecting previously unselected package r-cran-rcurl. 426s Preparing to unpack .../166-r-cran-rcurl_1.98-1.16+dfsg-1_amd64.deb ... 426s Unpacking r-cran-rcurl (1.98-1.16+dfsg-1) ... 426s Selecting previously unselected package r-cran-rjson. 426s Preparing to unpack .../167-r-cran-rjson_0.2.23-1_amd64.deb ... 426s Unpacking r-cran-rjson (0.2.23-1) ... 426s Selecting previously unselected package r-cran-yaml. 426s Preparing to unpack .../168-r-cran-yaml_2.3.10-1_amd64.deb ... 426s Unpacking r-cran-yaml (2.3.10-1) ... 426s Selecting previously unselected package r-cran-restfulr. 426s Preparing to unpack .../169-r-cran-restfulr_0.0.15-1_amd64.deb ... 426s Unpacking r-cran-restfulr (0.0.15-1) ... 426s Selecting previously unselected package r-bioc-rtracklayer. 426s Preparing to unpack .../170-r-bioc-rtracklayer_1.66.0-2_amd64.deb ... 426s Unpacking r-bioc-rtracklayer (1.66.0-2) ... 426s Selecting previously unselected package r-bioc-bsgenome. 426s Preparing to unpack .../171-r-bioc-bsgenome_1.74.0-2_all.deb ... 426s Unpacking r-bioc-bsgenome (1.74.0-2) ... 426s Selecting previously unselected package r-cran-survival. 426s Preparing to unpack .../172-r-cran-survival_3.8-3-1_amd64.deb ... 426s Unpacking r-cran-survival (3.8-3-1) ... 426s Selecting previously unselected package r-bioc-genefilter. 426s Preparing to unpack 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r-cran-runit (0.4.33-1) ... 428s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 428s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 428s Setting up libsharpyuv0:amd64 (1.5.0-0.1) ... 428s Setting up libncurses-dev:amd64 (6.5+20250216-2) ... 428s Setting up liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 428s Setting up libzstd-dev:amd64 (1.5.6+dfsg-2) ... 428s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 428s Setting up libdatrie1:amd64 (0.2.13-3build1) ... 428s Setting up libxcb-render0:amd64 (1.17.0-2) ... 428s Setting up unzip (6.0-28ubuntu6) ... 428s Setting up x11-common (1:7.7+23ubuntu4) ... 428s Setting up libdeflate0:amd64 (1.23-2) ... 428s Setting up libxcb-shm0:amd64 (1.17.0-2) ... 428s Setting up libreadline-dev:amd64 (8.2-6) ... 428s Setting up libgomp1:amd64 (15-20250404-0ubuntu1) ... 428s Setting up libjbig0:amd64 (2.1-6.1ubuntu2) ... 428s Setting up libpcre2-16-0:amd64 (10.45-1) ... 428s Setting up zip (3.0-14ubuntu2) ... 428s Setting up libpcre2-32-0:amd64 (10.45-1) ... 428s Setting up libblas3:amd64 (3.12.1-2) ... 428s 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 428s Setting up libtirpc-dev:amd64 (1.3.4+ds-1.3) ... 428s Setting up libpkgconf3:amd64 (1.8.1-4) ... 428s Setting up libquadmath0:amd64 (15-20250404-0ubuntu1) ... 428s Setting up fonts-dejavu-mono (2.37-8) ... 428s Setting up libmpc3:amd64 (1.3.1-1build2) ... 428s Setting up libtcl8.6:amd64 (8.6.16+dfsg-1) ... 428s Setting up icu-devtools (76.1-1ubuntu2) ... 428s Setting up fonts-dejavu-core (2.37-8) ... 428s Setting up pkgconf-bin (1.8.1-4) ... 428s Setting up libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ... 428s Setting up libgfortran5:amd64 (15-20250404-0ubuntu1) ... 428s Setting up libwebp7:amd64 (1.5.0-0.1) ... 428s Setting up liblzma-dev:amd64 (5.6.4-1ubuntu1) ... 428s Setting up libubsan1:amd64 (15-20250404-0ubuntu1) ... 428s Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 428s Setting up libpcre2-posix3:amd64 (10.45-1) ... 428s Setting up libhwasan0:amd64 (15-20250404-0ubuntu1) ... 428s Setting up libasan8:amd64 (15-20250404-0ubuntu1) ... 428s Setting up libharfbuzz0b:amd64 (10.2.0-1) ... 428s Setting up libthai-data (0.1.29-2build1) ... 428s Setting up libxss1:amd64 (1:1.2.3-1build3) ... 428s Setting up libpaper2:amd64 (2.2.5-0.3) ... 428s Setting up libtsan2:amd64 (15-20250404-0ubuntu1) ... 428s Setting up libisl23:amd64 (0.27-1) ... 428s Setting up libdeflate-dev:amd64 (1.23-2) ... 428s Setting up libicu-dev:amd64 (76.1-1ubuntu2) ... 428s Setting up xdg-utils (1.2.1-2ubuntu1) ... 428s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 428s Setting up libcc1-0:amd64 (15-20250404-0ubuntu1) ... 428s Setting up liblsan0:amd64 (15-20250404-0ubuntu1) ... 428s Setting up libblas-dev:amd64 (3.12.1-2) ... 428s 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 428s Setting up dctrl-tools (2.24-3build3) ... 428s Setting up libitm1:amd64 (15-20250404-0ubuntu1) ... 428s Setting up libbz2-dev:amd64 (1.0.8-6) ... 428s Setting up libjpeg8:amd64 (8c-2ubuntu11) ... 428s Setting up libice6:amd64 (2:1.1.1-1) ... 428s Setting up libjpeg-turbo8-dev:amd64 (2.1.5-3ubuntu2) ... 428s Setting up liblapack3:amd64 (3.12.1-2) ... 428s 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 428s Setting up libpcre2-dev:amd64 (10.45-1) ... 428s Setting up fontconfig-config (2.15.0-2.2ubuntu1) ... 429s Setting up libpng-dev:amd64 (1.6.47-1.1) ... 429s Setting up libpaper-utils (2.2.5-0.3) ... 429s Setting up pkgconf:amd64 (1.8.1-4) ... 429s Setting up libthai0:amd64 (0.1.29-2build1) ... 429s Setting up liblapack-dev:amd64 (3.12.1-2) ... 429s 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 429s Setting up cpp-14-x86-64-linux-gnu (14.2.0-19ubuntu2) ... 429s Setting up cpp-14 (14.2.0-19ubuntu2) ... 429s Setting up libtiff6:amd64 (4.7.0-3ubuntu1) ... 429s Setting up libfontconfig1:amd64 (2.15.0-2.2ubuntu1) ... 429s Setting up libgcc-14-dev:amd64 (14.2.0-19ubuntu2) ... 429s Setting up libjpeg8-dev:amd64 (8c-2ubuntu11) ... 429s Setting up libstdc++-14-dev:amd64 (14.2.0-19ubuntu2) ... 429s Setting up libsm6:amd64 (2:1.2.4-1) ... 429s Setting up cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 429s Setting up libgfortran-14-dev:amd64 (14.2.0-19ubuntu2) ... 429s Setting up fontconfig (2.15.0-2.2ubuntu1) ... 431s Regenerating fonts cache... done. 431s Setting up libxft2:amd64 (2.3.6-1build1) ... 431s Setting up libboost1.83-dev:amd64 (1.83.0-4.2ubuntu1) ... 431s Setting up libtk8.6:amd64 (8.6.16-1) ... 431s Setting up libpango-1.0-0:amd64 (1.56.3-1) ... 431s Setting up libjpeg-dev:amd64 (8c-2ubuntu11) ... 431s Setting up libcairo2:amd64 (1.18.4-1) ... 431s Setting up libxt6t64:amd64 (1:1.2.1-1.2build1) ... 431s Setting up cpp (4:14.2.0-1ubuntu1) ... 431s Setting up libboost-dev:amd64 (1.83.0.2ubuntu1) ... 431s Setting up gcc-14-x86-64-linux-gnu (14.2.0-19ubuntu2) ... 431s Setting up libpangoft2-1.0-0:amd64 (1.56.3-1) ... 431s Setting up libpangocairo-1.0-0:amd64 (1.56.3-1) ... 431s Setting up gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 431s Setting up gcc-14 (14.2.0-19ubuntu2) ... 431s Setting up gfortran-14-x86-64-linux-gnu (14.2.0-19ubuntu2) ... 431s Setting up r-base-core (4.5.0-3) ... 431s Creating config file /etc/R/Renviron with new version 431s Setting up r-cran-crayon (1.5.3-1) ... 431s Setting up r-cran-futile.options (1.0.1-3build1) ... 431s Setting up r-cran-lattice (0.22-6-1) ... 431s Setting up g++-14-x86-64-linux-gnu (14.2.0-19ubuntu2) ... 431s Setting up r-cran-formatr (1.14-2) ... 431s Setting up r-cran-xml (3.99-0.18-1) ... 431s Setting up r-cran-statmod (1.5.0-1) ... 431s Setting up g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 431s Setting up g++-14 (14.2.0-19ubuntu2) ... 431s Setting up r-cran-rjson (0.2.23-1) ... 431s Setting up r-cran-r6 (2.6.1-1) ... 431s Setting up gfortran-14 (14.2.0-19ubuntu2) ... 431s Setting up r-bioc-genomeinfodbdata (1.2.13-2) ... 431s Setting up r-cran-bh (1.84.0-1) ... 431s Setting up r-cran-curl (6.2.1+dfsg-1ubuntu1) ... 431s Setting up r-cran-codetools (0.2-20-1) ... 431s Setting up r-bioc-biocgenerics (0.52.0-2) ... 431s Setting up r-cran-rlang (1.1.5-3) ... 431s Setting up r-cran-matrixstats (1.5.0-1) ... 431s Setting up r-bioc-matrixgenerics (1.18.1-1) ... 431s Setting up r-cran-sys (3.4.3-1) ... 431s Setting up r-cran-plogr (0.2.0-3build1) ... 431s Setting up r-cran-mime (0.12-2) ... 431s Setting up r-cran-abind (1.4-8-1) ... 431s Setting up r-cran-yaml (2.3.10-1) ... 431s Setting up r-cran-lambda.r (1.2.4-2build1) ... 431s Setting up r-cran-dbi (1.2.3-1) ... 431s Setting up r-cran-snow (1:0.4.4-2) ... 431s Setting up r-cran-glue (1.8.0-1) ... 431s Setting up r-cran-bit (4.6.0+dfsg-1) ... 431s Setting up gfortran-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 431s Setting up r-cran-xtable (1:1.8-4-2) ... 431s Setting up r-cran-cli (3.6.4-1) ... 431s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ... 431s Setting up r-cran-bitops (1.0-9-1) ... 431s Setting up r-cran-bit64 (4.6.0-1-1ubuntu2) ... 431s Setting up gcc (4:14.2.0-1ubuntu1) ... 431s Setting up r-bioc-zlibbioc (1.52.0+dfsg-2) ... 431s Setting up r-cran-askpass (1.2.1-1) ... 431s Setting up r-cran-fastmap (1.2.0-1) ... 431s Setting up r-cran-png (0.1-8-1build2) ... 431s Setting up r-bioc-biobase (2.66.0-2) ... 431s Setting up r-cran-jsonlite (1.9.1+dfsg-1) ... 431s Setting up r-cran-pkgconfig (2.0.3-2build1) ... 431s Setting up r-cran-cpp11 (0.5.2-1) ... 431s Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ... 431s Setting up r-cran-runit (0.4.33-1) ... 431s Setting up r-cran-futile.logger (1.4.3-4build1) ... 431s Setting up r-bioc-limma (3.62.2+dfsg-1) ... 431s Setting up r-cran-matrix (1.7-3-1) ... 431s Setting up g++ (4:14.2.0-1ubuntu1) ... 431s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 431s Setting up r-cran-cachem (1.1.0-1) ... 431s Setting up build-essential (12.12ubuntu1) ... 431s Setting up r-bioc-iranges (2.40.1-3) ... 431s Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ... 431s Setting up r-cran-restfulr (0.0.15-1) ... 431s Setting up r-cran-vctrs (0.6.5-1) ... 431s Setting up r-cran-openssl (2.3.2+dfsg-1) ... 431s Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ... 431s Setting up r-bioc-biocparallel (1.40.0-2) ... 431s Setting up r-bioc-rhtslib (3.2.0+dfsg-2) ... 431s Setting up r-cran-survival (3.8-3-1) ... 431s Setting up r-bioc-biocio (1.16.0+dfsg-2) ... 431s Setting up gfortran (4:14.2.0-1ubuntu1) ... 431s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode 431s 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 431s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode 431s 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 431s Setting up r-cran-httr (1.4.7+dfsg-1) ... 431s Setting up r-cran-memoise (2.0.1-1) ... 431s Setting up r-cran-blob (1.2.4-1) ... 431s Setting up r-bioc-xvector (0.46.0-2) ... 431s Setting up r-cran-rsqlite (2.3.9-1) ... 431s Setting up r-base-dev (4.5.0-3) ... 431s Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ... 431s Setting up r-bioc-sparsearray (1.6.2+dfsg-1) ... 431s Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ... 431s Setting up pkg-r-autopkgtest (20231212ubuntu1) ... 431s Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ... 431s Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ... 431s Setting up r-bioc-biostrings (2.74.1+dfsg-2) ... 431s Setting up r-bioc-rsamtools (2.22.0+dfsg-2) ... 431s Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... 431s Setting up r-bioc-keggrest (1.46.0+dfsg-2) ... 431s Setting up r-bioc-annotationdbi (1.68.0-2) ... 431s Setting up r-bioc-annotate (1.84.0+dfsg-2) ... 431s Setting up r-bioc-genefilter (1.88.0-2) ... 431s Setting up r-bioc-genomicalignments (1.42.0-2) ... 431s Setting up r-bioc-org.hs.eg.db (3.20.0-3) ... 431s Setting up r-bioc-rtracklayer (1.66.0-2) ... 431s Setting up r-bioc-genomicfeatures (1.58.0+dfsg-2) ... 431s Setting up r-bioc-bsgenome (1.74.0-2) ... 431s Processing triggers for libc-bin (2.41-6ubuntu1) ... 431s Processing triggers for man-db (2.13.0-1) ... 433s Processing triggers for install-info (7.1.1-1) ... 434s autopkgtest [22:23:21]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest 434s autopkgtest [22:23:21]: test pkg-r-autopkgtest: [----------------------- 434s Test: Try to load the R library rtracklayer 434s 434s R version 4.5.0 (2025-04-11) -- "How About a Twenty-Six" 434s Copyright (C) 2025 The R Foundation for Statistical Computing 434s Platform: x86_64-pc-linux-gnu 434s 434s R is free software and comes with ABSOLUTELY NO WARRANTY. 434s You are welcome to redistribute it under certain conditions. 434s Type 'license()' or 'licence()' for distribution details. 434s 434s R is a collaborative project with many contributors. 434s Type 'contributors()' for more information and 434s 'citation()' on how to cite R or R packages in publications. 434s 434s Type 'demo()' for some demos, 'help()' for on-line help, or 434s 'help.start()' for an HTML browser interface to help. 434s Type 'q()' to quit R. 434s 434s > library('rtracklayer') 434s Loading required package: GenomicRanges 434s Loading required package: stats4 434s Loading required package: BiocGenerics 435s 435s Attaching package: ‘BiocGenerics’ 435s 435s The following objects are masked from ‘package:stats’: 435s 435s IQR, mad, sd, var, xtabs 435s 435s The following objects are masked from ‘package:base’: 435s 435s anyDuplicated, aperm, append, as.data.frame, basename, cbind, 435s colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find, 435s get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply, 435s match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, 435s Position, rank, rbind, Reduce, rownames, sapply, saveRDS, setdiff, 435s table, tapply, union, unique, unsplit, which.max, which.min 435s 435s Loading required package: S4Vectors 435s 435s Attaching package: ‘S4Vectors’ 435s 435s The following object is masked from ‘package:utils’: 435s 435s findMatches 435s 435s The following objects are masked from ‘package:base’: 435s 435s expand.grid, I, unname 435s 435s Loading required package: IRanges 436s Loading required package: GenomeInfoDb 442s > 442s Other tests are currently unsupported! 442s They will be progressively added. 442s autopkgtest [22:23:29]: test pkg-r-autopkgtest: -----------------------] 443s autopkgtest [22:23:30]: test pkg-r-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 443s pkg-r-autopkgtest PASS 443s autopkgtest [22:23:30]: @@@@@@@@@@@@@@@@@@@@ summary 443s pkg-r-autopkgtest PASS 459s nova [W] Skipping flock for amd64 459s Creating nova instance adt-questing-amd64-r-bioc-rtracklayer-20250503-221607-juju-7f2275-prod-proposed-migration-environment-23-98c73cd3-760b-464f-950e-3465a9c4ef9a from image adt/ubuntu-questing-amd64-server-20250503.img (UUID 57b7c1b6-ad80-4bdb-b031-36f045f7f3b3)... 459s nova [W] nova quota exceeded (attempt #0) 459s nova [W] Timed out waiting for 97c2cacd-7cb2-482b-8d69-25a2de019eed to get deleted.