0s autopkgtest [15:57:46]: starting date and time: 2025-03-15 15:57:46+0000 0s autopkgtest [15:57:46]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [15:57:46]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.kvqw_fhx/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com\n" >> /etc/environment' --apt-pocket=proposed=src:glibc --apt-upgrade r-cran-ape --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- lxd -r lxd-armhf-10.145.243.85 lxd-armhf-10.145.243.85:autopkgtest/ubuntu/plucky/armhf 21s autopkgtest [15:58:07]: testbed dpkg architecture: armhf 23s autopkgtest [15:58:09]: testbed apt version: 2.9.33 27s autopkgtest [15:58:13]: @@@@@@@@@@@@@@@@@@@@ test bed setup 30s autopkgtest [15:58:15]: testbed release detected to be: None 36s autopkgtest [15:58:22]: updating testbed package index (apt update) 38s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 39s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 39s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 39s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 39s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 40s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 40s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 40s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [114 kB] 40s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1832 B] 40s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 40s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [312 kB] 40s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [11.1 kB] 40s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3472 B] 40s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [240 B] 40s Get:15 http://ftpmaster.internal/ubuntu plucky/main Sources [1394 kB] 42s Get:16 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 42s Get:17 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 65s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 66s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.4 kB] 67s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 67s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.1 MB] 82s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 84s Fetched 41.0 MB in 46s (897 kB/s) 85s Reading package lists... 91s autopkgtest [15:59:17]: upgrading testbed (apt dist-upgrade and autopurge) 93s Reading package lists... 93s Building dependency tree... 93s Reading state information... 94s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 94s Starting 2 pkgProblemResolver with broken count: 0 94s Done 95s Entering ResolveByKeep 95s 95s Calculating upgrade... 96s The following packages will be upgraded: 96s libc-bin libc6 locales pinentry-curses python3-jinja2 sos strace 96s 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 96s Need to get 8683 kB of archives. 96s After this operation, 23.6 kB of additional disk space will be used. 96s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6 armhf 2.41-1ubuntu2 [2932 kB] 100s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-bin armhf 2.41-1ubuntu2 [545 kB] 100s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf locales all 2.41-1ubuntu2 [4246 kB] 104s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 105s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf pinentry-curses armhf 1.3.1-2ubuntu3 [40.6 kB] 105s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 105s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 106s Preconfiguring packages ... 106s Fetched 8683 kB in 9s (951 kB/s) 106s (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 ... 64655 files and directories currently installed.) 106s Preparing to unpack .../libc6_2.41-1ubuntu2_armhf.deb ... 106s Unpacking libc6:armhf (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 107s Setting up libc6:armhf (2.41-1ubuntu2) ... 107s (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 ... 64655 files and directories currently installed.) 107s Preparing to unpack .../libc-bin_2.41-1ubuntu2_armhf.deb ... 107s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 107s Setting up libc-bin (2.41-1ubuntu2) ... 108s (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 ... 64655 files and directories currently installed.) 108s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 108s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 108s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 108s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 108s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_armhf.deb ... 108s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 108s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 108s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 108s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 108s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 109s Setting up sos (4.9.0-5) ... 109s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 109s Setting up locales (2.41-1ubuntu2) ... 110s Generating locales (this might take a while)... 115s en_US.UTF-8... done 115s Generation complete. 115s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 115s Setting up strace (6.13+ds-1ubuntu1) ... 115s Processing triggers for man-db (2.13.0-1) ... 116s Processing triggers for systemd (257.3-1ubuntu3) ... 119s Reading package lists... 119s Building dependency tree... 119s Reading state information... 120s Starting pkgProblemResolver with broken count: 0 120s Starting 2 pkgProblemResolver with broken count: 0 120s Done 121s Solving dependencies... 122s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 124s autopkgtest [15:59:50]: rebooting testbed after setup commands that affected boot 165s autopkgtest [16:00:31]: testbed running kernel: Linux 6.8.0-52-generic #53~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jan 15 18:10:51 UTC 2 190s autopkgtest [16:00:56]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-ape 203s Get:1 http://ftpmaster.internal/ubuntu plucky/universe r-cran-ape 5.8-1-1 (dsc) [2114 B] 203s Get:2 http://ftpmaster.internal/ubuntu plucky/universe r-cran-ape 5.8-1-1 (tar) [1425 kB] 203s Get:3 http://ftpmaster.internal/ubuntu plucky/universe r-cran-ape 5.8-1-1 (diff) [5600 B] 203s gpgv: Signature made Wed Jan 22 08:35:21 2025 UTC 203s gpgv: using RSA key 73471499CC60ED9EEE805946C5BD6C8F2295D502 203s gpgv: issuer "plessy@debian.org" 203s gpgv: Can't check signature: No public key 203s dpkg-source: warning: cannot verify inline signature for ./r-cran-ape_5.8-1-1.dsc: no acceptable signature found 203s autopkgtest [16:01:09]: testing package r-cran-ape version 5.8-1-1 205s autopkgtest [16:01:11]: build not needed 209s autopkgtest [16:01:15]: test run-unit-test: preparing testbed 211s Reading package lists... 212s Building dependency tree... 212s Reading state information... 212s Starting pkgProblemResolver with broken count: 0 212s Starting 2 pkgProblemResolver with broken count: 0 212s Done 214s The following NEW packages will be installed: 214s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libamd3 214s libblas3 libcairo2 libcolamd3 libdatrie1 libdeflate0 libfontconfig1 214s libfreetype6 libgfortran5 libglpk40 libgomp1 libgraphite2-3 libharfbuzz0b 214s libice6 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 libltdl7 214s libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils 214s libpaper2 libpixman-1-0 libsharpyuv0 libsm6 libsuitesparseconfig7 libtcl8.6 214s libthai-data libthai0 libtiff6 libtk8.6 libwebp7 libxcb-render0 libxcb-shm0 214s libxft2 libxrender1 libxss1 libxt6t64 littler r-base-core r-cran-ape 214s r-cran-cli r-cran-cpp11 r-cran-digest r-cran-fastmatch r-cran-generics 214s r-cran-glue r-cran-igraph r-cran-lattice r-cran-lifecycle r-cran-littler 214s r-cran-magrittr r-cran-matrix r-cran-nlme r-cran-phangorn r-cran-pkgconfig 214s r-cran-pkgkitten r-cran-quadprog r-cran-rcpp r-cran-rlang r-cran-vctrs unzip 214s x11-common xdg-utils zip 214s 0 upgraded, 72 newly installed, 0 to remove and 0 not upgraded. 214s Need to get 63.1 MB of archives. 214s After this operation, 117 MB of additional disk space will be used. 214s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [330 kB] 214s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-mono all 2.37-8 [502 kB] 215s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-core all 2.37-8 [835 kB] 216s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf fontconfig-config armhf 2.15.0-2ubuntu1 [37.5 kB] 216s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf libfontconfig1 armhf 2.15.0-2ubuntu1 [114 kB] 216s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf fontconfig armhf 2.15.0-2ubuntu1 [190 kB] 216s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libgomp1 armhf 15-20250222-0ubuntu1 [128 kB] 217s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libsuitesparseconfig7 armhf 1:7.8.3+dfsg-3 [12.7 kB] 217s Get:9 http://ftpmaster.internal/ubuntu plucky/universe armhf libamd3 armhf 1:7.8.3+dfsg-3 [29.2 kB] 217s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.1-2 [132 kB] 217s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libpixman-1-0 armhf 0.44.0-3 [183 kB] 217s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-render0 armhf 1.17.0-2 [15.3 kB] 217s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-shm0 armhf 1.17.0-2 [5774 B] 217s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libxrender1 armhf 1:0.9.10-1.1build1 [16.0 kB] 217s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libcairo2 armhf 1.18.2-2 [484 kB] 218s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libcolamd3 armhf 1:7.8.3+dfsg-3 [19.8 kB] 218s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libdatrie1 armhf 0.2.13-3build1 [15.7 kB] 218s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate0 armhf 1.23-1 [38.5 kB] 218s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 15-20250222-0ubuntu1 [330 kB] 218s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libltdl7 armhf 2.5.4-4 [39.8 kB] 218s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf libglpk40 armhf 5.0-1build2 [326 kB] 219s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libgraphite2-3 armhf 1.3.14-2ubuntu1 [64.8 kB] 219s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf libharfbuzz0b armhf 10.2.0-1 [464 kB] 219s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf x11-common all 1:7.7+23ubuntu3 [21.7 kB] 219s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf libice6 armhf 2:1.1.1-1 [36.5 kB] 219s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-turbo8 armhf 2.1.5-3ubuntu2 [127 kB] 220s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg8 armhf 8c-2ubuntu11 [2148 B] 220s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.1-2 [2091 kB] 222s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf liblerc4 armhf 4.0.0+ds-5ubuntu1 [160 kB] 222s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf libthai-data all 0.1.29-2build1 [158 kB] 222s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf libthai0 armhf 0.1.29-2build1 [15.2 kB] 222s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf libpango-1.0-0 armhf 1.56.2-1 [216 kB] 222s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libpangoft2-1.0-0 armhf 1.56.2-1 [43.6 kB] 222s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libpangocairo-1.0-0 armhf 1.56.2-1 [25.1 kB] 222s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libpaper2 armhf 2.2.5-0.3 [16.3 kB] 222s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libpaper-utils armhf 2.2.5-0.3 [14.2 kB] 222s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libsharpyuv0 armhf 1.5.0-0.1 [16.4 kB] 222s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libsm6 armhf 2:1.2.4-1 [15.1 kB] 222s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf libtcl8.6 armhf 8.6.16+dfsg-1 [909 kB] 223s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf libjbig0 armhf 2.1-6.1ubuntu2 [24.9 kB] 223s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libwebp7 armhf 1.5.0-0.1 [188 kB] 224s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf libtiff6 armhf 4.5.1+git230720-4ubuntu4 [179 kB] 224s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf libxft2 armhf 2.3.6-1build1 [37.4 kB] 224s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf libxss1 armhf 1:1.2.3-1build3 [6500 B] 224s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf libtk8.6 armhf 8.6.16-1 [686 kB] 225s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf libxt6t64 armhf 1:1.2.1-1.2build1 [145 kB] 225s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf zip armhf 3.0-14ubuntu2 [164 kB] 225s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf unzip armhf 6.0-28ubuntu6 [167 kB] 225s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 225s Get:50 http://ftpmaster.internal/ubuntu plucky/universe armhf r-base-core armhf 4.4.3-1 [28.2 MB] 277s Get:51 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-littler armhf 0.3.20-2 [90.9 kB] 277s Get:52 http://ftpmaster.internal/ubuntu plucky/universe armhf littler all 0.3.20-2 [2554 B] 277s Get:53 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-lattice armhf 0.22-6-1 [1363 kB] 278s Get:54 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-nlme armhf 3.1.167-1 [2306 kB] 280s Get:55 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-pkgkitten all 0.2.4-1 [27.2 kB] 280s Get:56 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-rcpp armhf 1.0.14-1 [1976 kB] 283s Get:57 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-digest armhf 0.6.37-1 [207 kB] 283s Get:58 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-ape armhf 5.8-1-1 [2891 kB] 286s Get:59 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-cli armhf 3.6.4-1 [1377 kB] 288s Get:60 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-cpp11 all 0.5.2-1 [233 kB] 288s Get:61 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-fastmatch armhf 1.1-6-1 [34.2 kB] 289s Get:62 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-generics all 0.1.3-1 [81.3 kB] 289s Get:63 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-glue armhf 1.8.0-1 [162 kB] 289s Get:64 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-rlang armhf 1.1.5-1 [1701 kB] 291s Get:65 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 291s Get:66 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-magrittr armhf 2.0.3-1 [154 kB] 291s Get:67 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-matrix armhf 1.7-3-1 [4039 kB] 296s Get:68 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 296s Get:69 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-vctrs armhf 0.6.5-1 [1310 kB] 298s Get:70 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-igraph armhf 2.1.4-1 [5211 kB] 304s Get:71 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-quadprog armhf 1.5-8-1build1 [28.7 kB] 304s Get:72 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-phangorn armhf 2.12.1+dfsg-1 [1797 kB] 306s Preconfiguring packages ... 306s Fetched 63.1 MB in 1min 32s (686 kB/s) 306s Selecting previously unselected package libfreetype6:armhf. 307s (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 ... 64655 files and directories currently installed.) 307s Preparing to unpack .../00-libfreetype6_2.13.3+dfsg-1_armhf.deb ... 307s Unpacking libfreetype6:armhf (2.13.3+dfsg-1) ... 307s Selecting previously unselected package fonts-dejavu-mono. 307s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 307s Unpacking fonts-dejavu-mono (2.37-8) ... 307s Selecting previously unselected package fonts-dejavu-core. 307s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 307s Unpacking fonts-dejavu-core (2.37-8) ... 307s Selecting previously unselected package fontconfig-config. 307s Preparing to unpack .../03-fontconfig-config_2.15.0-2ubuntu1_armhf.deb ... 307s Unpacking fontconfig-config (2.15.0-2ubuntu1) ... 307s Selecting previously unselected package libfontconfig1:armhf. 307s Preparing to unpack .../04-libfontconfig1_2.15.0-2ubuntu1_armhf.deb ... 307s Unpacking libfontconfig1:armhf (2.15.0-2ubuntu1) ... 307s Selecting previously unselected package fontconfig. 307s Preparing to unpack .../05-fontconfig_2.15.0-2ubuntu1_armhf.deb ... 307s Unpacking fontconfig (2.15.0-2ubuntu1) ... 307s Selecting previously unselected package libgomp1:armhf. 307s Preparing to unpack .../06-libgomp1_15-20250222-0ubuntu1_armhf.deb ... 307s Unpacking libgomp1:armhf (15-20250222-0ubuntu1) ... 307s Selecting previously unselected package libsuitesparseconfig7:armhf. 307s Preparing to unpack .../07-libsuitesparseconfig7_1%3a7.8.3+dfsg-3_armhf.deb ... 307s Unpacking libsuitesparseconfig7:armhf (1:7.8.3+dfsg-3) ... 307s Selecting previously unselected package libamd3:armhf. 307s Preparing to unpack .../08-libamd3_1%3a7.8.3+dfsg-3_armhf.deb ... 307s Unpacking libamd3:armhf (1:7.8.3+dfsg-3) ... 307s Selecting previously unselected package libblas3:armhf. 307s Preparing to unpack .../09-libblas3_3.12.1-2_armhf.deb ... 307s Unpacking libblas3:armhf (3.12.1-2) ... 307s Selecting previously unselected package libpixman-1-0:armhf. 307s Preparing to unpack .../10-libpixman-1-0_0.44.0-3_armhf.deb ... 307s Unpacking libpixman-1-0:armhf (0.44.0-3) ... 308s Selecting previously unselected package libxcb-render0:armhf. 308s Preparing to unpack .../11-libxcb-render0_1.17.0-2_armhf.deb ... 308s Unpacking libxcb-render0:armhf (1.17.0-2) ... 308s Selecting previously unselected package libxcb-shm0:armhf. 308s Preparing to unpack .../12-libxcb-shm0_1.17.0-2_armhf.deb ... 308s Unpacking libxcb-shm0:armhf (1.17.0-2) ... 308s Selecting previously unselected package libxrender1:armhf. 308s Preparing to unpack .../13-libxrender1_1%3a0.9.10-1.1build1_armhf.deb ... 308s Unpacking libxrender1:armhf (1:0.9.10-1.1build1) ... 308s Selecting previously unselected package libcairo2:armhf. 308s Preparing to unpack .../14-libcairo2_1.18.2-2_armhf.deb ... 308s Unpacking libcairo2:armhf (1.18.2-2) ... 308s Selecting previously unselected package libcolamd3:armhf. 308s Preparing to unpack .../15-libcolamd3_1%3a7.8.3+dfsg-3_armhf.deb ... 308s Unpacking libcolamd3:armhf (1:7.8.3+dfsg-3) ... 308s Selecting previously unselected package libdatrie1:armhf. 308s Preparing to unpack .../16-libdatrie1_0.2.13-3build1_armhf.deb ... 308s Unpacking libdatrie1:armhf (0.2.13-3build1) ... 308s Selecting previously unselected package libdeflate0:armhf. 308s Preparing to unpack .../17-libdeflate0_1.23-1_armhf.deb ... 308s Unpacking libdeflate0:armhf (1.23-1) ... 308s Selecting previously unselected package libgfortran5:armhf. 308s Preparing to unpack .../18-libgfortran5_15-20250222-0ubuntu1_armhf.deb ... 308s Unpacking libgfortran5:armhf (15-20250222-0ubuntu1) ... 308s Selecting previously unselected package libltdl7:armhf. 308s Preparing to unpack .../19-libltdl7_2.5.4-4_armhf.deb ... 308s Unpacking libltdl7:armhf (2.5.4-4) ... 308s Selecting previously unselected package libglpk40:armhf. 308s Preparing to unpack .../20-libglpk40_5.0-1build2_armhf.deb ... 308s Unpacking libglpk40:armhf (5.0-1build2) ... 308s Selecting previously unselected package libgraphite2-3:armhf. 308s Preparing to unpack .../21-libgraphite2-3_1.3.14-2ubuntu1_armhf.deb ... 308s Unpacking libgraphite2-3:armhf (1.3.14-2ubuntu1) ... 308s Selecting previously unselected package libharfbuzz0b:armhf. 308s Preparing to unpack .../22-libharfbuzz0b_10.2.0-1_armhf.deb ... 308s Unpacking libharfbuzz0b:armhf (10.2.0-1) ... 308s Selecting previously unselected package x11-common. 308s Preparing to unpack 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(4.0.0+ds-5ubuntu1) ... 308s Selecting previously unselected package libthai-data. 309s Preparing to unpack .../29-libthai-data_0.1.29-2build1_all.deb ... 309s Unpacking libthai-data (0.1.29-2build1) ... 309s Selecting previously unselected package libthai0:armhf. 309s Preparing to unpack .../30-libthai0_0.1.29-2build1_armhf.deb ... 309s Unpacking libthai0:armhf (0.1.29-2build1) ... 309s Selecting previously unselected package libpango-1.0-0:armhf. 309s Preparing to unpack .../31-libpango-1.0-0_1.56.2-1_armhf.deb ... 309s Unpacking libpango-1.0-0:armhf (1.56.2-1) ... 309s Selecting previously unselected package libpangoft2-1.0-0:armhf. 309s Preparing to unpack .../32-libpangoft2-1.0-0_1.56.2-1_armhf.deb ... 309s Unpacking libpangoft2-1.0-0:armhf (1.56.2-1) ... 309s Selecting previously unselected package libpangocairo-1.0-0:armhf. 309s Preparing to unpack .../33-libpangocairo-1.0-0_1.56.2-1_armhf.deb ... 309s Unpacking libpangocairo-1.0-0:armhf (1.56.2-1) ... 309s Selecting previously unselected package libpaper2:armhf. 309s Preparing to unpack .../34-libpaper2_2.2.5-0.3_armhf.deb ... 309s Unpacking libpaper2:armhf (2.2.5-0.3) ... 309s Selecting previously unselected package libpaper-utils. 309s Preparing to unpack .../35-libpaper-utils_2.2.5-0.3_armhf.deb ... 309s Unpacking libpaper-utils (2.2.5-0.3) ... 309s Selecting previously unselected package libsharpyuv0:armhf. 309s Preparing to unpack .../36-libsharpyuv0_1.5.0-0.1_armhf.deb ... 309s Unpacking libsharpyuv0:armhf (1.5.0-0.1) ... 309s Selecting previously unselected package libsm6:armhf. 309s Preparing to unpack .../37-libsm6_2%3a1.2.4-1_armhf.deb ... 309s Unpacking libsm6:armhf (2:1.2.4-1) ... 309s Selecting previously unselected package libtcl8.6:armhf. 309s Preparing to unpack .../38-libtcl8.6_8.6.16+dfsg-1_armhf.deb ... 309s Unpacking libtcl8.6:armhf (8.6.16+dfsg-1) ... 309s Selecting previously unselected package libjbig0:armhf. 309s Preparing to unpack .../39-libjbig0_2.1-6.1ubuntu2_armhf.deb ... 309s 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libxt6t64:armhf. 309s Preparing to unpack .../45-libxt6t64_1%3a1.2.1-1.2build1_armhf.deb ... 309s Unpacking libxt6t64:armhf (1:1.2.1-1.2build1) ... 309s Selecting previously unselected package zip. 309s Preparing to unpack .../46-zip_3.0-14ubuntu2_armhf.deb ... 309s Unpacking zip (3.0-14ubuntu2) ... 309s Selecting previously unselected package unzip. 310s Preparing to unpack .../47-unzip_6.0-28ubuntu6_armhf.deb ... 310s Unpacking unzip (6.0-28ubuntu6) ... 310s Selecting previously unselected package xdg-utils. 310s Preparing to unpack .../48-xdg-utils_1.2.1-2ubuntu1_all.deb ... 310s Unpacking xdg-utils (1.2.1-2ubuntu1) ... 310s Selecting previously unselected package r-base-core. 310s Preparing to unpack .../49-r-base-core_4.4.3-1_armhf.deb ... 310s Unpacking r-base-core (4.4.3-1) ... 310s Selecting previously unselected package r-cran-littler. 310s Preparing to unpack .../50-r-cran-littler_0.3.20-2_armhf.deb ... 310s Unpacking r-cran-littler (0.3.20-2) ... 310s Selecting previously unselected package littler. 310s Preparing to unpack .../51-littler_0.3.20-2_all.deb ... 310s Unpacking littler (0.3.20-2) ... 310s Selecting previously unselected package r-cran-lattice. 310s Preparing to unpack .../52-r-cran-lattice_0.22-6-1_armhf.deb ... 310s Unpacking r-cran-lattice (0.22-6-1) ... 310s Selecting previously unselected package r-cran-nlme. 310s Preparing to unpack .../53-r-cran-nlme_3.1.167-1_armhf.deb ... 310s Unpacking r-cran-nlme (3.1.167-1) ... 310s Selecting previously unselected package r-cran-pkgkitten. 310s Preparing to unpack .../54-r-cran-pkgkitten_0.2.4-1_all.deb ... 310s Unpacking r-cran-pkgkitten (0.2.4-1) ... 310s Selecting previously unselected package r-cran-rcpp. 310s Preparing to unpack .../55-r-cran-rcpp_1.0.14-1_armhf.deb ... 310s Unpacking r-cran-rcpp (1.0.14-1) ... 311s Selecting previously unselected package r-cran-digest. 311s Preparing to unpack .../56-r-cran-digest_0.6.37-1_armhf.deb ... 311s Unpacking r-cran-digest (0.6.37-1) ... 311s 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(1.17.0-2) ... 312s Setting up unzip (6.0-28ubuntu6) ... 312s Setting up x11-common (1:7.7+23ubuntu3) ... 312s Setting up libdeflate0:armhf (1.23-1) ... 312s Setting up libxcb-shm0:armhf (1.17.0-2) ... 312s Setting up libgomp1:armhf (15-20250222-0ubuntu1) ... 312s Setting up libjbig0:armhf (2.1-6.1ubuntu2) ... 312s Setting up zip (3.0-14ubuntu2) ... 312s Setting up libblas3:armhf (3.12.1-2) ... 312s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 312s Setting up libfreetype6:armhf (2.13.3+dfsg-1) ... 312s Setting up fonts-dejavu-mono (2.37-8) ... 312s Setting up libtcl8.6:armhf (8.6.16+dfsg-1) ... 312s Setting up fonts-dejavu-core (2.37-8) ... 312s Setting up libjpeg-turbo8:armhf (2.1.5-3ubuntu2) ... 312s Setting up libltdl7:armhf (2.5.4-4) ... 312s Setting up libgfortran5:armhf (15-20250222-0ubuntu1) ... 312s Setting up libwebp7:armhf (1.5.0-0.1) ... 312s Setting up libsuitesparseconfig7:armhf (1:7.8.3+dfsg-3) ... 312s Setting up libharfbuzz0b:armhf (10.2.0-1) ... 312s Setting up libthai-data (0.1.29-2build1) ... 312s Setting up libxss1:armhf (1:1.2.3-1build3) ... 312s Setting up libpaper2:armhf (2.2.5-0.3) ... 313s Setting up xdg-utils (1.2.1-2ubuntu1) ... 313s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 313s Setting up libjpeg8:armhf (8c-2ubuntu11) ... 313s Setting up libice6:armhf (2:1.1.1-1) ... 313s Setting up liblapack3:armhf (3.12.1-2) ... 313s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 313s Setting up libamd3:armhf (1:7.8.3+dfsg-3) ... 313s Setting up libcolamd3:armhf (1:7.8.3+dfsg-3) ... 313s Setting up fontconfig-config (2.15.0-2ubuntu1) ... 313s Setting up libpaper-utils (2.2.5-0.3) ... 313s Setting up libthai0:armhf (0.1.29-2build1) ... 313s Setting up libglpk40:armhf (5.0-1build2) ... 313s Setting up libtiff6:armhf (4.5.1+git230720-4ubuntu4) ... 313s Setting up libfontconfig1:armhf (2.15.0-2ubuntu1) ... 313s Setting up libsm6:armhf (2:1.2.4-1) ... 313s Setting up fontconfig (2.15.0-2ubuntu1) ... 315s Regenerating fonts cache... done. 315s Setting up libxft2:armhf (2.3.6-1build1) ... 315s Setting up libtk8.6:armhf (8.6.16-1) ... 315s Setting up libpango-1.0-0:armhf (1.56.2-1) ... 315s Setting up libcairo2:armhf (1.18.2-2) ... 315s Setting up libxt6t64:armhf (1:1.2.1-1.2build1) ... 315s Setting up libpangoft2-1.0-0:armhf (1.56.2-1) ... 315s Setting up libpangocairo-1.0-0:armhf (1.56.2-1) ... 315s Setting up r-base-core (4.4.3-1) ... 315s Creating config file /etc/R/Renviron with new version 315s Setting up r-cran-fastmatch (1.1-6-1) ... 315s Setting up r-cran-lattice (0.22-6-1) ... 315s Setting up r-cran-nlme (3.1.167-1) ... 315s Setting up r-cran-pkgkitten (0.2.4-1) ... 315s Setting up r-cran-magrittr (2.0.3-1) ... 315s Setting up r-cran-quadprog (1.5-8-1build1) ... 315s Setting up r-cran-littler (0.3.20-2) ... 315s Setting up r-cran-rcpp (1.0.14-1) ... 315s Setting up r-cran-rlang (1.1.5-1) ... 315s Setting up littler (0.3.20-2) ... 315s Setting up r-cran-generics (0.1.3-1) ... 315s Setting up r-cran-digest (0.6.37-1) ... 315s Setting up r-cran-ape (5.8-1-1) ... 315s Setting up r-cran-glue (1.8.0-1) ... 315s Setting up r-cran-cli (3.6.4-1) ... 315s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ... 315s Setting up r-cran-pkgconfig (2.0.3-2build1) ... 315s Setting up r-cran-cpp11 (0.5.2-1) ... 315s Setting up r-cran-matrix (1.7-3-1) ... 315s Setting up r-cran-vctrs (0.6.5-1) ... 315s Setting up r-cran-igraph (2.1.4-1) ... 315s Setting up r-cran-phangorn (2.12.1+dfsg-1) ... 315s Processing triggers for libc-bin (2.41-1ubuntu2) ... 315s Processing triggers for man-db (2.13.0-1) ... 316s Processing triggers for install-info (7.1.1-1) ... 324s autopkgtest [16:03:10]: test run-unit-test: [----------------------- 326s 326s R version 4.4.3 (2025-02-28) -- "Trophy Case" 326s Copyright (C) 2025 The R Foundation for Statistical Computing 326s Platform: arm-unknown-linux-gnueabihf (32-bit) 326s 326s R is free software and comes with ABSOLUTELY NO WARRANTY. 326s You are welcome to redistribute it under certain conditions. 326s Type 'license()' or 'licence()' for distribution details. 326s 326s R is a collaborative project with many contributors. 326s Type 'contributors()' for more information and 326s 'citation()' on how to cite R or R packages in publications. 326s 326s Type 'demo()' for some demos, 'help()' for on-line help, or 326s 'help.start()' for an HTML browser interface to help. 326s Type 'q()' to quit R. 326s 326s > Stangle("DrawingPhylogenies.Rnw") 326s Writing to file DrawingPhylogenies.R 326s > source("DrawingPhylogenies.R", echo=TRUE) 326s 326s > options(width = 80, prompt = "> ") 326s 326s > library(ape) 327s 327s > mytr <- read.tree(text = "((Pan:5,Homo:5):2,Gorilla:7);") 327s 327s > foo <- function() { 327s + col <- "green" 327s + for (i in 1:2) axis(i, col = col, col.ticks = col, col.axis = col, 327s + las = 1) 327s + box(lty .... [TRUNCATED] 327s 327s > layout(matrix(1:4, 2, 2, byrow = TRUE)) 327s 327s > plot(mytr) 327s 327s > foo() 327s 327s > plot(mytr, "c", FALSE) 327s 327s > foo() 327s 327s > plot(mytr, "u") 327s 327s > foo() 327s 327s > par(xpd = TRUE) 327s 327s > plot(mytr, "f") 327s 327s > foo() 327s 327s > box("outer") 327s 327s > tr <- compute.brlen(stree(8, "l"), 0.1) 327s 327s > tr$tip.label[] <- "" 327s 327s > foo <- function() { 327s + col <- "green" 327s + axis(1, col = col, col.ticks = col, col.axis = col) 327s + axis(2, col = col, col.ticks = col, col.axi .... [TRUNCATED] 327s 327s > layout(matrix(1:12, 6, 2)) 327s 327s > par(mar = c(2, 2, 0.3, 0)) 327s 327s > for (type in c("p", "c")) { 327s + plot(tr, type) 327s + foo() 327s + plot(tr, type, node.pos = 2) 327s + foo() 327s + plot(tr, type, FALSE) 327s + foo() 327s .... [TRUNCATED] 327s 327s > foo <- function() { 327s + col <- "green" 327s + for (i in 1:2) axis(i, col = col, col.ticks = col, col.axis = col, 327s + las = 1) 327s + box(lty .... [TRUNCATED] 327s 327s > layout(matrix(1:4, 2, 2)) 327s 327s > par(las = 1) 327s 327s > plot(tr, "u") 327s 327s > foo() 327s 327s > plot(tr, "u", FALSE) 327s 327s > foo() 327s 327s > plot(tr, "f") 327s 327s > foo() 327s 327s > plot(tr, "f", FALSE) 327s 327s > foo() 327s 327s > args(node.depth.edgelength) 327s function (phy) 327s NULL 327s 327s > args(node.depth) 327s function (phy, method = 1) 327s NULL 327s 327s > args(node.height) 327s function (phy, clado.style = FALSE) 327s NULL 327s 327s > args(unrooted.xy) 327s function (Ntip, Nnode, edge, edge.length, nb.sp, rotate.tree) 327s NULL 327s 327s > args(phylogram.plot) 327s function (edge, Ntip, Nnode, xx, yy, horizontal, edge.color = NULL, 327s edge.width = NULL, edge.lty = NULL, node.color = NULL, node.width = NULL, 327s node.lty = NULL) 327s NULL 327s 327s > args(cladogram.plot) 327s function (edge, xx, yy, edge.color, edge.width, edge.lty) 327s NULL 327s 327s > args(circular.plot) 327s function (edge, Ntip, Nnode, xx, yy, theta, r, edge.color, edge.width, 327s edge.lty) 327s NULL 327s 327s > args(plot.phylo) 327s function (x, type = "phylogram", use.edge.length = TRUE, node.pos = NULL, 327s show.tip.label = TRUE, show.node.label = FALSE, edge.color = NULL, 327s edge.width = NULL, edge.lty = NULL, node.color = NULL, node.width = NULL, 327s node.lty = NULL, font = 3, cex = par("cex"), adj = NULL, 327s srt = 0, no.margin = FALSE, root.edge = FALSE, label.offset = 0, 327s underscore = FALSE, x.lim = NULL, y.lim = NULL, direction = "rightwards", 327s lab4ut = NULL, tip.color = par("col"), plot = TRUE, rotate.tree = 0, 327s open.angle = 0, node.depth = 1, align.tip.label = FALSE, 327s ...) 327s NULL 327s 327s > geo <- factor(c("Africa", "World", "Africa")) 327s 327s > (mycol <- c("blue", "red")[geo]) 327s [1] "blue" "red" "blue" 327s 327s > plot(mytr, tip.color = mycol) 327s 327s > par(xpd = TRUE) 327s 327s > plot(mytr, tip.color = mycol, cex = c(1, 1, 1.5)) 327s 327s > args(def) 327s function (x, ..., default = NULL, regexp = FALSE) 327s NULL 327s 327s > mycol2 <- def(mytr$tip.label, Homo = "red", default = "blue") 327s 327s > identical(mycol, mycol2) 327s [1] TRUE 327s 327s > (i <- which.edge(mytr, c("Homo", "Pan"))) 327s [1] 2 3 327s 327s > co <- rep("black", Nedge(mytr)) 327s 327s > co[i] <- "blue" 327s 327s > par(xpd = TRUE) 327s 327s > plot(mytr, edge.col = co) 327s 327s > edgelabels() 327s 327s > args(axisPhylo) 327s function (side = NULL, root.time = NULL, backward = TRUE, ...) 327s NULL 327s 327s > args(add.scale.bar) 327s function (x, y, length = NULL, ask = FALSE, lwd = 1, lcol = "black", 327s ...) 327s NULL 327s 327s > plot(mytr) 327s 327s > add.scale.bar() 327s 327s > axisPhylo() 327s 327s > axis(3) 327s 327s > args(nodelabels) 327s function (text, node, adj = c(0.5, 0.5), frame = "rect", pch = NULL, 327s thermo = NULL, pie = NULL, piecol = NULL, col = "black", 327s bg = "lightblue", horiz = FALSE, width = NULL, height = NULL, 327s ...) 327s NULL 327s 327s > args(tiplabels) 327s function (text, tip, adj = c(0.5, 0.5), frame = "rect", pch = NULL, 327s thermo = NULL, pie = NULL, piecol = NULL, col = "black", 327s bg = "yellow", horiz = FALSE, width = NULL, height = NULL, 327s offset = 0, ...) 327s NULL 327s 327s > args(edgelabels) 327s function (text, edge, adj = c(0.5, 0.5), frame = "rect", pch = NULL, 327s thermo = NULL, pie = NULL, piecol = NULL, col = "black", 327s bg = "lightgreen", horiz = FALSE, width = NULL, height = NULL, 327s date = NULL, ...) 327s NULL 327s 327s > par(xpd = TRUE) 327s 327s > plot(mytr) 327s 327s > nodelabels() 327s 327s > tiplabels() 327s 327s > edgelabels() 327s 327s > plot(rep(1:5, 5), rep(1:5, each = 5), pch = 1:25, 327s + xlim = c(1, 5.2), col = "blue", bg = "yellow", cex = 2) 327s 327s > text(rep(1:5, 5) + 0.2, rep(1:5, each = 5), 1:25) 327s 327s > v <- c(0, 0.5, 1) 327s 327s > layout(matrix(1:9, 3, 3)) 327s 327s > par(mar = c(3, 3, 3, 0), las = 1) 327s 327s > for (i in v) { 327s + for (j in v) { 327s + plot(0, 0, "n", main = paste0("adj = c(", i, ", ", j, 327s + ")")) 327s + abline(v = 0, h = .... [TRUNCATED] 327s 327s > plot(rep(0, 3), 0:2, "n", las = 1) 327s 327s > abline(v = 0, h = 0:2, lty = 3) 327s 327s > text(0, 0:2, mytr$tip.label, adj = -1) 327s 327s > text(0, 0:2, mytr$tip.label, adj = 2, font = 2) 327s 327s > args(phydataplot) 327s function (x, phy, style = "bars", offset = 1, scaling = 1, continuous = FALSE, 327s width = NULL, legend = "below", funcol = rainbow, ...) 327s NULL 327s 327s > args(ring) 327s function (x, phy, style = "ring", offset = 1, ...) 327s NULL 327s 327s > x <- matrix(1:6, 3, 10) 327s 327s > dimnames(x) <- list(c("Homo", "Gorilla", "Pan"), LETTERS[1:ncol(x)]) 327s 327s > x 327s A B C D E F G H I J 327s Homo 1 4 1 4 1 4 1 4 1 4 327s Gorilla 2 5 2 5 2 5 2 5 2 5 327s Pan 3 6 3 6 3 6 3 6 3 6 327s 327s > mytr$tip.label 327s [1] "Pan" "Homo" "Gorilla" 327s 327s > par(mar = c(10, 2, 5, 5)) 327s 327s > plot(mytr, x.lim = 30) 327s 327s > phydataplot(x, mytr, "m", border = "white", offset = 2, 327s + width = 1) 327s 327s > phydataplot(x, mytr, "m", border = "white", offset = 15, 327s + width = 1, continuous = 2) 327s 327s > n <- 100 327s 327s > p <- 3 327s 327s > set.seed(3) 327s 327s > tr <- rcoal(n) 327s 327s > x <- matrix(runif(p * n), n, p) 327s 327s > rownames(x) <- tr$tip.label 327s 327s > COL <- c("red", "green", "blue") 327s 327s > par(xpd = TRUE) 327s 327s > plot(tr, "f", x.lim = c(-5, 5), show.tip.label = FALSE, 327s + no.margin = TRUE) 327s 327s > for (j in 1:p) ring(x[, j], tr, offset = j - 1 + 0.1, 327s + col = COL[j]) 327s 327s > tree <- rtree(10) 327s 327s > tree$edge.length[1] <- 1000 327s 327s > layout(matrix(1:2, 1)) 327s 327s > plot(tree) 327s 327s > axisPhylo() 327s 327s > plotBreakLongEdges(tree) 327s 327s > axisPhylo() 327s 327s > el <- tree$edge.length 327s 327s > sum(el > mean(el) + 2 * sd(el)) 327s [1] 1 327s 327s > tree$edge.length[8] <- 1000 327s 327s > el <- tree$edge.length 327s 327s > sum(el > mean(el) + 2 * sd(el)) 327s [1] 2 327s 327s > layout(matrix(1:2, 1)) 327s 327s > plotBreakLongEdges(tree) 327s 327s > plotBreakLongEdges(tree, n = 2) 328s 328s > TR <- replicate(10, rcoal(sample(11:20, size = 1)), 328s + simplify = FALSE) 328s 328s > kronoviz(TR, type = "c", show.tip.label = FALSE) 328s 328s > dates <- as.Date(.leap.seconds) 328s 328s > tr <- rcoal(length(dates)) 328s 328s > plotTreeTime(tr, dates) 328s 328s > par(oma = rep(2, 4)) 328s 328s > plot(mytr) 328s 328s > box(lty = 3) 328s 328s > box("figure", col = "blue") 328s 328s > for (i in 1:4) mtext("Outer margin", i, 0.5, outer = TRUE, 328s + font = 2, col = "blue") 328s 328s > box("outer") 328s 328s > layout(matrix(1:4, 2, 2)) 328s 328s > par(oma = rep(2, 4)) 328s 328s > for (i in 1:4) { 328s + par(mar = rep(i, 4)) 328s + plot(mytr) 328s + box(lty = 3) 328s + box("figure", col = "blue") 328s + } 328s 328s > for (i in 1:4) mtext("Outer margin", i, 0.5, outer = TRUE, 328s + font = 2, col = "blue") 328s 328s > box("outer") 328s 328s > layout(matrix(c(1, 2, 1, 3), 2, 2)) 328s 328s > for (i in 1:3) plot(rtree(5)) 328s 328s > (pp <- get("last_plot.phylo", envir = .PlotPhyloEnv)) 328s $type 328s [1] "phylogram" 328s 328s $use.edge.length 328s [1] TRUE 328s 328s $node.pos 328s [1] 1 328s 328s $node.depth 328s [1] 1 328s 328s $show.tip.label 328s [1] TRUE 328s 328s $show.node.label 328s [1] FALSE 328s 328s $font 328s [1] 3 328s 328s $cex 328s [1] 0.83 328s 328s $adj 328s [1] 0 328s 328s $srt 328s [1] 0 328s 328s $no.margin 328s [1] FALSE 328s 328s $label.offset 328s [1] 0 328s 328s $x.lim 328s [1] 0.00000 3.13046 328s 328s $y.lim 328s [1] 1 5 328s 328s $direction 328s [1] "rightwards" 328s 328s $tip.color 328s [1] "black" 328s 328s $Ntip 328s [1] 5 328s 328s $Nnode 328s [1] 4 328s 328s $root.time 328s NULL 328s 328s $align.tip.label 328s [1] FALSE 328s 328s $edge 328s [,1] [,2] 328s [1,] 6 1 328s [2,] 6 7 328s [3,] 7 2 328s [4,] 7 8 328s [5,] 8 3 328s [6,] 8 9 328s [7,] 9 4 328s [8,] 9 5 328s 328s $xx 328s [1] 0.3967457 1.7260289 2.2158455 2.9728029 2.8310192 0.0000000 0.8134181 328s [8] 1.3631198 1.9857132 328s 328s $yy 328s [1] 1.0000 2.0000 3.0000 4.0000 5.0000 1.9375 2.8750 3.7500 4.5000 328s 328s 328s > layout(matrix(1:2, 2)) 328s 328s > plot(rtree(4)) 328s 328s > pp <- get("last_plot.phylo", envir = .PlotPhyloEnv) 328s 328s > x <- pp$xx[1] 328s 328s > y <- pp$yy[1] 328s 328s > (pu <- par("usr")) 328s [1] -0.06364557 1.65478492 0.88000000 4.12000000 328s 328s > (x - pu[1])/(pu[2] - pu[1]) 328s [1] 0.9349839 328s 328s > (y - pu[3])/(pu[4] - pu[3]) 328s [1] 0.03703704 328s 328s > pi <- par("pin") 328s 328s > mi <- par("mai") 328s 328s > xi1 <- (x - pu[1])/(pu[2] - pu[1]) * pi[1] + mi[2] 328s 328s > yi1 <- (y - pu[3])/(pu[4] - pu[3]) * pi[2] + mi[1] 328s 328s > plot(rtree(4)) 328s 328s > pp <- get("last_plot.phylo", envir = .PlotPhyloEnv) 328s 328s > x <- pp$xx[5] 328s 328s > y <- pp$yy[5] 328s 328s > pu <- par("usr") 328s 328s > pi <- par("pin") 328s 328s > mi <- par("mai") 328s 328s > xi2 <- (x - pu[1])/(pu[2] - pu[1]) * pi[1] + mi[2] 328s 328s > yi2 <- (y - pu[3])/(pu[4] - pu[3]) * pi[2] + mi[1] 328s 328s > yi1 <- yi1 + par("fin")[2] 328s 328s > di <- par("din") 328s 328s > layout(1) 328s 328s > par(new = TRUE, mai = rep(0, 4)) 328s 328s > plot(NA, type = "n", ann = FALSE, axes = FALSE, xlim = 0:1, 328s + ylim = 0:1, xaxs = "i", yaxs = "i") 328s 328s > fancyarrows(xi1/di[1], yi1/di[2], xi2/di[1], yi2/di[2], 328s + 1, lwd = 10, col = rgb(1, 0.5, 0, 0.5), type = "h") 328s 328s > foo <- function(phy1, phy2, from) { 328s + layout(matrix(1:2, 2)) 328s + plot(phy1, font = 1) 328s + pp <- get("last_plot.phylo", envir = .PlotPhyloEnv .... [TRUNCATED] 328s 328s > trb <- read.tree(text = "((Primates,Carnivora),Monotremata);") 328s 328s > par(xpd = TRUE) 328s 328s > foo(trb, mytr, "Primates") 328s 328s > plot(mytr, plot = FALSE) 328s 328s > pp <- get("last_plot.phylo", envir = .PlotPhyloEnv) 328s 328s > rect(pp$xx[5] - 0.1, pp$yy[1] - 0.1, pp$xx[1] + 2, 328s + pp$yy[2] + 0.1, col = "yellow", border = NA) 328s 328s > par(new = TRUE) 328s 328s > plot(mytr) 328s > 328s 328s R version 4.4.3 (2025-02-28) -- "Trophy Case" 328s Copyright (C) 2025 The R Foundation for Statistical Computing 328s Platform: arm-unknown-linux-gnueabihf (32-bit) 328s 328s R is free software and comes with ABSOLUTELY NO WARRANTY. 328s You are welcome to redistribute it under certain conditions. 328s Type 'license()' or 'licence()' for distribution details. 328s 328s R is a collaborative project with many contributors. 328s Type 'contributors()' for more information and 328s 'citation()' on how to cite R or R packages in publications. 328s 328s Type 'demo()' for some demos, 'help()' for on-line help, or 328s 'help.start()' for an HTML browser interface to help. 328s Type 'q()' to quit R. 328s 328s > Stangle("MoranI.Rnw") 328s Writing to file MoranI.R 328s > source("MoranI.R", echo=TRUE) 328s 328s > options(width = 80, prompt = "> ") 328s 328s > body <- c(4.09434, 3.61092, 2.37024, 2.02815, -1.46968) 328s 328s > longevity <- c(4.74493, 3.3322, 3.3673, 2.89037, 2.30259) 328s 328s > names(body) <- names(longevity) <- c("Homo", "Pongo", 328s + "Macaca", "Ateles", "Galago") 328s 328s > library(ape) 328s 328s > trnwk <- "((((Homo:0.21,Pongo:0.21):0.28,Macaca:0.49):0.13,Ateles:0.62)" 328s 328s > trnwk[2] <- ":0.38,Galago:1.00);" 328s 328s > tr <- read.tree(text = trnwk) 328s 328s > plot(tr) 328s 328s > axisPhylo() 328s 328s > w <- 1/cophenetic(tr) 328s 328s > w 328s Homo Pongo Macaca Ateles Galago 328s Homo Inf 2.3809524 1.0204082 0.8064516 0.5 328s Pongo 2.3809524 Inf 1.0204082 0.8064516 0.5 328s Macaca 1.0204082 1.0204082 Inf 0.8064516 0.5 328s Ateles 0.8064516 0.8064516 0.8064516 Inf 0.5 328s Galago 0.5000000 0.5000000 0.5000000 0.5000000 Inf 328s 328s > diag(w) <- 0 328s 328s > Moran.I(body, w) 328s $observed 328s [1] -0.07312179 328s 328s $expected 328s [1] -0.25 328s 328s $sd 328s [1] 0.08910814 328s 328s $p.value 328s [1] 0.04714628 328s 328s 328s > Moran.I(body, w, alt = "greater") 328s $observed 328s [1] -0.07312179 328s 328s $expected 328s [1] -0.25 328s 328s $sd 328s [1] 0.08910814 328s 328s $p.value 328s [1] 0.02357314 328s 328s 328s > Moran.I(longevity, w) 328s $observed 328s [1] -0.1837739 328s 328s $expected 328s [1] -0.25 328s 328s $sd 328s [1] 0.09114549 328s 328s $p.value 328s [1] 0.4674727 328s 328s 328s > data(carnivora) 328s 328s > carnivora$log10SW <- log10(carnivora$SW) 328s 328s > carnivora$log10FW <- log10(carnivora$FW) 328s 328s > fm1.carn <- log10SW ~ Order/SuperFamily/Family/Genus 328s 328s > co1 <- correlogram.formula(fm1.carn, data = carnivora) 328s 328s > plot(co1) 329s 329s > fm2.carn <- log10SW + log10FW ~ Order/SuperFamily/Family/Genus 329s 329s > co2 <- correlogram.formula(fm2.carn, data = carnivora) 329s 329s > print(plot(co2)) 329s 329s > plot(co2, FALSE) 329s > 329s 329s R version 4.4.3 (2025-02-28) -- "Trophy Case" 329s Copyright (C) 2025 The R Foundation for Statistical Computing 329s Platform: arm-unknown-linux-gnueabihf (32-bit) 329s 329s R is free software and comes with ABSOLUTELY NO WARRANTY. 329s You are welcome to redistribute it under certain conditions. 329s Type 'license()' or 'licence()' for distribution details. 329s 329s R is a collaborative project with many contributors. 329s Type 'contributors()' for more information and 329s 'citation()' on how to cite R or R packages in publications. 329s 329s Type 'demo()' for some demos, 'help()' for on-line help, or 329s 'help.start()' for an HTML browser interface to help. 329s Type 'q()' to quit R. 329s 329s > Stangle("RandomTopologies.Rnw") 329s Writing to file RandomTopologies.R 329s > source("RandomTopologies.R", echo=TRUE) 329s 329s > options(width = 80, prompt = "> ") 329s 329s > library(ape) 329s 329s > n <- 1:10 329s 329s > data.frame(N.topo = sapply(n, howmanytrees)) 329s N.topo 329s 1 1 329s 2 1 329s 3 3 329s 4 15 329s 5 105 329s 6 945 329s 7 10395 329s 8 135135 329s 9 2027025 329s 10 34459425 329s 329s > howmanytrees(25) 329s [1] 1.192568e+30 329s 329s > howmanytrees(25) * 0.21 329s [1] 2.504393e+29 329s 329s > data.frame(N.topo = sapply(n, howmanytrees, labeled = FALSE)) 329s N.topo 329s 1 1 329s 2 1 329s 3 1 329s 4 2 329s 5 3 329s 6 6 329s 7 11 329s 8 23 329s 9 46 329s 10 98 329s 329s > n2 <- c(50, 100, 200) 329s 329s > data.frame(N.topo = sapply(n2, howmanytrees, labeled = FALSE), 329s + row.names = n2) 329s N.topo 329s 50 5.150149e+16 329s 100 1.019560e+36 329s 200 1.141703e+75 329s 329s > 1/howmanytrees(50) 329s [1] 3.632505e-77 329s 329s > 1/sapply(n, howmanytrees) 329s [1] 1.000000e+00 1.000000e+00 3.333333e-01 6.666667e-02 9.523810e-03 329s [6] 1.058201e-03 9.620010e-05 7.400007e-06 4.933338e-07 2.901964e-08 329s 329s > 1/sapply(n, howmanytrees, labeled = FALSE) 330s [1] 1.00000000 1.00000000 1.00000000 0.50000000 0.33333333 0.16666667 330s [7] 0.09090909 0.04347826 0.02173913 0.01020408 330s 330s > library(phangorn) 331s code for methods in class "Rcpp_Fitch" was not checked for suspicious field assignments (recommended package 'codetools' not available?) 331s code for methods in class "Rcpp_Fitch" was not checked for suspicious field assignments (recommended package 'codetools' not available?) 331s 331s > TR <- allTrees(4, rooted = TRUE) 331s 331s > TR 331s 15 phylogenetic trees 331s 331s > layout(matrix(1:15, 3, 5)) 331s 331s > par(mar = rep(1.5, 4), xpd = TRUE) 331s 331s > for (i in 1:15) plot(TR[[i]], "c", cex = 1.2, font = 1) 332s 332s > K <- 100 332s 332s > n <- 50 332s 332s > N <- howmanytrees(n, labeled = FALSE) 332s 332s > p <- 1/N 332s 332s > 1 - (dbinom(0, K, p) + dbinom(1, K, p)) 332s [1] 0 332s 332s > 1 - dbinom(0, K, p) - dbinom(1, K, p) 332s [1] -5.431212e-17 332s 332s > f <- function(n, K) { 332s + N <- howmanytrees(n, labeled = FALSE) 332s + p <- 1/N 332s + 1 - (dbinom(0, K, p) + dbinom(1, K, p)) 332s + } 332s 332s > DF <- expand.grid(n = 4:20, K = c(2, 5, 10, 100, 1000, 332s + 10000)) 332s 332s > DF$P <- mapply(f, n = DF$n, K = DF$K) 332s 332s > library(lattice) 332s 332s > xyplot(P ~ n, DF, groups = K, panel = panel.superpose, 332s + type = "b", auto.key = list(x = 0.8, y = 0.9, title = "K")) 332s 332s > subset(DF, n == 20) 332s n K P 332s 17 20 2 1.160494e-11 332s 34 20 5 1.160491e-10 332s 51 20 10 5.222149e-10 332s 68 20 100 5.743191e-08 332s 85 20 1000 5.783570e-06 332s 102 20 10000 5.671842e-04 332s 332s > f(20, 1e+05) 332s [1] 0.04638755 332s 332s > f(30, 1e+06) 332s [1] 2.525152e-07 332s 332s > txt <- c("((,),((,),));", "(((,),(,)),);", "((((,),),),);") 332s 332s > TR5 <- read.tree(text = txt) 332s 332s > layout(matrix(1:3, 1)) 332s 332s > for (i in 1:3) plot(TR5[[i]], "c", cex = 1.2, main = LETTERS[i]) 332s 332s > howmanytrees(1, labeled = FALSE) * howmanytrees(4, 332s + labeled = FALSE) 332s [1] 2 332s 332s > howmanytrees(2, labeled = FALSE) * howmanytrees(3, 332s + labeled = FALSE) 332s [1] 1 332s 332s > howmanytrees(400, labeled = FALSE) * howmanytrees(403, 332s + labeled = FALSE) 332s [1] Inf 332s 332s > TR <- list(rmtopology(1000, 4, TRUE, br = NULL), rmtree(1000, 332s + 4, TRUE, br = NULL), rmtree(1000, 4, TRUE, br = NULL, equiprob = TRUE)) 332s 332s > foo.test <- function(x, labeled = TRUE) { 332s + uTR <- unique(x, use.tip.label = labeled) 332s + f <- integer(length(uTR)) 332s + for (j in seq_along( .... [TRUNCATED] 332s 332s > lapply(TR, foo.test) 338s [1] 76 63 60 73 57 56 72 75 61 69 77 70 62 76 53 342s [1] 70 55 41 92 56 56 59 50 107 53 110 55 71 70 55 345s [1] 161 23 166 40 162 49 55 46 43 48 37 51 34 38 47 345s [[1]] 345s 345s Chi-squared test for given probabilities 345s 345s data: f 345s X-squared = 14.12, df = 14, p-value = 0.4408 345s 345s 345s [[2]] 345s 345s Chi-squared test for given probabilities 345s 345s data: f 345s X-squared = 90.08, df = 14, p-value = 3.665e-13 345s 345s 345s [[3]] 345s 345s Chi-squared test for given probabilities 345s 345s data: f 345s X-squared = 534.86, df = 14, p-value < 2.2e-16 345s 345s 345s 345s > lapply(TR, foo.test, labeled = FALSE) 346s [1] 206 794 347s [1] 691 309 348s [1] 489 511 348s [[1]] 348s 348s Chi-squared test for given probabilities 348s 348s data: f 348s X-squared = 345.74, df = 1, p-value < 2.2e-16 348s 348s 348s [[2]] 348s 348s Chi-squared test for given probabilities 348s 348s data: f 348s X-squared = 145.92, df = 1, p-value < 2.2e-16 348s 348s 348s [[3]] 348s 348s Chi-squared test for given probabilities 348s 348s data: f 348s X-squared = 0.484, df = 1, p-value = 0.4866 348s 348s 348s 348s > .Machine$double.xmax 348s [1] 1.797693e+308 348s 348s > howmanytrees(151) 348s [1] 3.753274e+306 348s 348s > howmanytrees(792, labeled = FALSE) 348s [1] 1.029038e+308 348s 348s > (N <- howmanytrees(2e+06)) 348s approximately 3.692364 * 10^12335524 348s 348s > N[2] + 1 348s n 348s 12335525 348s 348s > ceiling((N[2] + 1)/3000) 348s n 348s 4112 348s 348s > n <- 1:792 348s 348s > N <- howmanytrees(792, labeled = FALSE, detail = TRUE) 348s 348s > lN <- log10(N) 348s 348s > summary(lm(lN ~ n)) 348s 348s Call: 348s lm(formula = lN ~ n) 348s 348s Residuals: 348s Min 1Q Median 3Q Max 348s -0.25968 -0.21424 -0.08311 0.12406 2.82605 348s 348s Coefficients: 348s Estimate Std. Error t value Pr(>|t|) 348s (Intercept) -3.219e+00 2.258e-02 -142.5 <2e-16 *** 348s n 3.926e-01 4.934e-05 7956.3 <2e-16 *** 348s --- 348s Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 348s 348s Residual standard error: 0.3175 on 790 degrees of freedom 348s Multiple R-squared: 1, Adjusted R-squared: 1 348s F-statistic: 6.33e+07 on 1 and 790 DF, p-value: < 2.2e-16 348s 348s 348s > s <- n > 700 348s 348s > summary(lm(lN[s] ~ n[s])) 348s 348s Call: 348s lm(formula = lN[s] ~ n[s]) 348s 348s Residuals: 348s Min 1Q Median 3Q Max 348s -0.0004133 -0.0003323 -0.0001032 0.0002834 0.0008197 348s 348s Coefficients: 348s Estimate Std. Error t value Pr(>|t|) 348s (Intercept) -4.153e+00 1.096e-03 -3788 <2e-16 *** 348s n[s] 3.941e-01 1.468e-06 268567 <2e-16 *** 348s --- 348s Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 348s 348s Residual standard error: 0.0003738 on 90 degrees of freedom 348s Multiple R-squared: 1, Adjusted R-squared: 1 348s F-statistic: 7.213e+10 on 1 and 90 DF, p-value: < 2.2e-16 348s 348s 348s > n <- 788:792 348s 348s > log10(sapply(n, howmanytrees, labeled = FALSE)) 348s [1] 306.4356 306.8298 307.2240 307.6182 308.0124 348s 348s > 0.3941 * n - 4.153 348s [1] 306.3978 306.7919 307.1860 307.5801 307.9742 348s 348s > xi <- 2.477993 348s 348s > lxi <- log10(xi) 348s 348s > n <- 1000 348s 348s > (n - 1) * lxi 348s [1] 393.706 348s 348s > for (k in 2:11) print((n - k) * lxi + log10(sum(xi^(0:(k - 348s + 1))))) 348s [1] 393.8532 348s [1] 393.9009 348s [1] 393.9187 348s [1] 393.9257 348s [1] 393.9285 348s [1] 393.9296 348s [1] 393.9301 348s [1] 393.9303 348s [1] 393.9304 348s [1] 393.9304 348s > 348s autopkgtest [16:03:34]: test run-unit-test: -----------------------] 352s run-unit-test PASS 352s autopkgtest [16:03:38]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 356s autopkgtest [16:03:42]: test pkg-r-autopkgtest: preparing testbed 358s Reading package lists... 358s Building dependency tree... 358s Reading state information... 359s Starting pkgProblemResolver with broken count: 0 360s Starting 2 pkgProblemResolver with broken count: 0 360s Done 361s The following NEW packages will be installed: 361s build-essential cpp cpp-14 cpp-14-arm-linux-gnueabihf 361s cpp-arm-linux-gnueabihf dctrl-tools g++ g++-14 g++-14-arm-linux-gnueabihf 361s g++-arm-linux-gnueabihf gcc gcc-14 gcc-14-arm-linux-gnueabihf 361s gcc-arm-linux-gnueabihf gfortran gfortran-14 gfortran-14-arm-linux-gnueabihf 361s gfortran-arm-linux-gnueabihf icu-devtools libasan8 libblas-dev libbz2-dev 361s libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libdeflate-dev libgcc-14-dev 361s libgfortran-14-dev libicu-dev libisl23 libjpeg-dev libjpeg-turbo8-dev 361s libjpeg8-dev libjs-jquery liblapack-dev liblzma-dev libmpc3 libncurses-dev 361s libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpkgconf3 361s libpng-dev libreadline-dev libstdc++-14-dev libtirpc-dev libubsan1 361s linux-libc-dev node-html5shiv pkg-r-autopkgtest pkgconf pkgconf-bin 361s r-base-dev r-cran-expm r-cran-gee r-cran-xml2 rpcsvc-proto zlib1g-dev 362s 0 upgraded, 60 newly installed, 0 to remove and 0 not upgraded. 362s Need to get 79.1 MB of archives. 362s After this operation, 245 MB of additional disk space will be used. 362s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-dev-bin armhf 2.41-1ubuntu2 [23.0 kB] 362s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf linux-libc-dev armhf 6.14.0-10.10 [1683 kB] 365s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf libcrypt-dev armhf 1:4.4.38-1 [120 kB] 365s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf rpcsvc-proto armhf 1.4.2-0ubuntu7 [62.2 kB] 365s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6-dev armhf 2.41-1ubuntu2 [1396 kB] 368s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf libisl23 armhf 0.27-1 [546 kB] 369s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libmpc3 armhf 1.3.1-1build2 [47.1 kB] 369s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14-arm-linux-gnueabihf armhf 14.2.0-17ubuntu3 [9220 kB] 381s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14 armhf 14.2.0-17ubuntu3 [1030 B] 381s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-arm-linux-gnueabihf armhf 4:14.2.0-1ubuntu1 [5578 B] 381s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf cpp armhf 4:14.2.0-1ubuntu1 [22.4 kB] 381s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libcc1-0 armhf 15-20250222-0ubuntu1 [38.9 kB] 381s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libasan8 armhf 15-20250222-0ubuntu1 [2955 kB] 384s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libubsan1 armhf 15-20250222-0ubuntu1 [1191 kB] 386s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-14-dev armhf 14.2.0-17ubuntu3 [897 kB] 387s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-arm-linux-gnueabihf armhf 14.2.0-17ubuntu3 [18.0 MB] 410s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14 armhf 14.2.0-17ubuntu3 [506 kB] 411s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-arm-linux-gnueabihf armhf 4:14.2.0-1ubuntu1 [1218 B] 411s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf gcc armhf 4:14.2.0-1ubuntu1 [5004 B] 411s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++-14-dev armhf 14.2.0-17ubuntu3 [2573 kB] 414s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14-arm-linux-gnueabihf armhf 14.2.0-17ubuntu3 [10.5 MB] 427s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14 armhf 14.2.0-17ubuntu3 [21.8 kB] 427s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf g++-arm-linux-gnueabihf armhf 4:14.2.0-1ubuntu1 [966 B] 427s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf g++ armhf 4:14.2.0-1ubuntu1 [1084 B] 427s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf build-essential armhf 12.10ubuntu1 [4928 B] 427s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf dctrl-tools armhf 2.24-3build3 [94.7 kB] 427s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran-14-dev armhf 14.2.0-17ubuntu3 [370 kB] 428s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf gfortran-14-arm-linux-gnueabihf armhf 14.2.0-17ubuntu3 [9763 kB] 440s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf gfortran-14 armhf 14.2.0-17ubuntu3 [13.6 kB] 440s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf gfortran-arm-linux-gnueabihf armhf 4:14.2.0-1ubuntu1 [1026 B] 440s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf gfortran armhf 4:14.2.0-1ubuntu1 [1166 B] 440s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf icu-devtools armhf 76.1-1ubuntu2 [206 kB] 440s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libblas-dev armhf 3.12.1-2 [141 kB] 440s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libbz2-dev armhf 1.0.8-6 [30.9 kB] 440s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate-dev armhf 1.23-1 [45.0 kB] 440s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libicu-dev armhf 76.1-1ubuntu2 [12.0 MB] 455s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-turbo8-dev armhf 2.1.5-3ubuntu2 [265 kB] 455s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg8-dev armhf 8c-2ubuntu11 [1484 B] 455s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-dev armhf 8c-2ubuntu11 [1482 B] 455s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 456s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack-dev armhf 3.12.1-2 [2207 kB] 459s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf libncurses-dev armhf 6.5+20250216-2 [345 kB] 460s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-16-0 armhf 10.45-1 [207 kB] 460s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-32-0 armhf 10.45-1 [197 kB] 460s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-posix3 armhf 10.45-1 [6300 B] 460s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-dev armhf 10.45-1 [752 kB] 460s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf libpkgconf3 armhf 1.8.1-4 [26.6 kB] 460s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1ubuntu1 [880 kB] 461s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf libpng-dev armhf 1.6.47-1 [251 kB] 462s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf libreadline-dev armhf 8.2-6 [153 kB] 462s Get:51 http://ftpmaster.internal/ubuntu plucky/universe armhf node-html5shiv all 3.7.3+dfsg-5 [13.5 kB] 462s Get:52 http://ftpmaster.internal/ubuntu plucky/main armhf liblzma-dev armhf 5.6.4-1 [166 kB] 462s Get:53 http://ftpmaster.internal/ubuntu plucky/main armhf pkgconf-bin armhf 1.8.1-4 [21.2 kB] 462s Get:54 http://ftpmaster.internal/ubuntu plucky/main armhf pkgconf armhf 1.8.1-4 [16.8 kB] 462s Get:55 http://ftpmaster.internal/ubuntu plucky/main armhf libtirpc-dev armhf 1.3.4+ds-1.3 [184 kB] 462s Get:56 http://ftpmaster.internal/ubuntu plucky/universe armhf r-base-dev all 4.4.3-1 [4176 B] 462s Get:57 http://ftpmaster.internal/ubuntu plucky/universe armhf pkg-r-autopkgtest all 20231212ubuntu1 [6448 B] 462s Get:58 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-expm armhf 1.0-0-1 [223 kB] 463s Get:59 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-gee armhf 4.13-29-1 [71.1 kB] 463s Get:60 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-xml2 armhf 1.3.7-1 [324 kB] 464s Fetched 79.1 MB in 1min 42s (778 kB/s) 464s Selecting previously unselected package libc-dev-bin. 464s (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 ... 69726 files and directories currently installed.) 464s Preparing to unpack .../00-libc-dev-bin_2.41-1ubuntu2_armhf.deb ... 464s Unpacking libc-dev-bin (2.41-1ubuntu2) ... 464s Selecting previously unselected package linux-libc-dev:armhf. 464s Preparing to unpack .../01-linux-libc-dev_6.14.0-10.10_armhf.deb ... 464s Unpacking linux-libc-dev:armhf (6.14.0-10.10) ... 464s Selecting previously unselected package libcrypt-dev:armhf. 464s Preparing to unpack .../02-libcrypt-dev_1%3a4.4.38-1_armhf.deb ... 464s Unpacking libcrypt-dev:armhf (1:4.4.38-1) ... 464s Selecting previously unselected package rpcsvc-proto. 464s Preparing to unpack .../03-rpcsvc-proto_1.4.2-0ubuntu7_armhf.deb ... 464s Unpacking rpcsvc-proto (1.4.2-0ubuntu7) ... 464s Selecting previously unselected package libc6-dev:armhf. 464s Preparing to unpack .../04-libc6-dev_2.41-1ubuntu2_armhf.deb ... 464s Unpacking libc6-dev:armhf (2.41-1ubuntu2) ... 464s Selecting previously unselected package libisl23:armhf. 464s Preparing to unpack .../05-libisl23_0.27-1_armhf.deb ... 464s Unpacking libisl23:armhf (0.27-1) ... 464s Selecting previously unselected package libmpc3:armhf. 464s Preparing to unpack .../06-libmpc3_1.3.1-1build2_armhf.deb ... 464s Unpacking libmpc3:armhf (1.3.1-1build2) ... 464s Selecting previously unselected package cpp-14-arm-linux-gnueabihf. 464s Preparing to unpack .../07-cpp-14-arm-linux-gnueabihf_14.2.0-17ubuntu3_armhf.deb ... 464s Unpacking cpp-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 465s Selecting previously unselected package cpp-14. 465s Preparing to unpack .../08-cpp-14_14.2.0-17ubuntu3_armhf.deb ... 465s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 465s Selecting previously unselected package cpp-arm-linux-gnueabihf. 465s Preparing to unpack .../09-cpp-arm-linux-gnueabihf_4%3a14.2.0-1ubuntu1_armhf.deb ... 465s Unpacking cpp-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 465s Selecting previously unselected package cpp. 465s Preparing to unpack .../10-cpp_4%3a14.2.0-1ubuntu1_armhf.deb ... 465s Unpacking cpp (4:14.2.0-1ubuntu1) ... 465s Selecting previously unselected package libcc1-0:armhf. 465s Preparing to unpack .../11-libcc1-0_15-20250222-0ubuntu1_armhf.deb ... 465s Unpacking libcc1-0:armhf (15-20250222-0ubuntu1) ... 465s Selecting previously unselected package libasan8:armhf. 465s Preparing to unpack .../12-libasan8_15-20250222-0ubuntu1_armhf.deb ... 465s Unpacking libasan8:armhf (15-20250222-0ubuntu1) ... 465s Selecting previously unselected package libubsan1:armhf. 465s Preparing to unpack .../13-libubsan1_15-20250222-0ubuntu1_armhf.deb ... 465s Unpacking libubsan1:armhf (15-20250222-0ubuntu1) ... 465s Selecting previously unselected package libgcc-14-dev:armhf. 465s Preparing to unpack .../14-libgcc-14-dev_14.2.0-17ubuntu3_armhf.deb ... 465s Unpacking libgcc-14-dev:armhf (14.2.0-17ubuntu3) ... 465s Selecting previously unselected package gcc-14-arm-linux-gnueabihf. 465s Preparing to unpack .../15-gcc-14-arm-linux-gnueabihf_14.2.0-17ubuntu3_armhf.deb ... 465s Unpacking gcc-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 466s Selecting previously unselected package gcc-14. 466s Preparing to unpack .../16-gcc-14_14.2.0-17ubuntu3_armhf.deb ... 466s Unpacking gcc-14 (14.2.0-17ubuntu3) ... 466s Selecting previously unselected package gcc-arm-linux-gnueabihf. 466s Preparing to unpack .../17-gcc-arm-linux-gnueabihf_4%3a14.2.0-1ubuntu1_armhf.deb ... 466s Unpacking gcc-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 466s Selecting previously unselected package gcc. 466s Preparing to unpack .../18-gcc_4%3a14.2.0-1ubuntu1_armhf.deb ... 466s Unpacking gcc (4:14.2.0-1ubuntu1) ... 466s Selecting previously unselected package libstdc++-14-dev:armhf. 466s Preparing to unpack .../19-libstdc++-14-dev_14.2.0-17ubuntu3_armhf.deb ... 466s Unpacking libstdc++-14-dev:armhf (14.2.0-17ubuntu3) ... 466s Selecting previously unselected package g++-14-arm-linux-gnueabihf. 466s Preparing to unpack .../20-g++-14-arm-linux-gnueabihf_14.2.0-17ubuntu3_armhf.deb ... 466s Unpacking g++-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 466s Selecting previously unselected package g++-14. 466s Preparing to unpack .../21-g++-14_14.2.0-17ubuntu3_armhf.deb ... 466s Unpacking g++-14 (14.2.0-17ubuntu3) ... 467s Selecting previously unselected package g++-arm-linux-gnueabihf. 467s Preparing to unpack .../22-g++-arm-linux-gnueabihf_4%3a14.2.0-1ubuntu1_armhf.deb ... 467s Unpacking g++-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 467s Selecting previously unselected package g++. 467s Preparing to unpack .../23-g++_4%3a14.2.0-1ubuntu1_armhf.deb ... 467s Unpacking g++ (4:14.2.0-1ubuntu1) ... 467s Selecting previously unselected package build-essential. 467s Preparing to unpack .../24-build-essential_12.10ubuntu1_armhf.deb ... 467s Unpacking build-essential (12.10ubuntu1) ... 467s Selecting previously unselected package dctrl-tools. 467s Preparing to unpack .../25-dctrl-tools_2.24-3build3_armhf.deb ... 467s Unpacking dctrl-tools (2.24-3build3) ... 467s Selecting previously unselected package libgfortran-14-dev:armhf. 467s Preparing to unpack .../26-libgfortran-14-dev_14.2.0-17ubuntu3_armhf.deb ... 467s Unpacking libgfortran-14-dev:armhf (14.2.0-17ubuntu3) ... 467s Selecting previously unselected package gfortran-14-arm-linux-gnueabihf. 467s Preparing to unpack .../27-gfortran-14-arm-linux-gnueabihf_14.2.0-17ubuntu3_armhf.deb ... 467s Unpacking gfortran-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 467s Selecting previously unselected package gfortran-14. 467s Preparing to unpack .../28-gfortran-14_14.2.0-17ubuntu3_armhf.deb ... 467s Unpacking gfortran-14 (14.2.0-17ubuntu3) ... 467s Selecting previously unselected package gfortran-arm-linux-gnueabihf. 467s Preparing to unpack .../29-gfortran-arm-linux-gnueabihf_4%3a14.2.0-1ubuntu1_armhf.deb ... 467s Unpacking gfortran-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 467s Selecting previously unselected package gfortran. 467s Preparing to unpack .../30-gfortran_4%3a14.2.0-1ubuntu1_armhf.deb ... 467s Unpacking gfortran (4:14.2.0-1ubuntu1) ... 467s Selecting previously unselected package icu-devtools. 467s Preparing to unpack .../31-icu-devtools_76.1-1ubuntu2_armhf.deb ... 467s Unpacking icu-devtools (76.1-1ubuntu2) ... 467s Selecting previously unselected package libblas-dev:armhf. 467s Preparing to unpack .../32-libblas-dev_3.12.1-2_armhf.deb ... 467s Unpacking libblas-dev:armhf (3.12.1-2) ... 467s Selecting previously unselected package libbz2-dev:armhf. 467s Preparing to unpack .../33-libbz2-dev_1.0.8-6_armhf.deb ... 467s Unpacking libbz2-dev:armhf (1.0.8-6) ... 467s Selecting previously unselected package libdeflate-dev:armhf. 467s Preparing to unpack .../34-libdeflate-dev_1.23-1_armhf.deb ... 467s Unpacking libdeflate-dev:armhf (1.23-1) ... 467s Selecting previously unselected package libicu-dev:armhf. 468s Preparing to unpack .../35-libicu-dev_76.1-1ubuntu2_armhf.deb ... 468s Unpacking libicu-dev:armhf (76.1-1ubuntu2) ... 468s Selecting previously unselected package libjpeg-turbo8-dev:armhf. 468s Preparing to unpack .../36-libjpeg-turbo8-dev_2.1.5-3ubuntu2_armhf.deb ... 468s Unpacking libjpeg-turbo8-dev:armhf (2.1.5-3ubuntu2) ... 468s Selecting previously unselected package libjpeg8-dev:armhf. 468s Preparing to unpack .../37-libjpeg8-dev_8c-2ubuntu11_armhf.deb ... 468s Unpacking libjpeg8-dev:armhf (8c-2ubuntu11) ... 468s Selecting previously unselected package libjpeg-dev:armhf. 468s 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unpack .../54-libtirpc-dev_1.3.4+ds-1.3_armhf.deb ... 469s Unpacking libtirpc-dev:armhf (1.3.4+ds-1.3) ... 470s Selecting previously unselected package r-base-dev. 470s Preparing to unpack .../55-r-base-dev_4.4.3-1_all.deb ... 470s Unpacking r-base-dev (4.4.3-1) ... 470s Selecting previously unselected package pkg-r-autopkgtest. 470s Preparing to unpack .../56-pkg-r-autopkgtest_20231212ubuntu1_all.deb ... 470s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ... 470s Selecting previously unselected package r-cran-expm. 470s Preparing to unpack .../57-r-cran-expm_1.0-0-1_armhf.deb ... 470s Unpacking r-cran-expm (1.0-0-1) ... 470s Selecting previously unselected package r-cran-gee. 470s Preparing to unpack .../58-r-cran-gee_4.13-29-1_armhf.deb ... 470s Unpacking r-cran-gee (4.13-29-1) ... 470s Selecting previously unselected package r-cran-xml2. 470s Preparing to unpack .../59-r-cran-xml2_1.3.7-1_armhf.deb ... 470s Unpacking r-cran-xml2 (1.3.7-1) ... 470s Setting up node-html5shiv 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libc-dev-bin (2.41-1ubuntu2) ... 470s Setting up libdeflate-dev:armhf (1.23-1) ... 470s Setting up libcc1-0:armhf (15-20250222-0ubuntu1) ... 470s Setting up libblas-dev:armhf (3.12.1-2) ... 470s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode 470s Setting up dctrl-tools (2.24-3build3) ... 470s Setting up cpp-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 470s Setting up libgfortran-14-dev:armhf (14.2.0-17ubuntu3) ... 470s Setting up r-cran-xml2 (1.3.7-1) ... 470s Setting up gcc-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 470s Setting up pkgconf:armhf (1.8.1-4) ... 470s Setting up liblapack-dev:armhf (3.12.1-2) ... 470s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode 470s Setting up cpp-14 (14.2.0-17ubuntu3) ... 470s Setting up libc6-dev:armhf (2.41-1ubuntu2) ... 470s Setting up libstdc++-14-dev:armhf (14.2.0-17ubuntu3) ... 470s Setting up libicu-dev:armhf (76.1-1ubuntu2) ... 470s Setting up cpp-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 470s Setting up gfortran-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 470s Setting up libbz2-dev:armhf (1.0.8-6) ... 470s Setting up gcc-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 470s Setting up g++-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 470s Setting up libjpeg-turbo8-dev:armhf (2.1.5-3ubuntu2) ... 470s Setting up libncurses-dev:armhf (6.5+20250216-2) ... 470s Setting up libpcre2-dev:armhf (10.45-1) ... 470s Setting up libreadline-dev:armhf (8.2-6) ... 470s Setting up gcc-14 (14.2.0-17ubuntu3) ... 470s Setting up gfortran-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 470s Setting up zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 470s Setting up cpp (4:14.2.0-1ubuntu1) ... 470s Setting up g++-14 (14.2.0-17ubuntu3) ... 470s Setting up libjpeg8-dev:armhf (8c-2ubuntu11) ... 470s Setting up gfortran-14 (14.2.0-17ubuntu3) ... 470s Setting up g++-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 470s Setting up libpng-dev:armhf (1.6.47-1) ... 470s Setting up libjpeg-dev:armhf (8c-2ubuntu11) ... 470s Setting up gcc (4:14.2.0-1ubuntu1) ... 470s Setting up g++ (4:14.2.0-1ubuntu1) ... 470s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 470s Setting up build-essential (12.10ubuntu1) ... 470s Setting up gfortran (4:14.2.0-1ubuntu1) ... 470s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode 470s 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 470s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode 470s 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 470s Setting up r-base-dev (4.4.3-1) ... 470s Setting up pkg-r-autopkgtest (20231212ubuntu1) ... 470s Processing triggers for libc-bin (2.41-1ubuntu2) ... 470s Processing triggers for man-db (2.13.0-1) ... 471s Processing triggers for install-info (7.1.1-1) ... 479s autopkgtest [16:05:45]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest 479s autopkgtest [16:05:45]: test pkg-r-autopkgtest: [----------------------- 481s Test: Try to load the R library ape 481s 481s R version 4.4.3 (2025-02-28) -- "Trophy Case" 481s Copyright (C) 2025 The R Foundation for Statistical Computing 481s Platform: arm-unknown-linux-gnueabihf (32-bit) 481s 481s R is free software and comes with ABSOLUTELY NO WARRANTY. 481s You are welcome to redistribute it under certain conditions. 481s Type 'license()' or 'licence()' for distribution details. 481s 481s R is a collaborative project with many contributors. 481s Type 'contributors()' for more information and 481s 'citation()' on how to cite R or R packages in publications. 481s 481s Type 'demo()' for some demos, 'help()' for on-line help, or 481s 'help.start()' for an HTML browser interface to help. 481s Type 'q()' to quit R. 481s 481s > library('ape') 482s > 482s > 482s Other tests are currently unsupported! 482s They will be progressively added. 482s autopkgtest [16:05:48]: test pkg-r-autopkgtest: -----------------------] 486s autopkgtest [16:05:52]: test pkg-r-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 486s pkg-r-autopkgtest PASS 490s autopkgtest [16:05:56]: @@@@@@@@@@@@@@@@@@@@ summary 490s run-unit-test PASS 490s pkg-r-autopkgtest PASS