0s autopkgtest [16:15:40]: starting date and time: 2025-03-15 16:15:40+0000 0s autopkgtest [16:15:40]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [16:15:40]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.m8z077tl/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-irlba --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- lxd -r lxd-armhf-10.145.243.9 lxd-armhf-10.145.243.9:autopkgtest/ubuntu/plucky/armhf 20s autopkgtest [16:16:00]: testbed dpkg architecture: armhf 22s autopkgtest [16:16:02]: testbed apt version: 2.9.33 26s autopkgtest [16:16:06]: @@@@@@@@@@@@@@@@@@@@ test bed setup 28s autopkgtest [16:16:08]: testbed release detected to be: None 35s autopkgtest [16:16:15]: updating testbed package index (apt update) 37s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 37s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 38s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 38s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 38s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 38s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 39s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 39s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [114 kB] 39s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1832 B] 39s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 39s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [312 kB] 39s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [11.1 kB] 39s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3472 B] 39s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [240 B] 39s Get:15 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 39s Get:16 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 61s Get:17 http://ftpmaster.internal/ubuntu plucky/main Sources [1394 kB] 62s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 64s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.4 kB] 64s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 64s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.1 MB] 79s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 81s Fetched 41.0 MB in 43s (944 kB/s) 82s Reading package lists... 88s autopkgtest [16:17:08]: upgrading testbed (apt dist-upgrade and autopurge) 90s Reading package lists... 90s Building dependency tree... 90s Reading state information... 90s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 91s Starting 2 pkgProblemResolver with broken count: 0 91s Done 91s Entering ResolveByKeep 92s 92s Calculating upgrade... 93s The following packages will be upgraded: 93s libc-bin libc6 locales pinentry-curses python3-jinja2 sos strace 93s 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 93s Need to get 8683 kB of archives. 93s After this operation, 23.6 kB of additional disk space will be used. 93s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6 armhf 2.41-1ubuntu2 [2932 kB] 96s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-bin armhf 2.41-1ubuntu2 [545 kB] 96s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf locales all 2.41-1ubuntu2 [4246 kB] 103s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 103s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf pinentry-curses armhf 1.3.1-2ubuntu3 [40.6 kB] 103s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 103s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 104s Preconfiguring packages ... 104s Fetched 8683 kB in 11s (784 kB/s) 104s (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.) 104s Preparing to unpack .../libc6_2.41-1ubuntu2_armhf.deb ... 105s Unpacking libc6:armhf (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 105s Setting up libc6:armhf (2.41-1ubuntu2) ... 105s (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.) 105s Preparing to unpack .../libc-bin_2.41-1ubuntu2_armhf.deb ... 105s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 105s Setting up libc-bin (2.41-1ubuntu2) ... 105s (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.) 105s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 105s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 106s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 106s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 106s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_armhf.deb ... 106s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 106s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 106s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 106s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 106s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 106s Setting up sos (4.9.0-5) ... 107s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 107s Setting up locales (2.41-1ubuntu2) ... 108s Generating locales (this might take a while)... 110s en_US.UTF-8... done 110s Generation complete. 110s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 110s Setting up strace (6.13+ds-1ubuntu1) ... 110s Processing triggers for man-db (2.13.0-1) ... 111s Processing triggers for systemd (257.3-1ubuntu3) ... 114s Reading package lists... 114s Building dependency tree... 114s Reading state information... 114s Starting pkgProblemResolver with broken count: 0 114s Starting 2 pkgProblemResolver with broken count: 0 114s Done 115s Solving dependencies... 115s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 117s autopkgtest [16:17:37]: rebooting testbed after setup commands that affected boot 158s autopkgtest [16:18:18]: 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 184s autopkgtest [16:18:44]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-irlba 201s Get:1 http://ftpmaster.internal/ubuntu plucky/universe r-cran-irlba 2.3.5.1-4 (dsc) [2071 B] 201s Get:2 http://ftpmaster.internal/ubuntu plucky/universe r-cran-irlba 2.3.5.1-4 (tar) [234 kB] 201s Get:3 http://ftpmaster.internal/ubuntu plucky/universe r-cran-irlba 2.3.5.1-4 (diff) [3672 B] 201s gpgv: Signature made Tue May 7 00:07:23 2024 UTC 201s gpgv: using RSA key 73471499CC60ED9EEE805946C5BD6C8F2295D502 201s gpgv: issuer "plessy@debian.org" 201s gpgv: Can't check signature: No public key 201s dpkg-source: warning: cannot verify inline signature for ./r-cran-irlba_2.3.5.1-4.dsc: no acceptable signature found 201s autopkgtest [16:19:01]: testing package r-cran-irlba version 2.3.5.1-4 203s autopkgtest [16:19:03]: build not needed 206s autopkgtest [16:19:06]: test run-unit-test: preparing testbed 208s Reading package lists... 209s Building dependency tree... 209s Reading state information... 209s Starting pkgProblemResolver with broken count: 0 209s Starting 2 pkgProblemResolver with broken count: 0 209s Done 210s The following NEW packages will be installed: 210s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libblas3 210s libcairo2 libdatrie1 libdeflate0 libfontconfig1 libfreetype6 libgfortran5 210s libgomp1 libgraphite2-3 libharfbuzz0b libice6 libjbig0 libjpeg-turbo8 210s libjpeg8 liblapack3 liblerc4 libpango-1.0-0 libpangocairo-1.0-0 210s libpangoft2-1.0-0 libpaper-utils libpaper2 libpixman-1-0 libsharpyuv0 libsm6 210s libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 libwebp7 libxcb-render0 210s libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64 r-base-core r-cran-irlba 210s r-cran-lattice r-cran-matrix unzip x11-common xdg-utils zip 210s 0 upgraded, 48 newly installed, 0 to remove and 0 not upgraded. 210s Need to get 43.3 MB of archives. 210s After this operation, 79.7 MB of additional disk space will be used. 210s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [330 kB] 211s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-mono all 2.37-8 [502 kB] 211s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf fonts-dejavu-core all 2.37-8 [835 kB] 212s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf fontconfig-config armhf 2.15.0-2ubuntu1 [37.5 kB] 212s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf libfontconfig1 armhf 2.15.0-2ubuntu1 [114 kB] 212s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf fontconfig armhf 2.15.0-2ubuntu1 [190 kB] 213s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.1-2 [132 kB] 213s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libpixman-1-0 armhf 0.44.0-3 [183 kB] 213s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-render0 armhf 1.17.0-2 [15.3 kB] 213s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libxcb-shm0 armhf 1.17.0-2 [5774 B] 213s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libxrender1 armhf 1:0.9.10-1.1build1 [16.0 kB] 213s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libcairo2 armhf 1.18.2-2 [484 kB] 214s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libdatrie1 armhf 0.2.13-3build1 [15.7 kB] 214s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate0 armhf 1.23-1 [38.5 kB] 214s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 15-20250222-0ubuntu1 [330 kB] 214s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf libgomp1 armhf 15-20250222-0ubuntu1 [128 kB] 214s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libgraphite2-3 armhf 1.3.14-2ubuntu1 [64.8 kB] 214s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libharfbuzz0b armhf 10.2.0-1 [464 kB] 215s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf x11-common all 1:7.7+23ubuntu3 [21.7 kB] 215s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libice6 armhf 2:1.1.1-1 [36.5 kB] 215s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-turbo8 armhf 2.1.5-3ubuntu2 [127 kB] 215s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg8 armhf 8c-2ubuntu11 [2148 B] 215s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.1-2 [2091 kB] 217s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf liblerc4 armhf 4.0.0+ds-5ubuntu1 [160 kB] 217s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf libthai-data all 0.1.29-2build1 [158 kB] 217s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libthai0 armhf 0.1.29-2build1 [15.2 kB] 217s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libpango-1.0-0 armhf 1.56.2-1 [216 kB] 217s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf libpangoft2-1.0-0 armhf 1.56.2-1 [43.6 kB] 217s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf libpangocairo-1.0-0 armhf 1.56.2-1 [25.1 kB] 217s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf libpaper2 armhf 2.2.5-0.3 [16.3 kB] 217s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf libpaper-utils armhf 2.2.5-0.3 [14.2 kB] 217s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf libsharpyuv0 armhf 1.5.0-0.1 [16.4 kB] 217s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libsm6 armhf 2:1.2.4-1 [15.1 kB] 217s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libtcl8.6 armhf 8.6.16+dfsg-1 [909 kB] 218s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libjbig0 armhf 2.1-6.1ubuntu2 [24.9 kB] 218s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libwebp7 armhf 1.5.0-0.1 [188 kB] 218s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libtiff6 armhf 4.5.1+git230720-4ubuntu4 [179 kB] 218s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libxft2 armhf 2.3.6-1build1 [37.4 kB] 218s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf libxss1 armhf 1:1.2.3-1build3 [6500 B] 218s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf libtk8.6 armhf 8.6.16-1 [686 kB] 219s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libxt6t64 armhf 1:1.2.1-1.2build1 [145 kB] 219s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf zip armhf 3.0-14ubuntu2 [164 kB] 219s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf unzip armhf 6.0-28ubuntu6 [167 kB] 219s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 219s Get:45 http://ftpmaster.internal/ubuntu plucky/universe armhf r-base-core armhf 4.4.3-1 [28.2 MB] 245s Get:46 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-lattice armhf 0.22-6-1 [1363 kB] 246s Get:47 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-matrix armhf 1.7-3-1 [4039 kB] 250s Get:48 http://ftpmaster.internal/ubuntu plucky/universe armhf r-cran-irlba armhf 2.3.5.1-4 [293 kB] 251s Preconfiguring packages ... 251s Fetched 43.3 MB in 40s (1084 kB/s) 251s Selecting previously unselected package libfreetype6:armhf. 251s (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.) 251s Preparing to unpack .../00-libfreetype6_2.13.3+dfsg-1_armhf.deb ... 251s Unpacking libfreetype6:armhf (2.13.3+dfsg-1) ... 251s Selecting previously unselected package fonts-dejavu-mono. 251s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ... 251s Unpacking fonts-dejavu-mono (2.37-8) ... 251s Selecting previously unselected package fonts-dejavu-core. 251s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ... 251s Unpacking fonts-dejavu-core (2.37-8) ... 251s Selecting previously unselected package fontconfig-config. 251s Preparing to unpack .../03-fontconfig-config_2.15.0-2ubuntu1_armhf.deb ... 251s Unpacking fontconfig-config (2.15.0-2ubuntu1) ... 251s Selecting previously unselected package libfontconfig1:armhf. 251s Preparing to unpack .../04-libfontconfig1_2.15.0-2ubuntu1_armhf.deb ... 251s Unpacking libfontconfig1:armhf (2.15.0-2ubuntu1) ... 251s Selecting previously unselected package fontconfig. 251s Preparing to unpack .../05-fontconfig_2.15.0-2ubuntu1_armhf.deb ... 251s Unpacking fontconfig (2.15.0-2ubuntu1) ... 251s Selecting previously unselected package libblas3:armhf. 251s Preparing to unpack .../06-libblas3_3.12.1-2_armhf.deb ... 251s Unpacking libblas3:armhf (3.12.1-2) ... 251s Selecting previously unselected package libpixman-1-0:armhf. 251s Preparing to unpack .../07-libpixman-1-0_0.44.0-3_armhf.deb ... 251s Unpacking libpixman-1-0:armhf (0.44.0-3) ... 251s Selecting previously unselected package libxcb-render0:armhf. 251s Preparing to unpack .../08-libxcb-render0_1.17.0-2_armhf.deb ... 251s Unpacking libxcb-render0:armhf (1.17.0-2) ... 251s Selecting previously unselected package libxcb-shm0:armhf. 251s Preparing to unpack .../09-libxcb-shm0_1.17.0-2_armhf.deb ... 251s Unpacking libxcb-shm0:armhf (1.17.0-2) ... 251s Selecting previously unselected package libxrender1:armhf. 251s Preparing to unpack .../10-libxrender1_1%3a0.9.10-1.1build1_armhf.deb ... 251s Unpacking libxrender1:armhf (1:0.9.10-1.1build1) ... 251s Selecting previously unselected package libcairo2:armhf. 251s Preparing to unpack .../11-libcairo2_1.18.2-2_armhf.deb ... 251s Unpacking libcairo2:armhf (1.18.2-2) ... 251s Selecting previously unselected package libdatrie1:armhf. 251s Preparing to unpack .../12-libdatrie1_0.2.13-3build1_armhf.deb ... 251s Unpacking libdatrie1:armhf (0.2.13-3build1) ... 251s Selecting previously unselected package libdeflate0:armhf. 251s Preparing to unpack .../13-libdeflate0_1.23-1_armhf.deb ... 251s Unpacking libdeflate0:armhf (1.23-1) ... 251s Selecting previously unselected package libgfortran5:armhf. 251s Preparing to unpack .../14-libgfortran5_15-20250222-0ubuntu1_armhf.deb ... 251s Unpacking libgfortran5:armhf (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libgomp1:armhf. 251s Preparing to unpack .../15-libgomp1_15-20250222-0ubuntu1_armhf.deb ... 251s Unpacking libgomp1:armhf (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libgraphite2-3:armhf. 251s Preparing to unpack .../16-libgraphite2-3_1.3.14-2ubuntu1_armhf.deb ... 251s Unpacking libgraphite2-3:armhf (1.3.14-2ubuntu1) ... 251s Selecting previously unselected package libharfbuzz0b:armhf. 251s Preparing to unpack .../17-libharfbuzz0b_10.2.0-1_armhf.deb ... 251s Unpacking libharfbuzz0b:armhf (10.2.0-1) ... 252s Selecting previously unselected package x11-common. 252s Preparing to unpack .../18-x11-common_1%3a7.7+23ubuntu3_all.deb ... 252s Unpacking x11-common (1:7.7+23ubuntu3) ... 252s Selecting previously unselected package libice6:armhf. 252s Preparing to unpack .../19-libice6_2%3a1.1.1-1_armhf.deb ... 252s Unpacking libice6:armhf (2:1.1.1-1) ... 252s Selecting previously unselected package libjpeg-turbo8:armhf. 252s Preparing to unpack .../20-libjpeg-turbo8_2.1.5-3ubuntu2_armhf.deb ... 252s Unpacking libjpeg-turbo8:armhf (2.1.5-3ubuntu2) ... 252s Selecting previously unselected package libjpeg8:armhf. 252s Preparing to unpack .../21-libjpeg8_8c-2ubuntu11_armhf.deb ... 252s Unpacking libjpeg8:armhf (8c-2ubuntu11) ... 252s Selecting previously unselected package liblapack3:armhf. 252s Preparing to unpack .../22-liblapack3_3.12.1-2_armhf.deb ... 252s Unpacking liblapack3:armhf (3.12.1-2) ... 252s Selecting previously unselected package liblerc4:armhf. 252s Preparing to unpack .../23-liblerc4_4.0.0+ds-5ubuntu1_armhf.deb ... 252s Unpacking liblerc4:armhf (4.0.0+ds-5ubuntu1) ... 252s Selecting previously unselected package libthai-data. 252s Preparing to unpack .../24-libthai-data_0.1.29-2build1_all.deb ... 252s Unpacking libthai-data (0.1.29-2build1) ... 252s Selecting previously unselected package libthai0:armhf. 252s Preparing to unpack .../25-libthai0_0.1.29-2build1_armhf.deb ... 252s Unpacking libthai0:armhf (0.1.29-2build1) ... 252s Selecting previously unselected package libpango-1.0-0:armhf. 252s Preparing to unpack .../26-libpango-1.0-0_1.56.2-1_armhf.deb ... 252s Unpacking libpango-1.0-0:armhf (1.56.2-1) ... 252s Selecting previously unselected package libpangoft2-1.0-0:armhf. 252s Preparing to unpack .../27-libpangoft2-1.0-0_1.56.2-1_armhf.deb ... 252s Unpacking libpangoft2-1.0-0:armhf (1.56.2-1) ... 252s Selecting previously unselected package libpangocairo-1.0-0:armhf. 252s Preparing to unpack .../28-libpangocairo-1.0-0_1.56.2-1_armhf.deb ... 252s Unpacking libpangocairo-1.0-0:armhf (1.56.2-1) ... 252s Selecting previously 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libpangoft2-1.0-0:armhf (1.56.2-1) ... 256s Setting up libpangocairo-1.0-0:armhf (1.56.2-1) ... 256s Setting up r-base-core (4.4.3-1) ... 257s Creating config file /etc/R/Renviron with new version 257s Setting up r-cran-lattice (0.22-6-1) ... 257s Setting up r-cran-matrix (1.7-3-1) ... 257s Setting up r-cran-irlba (2.3.5.1-4) ... 257s Processing triggers for libc-bin (2.41-1ubuntu2) ... 257s Processing triggers for man-db (2.13.0-1) ... 257s Processing triggers for install-info (7.1.1-1) ... 266s autopkgtest [16:20:06]: test run-unit-test: [----------------------- 268s 268s R version 4.4.3 (2025-02-28) -- "Trophy Case" 268s Copyright (C) 2025 The R Foundation for Statistical Computing 268s Platform: arm-unknown-linux-gnueabihf (32-bit) 268s 268s R is free software and comes with ABSOLUTELY NO WARRANTY. 268s You are welcome to redistribute it under certain conditions. 268s Type 'license()' or 'licence()' for distribution details. 268s 268s R is a collaborative project with many contributors. 268s Type 'contributors()' for more information and 268s 'citation()' on how to cite R or R packages in publications. 268s 268s Type 'demo()' for some demos, 'help()' for on-line help, or 268s 'help.start()' for an HTML browser interface to help. 268s Type 'q()' to quit R. 268s 269s > Stangle("irlba.Rnw") 269s Writing to file irlba.R 269s > source("irlba.R", echo=TRUE) 269s > 269s irlba.Rnw passed 269s 269s R version 4.4.3 (2025-02-28) -- "Trophy Case" 269s Copyright (C) 2025 The R Foundation for Statistical Computing 269s Platform: arm-unknown-linux-gnueabihf (32-bit) 269s 269s R is free software and comes with ABSOLUTELY NO WARRANTY. 269s You are welcome to redistribute it under certain conditions. 269s Type 'license()' or 'licence()' for distribution details. 269s 269s R is a collaborative project with many contributors. 269s Type 'contributors()' for more information and 269s 'citation()' on how to cite R or R packages in publications. 269s 269s Type 'demo()' for some demos, 'help()' for on-line help, or 269s 'help.start()' for an HTML browser interface to help. 269s Type 'q()' to quit R. 269s 269s > require("irlba") 269s Loading required package: irlba 269s Loading required package: Matrix 270s > 270s > for (FAST in c(FALSE, TRUE)) 270s + { 270s + # Dense matrix 270s + set.seed(1) 270s + A <- matrix(rnorm(400), 20) 270s + L <- irlba(A, nu=2, nv=2, tol=1e-9, fastpath=FAST) 270s + S <- svd(A, nu=2, nv=2) 270s + if (!isTRUE(all.equal(L$d, S$d[1:2]))) 270s + { 270s + stop("Failed simple dense singular value test", " fastpath=", FAST) 270s + } 270s + 270s + # restart 270s + L1 <- irlba(A, nv=3, v=L, fastpath=FAST) 270s + if (!isTRUE(all.equal(L1$d, S$d[1:3]))) 270s + { 270s + stop("Failed restart", " fastpath=", FAST) 270s + } 270s + 270s + # unequal nu, nv 270s + L <- irlba(A, nv=2, nu=3, fastpath=FAST) 270s + if (!isTRUE(ncol(L$v) == 2 && ncol(L$u) == 3)) 270s + { 270s + stop("Failed unequal nu,nv", " fastpath=", FAST) 270s + } 270s + 270s + # Scaling and centering, dense 270s + s <- sqrt(apply(A, 2, crossprod)) 270s + m <- colMeans(A) 270s + L <- irlba(A, 3, tol=1e-9, center=m, scale=s, fastpath=FAST) 270s + S <- svd(scale(A, center=TRUE, scale=s)) 271s + if (!isTRUE(all.equal(L$d, S$d[1:3]))) 271s + { 271s + stop("Failed scaling/centering test", " fastpath=", FAST) 271s + } 271s + # Scale only, non-square, dense 271s + A <- matrix(rnorm(200), 10) 271s + s <- seq(1, ncol(A)) 271s + m <- colMeans(A) 271s + L <- irlba(A, 3, tol=1e-9, scale=s, fastpath=FAST) 271s + S <- svd(scale(A, center=FALSE, scale=s)) 271s + if (!isTRUE(all.equal(L$d, S$d[1:3]))) 271s + { 271s + stop("Failed dense scaling test", " fastpath=", FAST) 271s + } 271s + # Center only, non-square, dense 271s + L <- irlba(A, 3, tol=1e-9, center=m, fastpath=FAST) 271s + S <- svd(scale(A, center=TRUE, scale=FALSE)) 271s + if (!isTRUE(all.equal(L$d, S$d[1:3]))) 271s + { 271s + stop("Failed dense centering test", " fastpath=", FAST) 271s + } 271s + # Sparse matrix 271s + require("Matrix") 271s + K <- 400 271s + N <- 2000 271s + i <- sample(K, size=N, replace=TRUE) 271s + j <- sample(K, size=N, replace=TRUE) 271s + A <- sparseMatrix(i, j, x=rnorm(N)) 271s + L <- irlba(A, nu=2, nv=2, tol=1e-9, fastpath=FAST) 271s + S <- svd(A, nu=2, nv=2) 271s + if (!isTRUE(all.equal(L$d, S$d[1:2]))) 271s + { 271s + stop("Failed simple sparse singular value test", " fastpath=", FAST) 271s + } 271s + # Center only, sparse 271s + m <- colMeans(A) 271s + L <- irlba(A, 3, tol=1e-9, center=m, fastpath=FAST) 271s + S <- svd(scale(A, center=TRUE, scale=FALSE)) 271s + if (!isTRUE(all.equal(L$d, S$d[1:3]))) 271s + { 271s + stop("Failed sparse centering test", " fastpath=", FAST) 271s + } 271s + # scale only, spase 271s + s <- seq(1, ncol(A)) 271s + L <- irlba(A, 3, tol=1e-9, scale=s, fastpath=FAST) 271s + S <- svd(scale(A, center=FALSE, scale=s)) 271s + if (!isTRUE(all.equal(L$d, S$d[1:3]))) 271s + { 271s + stop("Failed sparse scaling test", " fastpath=", FAST) 271s + } 271s + 271s + # Symmetric partial eigendecomposition 271s + set.seed(1) 271s + V <- qr.Q(qr(matrix(runif(100), nrow=10))) 271s + x <- V %*% diag(c(10, -9, 8, -7, 6, -5, 4, -3, 2, -1)) %*% t(V) 271s + if (!isTRUE(all.equal(partial_eigen(x, 3, fastpath=FAST)$values, c(10, 8, 6)))) 271s + { 271s + stop("Failed partial_eigen test", " fastpath=", FAST) 271s + } 271s + 271s + # Test right-only option 271s + L <- irlba(A, 2, tol=1e-3, right_only=TRUE, fastpath=FAST, work=20) 271s + S <- svd(A, nu=2, nv=2) 271s + if (isTRUE(max(L$d - S$d[1:2]) > 1e-3)) 271s + { 271s + stop("Failed right_only test", " fastpath=", FAST) 271s + } 271s + 271s + # Dense complex-valued matrix 271s + A <- matrix(rnorm(400), 20) + 1i * matrix(rnorm(400), 20) 271s + L <- irlba(A, nu=2, nv=2, tol=1e-9, fastpath=FAST) 271s + S <- svd(A, nu=2, nv=2) 271s + if (!isTRUE(all.equal(L$d, S$d[1:2]))) 271s + { 271s + stop("Failed complex-valued dense singular value test", " fastpath=", FAST) 271s + } 271s + 271s + # test extra reorthogonalization 271s + L <- irlba(A, nu=2, nv=2, tol=1e-9, reorth=TRUE, fastpath=FAST) 271s + if (!isTRUE(all.equal(L$d, S$d[1:2]))) 271s + { 271s + stop("Failed reorthogonalization test", " fastpath=", FAST) 271s + } 271s + 271s + # very non-square dense matrices 271s + set.seed(1) 271s + A <- matrix(rnorm(2000), 20) 271s + L1 <- irlba(A, nu=2, nv=2, tol=1e-9, fastpath=FAST) 271s + L2 <- irlba(t(A), nu=2, nv=2, tol=1e-9, fastpath=FAST) 271s + if (!isTRUE(all.equal(L1$d, L2$d))) 271s + { 271s + stop("Failed nonsquare test", " fastpath=", FAST) 271s + } 271s + 271s + # This pathological example was provided by Giuseppe Rodriguez, http://bugs.unica.it/~gppe/ 271s + # The singular values cluster at 1 and 0, making it hard to converge to a truncated 271s + # subspace containing the largest few singular values (they are all very close). 271s + # Or, for that matter, the smallest. 271s + # 271s + # Reference: 271s + # J. M. Varah. The Prolate matrix. Linear Algebra and Appl., 271s + # 187:269-278, 1993. 271s + # Michela Redivo-Zaglia, University of Padova, Italy 271s + # Email: Michela.RedivoZaglia@unipd.it 271s + # Giuseppe Rodriguez, University of Cagliari, Italy 271s + # Email: rodriguez@unica.it 271s + tprolate <- function(n, w=0.25) 271s + { 271s + a <- rep(0, n) 271s + a[1] <- 2 * w 271s + a[2:n] <- sin(2 * pi * w * (1:(n-1))) / (pi * (1:(n-1))) 271s + toeplitz(a) 271s + } 271s + 271s + x <- tprolate(512) 271s + set.seed(1) 271s + l <- irlba(x, nv=20, fastpath=FAST) 271s + if (isTRUE(max(abs(l$d - 1)) > 1e-2)) 271s + { 271s + stop("Failed tprolate test fastpath=", FAST) 271s + } 271s + 271s + # test for issue #7 and issue #14 271s + mx <- matrix(sample(1:100, 100 * 100, replace=TRUE), nrow=100) 271s + set.seed(1) 271s + l <- irlba(mx, nv=30, center=colMeans(mx), fastpath=FAST) 271s + s <- svd(scale(mx, center=TRUE, scale=FALSE)) 271s + if (isTRUE(max(abs(l$d - s$d[1:30])) > 1e-3)) 271s + { 271s + stop("Failed integer matrix test fastpath=", FAST) 271s + } 271s + 271s + # test for https://github.com/bwlewis/irlba/issues/22 271s + set.seed(1000) 271s + ncells <- 50 271s + ngenes <- 1000 271s + counts <- matrix(as.double(rpois(ncells*ngenes, lambda=100)), nrow=ncells) 271s + centers <- colMeans(counts) 271s + set.seed(1) 271s + out <- irlba(scale(counts, scale=FALSE, center=centers), nu=10, nv=10) 271s + set.seed(1) 271s + l <- irlba(counts, center=centers, nu=10, nv=10, fastpath=FAST) 271s + if (isTRUE(max(abs(out$d - l$d)) > 1e-3)) 271s + { 271s + stop("Failed centering test (n > m) fastpath=", FAST) 271s + } 271s + 271s + # test for https://github.com/bwlewis/irlba/issues/42 271s + set.seed(1234) 271s + a <- matrix(rnorm(10000), ncol=20) 271s + center <- runif(ncol(a)) 271s + scale <- runif(ncol(a)) 271s + L <- irlba(a, 5, scale=scale, center=center, fastpath=FAST) 271s + S <- svd(scale(a, center=center, scale=scale)) 271s + if (isTRUE(max(abs(S$d[1:5] - L$d)) > 1e-3)) 271s + { 271s + stop("Failed scale + center test fastpath=", FAST) 271s + } 271s + } 273s > 273s > # smallest=TRUE, m > n (fastpath always FALSE in this case) 273s > x <- matrix(rnorm(5000), 100) 273s > set.seed(1) 273s > L <- irlba(x, nv=5, smallest=TRUE) 273s > if (!isTRUE(all.equal(L$d, tail(svd(x)$d, 5)))) 273s + { 273s + stop("Failed smallest svd test") 273s + } 273s > 273s > # smallest=TRUE, n > m 273s > x <- matrix(rnorm(5000), 50) 273s > set.seed(1) 273s > L <- irlba(x, nv=5, smallest=TRUE) 273s > if (!isTRUE(all.equal(L$d, tail(svd(x)$d, 5)))) 273s + { 273s + stop("Failed smallest svd test") 273s + } 273s > 273s > # test for https://github.com/bwlewis/irlba/issues/47 (again, fastpath always FALSE) 273s > set.seed(2345) 273s > a <- spMatrix(50, 40, x=runif(200), i=sample(50, 200, replace=TRUE), j=sample(40, 200, replace=TRUE)) 273s > center <- runif(ncol(a)) 273s > scale <- runif(ncol(a)) 273s > L <- irlba(a, 5, scale=scale, center=center) 273s > S <- svd(scale(a, center=center, scale=scale)) 273s > if (isTRUE(max(abs(S$d[1:5] - L$d)) > 1e-3)) 273s + { 273s + stop("Failed scale + center test for non-fastpath'able matrices") 273s + } 273s > 273s autopkgtest [16:20:13]: test run-unit-test: -----------------------] 279s run-unit-test PASS 279s autopkgtest [16:20:19]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 283s autopkgtest [16:20:23]: test pkg-r-autopkgtest: preparing testbed 285s Reading package lists... 285s Building dependency tree... 285s Reading state information... 286s Starting pkgProblemResolver with broken count: 0 286s Starting 2 pkgProblemResolver with broken count: 0 286s Done 287s The following NEW packages will be installed: 287s build-essential cpp cpp-14 cpp-14-arm-linux-gnueabihf 287s cpp-arm-linux-gnueabihf dctrl-tools g++ g++-14 g++-14-arm-linux-gnueabihf 287s g++-arm-linux-gnueabihf gcc gcc-14 gcc-14-arm-linux-gnueabihf 287s gcc-arm-linux-gnueabihf gfortran gfortran-14 gfortran-14-arm-linux-gnueabihf 287s gfortran-arm-linux-gnueabihf icu-devtools libasan8 libblas-dev libbz2-dev 287s libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libdeflate-dev libgcc-14-dev 287s libgfortran-14-dev libicu-dev libisl23 libjpeg-dev libjpeg-turbo8-dev 287s libjpeg8-dev liblapack-dev liblzma-dev libmpc3 libncurses-dev libpcre2-16-0 287s libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpkgconf3 libpng-dev 287s libreadline-dev libstdc++-14-dev libtirpc-dev libubsan1 linux-libc-dev 287s pkg-r-autopkgtest pkgconf pkgconf-bin r-base-dev rpcsvc-proto zlib1g-dev 287s 0 upgraded, 55 newly installed, 0 to remove and 0 not upgraded. 287s Need to get 78.1 MB of archives. 287s After this operation, 243 MB of additional disk space will be used. 287s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-dev-bin armhf 2.41-1ubuntu2 [23.0 kB] 287s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf linux-libc-dev armhf 6.14.0-10.10 [1683 kB] 289s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf libcrypt-dev armhf 1:4.4.38-1 [120 kB] 289s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf rpcsvc-proto armhf 1.4.2-0ubuntu7 [62.2 kB] 289s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6-dev armhf 2.41-1ubuntu2 [1396 kB] 291s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf libisl23 armhf 0.27-1 [546 kB] 291s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libmpc3 armhf 1.3.1-1build2 [47.1 kB] 291s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14-arm-linux-gnueabihf armhf 14.2.0-17ubuntu3 [9220 kB] 301s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14 armhf 14.2.0-17ubuntu3 [1030 B] 301s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-arm-linux-gnueabihf armhf 4:14.2.0-1ubuntu1 [5578 B] 301s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf cpp armhf 4:14.2.0-1ubuntu1 [22.4 kB] 301s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libcc1-0 armhf 15-20250222-0ubuntu1 [38.9 kB] 301s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libasan8 armhf 15-20250222-0ubuntu1 [2955 kB] 304s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libubsan1 armhf 15-20250222-0ubuntu1 [1191 kB] 306s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-14-dev armhf 14.2.0-17ubuntu3 [897 kB] 307s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-arm-linux-gnueabihf armhf 14.2.0-17ubuntu3 [18.0 MB] 328s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14 armhf 14.2.0-17ubuntu3 [506 kB] 329s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-arm-linux-gnueabihf armhf 4:14.2.0-1ubuntu1 [1218 B] 329s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf gcc armhf 4:14.2.0-1ubuntu1 [5004 B] 329s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++-14-dev armhf 14.2.0-17ubuntu3 [2573 kB] 332s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14-arm-linux-gnueabihf armhf 14.2.0-17ubuntu3 [10.5 MB] 345s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14 armhf 14.2.0-17ubuntu3 [21.8 kB] 345s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf g++-arm-linux-gnueabihf armhf 4:14.2.0-1ubuntu1 [966 B] 345s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf g++ armhf 4:14.2.0-1ubuntu1 [1084 B] 345s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf build-essential armhf 12.10ubuntu1 [4928 B] 345s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf dctrl-tools armhf 2.24-3build3 [94.7 kB] 345s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran-14-dev armhf 14.2.0-17ubuntu3 [370 kB] 346s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf gfortran-14-arm-linux-gnueabihf armhf 14.2.0-17ubuntu3 [9763 kB] 358s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf gfortran-14 armhf 14.2.0-17ubuntu3 [13.6 kB] 358s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf gfortran-arm-linux-gnueabihf armhf 4:14.2.0-1ubuntu1 [1026 B] 358s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf gfortran armhf 4:14.2.0-1ubuntu1 [1166 B] 358s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf icu-devtools armhf 76.1-1ubuntu2 [206 kB] 358s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libblas-dev armhf 3.12.1-2 [141 kB] 358s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libbz2-dev armhf 1.0.8-6 [30.9 kB] 358s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate-dev armhf 1.23-1 [45.0 kB] 358s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libicu-dev armhf 76.1-1ubuntu2 [12.0 MB] 371s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-turbo8-dev armhf 2.1.5-3ubuntu2 [265 kB] 372s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg8-dev armhf 8c-2ubuntu11 [1484 B] 372s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf libjpeg-dev armhf 8c-2ubuntu11 [1482 B] 372s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack-dev armhf 3.12.1-2 [2207 kB] 374s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libncurses-dev armhf 6.5+20250216-2 [345 kB] 374s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-16-0 armhf 10.45-1 [207 kB] 375s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-32-0 armhf 10.45-1 [197 kB] 375s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-posix3 armhf 10.45-1 [6300 B] 375s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf libpcre2-dev armhf 10.45-1 [752 kB] 376s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf libpkgconf3 armhf 1.8.1-4 [26.6 kB] 376s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1ubuntu1 [880 kB] 376s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf libpng-dev armhf 1.6.47-1 [251 kB] 377s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf libreadline-dev armhf 8.2-6 [153 kB] 377s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf liblzma-dev armhf 5.6.4-1 [166 kB] 377s Get:51 http://ftpmaster.internal/ubuntu plucky/main armhf pkgconf-bin armhf 1.8.1-4 [21.2 kB] 377s Get:52 http://ftpmaster.internal/ubuntu plucky/main armhf pkgconf armhf 1.8.1-4 [16.8 kB] 377s Get:53 http://ftpmaster.internal/ubuntu plucky/main armhf libtirpc-dev armhf 1.3.4+ds-1.3 [184 kB] 377s Get:54 http://ftpmaster.internal/ubuntu plucky/universe armhf r-base-dev all 4.4.3-1 [4176 B] 377s Get:55 http://ftpmaster.internal/ubuntu plucky/universe armhf pkg-r-autopkgtest all 20231212ubuntu1 [6448 B] 378s Fetched 78.1 MB in 1min 30s (864 kB/s) 378s Selecting previously unselected package libc-dev-bin. 378s (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 ... 67103 files and directories currently installed.) 378s Preparing to unpack .../00-libc-dev-bin_2.41-1ubuntu2_armhf.deb ... 378s Unpacking libc-dev-bin (2.41-1ubuntu2) ... 378s Selecting previously unselected package linux-libc-dev:armhf. 378s Preparing to unpack .../01-linux-libc-dev_6.14.0-10.10_armhf.deb ... 378s Unpacking linux-libc-dev:armhf (6.14.0-10.10) ... 378s Selecting previously unselected package libcrypt-dev:armhf. 378s Preparing to unpack .../02-libcrypt-dev_1%3a4.4.38-1_armhf.deb ... 378s Unpacking libcrypt-dev:armhf (1:4.4.38-1) ... 378s Selecting previously unselected package rpcsvc-proto. 378s Preparing to unpack .../03-rpcsvc-proto_1.4.2-0ubuntu7_armhf.deb ... 378s Unpacking rpcsvc-proto (1.4.2-0ubuntu7) ... 378s Selecting previously unselected package libc6-dev:armhf. 378s Preparing to unpack .../04-libc6-dev_2.41-1ubuntu2_armhf.deb ... 378s Unpacking libc6-dev:armhf (2.41-1ubuntu2) ... 378s Selecting previously unselected package libisl23:armhf. 378s Preparing to unpack .../05-libisl23_0.27-1_armhf.deb ... 378s Unpacking libisl23:armhf (0.27-1) ... 378s Selecting previously unselected package libmpc3:armhf. 379s Preparing to unpack .../06-libmpc3_1.3.1-1build2_armhf.deb ... 379s Unpacking libmpc3:armhf (1.3.1-1build2) ... 379s Selecting previously unselected package cpp-14-arm-linux-gnueabihf. 379s Preparing to unpack .../07-cpp-14-arm-linux-gnueabihf_14.2.0-17ubuntu3_armhf.deb ... 379s Unpacking cpp-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 379s Selecting previously unselected package cpp-14. 379s Preparing to unpack .../08-cpp-14_14.2.0-17ubuntu3_armhf.deb ... 379s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 379s Selecting previously unselected package cpp-arm-linux-gnueabihf. 379s Preparing to unpack .../09-cpp-arm-linux-gnueabihf_4%3a14.2.0-1ubuntu1_armhf.deb ... 379s Unpacking cpp-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 379s Selecting previously unselected package cpp. 379s Preparing to unpack .../10-cpp_4%3a14.2.0-1ubuntu1_armhf.deb ... 379s Unpacking cpp (4:14.2.0-1ubuntu1) ... 379s Selecting previously unselected package libcc1-0:armhf. 379s Preparing to unpack .../11-libcc1-0_15-20250222-0ubuntu1_armhf.deb ... 379s Unpacking libcc1-0:armhf (15-20250222-0ubuntu1) ... 379s Selecting previously unselected package libasan8:armhf. 379s Preparing to unpack .../12-libasan8_15-20250222-0ubuntu1_armhf.deb ... 379s Unpacking libasan8:armhf (15-20250222-0ubuntu1) ... 379s Selecting previously unselected package libubsan1:armhf. 379s Preparing to unpack .../13-libubsan1_15-20250222-0ubuntu1_armhf.deb ... 379s Unpacking libubsan1:armhf (15-20250222-0ubuntu1) ... 379s Selecting previously unselected package libgcc-14-dev:armhf. 379s Preparing to unpack .../14-libgcc-14-dev_14.2.0-17ubuntu3_armhf.deb ... 379s Unpacking libgcc-14-dev:armhf (14.2.0-17ubuntu3) ... 379s Selecting previously unselected package gcc-14-arm-linux-gnueabihf. 379s Preparing to unpack .../15-gcc-14-arm-linux-gnueabihf_14.2.0-17ubuntu3_armhf.deb ... 379s Unpacking gcc-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 380s Selecting previously unselected package gcc-14. 380s Preparing to unpack .../16-gcc-14_14.2.0-17ubuntu3_armhf.deb ... 380s Unpacking gcc-14 (14.2.0-17ubuntu3) ... 380s Selecting previously unselected package gcc-arm-linux-gnueabihf. 380s Preparing to unpack .../17-gcc-arm-linux-gnueabihf_4%3a14.2.0-1ubuntu1_armhf.deb ... 380s Unpacking gcc-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 380s Selecting previously unselected package gcc. 380s Preparing to unpack .../18-gcc_4%3a14.2.0-1ubuntu1_armhf.deb ... 380s Unpacking gcc (4:14.2.0-1ubuntu1) ... 380s Selecting previously unselected package libstdc++-14-dev:armhf. 380s Preparing to unpack .../19-libstdc++-14-dev_14.2.0-17ubuntu3_armhf.deb ... 380s Unpacking libstdc++-14-dev:armhf (14.2.0-17ubuntu3) ... 380s Selecting previously unselected package g++-14-arm-linux-gnueabihf. 380s Preparing to unpack .../20-g++-14-arm-linux-gnueabihf_14.2.0-17ubuntu3_armhf.deb ... 380s Unpacking g++-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 380s Selecting previously unselected package g++-14. 380s Preparing to unpack .../21-g++-14_14.2.0-17ubuntu3_armhf.deb ... 380s Unpacking g++-14 (14.2.0-17ubuntu3) ... 380s Selecting previously unselected package g++-arm-linux-gnueabihf. 380s Preparing to unpack .../22-g++-arm-linux-gnueabihf_4%3a14.2.0-1ubuntu1_armhf.deb ... 380s Unpacking g++-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 380s Selecting previously unselected package g++. 380s Preparing to unpack .../23-g++_4%3a14.2.0-1ubuntu1_armhf.deb ... 380s Unpacking g++ (4:14.2.0-1ubuntu1) ... 380s Selecting previously unselected package build-essential. 381s Preparing to unpack .../24-build-essential_12.10ubuntu1_armhf.deb ... 381s Unpacking build-essential (12.10ubuntu1) ... 381s Selecting previously unselected package dctrl-tools. 381s Preparing to unpack .../25-dctrl-tools_2.24-3build3_armhf.deb ... 381s Unpacking dctrl-tools (2.24-3build3) ... 381s Selecting previously unselected package libgfortran-14-dev:armhf. 381s Preparing to unpack .../26-libgfortran-14-dev_14.2.0-17ubuntu3_armhf.deb ... 381s Unpacking libgfortran-14-dev:armhf (14.2.0-17ubuntu3) ... 381s Selecting previously unselected package gfortran-14-arm-linux-gnueabihf. 381s Preparing to unpack .../27-gfortran-14-arm-linux-gnueabihf_14.2.0-17ubuntu3_armhf.deb ... 381s Unpacking gfortran-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 381s Selecting previously unselected package gfortran-14. 381s Preparing to unpack .../28-gfortran-14_14.2.0-17ubuntu3_armhf.deb ... 381s Unpacking gfortran-14 (14.2.0-17ubuntu3) ... 381s Selecting previously unselected package gfortran-arm-linux-gnueabihf. 381s Preparing to unpack .../29-gfortran-arm-linux-gnueabihf_4%3a14.2.0-1ubuntu1_armhf.deb ... 381s Unpacking gfortran-arm-linux-gnueabihf (4:14.2.0-1ubuntu1) ... 381s Selecting previously unselected package gfortran. 381s Preparing to unpack .../30-gfortran_4%3a14.2.0-1ubuntu1_armhf.deb ... 381s Unpacking gfortran (4:14.2.0-1ubuntu1) ... 381s Selecting previously unselected package icu-devtools. 381s Preparing to unpack .../31-icu-devtools_76.1-1ubuntu2_armhf.deb ... 381s Unpacking icu-devtools (76.1-1ubuntu2) ... 381s Selecting previously unselected package libblas-dev:armhf. 381s Preparing to unpack .../32-libblas-dev_3.12.1-2_armhf.deb ... 381s Unpacking libblas-dev:armhf (3.12.1-2) ... 381s Selecting previously unselected package libbz2-dev:armhf. 381s Preparing to unpack .../33-libbz2-dev_1.0.8-6_armhf.deb ... 381s Unpacking libbz2-dev:armhf (1.0.8-6) ... 381s Selecting previously unselected package libdeflate-dev:armhf. 381s Preparing to unpack .../34-libdeflate-dev_1.23-1_armhf.deb ... 381s Unpacking libdeflate-dev:armhf (1.23-1) ... 381s Selecting previously unselected package libicu-dev:armhf. 381s Preparing to unpack .../35-libicu-dev_76.1-1ubuntu2_armhf.deb ... 381s Unpacking libicu-dev:armhf (76.1-1ubuntu2) ... 382s Selecting previously unselected package libjpeg-turbo8-dev:armhf. 382s Preparing to unpack .../36-libjpeg-turbo8-dev_2.1.5-3ubuntu2_armhf.deb ... 382s Unpacking libjpeg-turbo8-dev:armhf (2.1.5-3ubuntu2) ... 382s Selecting previously unselected package libjpeg8-dev:armhf. 382s Preparing to unpack .../37-libjpeg8-dev_8c-2ubuntu11_armhf.deb ... 382s Unpacking libjpeg8-dev:armhf (8c-2ubuntu11) ... 382s Selecting previously unselected package libjpeg-dev:armhf. 382s Preparing to unpack .../38-libjpeg-dev_8c-2ubuntu11_armhf.deb ... 382s Unpacking libjpeg-dev:armhf (8c-2ubuntu11) ... 382s Selecting previously unselected package liblapack-dev:armhf. 382s Preparing to unpack .../39-liblapack-dev_3.12.1-2_armhf.deb ... 382s Unpacking liblapack-dev:armhf (3.12.1-2) ... 382s Selecting previously unselected package libncurses-dev:armhf. 382s Preparing to unpack .../40-libncurses-dev_6.5+20250216-2_armhf.deb ... 382s Unpacking libncurses-dev:armhf (6.5+20250216-2) ... 382s Selecting previously unselected package libpcre2-16-0:armhf. 382s Preparing to unpack .../41-libpcre2-16-0_10.45-1_armhf.deb ... 382s Unpacking libpcre2-16-0:armhf (10.45-1) ... 382s Selecting previously unselected package libpcre2-32-0:armhf. 382s Preparing to unpack .../42-libpcre2-32-0_10.45-1_armhf.deb ... 382s Unpacking libpcre2-32-0:armhf (10.45-1) ... 382s Selecting previously unselected package libpcre2-posix3:armhf. 382s Preparing to unpack .../43-libpcre2-posix3_10.45-1_armhf.deb ... 382s Unpacking libpcre2-posix3:armhf (10.45-1) ... 382s Selecting previously unselected package libpcre2-dev:armhf. 382s Preparing to unpack .../44-libpcre2-dev_10.45-1_armhf.deb ... 382s Unpacking libpcre2-dev:armhf (10.45-1) ... 382s Selecting previously unselected package libpkgconf3:armhf. 382s Preparing to unpack .../45-libpkgconf3_1.8.1-4_armhf.deb ... 382s Unpacking libpkgconf3:armhf (1.8.1-4) ... 382s Selecting previously unselected package zlib1g-dev:armhf. 382s Preparing to unpack .../46-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_armhf.deb ... 382s Unpacking zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 383s Selecting previously unselected package libpng-dev:armhf. 383s Preparing to unpack .../47-libpng-dev_1.6.47-1_armhf.deb ... 383s Unpacking libpng-dev:armhf (1.6.47-1) ... 383s Selecting previously unselected package libreadline-dev:armhf. 383s Preparing to unpack .../48-libreadline-dev_8.2-6_armhf.deb ... 383s Unpacking libreadline-dev:armhf (8.2-6) ... 383s Selecting previously unselected package liblzma-dev:armhf. 383s Preparing to unpack .../49-liblzma-dev_5.6.4-1_armhf.deb ... 383s Unpacking liblzma-dev:armhf (5.6.4-1) ... 383s Selecting previously unselected package pkgconf-bin. 383s Preparing to unpack .../50-pkgconf-bin_1.8.1-4_armhf.deb ... 383s Unpacking pkgconf-bin (1.8.1-4) ... 383s Selecting previously unselected package pkgconf:armhf. 383s Preparing to unpack .../51-pkgconf_1.8.1-4_armhf.deb ... 383s Unpacking pkgconf:armhf (1.8.1-4) ... 383s Selecting previously unselected package libtirpc-dev:armhf. 383s Preparing to unpack .../52-libtirpc-dev_1.3.4+ds-1.3_armhf.deb ... 383s Unpacking libtirpc-dev:armhf (1.3.4+ds-1.3) ... 383s Selecting previously unselected package r-base-dev. 383s Preparing to unpack .../53-r-base-dev_4.4.3-1_all.deb ... 383s Unpacking r-base-dev (4.4.3-1) ... 383s Selecting previously unselected package pkg-r-autopkgtest. 383s Preparing to unpack .../54-pkg-r-autopkgtest_20231212ubuntu1_all.deb ... 383s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ... 383s Setting up linux-libc-dev:armhf (6.14.0-10.10) ... 383s Setting up libpcre2-16-0:armhf (10.45-1) ... 383s Setting up libpcre2-32-0:armhf (10.45-1) ... 383s Setting up libtirpc-dev:armhf (1.3.4+ds-1.3) ... 383s Setting up libpkgconf3:armhf (1.8.1-4) ... 383s Setting up rpcsvc-proto (1.4.2-0ubuntu7) ... 383s Setting up libmpc3:armhf (1.3.1-1build2) ... 383s Setting up icu-devtools (76.1-1ubuntu2) ... 383s Setting up pkgconf-bin (1.8.1-4) ... 383s Setting up liblzma-dev:armhf (5.6.4-1) ... 383s Setting up libubsan1:armhf (15-20250222-0ubuntu1) ... 383s Setting up libpcre2-posix3:armhf (10.45-1) ... 383s Setting up libcrypt-dev:armhf (1:4.4.38-1) ... 383s Setting up libasan8:armhf (15-20250222-0ubuntu1) ... 383s Setting up libgcc-14-dev:armhf (14.2.0-17ubuntu3) ... 383s Setting up libisl23:armhf (0.27-1) ... 383s Setting up libc-dev-bin (2.41-1ubuntu2) ... 383s Setting up libdeflate-dev:armhf (1.23-1) ... 383s Setting up libcc1-0:armhf (15-20250222-0ubuntu1) ... 383s Setting up libblas-dev:armhf (3.12.1-2) ... 383s 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 383s Setting up dctrl-tools (2.24-3build3) ... 383s Setting up cpp-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 383s Setting up libgfortran-14-dev:armhf (14.2.0-17ubuntu3) ... 383s Setting up gcc-14-arm-linux-gnueabihf (14.2.0-17ubuntu3) ... 383s Setting up pkgconf:armhf (1.8.1-4) ... 383s Setting up liblapack-dev:armhf (3.12.1-2) ... 383s 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 383s Setting up cpp-14 (14.2.0-17ubuntu3) ... 383s Setting up libc6-dev:armhf (2.41-1ubuntu2) ... 383s Setting up libstdc++-14-dev:armhf (14.2.0-17ubuntu3) ... 383s 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pkg-r-autopkgtest (20231212ubuntu1) ... 383s Processing triggers for libc-bin (2.41-1ubuntu2) ... 383s Processing triggers for man-db (2.13.0-1) ... 384s Processing triggers for install-info (7.1.1-1) ... 393s autopkgtest [16:22:13]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest 393s autopkgtest [16:22:13]: test pkg-r-autopkgtest: [----------------------- 395s Test: Try to load the R library irlba 395s 395s R version 4.4.3 (2025-02-28) -- "Trophy Case" 395s Copyright (C) 2025 The R Foundation for Statistical Computing 395s Platform: arm-unknown-linux-gnueabihf (32-bit) 395s 395s R is free software and comes with ABSOLUTELY NO WARRANTY. 395s You are welcome to redistribute it under certain conditions. 395s Type 'license()' or 'licence()' for distribution details. 395s 395s R is a collaborative project with many contributors. 395s Type 'contributors()' for more information and 395s 'citation()' on how to cite R or R packages in publications. 395s 395s Type 'demo()' for some demos, 'help()' for on-line help, or 395s 'help.start()' for an HTML browser interface to help. 395s Type 'q()' to quit R. 395s 395s > library('irlba') 395s Loading required package: Matrix 396s > 396s > 396s Other tests are currently unsupported! 396s They will be progressively added. 396s autopkgtest [16:22:16]: test pkg-r-autopkgtest: -----------------------] 400s pkg-r-autopkgtest PASS 400s autopkgtest [16:22:20]: test pkg-r-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 404s autopkgtest [16:22:24]: @@@@@@@@@@@@@@@@@@@@ summary 404s run-unit-test PASS 404s pkg-r-autopkgtest PASS