0s autopkgtest [00:40:20]: starting date and time: 2024-11-04 00:40:20+0000 0s autopkgtest [00:40:20]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [00:40:20]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.sqwe7v23/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\n" >> /etc/environment' --apt-pocket=proposed=src:htslib --apt-upgrade libbio-db-hts-perl --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=htslib/1.20+ds-2 -- lxd -r lxd-armhf-10.145.243.52 lxd-armhf-10.145.243.52:autopkgtest/ubuntu/plucky/armhf 54s autopkgtest [00:41:14]: testbed dpkg architecture: armhf 56s autopkgtest [00:41:16]: testbed apt version: 2.9.8 56s autopkgtest [00:41:16]: @@@@@@@@@@@@@@@@@@@@ test bed setup 64s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 64s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 64s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [2268 kB] 65s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [31.2 kB] 65s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [177 kB] 65s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [209 kB] 65s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [1640 kB] 65s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [23.9 kB] 65s Fetched 4430 kB in 1s (3246 kB/s) 65s Reading package lists... 83s tee: /proc/self/fd/2: Permission denied 104s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 104s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 104s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 104s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 105s Reading package lists... 105s Reading package lists... 106s Building dependency tree... 106s Reading state information... 106s Calculating upgrade... 107s The following packages were automatically installed and are no longer required: 107s libperl5.38t64 perl-modules-5.38 107s Use 'apt autoremove' to remove them. 107s The following NEW packages will be installed: 107s libperl5.40 perl-modules-5.40 107s The following packages will be upgraded: 107s base-files distro-info-data fwupd gcc-14-base info install-info iproute2 107s libatomic1 libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 107s libblockdev-mdraid3 libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 107s libblockdev-utils3 libblockdev3 libdb5.3t64 libdw1t64 libelf1t64 libevdev2 107s libftdi1-2 libfwupd2 libgcc-s1 libinih1 libkeyutils1 liblocale-gettext-perl 107s libpipeline1 libsgutils2-1.46-2 libstdc++6 libtext-charwidth-perl 107s libtext-iconv-perl motd-news-config nano perl perl-base python3-configobj 107s python3-json-pointer python3-lazr.uri python3-zipp sg3-utils sg3-utils-udev 107s vim-common vim-tiny xxd 107s 45 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. 107s Need to get 19.6 MB of archives. 107s After this operation, 42.8 MB of additional disk space will be used. 107s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf motd-news-config all 13.5ubuntu2 [5274 B] 107s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf base-files armhf 13.5ubuntu2 [68.6 kB] 107s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf perl-modules-5.40 all 5.40.0-6 [3214 kB] 108s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libperl5.40 armhf 5.40.0-6 [4140 kB] 108s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf perl armhf 5.40.0-6 [262 kB] 108s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf perl-base armhf 5.40.0-6 [1674 kB] 108s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf liblocale-gettext-perl armhf 1.07-7build1 [15.0 kB] 108s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-iconv-perl armhf 1.7-8build4 [12.8 kB] 108s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-charwidth-perl armhf 0.04-11build4 [9128 B] 108s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libdb5.3t64 armhf 5.3.28+dfsg2-9 [655 kB] 108s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libatomic1 armhf 14.2.0-7ubuntu1 [7842 B] 108s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-base armhf 14.2.0-7ubuntu1 [51.2 kB] 108s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++6 armhf 14.2.0-7ubuntu1 [711 kB] 108s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-s1 armhf 14.2.0-7ubuntu1 [40.8 kB] 108s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf install-info armhf 7.1.1-1 [61.4 kB] 108s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf distro-info-data all 0.63 [6588 B] 108s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libdw1t64 armhf 0.192-4 [243 kB] 108s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libelf1t64 armhf 0.192-4 [50.2 kB] 108s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf iproute2 armhf 6.10.0-2ubuntu1 [1082 kB] 108s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libkeyutils1 armhf 1.6.3-4ubuntu2 [8712 B] 108s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf vim-tiny armhf 2:9.1.0777-1ubuntu1 [693 kB] 108s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 108s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf xxd armhf 2:9.1.0777-1ubuntu1 [66.8 kB] 108s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf info armhf 7.1.1-1 [126 kB] 108s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf libevdev2 armhf 1.13.3+dfsg-1 [29.7 kB] 108s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libpipeline1 armhf 1.5.8-1 [26.9 kB] 108s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf nano armhf 8.2-1 [276 kB] 108s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf libfwupd2 armhf 1.9.26-2 [125 kB] 108s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf fwupd armhf 1.9.26-2 [4404 kB] 108s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-utils3 armhf 3.2.0-2 [17.4 kB] 108s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-crypto3 armhf 3.2.0-2 [22.3 kB] 108s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-fs3 armhf 3.2.0-2 [34.3 kB] 108s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-loop3 armhf 3.2.0-2 [6552 B] 108s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-mdraid3 armhf 3.2.0-2 [13.4 kB] 108s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-nvme3 armhf 3.2.0-2 [17.6 kB] 108s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-part3 armhf 3.2.0-2 [16.5 kB] 108s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-swap3 armhf 3.2.0-2 [8942 B] 108s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev3 armhf 3.2.0-2 [44.2 kB] 108s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf libftdi1-2 armhf 1.5-7 [25.7 kB] 108s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf libinih1 armhf 58-1ubuntu1 [6750 B] 108s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libsgutils2-1.46-2 armhf 1.46-3ubuntu5 [82.5 kB] 108s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf python3-configobj all 5.0.9-1 [33.9 kB] 108s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf python3-json-pointer all 2.4-2 [8396 B] 108s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lazr.uri all 1.0.6-4 [13.6 kB] 108s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf python3-zipp all 3.20.2-1 [10.1 kB] 108s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils armhf 1.46-3ubuntu5 [816 kB] 108s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils-udev all 1.46-3ubuntu5 [5916 B] 109s Preconfiguring packages ... 109s Fetched 19.6 MB in 1s (13.5 MB/s) 109s (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 ... 59386 files and directories currently installed.) 109s Preparing to unpack .../motd-news-config_13.5ubuntu2_all.deb ... 109s Unpacking motd-news-config (13.5ubuntu2) over (13.3ubuntu6) ... 109s Preparing to unpack .../base-files_13.5ubuntu2_armhf.deb ... 109s Unpacking base-files (13.5ubuntu2) over (13.3ubuntu6) ... 109s Setting up base-files (13.5ubuntu2) ... 109s Installing new version of config file /etc/issue ... 109s Installing new version of config file /etc/issue.net ... 109s Installing new version of config file /etc/lsb-release ... 110s motd-news.service is a disabled or a static unit not running, not starting it. 110s (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 ... 59386 files and directories currently installed.) 110s Preparing to unpack .../perl_5.40.0-6_armhf.deb ... 110s Unpacking perl (5.40.0-6) over (5.38.2-5) ... 110s Selecting previously unselected package perl-modules-5.40. 110s Preparing to unpack .../perl-modules-5.40_5.40.0-6_all.deb ... 110s Unpacking perl-modules-5.40 (5.40.0-6) ... 110s Selecting previously unselected package libperl5.40:armhf. 110s Preparing to unpack .../libperl5.40_5.40.0-6_armhf.deb ... 110s Unpacking libperl5.40:armhf (5.40.0-6) ... 110s Preparing to unpack .../perl-base_5.40.0-6_armhf.deb ... 110s Unpacking perl-base (5.40.0-6) over (5.38.2-5) ... 110s Setting up perl-base (5.40.0-6) ... 110s (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 ... 61462 files and directories currently installed.) 110s Preparing to unpack .../liblocale-gettext-perl_1.07-7build1_armhf.deb ... 110s Unpacking liblocale-gettext-perl (1.07-7build1) over (1.07-7) ... 110s Preparing to unpack .../libtext-iconv-perl_1.7-8build4_armhf.deb ... 110s Unpacking libtext-iconv-perl:armhf (1.7-8build4) over (1.7-8build3) ... 110s Preparing to unpack .../libtext-charwidth-perl_0.04-11build4_armhf.deb ... 110s Unpacking libtext-charwidth-perl:armhf (0.04-11build4) over (0.04-11build3) ... 111s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-9_armhf.deb ... 111s Unpacking libdb5.3t64:armhf (5.3.28+dfsg2-9) over (5.3.28+dfsg2-7) ... 111s Setting up libdb5.3t64:armhf (5.3.28+dfsg2-9) ... 111s (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 ... 61462 files and directories currently installed.) 111s Preparing to unpack .../libatomic1_14.2.0-7ubuntu1_armhf.deb ... 111s Unpacking libatomic1:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 111s Preparing to unpack .../gcc-14-base_14.2.0-7ubuntu1_armhf.deb ... 111s Unpacking gcc-14-base:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 111s Setting up gcc-14-base:armhf (14.2.0-7ubuntu1) ... 111s (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 ... 61462 files and directories currently installed.) 111s Preparing to unpack .../libstdc++6_14.2.0-7ubuntu1_armhf.deb ... 111s Unpacking libstdc++6:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 111s Setting up libstdc++6:armhf (14.2.0-7ubuntu1) ... 111s (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 ... 61462 files and directories currently installed.) 111s Preparing to unpack .../libgcc-s1_14.2.0-7ubuntu1_armhf.deb ... 111s Unpacking libgcc-s1:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 111s Setting up libgcc-s1:armhf (14.2.0-7ubuntu1) ... 111s (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 ... 61462 files and directories currently installed.) 111s Preparing to unpack .../install-info_7.1.1-1_armhf.deb ... 111s Unpacking install-info (7.1.1-1) over (7.1-3build2) ... 111s Setting up install-info (7.1.1-1) ... 111s (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 ... 61462 files and directories currently installed.) 111s Preparing to unpack .../00-distro-info-data_0.63_all.deb ... 111s Unpacking distro-info-data (0.63) over (0.62) ... 111s Preparing to unpack .../01-libdw1t64_0.192-4_armhf.deb ... 111s Unpacking libdw1t64:armhf (0.192-4) over (0.191-2) ... 111s Preparing to unpack .../02-libelf1t64_0.192-4_armhf.deb ... 111s Unpacking libelf1t64:armhf (0.192-4) over (0.191-2) ... 111s Preparing to unpack .../03-iproute2_6.10.0-2ubuntu1_armhf.deb ... 111s Unpacking iproute2 (6.10.0-2ubuntu1) over (6.10.0-2) ... 111s Preparing to unpack .../04-libkeyutils1_1.6.3-4ubuntu2_armhf.deb ... 111s Unpacking libkeyutils1:armhf (1.6.3-4ubuntu2) over (1.6.3-3build1) ... 111s Preparing to unpack .../05-vim-tiny_2%3a9.1.0777-1ubuntu1_armhf.deb ... 111s Unpacking vim-tiny (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 112s Preparing to unpack .../06-vim-common_2%3a9.1.0777-1ubuntu1_all.deb ... 112s Unpacking vim-common (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 112s Preparing to unpack .../07-xxd_2%3a9.1.0777-1ubuntu1_armhf.deb ... 112s Unpacking xxd (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 112s Preparing to unpack .../08-info_7.1.1-1_armhf.deb ... 112s Unpacking info (7.1.1-1) over (7.1-3build2) ... 112s Preparing to unpack .../09-libevdev2_1.13.3+dfsg-1_armhf.deb ... 112s Unpacking libevdev2:armhf (1.13.3+dfsg-1) over (1.13.2+dfsg-1) ... 112s Preparing to unpack .../10-libpipeline1_1.5.8-1_armhf.deb ... 112s Unpacking libpipeline1:armhf (1.5.8-1) over (1.5.7-2) ... 112s Preparing to unpack .../11-nano_8.2-1_armhf.deb ... 112s Unpacking nano (8.2-1) over (8.1-1) ... 112s Preparing to unpack .../12-libfwupd2_1.9.26-2_armhf.deb ... 112s Unpacking libfwupd2:armhf (1.9.26-2) over (1.9.24-1) ... 112s Preparing to unpack .../13-fwupd_1.9.26-2_armhf.deb ... 112s Unpacking fwupd (1.9.26-2) over (1.9.24-1) ... 112s Preparing to unpack .../14-libblockdev-utils3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev-utils3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../15-libblockdev-crypto3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev-crypto3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../16-libblockdev-fs3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev-fs3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../17-libblockdev-loop3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev-loop3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../18-libblockdev-mdraid3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev-mdraid3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../19-libblockdev-nvme3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev-nvme3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../20-libblockdev-part3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev-part3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../21-libblockdev-swap3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev-swap3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../22-libblockdev3_3.2.0-2_armhf.deb ... 112s Unpacking libblockdev3:armhf (3.2.0-2) over (3.1.1-2) ... 112s Preparing to unpack .../23-libftdi1-2_1.5-7_armhf.deb ... 112s Unpacking libftdi1-2:armhf (1.5-7) over (1.5-6build5) ... 112s Preparing to unpack .../24-libinih1_58-1ubuntu1_armhf.deb ... 112s Unpacking libinih1:armhf (58-1ubuntu1) over (55-1ubuntu2) ... 112s Preparing to unpack .../25-libsgutils2-1.46-2_1.46-3ubuntu5_armhf.deb ... 112s Unpacking libsgutils2-1.46-2:armhf (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 112s Preparing to unpack .../26-python3-configobj_5.0.9-1_all.deb ... 112s Unpacking python3-configobj (5.0.9-1) over (5.0.8-3) ... 112s Preparing to unpack .../27-python3-json-pointer_2.4-2_all.deb ... 113s Unpacking python3-json-pointer (2.4-2) over (2.0-0ubuntu1) ... 113s Preparing to unpack .../28-python3-lazr.uri_1.0.6-4_all.deb ... 113s Unpacking python3-lazr.uri (1.0.6-4) over (1.0.6-3) ... 113s Preparing to unpack .../29-python3-zipp_3.20.2-1_all.deb ... 113s Unpacking python3-zipp (3.20.2-1) over (3.20.0-1) ... 113s Preparing to unpack .../30-sg3-utils_1.46-3ubuntu5_armhf.deb ... 113s Unpacking sg3-utils (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 113s Preparing to unpack .../31-sg3-utils-udev_1.46-3ubuntu5_all.deb ... 113s Unpacking sg3-utils-udev (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 113s Setting up libpipeline1:armhf (1.5.8-1) ... 113s Setting up motd-news-config (13.5ubuntu2) ... 113s Setting up libtext-iconv-perl:armhf (1.7-8build4) ... 113s Setting up libtext-charwidth-perl:armhf (0.04-11build4) ... 113s Setting up libkeyutils1:armhf (1.6.3-4ubuntu2) ... 113s Setting up distro-info-data (0.63) ... 113s Setting up libinih1:armhf (58-1ubuntu1) ... 113s Setting up libfwupd2:armhf (1.9.26-2) ... 113s Setting up libsgutils2-1.46-2:armhf (1.46-3ubuntu5) ... 113s Setting up python3-lazr.uri (1.0.6-4) ... 113s Setting up python3-zipp (3.20.2-1) ... 113s Setting up xxd (2:9.1.0777-1ubuntu1) ... 113s Setting up libelf1t64:armhf (0.192-4) ... 113s Setting up libdw1t64:armhf (0.192-4) ... 113s Setting up libftdi1-2:armhf (1.5-7) ... 113s Setting up python3-configobj (5.0.9-1) ... 113s Setting up vim-common (2:9.1.0777-1ubuntu1) ... 113s Installing new version of config file /etc/vim/vimrc ... 113s Setting up libblockdev-utils3:armhf (3.2.0-2) ... 113s Setting up libatomic1:armhf (14.2.0-7ubuntu1) ... 113s Setting up libblockdev-nvme3:armhf (3.2.0-2) ... 113s Setting up nano (8.2-1) ... 113s Setting up libblockdev-fs3:armhf (3.2.0-2) ... 113s Setting up perl-modules-5.40 (5.40.0-6) ... 113s Setting up python3-json-pointer (2.4-2) ... 113s Setting up libevdev2:armhf (1.13.3+dfsg-1) ... 113s Setting up fwupd (1.9.26-2) ... 114s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 114s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 114s fwupd.service is a disabled or a static unit not running, not starting it. 114s Setting up info (7.1.1-1) ... 114s Setting up liblocale-gettext-perl (1.07-7build1) ... 114s Setting up sg3-utils (1.46-3ubuntu5) ... 114s Setting up libblockdev-mdraid3:armhf (3.2.0-2) ... 114s Setting up libblockdev-crypto3:armhf (3.2.0-2) ... 114s Setting up libblockdev-swap3:armhf (3.2.0-2) ... 114s Setting up iproute2 (6.10.0-2ubuntu1) ... 114s Setting up libblockdev-loop3:armhf (3.2.0-2) ... 114s Setting up vim-tiny (2:9.1.0777-1ubuntu1) ... 114s Setting up libblockdev3:armhf (3.2.0-2) ... 114s Installing new version of config file /etc/libblockdev/3/conf.d/00-default.cfg ... 114s Setting up libblockdev-part3:armhf (3.2.0-2) ... 114s Setting up sg3-utils-udev (1.46-3ubuntu5) ... 114s update-initramfs: deferring update (trigger activated) 114s Setting up libperl5.40:armhf (5.40.0-6) ... 114s Setting up perl (5.40.0-6) ... 114s Processing triggers for dbus (1.14.10-4ubuntu5) ... 114s Processing triggers for install-info (7.1.1-1) ... 114s Processing triggers for initramfs-tools (0.142ubuntu34) ... 114s Processing triggers for libc-bin (2.40-1ubuntu3) ... 115s Processing triggers for man-db (2.12.1-3) ... 116s Processing triggers for plymouth-theme-ubuntu-text (24.004.60-1ubuntu10) ... 116s update-initramfs: deferring update (trigger activated) 116s Processing triggers for initramfs-tools (0.142ubuntu34) ... 116s Reading package lists... 116s Building dependency tree... 116s Reading state information... 117s The following packages will be REMOVED: 117s libperl5.38t64* perl-modules-5.38* 117s 0 upgraded, 0 newly installed, 2 to remove and 0 not upgraded. 117s After this operation, 41.6 MB disk space will be freed. 117s (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 ... 61462 files and directories currently installed.) 117s Removing libperl5.38t64:armhf (5.38.2-5) ... 117s Removing perl-modules-5.38 (5.38.2-5) ... 117s Processing triggers for man-db (2.12.1-3) ... 118s Processing triggers for libc-bin (2.40-1ubuntu3) ... 120s autopkgtest [00:42:20]: rebooting testbed after setup commands that affected boot 187s autopkgtest [00:43:27]: testbed running kernel: Linux 6.8.0-47-generic #47~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Oct 2 16:39:14 UTC 2 213s autopkgtest [00:43:53]: @@@@@@@@@@@@@@@@@@@@ apt-source libbio-db-hts-perl 223s Get:1 http://ftpmaster.internal/ubuntu plucky/universe libbio-db-hts-perl 3.01-4build4 (dsc) [2270 B] 223s Get:2 http://ftpmaster.internal/ubuntu plucky/universe libbio-db-hts-perl 3.01-4build4 (tar) [5251 kB] 223s Get:3 http://ftpmaster.internal/ubuntu plucky/universe libbio-db-hts-perl 3.01-4build4 (diff) [4060 B] 223s gpgv: Signature made Sun Oct 20 08:30:39 2024 UTC 223s gpgv: using RSA key 568BF22A66337CBFC9A6B9B72C83DBC8E9BD0E37 223s gpgv: Can't check signature: No public key 223s dpkg-source: warning: cannot verify inline signature for ./libbio-db-hts-perl_3.01-4build4.dsc: no acceptable signature found 223s autopkgtest [00:44:03]: testing package libbio-db-hts-perl version 3.01-4build4 226s autopkgtest [00:44:06]: build not needed 228s autopkgtest [00:44:08]: test autodep8-perl-build-deps: preparing testbed 238s Reading package lists... 238s Building dependency tree... 238s Reading state information... 238s Starting pkgProblemResolver with broken count: 0 238s Starting 2 pkgProblemResolver with broken count: 0 238s Done 239s The following additional packages will be installed: 239s autoconf autodep8 automake autopoint autotools-dev build-essential cpp 239s cpp-14 cpp-14-arm-linux-gnueabihf cpp-arm-linux-gnueabihf dctrl-tools 239s debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz g++ g++-14 239s g++-14-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc gcc-14 239s gcc-14-arm-linux-gnueabihf gcc-arm-linux-gnueabihf gettext intltool-debian 239s libarchive-zip-perl libasan8 libbio-db-hts-perl libbio-perl-perl 239s libbrotli-dev libbz2-dev libc-dev-bin libc6-dev libcc1-0 libcrypt-dev 239s libcurl4-gnutls-dev libdata-stag-perl libdebhelper-perl libdeflate-dev 239s libdeflate0 libevent-2.1-7t64 libextutils-pkgconfig-perl 239s libfile-stripnondeterminism-perl libgcc-14-dev libgmp-dev libgmpxx4ldbl 239s libgnutls-dane0t64 libgnutls-openssl27t64 libgnutls28-dev libgomp1 239s libhts-dev libhts3t64 libhtscodecs2 libidn2-dev libio-string-perl libisl23 239s liblzma-dev libmodule-build-perl libmpc3 libnghttp2-dev libp11-kit-dev 239s libpkgconf3 libpsl-dev librtmp-dev libssh2-1-dev libssl-dev libstdc++-14-dev 239s libtasn1-6-dev libtool libubsan1 libunbound8 libzstd-dev linux-libc-dev m4 239s nettle-dev pkg-config pkg-perl-autopkgtest pkgconf pkgconf-bin po-debconf 239s rpcsvc-proto zlib1g-dev 239s Suggested packages: 239s autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-14-locales 239s cpp-14-doc debtags dh-make gcc-14-doc gcc-multilib manpages-dev flex bison 239s gdb gcc-doc gdb-arm-linux-gnueabihf gettext-doc libasprintf-dev 239s libgettextpo-dev bioperl libxml-sax-expatxs-perl libc-devtools glibc-doc 239s libcurl4-doc libidn-dev libkrb5-dev libldap2-dev gmp-doc libgmp10-doc 239s libmpfr-dev dns-root-data gnutls-bin gnutls-doc liblzma-doc libnghttp2-doc 239s p11-kit-doc libssl-doc libstdc++-14-doc libtool-doc gfortran 239s | fortran95-compiler gcj-jdk m4-doc libmail-box-perl 239s Recommended packages: 239s bioperl-run | libbio-perl-run-perl libace-perl libalgorithm-munkres-perl 239s libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl 239s libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl 239s libdbd-pg-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-parser-perl 239s libhtml-tableextract-perl liblist-moreutils-perl libpostscript-perl 239s libset-scalar-perl libsoap-lite-perl libsort-naturally-perl 239s libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl 239s libsvg-graph-perl liburi-perl libxml-dom-xpath-perl libxml-parser-perl 239s libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl 239s libxml-writer-perl libxml-libxml-perl libwww-perl bzip2-doc manpages 239s manpages-dev perl-tk libgd-gd2-perl | libgd-gd2-noxpm-perl 239s libxml-libxslt-perl libmldbm-perl libxml-perl libarchive-cpio-perl 239s libmodule-signature-perl libpod-readme-perl libsoftware-license-perl 239s libtasn1-doc libltdl-dev libmail-sendmail-perl 239s The following NEW packages will be installed: 239s autoconf autodep8 automake autopkgtest-satdep autopoint autotools-dev 239s build-essential cpp cpp-14 cpp-14-arm-linux-gnueabihf 239s cpp-arm-linux-gnueabihf dctrl-tools debhelper debugedit dh-autoreconf 239s dh-strip-nondeterminism dwz g++ g++-14 g++-14-arm-linux-gnueabihf 239s g++-arm-linux-gnueabihf gcc gcc-14 gcc-14-arm-linux-gnueabihf 239s gcc-arm-linux-gnueabihf gettext intltool-debian libarchive-zip-perl libasan8 239s libbio-db-hts-perl libbio-perl-perl libbrotli-dev libbz2-dev libc-dev-bin 239s libc6-dev libcc1-0 libcrypt-dev libcurl4-gnutls-dev libdata-stag-perl 239s libdebhelper-perl libdeflate-dev libdeflate0 libevent-2.1-7t64 239s libextutils-pkgconfig-perl libfile-stripnondeterminism-perl libgcc-14-dev 239s libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls-openssl27t64 239s libgnutls28-dev libgomp1 libhts-dev libhts3t64 libhtscodecs2 libidn2-dev 239s libio-string-perl libisl23 liblzma-dev libmodule-build-perl libmpc3 239s libnghttp2-dev libp11-kit-dev libpkgconf3 libpsl-dev librtmp-dev 239s libssh2-1-dev libssl-dev libstdc++-14-dev libtasn1-6-dev libtool libubsan1 239s libunbound8 libzstd-dev linux-libc-dev m4 nettle-dev pkg-config 239s pkg-perl-autopkgtest pkgconf pkgconf-bin po-debconf rpcsvc-proto zlib1g-dev 239s 0 upgraded, 84 newly installed, 0 to remove and 0 not upgraded. 239s Need to get 68.4 MB/68.4 MB of archives. 239s After this operation, 199 MB of additional disk space will be used. 239s Get:1 /tmp/autopkgtest.Dqv6FJ/1-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [796 B] 239s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf m4 armhf 1.4.19-4build1 [235 kB] 240s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf autoconf all 2.72-3 [382 kB] 240s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf dctrl-tools armhf 2.24-3build3 [94.7 kB] 240s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf autodep8 all 0.28+nmu1ubuntu1 [13.7 kB] 240s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf autotools-dev all 20220109.1 [44.9 kB] 240s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf automake all 1:1.16.5-1.3ubuntu1 [558 kB] 240s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf autopoint all 0.22.5-2 [616 kB] 240s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libc-dev-bin armhf 2.40-1ubuntu3 [19.2 kB] 240s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf linux-libc-dev armhf 6.11.0-8.8 [1628 kB] 240s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libcrypt-dev armhf 1:4.4.36-4build1 [120 kB] 240s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf rpcsvc-proto armhf 1.4.2-0ubuntu7 [62.2 kB] 240s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libc6-dev armhf 2.40-1ubuntu3 [1370 kB] 240s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libisl23 armhf 0.27-1 [546 kB] 240s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf libmpc3 armhf 1.3.1-1build2 [47.1 kB] 240s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14-arm-linux-gnueabihf armhf 14.2.0-7ubuntu1 [9219 kB] 240s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14 armhf 14.2.0-7ubuntu1 [1030 B] 240s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [5464 B] 240s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf cpp armhf 4:14.1.0-2ubuntu1 [22.4 kB] 240s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libcc1-0 armhf 14.2.0-7ubuntu1 [43.3 kB] 240s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libgomp1 armhf 14.2.0-7ubuntu1 [125 kB] 240s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libasan8 armhf 14.2.0-7ubuntu1 [2901 kB] 240s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf libubsan1 armhf 14.2.0-7ubuntu1 [1150 kB] 240s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-14-dev armhf 14.2.0-7ubuntu1 [897 kB] 240s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-arm-linux-gnueabihf armhf 14.2.0-7ubuntu1 [18.0 MB] 241s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14 armhf 14.2.0-7ubuntu1 [495 kB] 241s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [1222 B] 241s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf gcc armhf 4:14.1.0-2ubuntu1 [5002 B] 241s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++-14-dev armhf 14.2.0-7ubuntu1 [2567 kB] 241s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14-arm-linux-gnueabihf armhf 14.2.0-7ubuntu1 [10.5 MB] 241s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14 armhf 14.2.0-7ubuntu1 [19.8 kB] 241s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf g++-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [968 B] 241s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf g++ armhf 4:14.1.0-2ubuntu1 [1084 B] 241s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf build-essential armhf 12.10ubuntu1 [4928 B] 241s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 241s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libtool all 2.4.7-7build1 [166 kB] 241s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf dh-autoreconf all 20 [16.1 kB] 241s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libarchive-zip-perl all 1.68-1 [90.2 kB] 241s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 241s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf dh-strip-nondeterminism all 1.14.0-1 [5058 B] 241s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf debugedit armhf 1:5.1-1 [46.5 kB] 241s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf dwz armhf 0.15-1build6 [116 kB] 241s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf gettext armhf 0.22.5-2 [995 kB] 241s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf intltool-debian all 0.35.0+20060710.6 [23.2 kB] 241s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf po-debconf all 1.0.21+nmu1 [233 kB] 241s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf debhelper all 13.20ubuntu1 [893 kB] 241s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate0 armhf 1.21-1 [38.8 kB] 241s Get:48 http://ftpmaster.internal/ubuntu plucky/universe armhf libhtscodecs2 armhf 1.6.0-1build1 [65.8 kB] 241s Get:49 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf libhts3t64 armhf 1.20+ds-2 [394 kB] 241s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf libio-string-perl all 1.08-4 [11.1 kB] 241s Get:51 http://ftpmaster.internal/ubuntu plucky/universe armhf libdata-stag-perl all 0.14-3 [372 kB] 241s Get:52 http://ftpmaster.internal/ubuntu plucky/universe armhf libbio-perl-perl all 1.7.8-1 [2580 kB] 241s Get:53 http://ftpmaster.internal/ubuntu plucky/universe armhf libbio-db-hts-perl armhf 3.01-4build4 [137 kB] 241s Get:54 http://ftpmaster.internal/ubuntu plucky/main armhf libbrotli-dev armhf 1.1.0-2build2 [337 kB] 241s Get:55 http://ftpmaster.internal/ubuntu plucky/main armhf libbz2-dev armhf 1.0.8-6 [30.9 kB] 241s Get:56 http://ftpmaster.internal/ubuntu plucky/main armhf libevent-2.1-7t64 armhf 2.1.12-stable-10 [127 kB] 241s Get:57 http://ftpmaster.internal/ubuntu plucky/main armhf libunbound8 armhf 1.20.0-1ubuntu2.1 [416 kB] 242s Get:58 http://ftpmaster.internal/ubuntu plucky/main armhf libgnutls-dane0t64 armhf 3.8.6-2ubuntu1 [33.8 kB] 242s Get:59 http://ftpmaster.internal/ubuntu plucky/main armhf libgnutls-openssl27t64 armhf 3.8.6-2ubuntu1 [33.6 kB] 242s Get:60 http://ftpmaster.internal/ubuntu plucky/main armhf libidn2-dev armhf 2.3.7-2build2 [115 kB] 242s Get:61 http://ftpmaster.internal/ubuntu plucky/main armhf libp11-kit-dev armhf 0.25.5-2ubuntu1 [22.7 kB] 242s Get:62 http://ftpmaster.internal/ubuntu plucky/main armhf libtasn1-6-dev armhf 4.19.0-3build1 [86.0 kB] 242s Get:63 http://ftpmaster.internal/ubuntu plucky/main armhf libgmpxx4ldbl armhf 2:6.3.0+dfsg-2ubuntu7 [9124 B] 242s Get:64 http://ftpmaster.internal/ubuntu plucky/main armhf libgmp-dev armhf 2:6.3.0+dfsg-2ubuntu7 [290 kB] 242s Get:65 http://ftpmaster.internal/ubuntu plucky/main armhf nettle-dev armhf 3.10-1 [1173 kB] 242s Get:66 http://ftpmaster.internal/ubuntu plucky/main armhf libgnutls28-dev armhf 3.8.6-2ubuntu1 [1017 kB] 242s Get:67 http://ftpmaster.internal/ubuntu plucky/main armhf libpkgconf3 armhf 1.8.1-3ubuntu1 [26.6 kB] 242s Get:68 http://ftpmaster.internal/ubuntu plucky/main armhf pkgconf-bin armhf 1.8.1-3ubuntu1 [21.2 kB] 242s Get:69 http://ftpmaster.internal/ubuntu plucky/main armhf pkgconf armhf 1.8.1-3ubuntu1 [16.8 kB] 242s Get:70 http://ftpmaster.internal/ubuntu plucky/main armhf libnghttp2-dev armhf 1.62.1-2 [107 kB] 242s Get:71 http://ftpmaster.internal/ubuntu plucky/main armhf libpsl-dev armhf 0.21.2-1.1build1 [75.6 kB] 242s Get:72 http://ftpmaster.internal/ubuntu plucky/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1ubuntu1 [880 kB] 242s Get:73 http://ftpmaster.internal/ubuntu plucky/main armhf librtmp-dev armhf 2.4+20151223.gitfa8646d.1-2build7 [62.9 kB] 242s Get:74 http://ftpmaster.internal/ubuntu plucky/main armhf libssl-dev armhf 3.3.1-2ubuntu2 [2335 kB] 242s Get:75 http://ftpmaster.internal/ubuntu plucky/main armhf libssh2-1-dev armhf 1.11.0-7 [248 kB] 242s Get:76 http://ftpmaster.internal/ubuntu plucky/main armhf libzstd-dev armhf 1.5.6+dfsg-1 [331 kB] 242s Get:77 http://ftpmaster.internal/ubuntu plucky/main armhf libcurl4-gnutls-dev armhf 8.9.1-2ubuntu2 [443 kB] 242s Get:78 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate-dev armhf 1.21-1 [45.0 kB] 242s Get:79 http://ftpmaster.internal/ubuntu plucky/main armhf pkg-config armhf 1.8.1-3ubuntu1 [7400 B] 242s Get:80 http://ftpmaster.internal/ubuntu plucky/universe armhf libextutils-pkgconfig-perl all 1.16-3 [8524 B] 242s Get:81 http://ftpmaster.internal/ubuntu plucky/main armhf liblzma-dev armhf 5.6.2-2 [166 kB] 242s Get:82 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf libhts-dev armhf 1.20+ds-2 [1752 kB] 242s Get:83 http://ftpmaster.internal/ubuntu plucky/universe armhf libmodule-build-perl all 0.423400-2 [200 kB] 242s Get:84 http://ftpmaster.internal/ubuntu plucky/universe armhf pkg-perl-autopkgtest all 0.79 [18.5 kB] 243s Fetched 68.4 MB in 3s (23.5 MB/s) 243s Selecting previously unselected package m4. 243s (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 ... 59532 files and directories currently installed.) 243s Preparing to unpack .../00-m4_1.4.19-4build1_armhf.deb ... 243s Unpacking m4 (1.4.19-4build1) ... 243s Selecting previously unselected package autoconf. 243s Preparing to unpack .../01-autoconf_2.72-3_all.deb ... 243s Unpacking autoconf (2.72-3) ... 243s Selecting previously unselected package dctrl-tools. 243s Preparing to unpack .../02-dctrl-tools_2.24-3build3_armhf.deb ... 243s Unpacking dctrl-tools (2.24-3build3) ... 243s Selecting previously unselected package autodep8. 243s Preparing to unpack .../03-autodep8_0.28+nmu1ubuntu1_all.deb ... 243s Unpacking autodep8 (0.28+nmu1ubuntu1) ... 243s Selecting previously unselected package autotools-dev. 243s Preparing to unpack .../04-autotools-dev_20220109.1_all.deb ... 243s Unpacking autotools-dev (20220109.1) ... 243s Selecting previously unselected package automake. 243s Preparing to unpack .../05-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 243s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 243s Selecting previously unselected package autopoint. 243s Preparing to unpack .../06-autopoint_0.22.5-2_all.deb ... 243s Unpacking autopoint (0.22.5-2) ... 243s Selecting previously unselected package libc-dev-bin. 243s Preparing to unpack .../07-libc-dev-bin_2.40-1ubuntu3_armhf.deb ... 243s Unpacking libc-dev-bin (2.40-1ubuntu3) ... 243s Selecting previously unselected package linux-libc-dev:armhf. 243s Preparing to unpack .../08-linux-libc-dev_6.11.0-8.8_armhf.deb ... 243s Unpacking linux-libc-dev:armhf (6.11.0-8.8) ... 243s Selecting previously unselected package libcrypt-dev:armhf. 243s Preparing to unpack .../09-libcrypt-dev_1%3a4.4.36-4build1_armhf.deb ... 243s Unpacking libcrypt-dev:armhf (1:4.4.36-4build1) ... 243s Selecting previously unselected package rpcsvc-proto. 243s Preparing to unpack .../10-rpcsvc-proto_1.4.2-0ubuntu7_armhf.deb ... 243s Unpacking rpcsvc-proto (1.4.2-0ubuntu7) ... 243s Selecting previously unselected package libc6-dev:armhf. 243s Preparing to unpack .../11-libc6-dev_2.40-1ubuntu3_armhf.deb ... 243s Unpacking libc6-dev:armhf (2.40-1ubuntu3) ... 243s Selecting previously unselected package libisl23:armhf. 243s Preparing to unpack .../12-libisl23_0.27-1_armhf.deb ... 243s Unpacking libisl23:armhf (0.27-1) ... 243s Selecting previously unselected package libmpc3:armhf. 243s Preparing to unpack .../13-libmpc3_1.3.1-1build2_armhf.deb ... 243s Unpacking libmpc3:armhf (1.3.1-1build2) ... 243s Selecting previously unselected package cpp-14-arm-linux-gnueabihf. 243s Preparing to unpack .../14-cpp-14-arm-linux-gnueabihf_14.2.0-7ubuntu1_armhf.deb ... 243s Unpacking cpp-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 244s Selecting previously unselected package cpp-14. 244s Preparing to unpack .../15-cpp-14_14.2.0-7ubuntu1_armhf.deb ... 244s Unpacking cpp-14 (14.2.0-7ubuntu1) ... 244s Selecting previously unselected package cpp-arm-linux-gnueabihf. 244s Preparing to unpack .../16-cpp-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 244s Unpacking cpp-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 244s Selecting previously unselected package cpp. 244s Preparing to unpack .../17-cpp_4%3a14.1.0-2ubuntu1_armhf.deb ... 244s Unpacking cpp (4:14.1.0-2ubuntu1) ... 244s Selecting previously unselected package libcc1-0:armhf. 244s Preparing to unpack .../18-libcc1-0_14.2.0-7ubuntu1_armhf.deb ... 244s Unpacking libcc1-0:armhf (14.2.0-7ubuntu1) ... 244s Selecting previously unselected package libgomp1:armhf. 244s Preparing to unpack .../19-libgomp1_14.2.0-7ubuntu1_armhf.deb ... 244s Unpacking libgomp1:armhf (14.2.0-7ubuntu1) ... 244s Selecting previously unselected package libasan8:armhf. 244s Preparing to unpack .../20-libasan8_14.2.0-7ubuntu1_armhf.deb ... 244s Unpacking libasan8:armhf (14.2.0-7ubuntu1) ... 244s Selecting previously unselected package libubsan1:armhf. 244s Preparing to unpack .../21-libubsan1_14.2.0-7ubuntu1_armhf.deb ... 244s Unpacking libubsan1:armhf (14.2.0-7ubuntu1) ... 244s Selecting previously unselected package libgcc-14-dev:armhf. 244s Preparing to unpack .../22-libgcc-14-dev_14.2.0-7ubuntu1_armhf.deb ... 244s Unpacking libgcc-14-dev:armhf (14.2.0-7ubuntu1) ... 244s Selecting previously unselected package gcc-14-arm-linux-gnueabihf. 244s Preparing to unpack .../23-gcc-14-arm-linux-gnueabihf_14.2.0-7ubuntu1_armhf.deb ... 244s Unpacking gcc-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 245s Selecting previously unselected package gcc-14. 245s Preparing to unpack .../24-gcc-14_14.2.0-7ubuntu1_armhf.deb ... 245s Unpacking gcc-14 (14.2.0-7ubuntu1) ... 245s Selecting previously unselected package gcc-arm-linux-gnueabihf. 245s Preparing to unpack .../25-gcc-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 245s Unpacking gcc-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 245s Selecting previously unselected package gcc. 245s Preparing to unpack .../26-gcc_4%3a14.1.0-2ubuntu1_armhf.deb ... 245s Unpacking gcc (4:14.1.0-2ubuntu1) ... 245s Selecting previously unselected package libstdc++-14-dev:armhf. 245s Preparing to unpack .../27-libstdc++-14-dev_14.2.0-7ubuntu1_armhf.deb ... 245s Unpacking libstdc++-14-dev:armhf (14.2.0-7ubuntu1) ... 245s Selecting previously unselected package g++-14-arm-linux-gnueabihf. 245s Preparing to unpack .../28-g++-14-arm-linux-gnueabihf_14.2.0-7ubuntu1_armhf.deb ... 245s Unpacking g++-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 245s Selecting previously unselected package g++-14. 245s Preparing to unpack .../29-g++-14_14.2.0-7ubuntu1_armhf.deb ... 245s Unpacking g++-14 (14.2.0-7ubuntu1) ... 245s Selecting previously unselected package g++-arm-linux-gnueabihf. 245s Preparing to unpack .../30-g++-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 245s Unpacking g++-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 246s Selecting previously unselected package g++. 246s Preparing to unpack .../31-g++_4%3a14.1.0-2ubuntu1_armhf.deb ... 246s Unpacking g++ (4:14.1.0-2ubuntu1) ... 246s Selecting previously unselected package build-essential. 246s Preparing to unpack .../32-build-essential_12.10ubuntu1_armhf.deb ... 246s Unpacking build-essential (12.10ubuntu1) ... 246s Selecting previously unselected package libdebhelper-perl. 246s Preparing to unpack .../33-libdebhelper-perl_13.20ubuntu1_all.deb ... 246s Unpacking libdebhelper-perl (13.20ubuntu1) ... 246s Selecting previously unselected package libtool. 246s Preparing to unpack .../34-libtool_2.4.7-7build1_all.deb ... 246s Unpacking libtool (2.4.7-7build1) ... 246s Selecting previously unselected package dh-autoreconf. 246s Preparing to unpack .../35-dh-autoreconf_20_all.deb ... 246s Unpacking dh-autoreconf (20) ... 246s Selecting previously unselected package libarchive-zip-perl. 246s Preparing to unpack .../36-libarchive-zip-perl_1.68-1_all.deb ... 246s Unpacking libarchive-zip-perl (1.68-1) ... 246s Selecting previously unselected package libfile-stripnondeterminism-perl. 246s Preparing to unpack .../37-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... 246s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... 246s Selecting previously unselected package dh-strip-nondeterminism. 246s Preparing to unpack .../38-dh-strip-nondeterminism_1.14.0-1_all.deb ... 246s Unpacking dh-strip-nondeterminism (1.14.0-1) ... 246s Selecting previously unselected package debugedit. 246s Preparing to unpack .../39-debugedit_1%3a5.1-1_armhf.deb ... 246s Unpacking debugedit (1:5.1-1) ... 246s Selecting previously unselected package dwz. 246s Preparing to unpack .../40-dwz_0.15-1build6_armhf.deb ... 246s Unpacking dwz (0.15-1build6) ... 246s Selecting previously unselected package gettext. 246s Preparing to unpack .../41-gettext_0.22.5-2_armhf.deb ... 246s Unpacking gettext (0.22.5-2) ... 246s Selecting previously unselected package intltool-debian. 246s Preparing to unpack .../42-intltool-debian_0.35.0+20060710.6_all.deb ... 246s Unpacking intltool-debian (0.35.0+20060710.6) ... 246s Selecting previously unselected package po-debconf. 246s Preparing to unpack .../43-po-debconf_1.0.21+nmu1_all.deb ... 246s Unpacking po-debconf (1.0.21+nmu1) ... 246s Selecting previously unselected package debhelper. 246s Preparing to unpack .../44-debhelper_13.20ubuntu1_all.deb ... 246s Unpacking debhelper (13.20ubuntu1) ... 246s Selecting previously unselected package libdeflate0:armhf. 246s Preparing to unpack .../45-libdeflate0_1.21-1_armhf.deb ... 246s Unpacking libdeflate0:armhf (1.21-1) ... 246s Selecting previously unselected package libhtscodecs2:armhf. 246s Preparing to unpack .../46-libhtscodecs2_1.6.0-1build1_armhf.deb ... 246s Unpacking libhtscodecs2:armhf (1.6.0-1build1) ... 246s Selecting previously unselected package libhts3t64:armhf. 246s Preparing to unpack .../47-libhts3t64_1.20+ds-2_armhf.deb ... 246s Unpacking libhts3t64:armhf (1.20+ds-2) ... 246s Selecting previously unselected package libio-string-perl. 246s Preparing to unpack .../48-libio-string-perl_1.08-4_all.deb ... 246s Unpacking libio-string-perl (1.08-4) ... 246s Selecting previously unselected package libdata-stag-perl. 246s Preparing to unpack .../49-libdata-stag-perl_0.14-3_all.deb ... 246s Unpacking libdata-stag-perl (0.14-3) ... 246s Selecting previously unselected package libbio-perl-perl. 246s Preparing to unpack .../50-libbio-perl-perl_1.7.8-1_all.deb ... 246s Unpacking libbio-perl-perl (1.7.8-1) ... 247s Selecting previously unselected package libbio-db-hts-perl. 247s Preparing to unpack .../51-libbio-db-hts-perl_3.01-4build4_armhf.deb ... 247s Unpacking libbio-db-hts-perl (3.01-4build4) ... 247s Selecting previously unselected package libbrotli-dev:armhf. 247s Preparing to unpack .../52-libbrotli-dev_1.1.0-2build2_armhf.deb ... 247s Unpacking libbrotli-dev:armhf (1.1.0-2build2) ... 247s Selecting previously unselected package libbz2-dev:armhf. 247s Preparing to unpack .../53-libbz2-dev_1.0.8-6_armhf.deb ... 247s Unpacking libbz2-dev:armhf (1.0.8-6) ... 247s Selecting previously unselected package libevent-2.1-7t64:armhf. 247s Preparing to unpack .../54-libevent-2.1-7t64_2.1.12-stable-10_armhf.deb ... 247s Unpacking libevent-2.1-7t64:armhf (2.1.12-stable-10) ... 247s Selecting previously unselected package libunbound8:armhf. 247s Preparing to unpack .../55-libunbound8_1.20.0-1ubuntu2.1_armhf.deb ... 247s Unpacking libunbound8:armhf (1.20.0-1ubuntu2.1) ... 247s Selecting previously unselected package libgnutls-dane0t64:armhf. 247s Preparing to unpack .../56-libgnutls-dane0t64_3.8.6-2ubuntu1_armhf.deb ... 247s Unpacking libgnutls-dane0t64:armhf (3.8.6-2ubuntu1) ... 247s Selecting previously unselected package libgnutls-openssl27t64:armhf. 247s Preparing to unpack .../57-libgnutls-openssl27t64_3.8.6-2ubuntu1_armhf.deb ... 247s Unpacking libgnutls-openssl27t64:armhf (3.8.6-2ubuntu1) ... 247s Selecting previously unselected package libidn2-dev:armhf. 247s Preparing to unpack .../58-libidn2-dev_2.3.7-2build2_armhf.deb ... 247s Unpacking libidn2-dev:armhf (2.3.7-2build2) ... 247s Selecting previously unselected package libp11-kit-dev:armhf. 247s Preparing to unpack .../59-libp11-kit-dev_0.25.5-2ubuntu1_armhf.deb ... 247s Unpacking libp11-kit-dev:armhf (0.25.5-2ubuntu1) ... 247s Selecting previously unselected package libtasn1-6-dev:armhf. 247s Preparing to unpack .../60-libtasn1-6-dev_4.19.0-3build1_armhf.deb ... 247s Unpacking libtasn1-6-dev:armhf (4.19.0-3build1) ... 247s Selecting previously unselected package libgmpxx4ldbl:armhf. 247s Preparing to unpack .../61-libgmpxx4ldbl_2%3a6.3.0+dfsg-2ubuntu7_armhf.deb ... 247s Unpacking libgmpxx4ldbl:armhf (2:6.3.0+dfsg-2ubuntu7) ... 247s Selecting previously unselected package libgmp-dev:armhf. 247s Preparing to unpack .../62-libgmp-dev_2%3a6.3.0+dfsg-2ubuntu7_armhf.deb ... 247s Unpacking libgmp-dev:armhf (2:6.3.0+dfsg-2ubuntu7) ... 247s Selecting previously unselected package nettle-dev:armhf. 247s Preparing to unpack .../63-nettle-dev_3.10-1_armhf.deb ... 247s Unpacking nettle-dev:armhf (3.10-1) ... 247s Selecting previously unselected package libgnutls28-dev:armhf. 247s Preparing to unpack .../64-libgnutls28-dev_3.8.6-2ubuntu1_armhf.deb ... 247s Unpacking libgnutls28-dev:armhf (3.8.6-2ubuntu1) ... 247s Selecting previously unselected package libpkgconf3:armhf. 247s Preparing to unpack .../65-libpkgconf3_1.8.1-3ubuntu1_armhf.deb ... 247s Unpacking libpkgconf3:armhf (1.8.1-3ubuntu1) ... 247s Selecting previously unselected package pkgconf-bin. 247s Preparing to unpack .../66-pkgconf-bin_1.8.1-3ubuntu1_armhf.deb ... 247s Unpacking pkgconf-bin (1.8.1-3ubuntu1) ... 247s Selecting previously unselected package pkgconf:armhf. 247s Preparing to unpack .../67-pkgconf_1.8.1-3ubuntu1_armhf.deb ... 247s Unpacking pkgconf:armhf (1.8.1-3ubuntu1) ... 247s Selecting previously unselected package libnghttp2-dev:armhf. 247s Preparing to unpack .../68-libnghttp2-dev_1.62.1-2_armhf.deb ... 247s Unpacking libnghttp2-dev:armhf (1.62.1-2) ... 247s Selecting previously unselected package libpsl-dev:armhf. 247s Preparing to unpack .../69-libpsl-dev_0.21.2-1.1build1_armhf.deb ... 247s Unpacking libpsl-dev:armhf (0.21.2-1.1build1) ... 248s Selecting previously unselected package zlib1g-dev:armhf. 248s Preparing to unpack .../70-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_armhf.deb ... 248s Unpacking zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 248s Selecting previously unselected package librtmp-dev:armhf. 248s Preparing to unpack .../71-librtmp-dev_2.4+20151223.gitfa8646d.1-2build7_armhf.deb ... 248s Unpacking librtmp-dev:armhf (2.4+20151223.gitfa8646d.1-2build7) ... 248s Selecting previously unselected package libssl-dev:armhf. 248s Preparing to unpack .../72-libssl-dev_3.3.1-2ubuntu2_armhf.deb ... 248s Unpacking libssl-dev:armhf (3.3.1-2ubuntu2) ... 248s Selecting previously unselected package libssh2-1-dev:armhf. 248s Preparing to unpack .../73-libssh2-1-dev_1.11.0-7_armhf.deb ... 248s Unpacking libssh2-1-dev:armhf (1.11.0-7) ... 248s Selecting previously unselected package libzstd-dev:armhf. 248s Preparing to unpack .../74-libzstd-dev_1.5.6+dfsg-1_armhf.deb ... 248s Unpacking libzstd-dev:armhf (1.5.6+dfsg-1) ... 248s Selecting previously unselected package libcurl4-gnutls-dev:armhf. 248s Preparing to unpack .../75-libcurl4-gnutls-dev_8.9.1-2ubuntu2_armhf.deb ... 248s Unpacking libcurl4-gnutls-dev:armhf (8.9.1-2ubuntu2) ... 248s Selecting previously unselected package libdeflate-dev:armhf. 248s Preparing to unpack .../76-libdeflate-dev_1.21-1_armhf.deb ... 248s Unpacking libdeflate-dev:armhf (1.21-1) ... 248s Selecting previously unselected package pkg-config:armhf. 248s Preparing to unpack .../77-pkg-config_1.8.1-3ubuntu1_armhf.deb ... 248s Unpacking pkg-config:armhf (1.8.1-3ubuntu1) ... 248s Selecting previously unselected package libextutils-pkgconfig-perl. 248s Preparing to unpack .../78-libextutils-pkgconfig-perl_1.16-3_all.deb ... 248s Unpacking libextutils-pkgconfig-perl (1.16-3) ... 248s Selecting previously unselected package liblzma-dev:armhf. 248s Preparing to unpack .../79-liblzma-dev_5.6.2-2_armhf.deb ... 248s Unpacking liblzma-dev:armhf (5.6.2-2) ... 248s Selecting previously unselected package libhts-dev:armhf. 248s Preparing to unpack .../80-libhts-dev_1.20+ds-2_armhf.deb ... 248s Unpacking libhts-dev:armhf (1.20+ds-2) ... 248s Selecting previously unselected package libmodule-build-perl. 248s Preparing to unpack .../81-libmodule-build-perl_0.423400-2_all.deb ... 248s Adding 'diversion of /usr/bin/config_data to /usr/bin/config_data.diverted by libmodule-build-perl' 248s Adding 'diversion of /usr/share/man/man1/config_data.1.gz to /usr/share/man/man1/config_data.diverted.1.gz by libmodule-build-perl' 248s Unpacking libmodule-build-perl (0.423400-2) ... 248s Selecting previously unselected package pkg-perl-autopkgtest. 248s Preparing to unpack .../82-pkg-perl-autopkgtest_0.79_all.deb ... 248s Unpacking pkg-perl-autopkgtest (0.79) ... 248s Selecting previously unselected package autopkgtest-satdep. 248s Preparing to unpack .../83-1-autopkgtest-satdep.deb ... 248s Unpacking autopkgtest-satdep (0) ... 248s Setting up libhtscodecs2:armhf (1.6.0-1build1) ... 248s Setting up libgnutls-openssl27t64:armhf (3.8.6-2ubuntu1) ... 248s Setting up libzstd-dev:armhf (1.5.6+dfsg-1) ... 248s Setting up libarchive-zip-perl (1.68-1) ... 248s Setting up libdebhelper-perl (13.20ubuntu1) ... 248s Setting up libdeflate0:armhf (1.21-1) ... 248s Setting up linux-libc-dev:armhf (6.11.0-8.8) ... 248s Setting up m4 (1.4.19-4build1) ... 248s Setting up libevent-2.1-7t64:armhf (2.1.12-stable-10) ... 248s Setting up libgomp1:armhf (14.2.0-7ubuntu1) ... 248s Setting up libpsl-dev:armhf (0.21.2-1.1build1) ... 248s Setting up libmodule-build-perl (0.423400-2) ... 248s Setting up libio-string-perl (1.08-4) ... 248s Setting up autotools-dev (20220109.1) ... 248s Setting up libunbound8:armhf (1.20.0-1ubuntu2.1) ... 248s Setting up libpkgconf3:armhf (1.8.1-3ubuntu1) ... 248s Setting up libgmpxx4ldbl:armhf (2:6.3.0+dfsg-2ubuntu7) ... 248s Setting up rpcsvc-proto (1.4.2-0ubuntu7) ... 248s Setting up libgnutls-dane0t64:armhf (3.8.6-2ubuntu1) ... 248s Setting up libssl-dev:armhf (3.3.1-2ubuntu2) ... 248s Setting up libmpc3:armhf (1.3.1-1build2) ... 248s Setting up autopoint (0.22.5-2) ... 248s Setting up pkgconf-bin (1.8.1-3ubuntu1) ... 248s Setting up libidn2-dev:armhf (2.3.7-2build2) ... 248s Setting up autoconf (2.72-3) ... 248s Setting up liblzma-dev:armhf (5.6.2-2) ... 248s Setting up libubsan1:armhf (14.2.0-7ubuntu1) ... 248s Setting up dwz (0.15-1build6) ... 248s Setting up libdata-stag-perl (0.14-3) ... 248s Setting up libcrypt-dev:armhf (1:4.4.36-4build1) ... 248s Setting up libasan8:armhf (14.2.0-7ubuntu1) ... 248s Setting up debugedit (1:5.1-1) ... 248s Setting up libhts3t64:armhf (1.20+ds-2) ... 248s Setting up libbio-perl-perl (1.7.8-1) ... 248s Setting up libgcc-14-dev:armhf (14.2.0-7ubuntu1) ... 248s Setting up libisl23:armhf (0.27-1) ... 248s Setting up libc-dev-bin (2.40-1ubuntu3) ... 248s Setting up libtasn1-6-dev:armhf (4.19.0-3build1) ... 248s Setting up libdeflate-dev:armhf (1.21-1) ... 248s Setting up libcc1-0:armhf (14.2.0-7ubuntu1) ... 248s Setting up libbrotli-dev:armhf (1.1.0-2build2) ... 248s Setting up libp11-kit-dev:armhf (0.25.5-2ubuntu1) ... 248s Setting up dctrl-tools (2.24-3build3) ... 248s Setting up autodep8 (0.28+nmu1ubuntu1) ... 248s Setting up cpp-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 248s Setting up automake (1:1.16.5-1.3ubuntu1) ... 248s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 248s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 248s Setting up gettext (0.22.5-2) ... 248s Setting up libgmp-dev:armhf (2:6.3.0+dfsg-2ubuntu7) ... 248s Setting up nettle-dev:armhf (3.10-1) ... 248s Setting up libbio-db-hts-perl (3.01-4build4) ... 248s Setting up gcc-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 248s Setting up pkgconf:armhf (1.8.1-3ubuntu1) ... 248s Setting up intltool-debian (0.35.0+20060710.6) ... 248s Setting up pkg-config:armhf (1.8.1-3ubuntu1) ... 248s Setting up pkg-perl-autopkgtest (0.79) ... 248s Setting up cpp-14 (14.2.0-7ubuntu1) ... 248s Setting up dh-strip-nondeterminism (1.14.0-1) ... 248s Setting up libc6-dev:armhf (2.40-1ubuntu3) ... 248s Setting up libstdc++-14-dev:armhf (14.2.0-7ubuntu1) ... 248s Setting up cpp-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 248s Setting up libbz2-dev:armhf (1.0.8-6) ... 248s Setting up gcc-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 248s Setting up libgnutls28-dev:armhf (3.8.6-2ubuntu1) ... 248s Setting up libnghttp2-dev:armhf (1.62.1-2) ... 248s Setting up g++-14-arm-linux-gnueabihf (14.2.0-7ubuntu1) ... 248s Setting up libextutils-pkgconfig-perl (1.16-3) ... 248s Setting up po-debconf (1.0.21+nmu1) ... 248s Setting up gcc-14 (14.2.0-7ubuntu1) ... 248s Setting up zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 248s Setting up cpp (4:14.1.0-2ubuntu1) ... 248s Setting up g++-14 (14.2.0-7ubuntu1) ... 248s Setting up g++-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 248s Setting up libtool (2.4.7-7build1) ... 248s Setting up gcc (4:14.1.0-2ubuntu1) ... 248s Setting up dh-autoreconf (20) ... 248s Setting up librtmp-dev:armhf (2.4+20151223.gitfa8646d.1-2build7) ... 248s Setting up libssh2-1-dev:armhf (1.11.0-7) ... 248s Setting up g++ (4:14.1.0-2ubuntu1) ... 248s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 248s Setting up build-essential (12.10ubuntu1) ... 248s Setting up debhelper (13.20ubuntu1) ... 248s Setting up libcurl4-gnutls-dev:armhf (8.9.1-2ubuntu2) ... 248s Setting up libhts-dev:armhf (1.20+ds-2) ... 248s Setting up autopkgtest-satdep (0) ... 248s Processing triggers for man-db (2.12.1-3) ... 250s Processing triggers for install-info (7.1.1-1) ... 250s Processing triggers for libc-bin (2.40-1ubuntu3) ... 265s (Reading database ... 65699 files and directories currently installed.) 265s Removing autopkgtest-satdep (0) ... 270s autopkgtest [00:44:50]: test autodep8-perl-build-deps: /usr/share/pkg-perl-autopkgtest/runner build-deps 270s autopkgtest [00:44:50]: test autodep8-perl-build-deps: [----------------------- 273s t/00load.t ....... 273s ok 1 - use Bio::DB::HTS; 273s ok 2 - use Bio::DB::HTS::Tabix; 273s ok 3 - use Bio::DB::HTS::Tabix::Iterator; 273s ok 4 - use Bio::DB::HTS::Kseq; 273s 1..4 273s ok 273s t/01bam.t ........ 273s 1..452 273s # Running under perl version 5.040000 for linux 273s # Current time local: Mon Nov 4 00:44:52 2024 273s # Current time GMT: Mon Nov 4 00:44:52 2024 273s # Using Test.pm version 1.31 273s ok 1 273s ok 2 273s ok 3 273s ok 4 273s ok 5 273s ok 6 273s ok 7 273s ok 8 273s ok 9 273s ok 10 273s ok 11 273s ok 12 273s ok 13 273s ok 14 273s ok 15 273s ok 16 273s ok 17 273s ok 18 273s ok 19 273s ok 20 273s ok 21 273s ok 22 273s ok 23 273s ok 24 273s ok 25 273s ok 26 273s ok 27 273s ok 28 273s ok 29 273s ok 30 273s ok 31 273s ok 32 273s ok 33 273s ok 34 273s ok 35 273s ok 36 273s ok 37 273s ok 38 273s ok 39 273s ok 40 273s ok 41 273s ok 42 273s ok 43 273s ok 44 273s ok 45 273s ok 46 273s ok 47 273s ok 48 273s ok 49 273s ok 50 273s ok 51 273s ok 52 273s ok 53 273s ok 54 273s ok 55 273s ok 56 273s ok 57 273s ok 58 273s ok 59 273s ok 60 273s ok 61 273s ok 62 273s ok 63 273s ok 64 273s ok 65 273s ok 66 273s ok 67 273s ok 68 273s ok 69 273s ok 70 273s ok 71 273s ok 72 273s ok 73 273s ok 74 273s ok 75 273s ok 76 273s ok 77 273s ok 78 273s ok 79 273s ok 80 273s ok 81 273s ok 82 273s ok 83 273s ok 84 273s ok 85 273s ok 86 273s ok 87 273s ok 88 273s ok 89 273s ok 90 273s ok 91 273s ok 92 273s ok 93 273s ok 94 273s ok 95 273s ok 96 273s ok 97 273s ok 98 273s ok 99 273s ok 100 273s ok 101 273s ok 102 273s ok 103 273s ok 104 273s ok 105 273s ok 106 273s ok 107 273s ok 108 273s ok 109 273s ok 110 273s ok 111 273s ok 112 273s ok 113 273s ok 114 273s ok 115 273s ok 116 273s ok 117 273s ok 118 273s ok 119 273s ok 120 273s ok 121 273s ok 122 273s ok 123 273s ok 124 273s ok 125 273s ok 126 273s ok 127 273s ok 128 273s ok 129 273s ok 130 273s ok 131 273s ok 132 273s ok 133 273s ok 134 273s ok 135 273s ok 136 273s ok 137 273s ok 138 273s ok 139 273s ok 140 273s ok 141 273s ok 142 273s ok 143 273s ok 144 273s ok 145 273s ok 146 273s ok 147 273s ok 148 273s ok 149 273s ok 150 273s ok 151 273s ok 152 273s ok 153 273s ok 154 273s ok 155 273s ok 156 273s ok 157 273s ok 158 273s ok 159 273s ok 160 273s ok 161 273s ok 162 273s ok 163 273s ok 164 273s ok 165 273s ok 166 273s ok 167 273s ok 168 273s ok 169 273s ok 170 273s ok 171 273s ok 172 273s ok 173 273s ok 174 273s ok 175 273s ok 176 273s ok 177 273s ok 178 273s ok 179 273s ok 180 273s ok 181 273s ok 182 273s ok 183 273s ok 184 273s ok 185 273s ok 186 273s ok 187 273s ok 188 273s ok 189 273s ok 190 273s ok 191 273s ok 192 273s ok 193 273s ok 194 273s ok 195 273s ok 196 273s ok 197 273s ok 198 273s ok 199 273s ok 200 273s ok 201 273s ok 202 273s ok 203 273s ok 204 273s ok 205 273s ok 206 273s ok 207 273s ok 208 273s ok 209 273s ok 210 273s ok 211 273s ok 212 273s ok 213 273s ok 214 273s ok 215 273s ok 216 273s ok 217 273s ok 218 273s ok 219 273s ok 220 273s ok 221 273s ok 222 273s ok 223 273s ok 224 273s ok 225 273s ok 226 273s ok 227 273s ok 228 273s ok 229 273s ok 230 273s ok 231 273s ok 232 273s ok 233 273s ok 234 273s ok 235 273s ok 236 273s ok 237 273s ok 238 273s ok 239 273s ok 240 273s ok 241 273s ok 242 273s ok 243 273s ok 244 273s ok 245 273s ok 246 273s ok 247 273s ok 248 273s ok 249 273s ok 250 273s ok 251 273s ok 252 273s ok 253 273s ok 254 273s ok 255 273s ok 256 273s ok 257 273s ok 258 273s ok 259 273s ok 260 273s ok 261 273s ok 262 273s ok 263 273s ok 264 273s ok 265 273s ok 266 273s ok 267 273s ok 268 273s ok 269 273s ok 270 273s ok 271 273s ok 272 273s ok 273 273s ok 274 273s ok 275 273s ok 276 273s ok 277 273s ok 278 273s ok 279 273s ok 280 273s ok 281 273s ok 282 273s ok 283 273s ok 284 273s ok 285 273s ok 286 273s ok 287 273s ok 288 273s ok 289 273s ok 290 273s ok 291 273s ok 292 273s ok 293 273s ok 294 273s ok 295 273s ok 296 273s ok 297 273s ok 298 273s ok 299 273s ok 300 273s ok 301 273s ok 302 273s ok 303 273s ok 304 273s ok 305 273s ok 306 273s ok 307 273s ok 308 273s ok 309 273s ok 310 273s ok 311 273s ok 312 273s ok 313 273s ok 314 273s ok 315 273s ok 316 273s ok 317 273s ok 318 273s ok 319 273s ok 320 273s ok 321 273s ok 322 273s ok 323 273s ok 324 273s ok 325 273s ok 326 273s ok 327 273s ok 328 273s ok 329 273s ok 330 273s ok 331 273s ok 332 273s ok 333 273s ok 334 273s ok 335 273s ok 336 273s ok 337 273s ok 338 273s ok 339 273s ok 340 273s ok 341 273s ok 342 273s ok 343 273s ok 344 273s ok 345 273s ok 346 273s ok 347 273s ok 348 273s ok 349 273s ok 350 273s ok 351 273s ok 352 273s ok 353 273s ok 354 273s ok 355 273s ok 356 273s ok 357 273s ok 358 273s ok 359 273s ok 360 273s ok 361 273s ok 362 273s ok 363 273s ok 364 273s ok 365 273s ok 366 273s ok 367 273s ok 368 273s ok 369 273s ok 370 273s ok 371 273s ok 372 273s ok 373 273s ok 374 273s ok 375 273s ok 376 273s ok 377 273s ok 378 273s ok 379 273s ok 380 273s ok 381 273s ok 382 273s ok 383 273s ok 384 273s ok 385 273s ok 386 273s ok 387 273s ok 388 273s ok 389 273s ok 390 273s ok 391 273s ok 392 273s ok 393 273s ok 394 273s ok 395 273s ok 396 273s ok 397 273s ok 398 273s ok 399 273s ok 400 273s ok 401 273s ok 402 273s ok 403 273s ok 404 273s ok 405 273s ok 406 273s ok 407 273s ok 408 273s ok 409 273s ok 410 273s ok 411 273s ok 412 273s ok 413 273s ok 414 273s ok 415 273s ok 416 273s ok 417 273s ok 418 273s ok 419 273s ok 420 273s ok 421 273s ok 422 273s ok 423 273s ok 424 273s ok 425 273s ok 426 273s ok 427 273s ok 428 273s ok 429 273s ok 430 273s ok 431 273s ok 432 273s ok 433 273s ok 434 273s ok 435 273s ok 436 273s ok 437 273s ok 438 273s ok 439 273s ok 440 273s ok 441 273s ok 442 273s ok 443 273s ok 444 273s ok 445 273s ok 446 273s ok 447 273s ok 448 273s ok 449 273s ok 450 273s ok 451 273s ok 452 273s ok 274s t/02faidx.t ...... 274s 1..15 274s ok 1 - use Bio::DB::HTS; 274s ok 2 - use Bio::DB::HTS::Faidx; 274s ok 3 274s ok 4 274s ok 5 274s ok 6 274s ok 7 274s ok 8 274s ok 9 274s ok 10 274s ok 11 274s ok 12 274s # 230218 274s ok 13 - length of I 274s ok 14 - has sequence I 274s ok 15 - Does not have sequence II 274s ok 278s t/03cram.t ....... 278s 1..139 278s # Running under perl version 5.040000 for linux 278s # Current time local: Mon Nov 4 00:44:53 2024 278s # Current time GMT: Mon Nov 4 00:44:53 2024 278s # Using Test.pm version 1.31 278s ok 1 278s ok 2 278s ok 3 278s ok 4 278s ok 5 278s ok 6 278s ok 7 278s ok 8 278s ok 9 278s ok 10 278s ok 11 278s ok 12 278s ok 13 278s ok 14 278s ok 15 278s ok 16 278s ok 17 278s ok 18 278s ok 19 278s ok 20 278s ok 21 278s ok 22 278s ok 23 278s ok 24 278s ok 25 278s ok 26 278s ok 27 278s ok 28 278s ok 29 278s ok 30 278s ok 31 278s ok 32 278s ok 33 278s ok 34 278s ok 35 278s ok 36 278s ok 37 278s ok 38 278s ok 39 278s ok 40 278s ok 41 278s ok 42 278s ok 43 278s ok 44 278s ok 45 278s ok 46 278s ok 47 278s ok 48 278s ok 49 278s ok 50 278s ok 51 278s ok 52 278s ok 53 278s ok 54 278s ok 55 278s ok 56 278s ok 57 278s ok 58 278s ok 59 278s ok 60 278s ok 61 278s ok 62 278s ok 63 278s ok 64 278s ok 65 278s ok 66 278s ok 67 278s ok 68 278s ok 69 278s ok 70 278s ok 71 278s ok 72 278s ok 73 278s ok 74 278s ok 75 278s ok 76 278s ok 77 278s ok 78 278s ok 79 278s ok 80 278s ok 81 278s ok 82 278s ok 83 278s ok 84 278s ok 85 278s ok 86 278s ok 87 278s ok 88 278s ok 89 278s ok 90 278s ok 91 278s ok 92 278s ok 93 278s ok 94 278s ok 95 278s ok 96 278s ok 97 278s ok 98 278s ok 99 278s ok 100 278s ok 101 278s ok 102 278s ok 103 278s ok 104 278s ok 105 278s ok 106 278s ok 107 278s ok 108 278s ok 109 278s ok 110 278s ok 111 278s ok 112 278s ok 113 278s ok 114 278s ok 115 278s ok 116 278s ok 117 278s ok 118 278s ok 119 278s ok 120 278s ok 121 278s ok 122 278s ok 123 278s ok 124 278s ok 125 278s ok 126 278s ok 127 278s ok 128 278s ok 129 278s ok 130 278s ok 131 278s ok 132 278s ok 133 278s ok 134 278s ok 135 278s ok 136 278s ok 137 278s ok 138 278s ok 139 278s ok 278s t/04tabix.t ...... 278s 1..21 278s ok 1 - use Bio::DB::HTS::Tabix; 278s ok 2 - \#CHROM FROM TO GERP 278s ok 3 - \#CHROM FROM TO GERP 278s ok 4 - can query a region 278s ok 5 - can get a value from the iterator 278s ok 6 - row value is correct 278s ok 7 - correct number of values come back from the iterator 278s ok 8 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 9 - seqnames are correct 278s ok 10 - can query a region with ':' in chr 278s ok 11 - can get a value from the iterator 278s ok 12 - row value is correct with ':' in chr 278s ok 13 - can query a region with ':' in chr, no end 278s ok 14 - can get a value from the iterator 278s ok 15 - row value is correct with ':' in chr, no end 278s ok 16 - can query a region with ':' in chr, no coord 278s ok 17 - can get a value from the iterator 278s ok 18 - row value is correct with ':' in chr, no coord 278s ok 19 - querying non existent chrom 278s ok 20 - \#\#fileformat=VCFv4.2 278s ok 21 - \#\#reference=human_b36_both.fasta 278s ok 278s t/05vcf.t ........ 278s 1..177 278s ok 1 - use Bio::DB::HTS::VCF; 278s ok 2 - use Bio::DB::HTS::VCF::Row; 278s ok 3 - use Bio::DB::HTS::VCF::RowPtr; 278s ok 4 - use Bio::DB::HTS::VCF::Header; 278s ok 5 - use Bio::DB::HTS::VCF::HeaderPtr; 278s ok 6 - Chromosome value read 278s ok 7 - Chromosome value read 278s ok 8 - Position value read 278s ok 9 - Quality value read 278s ok 10 - Quality value read 278s ok 11 - ID value read 278s ok 12 - Number of alleles value read 278s ok 13 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 14 - alleles are correct 278s ok 15 - VCF file open 278s ok 16 - correct number of variants identified in file 278s ok 17 - Header formatted string 278s ok 18 - VCF Header version matches 278s ok 19 - Number of samples 278s ok 20 - sample names correct 278s ok 21 - Number of seqnames 278s ok 22 278s ok 23 - sequence names correct 278s ok 24 - Next row 278s ok 25 - Chromosome value read 278s ok 26 - Position value read 278s ok 27 - ID value read 278s ok 28 - Num Filters OK 278s ok 29 - Actual Filter present 278s ok 30 - PASS filter absent 278s ok 31 - Variant type matches 278s ok 32 - info read correctly 278s ok 33 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 34 - info flag read correctly 278s ok 35 - info flag type correct 278s ok 36 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 37 - info float read correctly 278s ok 38 - info float type correct 278s ok 39 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 40 - info string read correctly 278s ok 41 - info String type correct 278s ok 42 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 43 - info ints read correctly 278s ok 44 - info int type correct 278s ok 45 - format int read 278s ok 46 - format int read 278s ok 47 - format id not present 278s ok 48 - format read 278s ok 49 - Next row 278s ok 50 - Chromosome value read 278s ok 51 - Position value read 278s ok 52 - Quality value read 278s ok 53 - Reference value read 278s ok 54 - Num Alleles 278s ok 55 - Is SNP 278s ok 56 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 57 - alleles are correct 278s ok 58 - Num Filters OK 278s ok 59 - PASS Filter present 278s ok 60 - Actual Filter absent 278s ok 61 - Made up filter not existing 278s ok 62 - info read correctly 278s ok 63 - format int read 278s ok 64 - format int read 278s ok 65 - format id not present 278s ok 66 - format read 278s ok 67 - Next row 278s ok 68 - Chromosome value read 278s ok 69 - int format type correct 278s ok 70 - format int read 278s ok 71 - format int read 278s ok 72 - format int read 278s # !!! Not sure this is correct !!! 278s ok 73 - format int read 278s ok 74 - format read 278s ok 75 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 76 - genotypes read correctly 278s ok 77 - format id not found 278s ok 78 - info id not found 278s ok 79 - info read correctly 278s ok 80 - can query a region 278s ok 81 - can get a value from the iterator 278s ok 82 - chr 278s ok 83 - position 278s ok 84 - id 278s ok 85 - reference 278s ok 86 - info 278s ok 87 - info 278s ok 88 - info 278s ok 89 - info 278s ok 90 - can get a value from the iterator 278s ok 91 - chr 278s ok 92 - position 278s ok 93 - id 278s ok 94 - reference 278s ok 95 - info 278s ok 96 - no more results 278s ok 97 - BCF file open 278s ok 98 - correct number of variants identified in file 278s ok 99 - Header formatted string 278s ok 100 - VCF Header version matches 278s ok 101 - Number of samples 278s ok 102 - sample names correct 278s ok 103 - Number of seqnames 278s ok 104 - sequence names correct 278s ok 105 - Next row 278s ok 106 - Chromosome value read 278s ok 107 - Position value read 278s ok 108 - ID value read 278s ok 109 - Num Filters OK 278s ok 110 - Actual Filter present 278s ok 111 - PASS filter absent 278s ok 112 - Variant type matches 278s ok 113 - info read correctly 278s ok 114 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 115 - info flag read correctly 278s ok 116 - info flag type correct 278s ok 117 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 118 - info float read correctly 278s ok 119 - info float type correct 278s ok 120 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 121 - info string read correctly 278s ok 122 - info String type correct 278s ok 123 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 124 - info ints read correctly 278s ok 125 - info int type correct 278s ok 126 - format int read 278s ok 127 - format int read 278s ok 128 - format ID not present 278s ok 129 - format read 278s ok 130 - Next row 278s ok 131 - Chromosome value read 278s ok 132 - Position value read 278s ok 133 - Quality value read 278s ok 134 - Reference value read 278s ok 135 - Num Alleles 278s ok 136 - Is SNP 278s ok 137 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 138 - alleles are correct 278s ok 139 - Num Filters OK 278s ok 140 - PASS Filter present 278s ok 141 - Actual Filter absent 278s ok 142 - Made up filter not existing 278s ok 143 - info read correctly 278s ok 144 - format int read 278s ok 145 - format int read 278s ok 146 - format ID not present 278s ok 147 - format read 278s ok 148 - Next row 278s ok 149 - Chromosome value read 278s ok 150 - int format type correct 278s ok 151 - format int read 278s ok 152 - format int read 278s ok 153 - format int read 278s # !!! Not sure this is correct !!! 278s ok 154 - format int read 278s ok 155 - format read 278s ok 156 - A reference of type 'ARRAY' isa 'ARRAY' 278s ok 157 - genotypes read correctly 278s ok 158 - format id not found 278s ok 159 - info id not found 278s ok 160 - info read correctly 278s ok 161 - can query a region 278s ok 162 - can get a value from the iterator 278s ok 163 - chr 278s ok 164 - position 278s ok 165 - id 278s ok 166 - reference 278s ok 167 - info 278s ok 168 - info 278s ok 169 - info 278s ok 170 - info 278s ok 171 - can get a value from the iterator 278s ok 172 - chr 278s ok 173 - position 278s ok 174 - id 278s ok 175 - reference 278s ok 176 - info 278s ok 177 - no more results 278s ok 278s t/06kseq.t ....... 278s ok 1 - correct num. seqs in bug2335 278s ok 2 - sample sequence obtained 278s ok 3 - seq matches bug2335 278s ok 4 - desc matches bug2335 278s ok 5 - name matches bug2335 278s ok 6 - qual matches bug2335 278s ok 7 - Checking qual and seq lengths are the same in bug2335 278s ok 8 - Checking qual and seq lengths are the same using object methods in bug2335 278s ok 9 - correct num. seqs in evil_wrapping 278s ok 10 - sample sequence obtained 278s ok 11 - seq matches evil_wrapping 278s ok 12 - desc matches evil_wrapping 278s ok 13 - name matches evil_wrapping 278s ok 14 - qual matches evil_wrapping 278s ok 15 - Checking qual and seq lengths are the same in evil_wrapping 278s ok 16 - Checking qual and seq lengths are the same using object methods in evil_wrapping 278s ok 17 - correct num. seqs in example 278s ok 18 - sample sequence obtained 278s ok 19 - seq matches example 278s ok 20 - desc matches example 278s ok 21 - name matches example 278s ok 22 - qual matches example 278s ok 23 - Checking qual and seq lengths are the same in example 278s ok 24 - Checking qual and seq lengths are the same using object methods in example 278s ok 25 - correct num. seqs in illumina_faked 278s ok 26 - sample sequence obtained 278s ok 27 - seq matches illumina_faked 278s ok 28 - desc matches illumina_faked 278s ok 29 - name matches illumina_faked 278s ok 30 - qual matches illumina_faked 278s ok 31 - Checking qual and seq lengths are the same in illumina_faked 278s ok 32 - Checking qual and seq lengths are the same using object methods in illumina_faked 278s ok 33 - correct num. seqs in sanger_93 278s ok 34 - sample sequence obtained 278s ok 35 - seq matches sanger_93 278s ok 36 - desc matches sanger_93 278s ok 37 - name matches sanger_93 278s ok 38 - qual matches sanger_93 278s ok 39 - Checking qual and seq lengths are the same in sanger_93 278s ok 40 - Checking qual and seq lengths are the same using object methods in sanger_93 278s ok 41 - correct num. seqs in sanger_faked 278s ok 42 - sample sequence obtained 278s ok 43 - seq matches sanger_faked 278s ok 44 - desc matches sanger_faked 278s ok 45 - name matches sanger_faked 278s ok 46 - qual matches sanger_faked 278s ok 47 - Checking qual and seq lengths are the same in sanger_faked 278s ok 48 - Checking qual and seq lengths are the same using object methods in sanger_faked 278s ok 49 - correct num. seqs in solexa_example 278s ok 50 - sample sequence obtained 278s ok 51 - seq matches solexa_example 278s ok 52 - desc matches solexa_example 278s ok 53 - name matches solexa_example 278s ok 54 - qual matches solexa_example 278s ok 55 - Checking qual and seq lengths are the same in solexa_example 278s ok 56 - Checking qual and seq lengths are the same using object methods in solexa_example 278s ok 57 - correct num. seqs in solexa_faked 278s ok 58 - sample sequence obtained 278s ok 59 - seq matches solexa_faked 278s ok 60 - desc matches solexa_faked 278s ok 61 - name matches solexa_faked 278s ok 62 - qual matches solexa_faked 278s ok 63 - Checking qual and seq lengths are the same in solexa_faked 278s ok 64 - Checking qual and seq lengths are the same using object methods in solexa_faked 278s ok 65 - correct num. seqs in test1_sanger 278s ok 66 - sample sequence obtained 278s ok 67 - seq matches test1_sanger 278s ok 68 - desc matches test1_sanger 278s ok 69 - name matches test1_sanger 278s ok 70 - qual matches test1_sanger 278s ok 71 - Checking qual and seq lengths are the same in test1_sanger 278s ok 72 - Checking qual and seq lengths are the same using object methods in test1_sanger 278s ok 73 - correct num. seqs in test2_solexa 278s ok 74 - sample sequence obtained 278s ok 75 - seq matches test2_solexa 278s ok 76 - desc matches test2_solexa 278s ok 77 - name matches test2_solexa 278s ok 78 - qual matches test2_solexa 278s ok 79 - Checking qual and seq lengths are the same in test2_solexa 278s ok 80 - Checking qual and seq lengths are the same using object methods in test2_solexa 278s ok 81 - correct num. seqs in test3_illumina 278s ok 82 - sample sequence obtained 278s ok 83 - seq matches test3_illumina 278s ok 84 - desc matches test3_illumina 278s ok 85 - name matches test3_illumina 278s ok 86 - qual matches test3_illumina 278s ok 87 - Checking qual and seq lengths are the same in test3_illumina 278s ok 88 - Checking qual and seq lengths are the same using object methods in test3_illumina 278s ok 89 - correct num. seqs in tricky 278s ok 90 - sample sequence obtained 278s ok 91 - seq matches tricky 278s ok 92 - desc matches tricky 278s ok 93 - name matches tricky 278s ok 94 - qual matches tricky 278s ok 95 - Checking qual and seq lengths are the same in tricky 278s ok 96 - Checking qual and seq lengths are the same using object methods in tricky 278s ok 97 - correct num. seqs in zero_qual 278s ok 98 - sample sequence obtained 278s ok 99 - seq matches zero_qual 278s ok 100 - desc matches zero_qual 278s ok 101 - name matches zero_qual 278s ok 102 - qual matches zero_qual 278s ok 103 - Checking qual and seq lengths are the same in zero_qual 278s ok 104 - Checking qual and seq lengths are the same using object methods in zero_qual 278s 1..104 278s ok 279s t/07cramwrite.t .. 279s 1..22 279s # Running under perl version 5.040000 for linux 279s # Current time local: Mon Nov 4 00:44:58 2024 279s # Current time GMT: Mon Nov 4 00:44:58 2024 279s # Using Test.pm version 1.31 279s ok 1 279s ok 2 279s ok 3 279s ok 4 279s ok 5 279s ok 6 279s ok 7 279s ok 8 279s ok 9 279s ok 10 279s ok 11 279s ok 12 279s ok 13 279s ok 14 279s ok 15 279s ok 16 279s ok 17 279s ok 18 279s ok 19 279s ok 20 279s ok 21 279s ok 22 279s ok 279s t/08bamwrite.t ... 279s 1..22 279s # Running under perl version 5.040000 for linux 279s # Current time local: Mon Nov 4 00:44:59 2024 279s # Current time GMT: Mon Nov 4 00:44:59 2024 279s # Using Test.pm version 1.31 279s ok 1 279s ok 2 279s ok 3 279s ok 4 279s ok 5 279s ok 6 279s ok 7 279s ok 8 279s ok 9 279s ok 10 279s ok 11 279s ok 12 279s ok 13 279s ok 14 279s ok 15 279s ok 16 279s ok 17 279s ok 18 279s ok 19 279s ok 20 279s ok 21 279s ok 22 279s ok 279s t/09sam.t ........ 279s ok 1 279s ok 2 # skip Cannot test header reading for htslib < 1.5 279s ok 3 # skip Cannot test header reading for htslib < 1.5 279s ok 4 # skip Cannot test header reading for htslib < 1.5 279s ok 5 # skip Cannot test header reading for htslib < 1.5 279s ok 6 # skip Cannot test header reading for htslib < 1.5 279s ok 7 # skip Cannot test header reading for htslib < 1.5 279s ok 8 # skip Cannot test header reading for htslib < 1.5 279s ok 9 # skip Cannot test header reading for htslib < 1.5 279s ok 10 # skip Cannot test header reading for htslib < 1.5 279s ok 11 # skip Cannot test header reading for htslib < 1.5 279s ok 12 279s ok 13 279s ok 14 # skip Cannot test iterating over alignments for htslib < 1.5 279s ok 15 # skip Cannot test iterating over alignments for htslib < 1.5 279s ok 16 # skip Cannot test iterating over alignments for htslib < 1.5 279s ok 17 # skip Cannot test iterating over alignments for htslib < 1.5 279s ok 18 279s ok 19 279s ok 20 279s ok 21 279s ok 22 - An object of class 'Bio::PrimarySeq' isa 'Bio::PrimarySeq' 279s ok 23 279s 1..23 279s ok 279s t/10leak.t ....... skipped: require Test::LeakTrace 279s All tests successful. 279s Files=11, Tests=979, 7 wallclock secs ( 0.12 usr 0.03 sys + 5.81 cusr 0.71 csys = 6.67 CPU) 279s Result: PASS 280s autopkgtest [00:45:00]: test autodep8-perl-build-deps: -----------------------] 285s autodep8-perl-build-deps PASS 285s autopkgtest [00:45:05]: test autodep8-perl-build-deps: - - - - - - - - - - results - - - - - - - - - - 289s autopkgtest [00:45:09]: test autodep8-perl: preparing testbed 342s autopkgtest [00:46:02]: testbed dpkg architecture: armhf 344s autopkgtest [00:46:04]: testbed apt version: 2.9.8 344s autopkgtest [00:46:04]: @@@@@@@@@@@@@@@@@@@@ test bed setup 351s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 352s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [177 kB] 352s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [2268 kB] 352s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [31.2 kB] 352s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 352s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [209 kB] 352s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [1640 kB] 352s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [23.9 kB] 353s Fetched 4430 kB in 1s (3590 kB/s) 353s Reading package lists... 367s tee: /proc/self/fd/2: Permission denied 389s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 389s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 389s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 389s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 390s Reading package lists... 390s Reading package lists... 391s Building dependency tree... 391s Reading state information... 391s Calculating upgrade... 391s The following packages were automatically installed and are no longer required: 391s libperl5.38t64 perl-modules-5.38 391s Use 'apt autoremove' to remove them. 392s The following NEW packages will be installed: 392s libperl5.40 perl-modules-5.40 392s The following packages will be upgraded: 392s base-files distro-info-data fwupd gcc-14-base info install-info iproute2 392s libatomic1 libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 392s libblockdev-mdraid3 libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 392s libblockdev-utils3 libblockdev3 libdb5.3t64 libdw1t64 libelf1t64 libevdev2 392s libftdi1-2 libfwupd2 libgcc-s1 libinih1 libkeyutils1 liblocale-gettext-perl 392s libpipeline1 libsgutils2-1.46-2 libstdc++6 libtext-charwidth-perl 392s libtext-iconv-perl motd-news-config nano perl perl-base python3-configobj 392s python3-json-pointer python3-lazr.uri python3-zipp sg3-utils sg3-utils-udev 392s vim-common vim-tiny xxd 392s 45 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. 392s Need to get 19.6 MB of archives. 392s After this operation, 42.8 MB of additional disk space will be used. 392s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf motd-news-config all 13.5ubuntu2 [5274 B] 392s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf base-files armhf 13.5ubuntu2 [68.6 kB] 392s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf perl-modules-5.40 all 5.40.0-6 [3214 kB] 392s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libperl5.40 armhf 5.40.0-6 [4140 kB] 392s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf perl armhf 5.40.0-6 [262 kB] 392s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf perl-base armhf 5.40.0-6 [1674 kB] 392s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf liblocale-gettext-perl armhf 1.07-7build1 [15.0 kB] 392s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-iconv-perl armhf 1.7-8build4 [12.8 kB] 392s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-charwidth-perl armhf 0.04-11build4 [9128 B] 392s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libdb5.3t64 armhf 5.3.28+dfsg2-9 [655 kB] 392s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libatomic1 armhf 14.2.0-7ubuntu1 [7842 B] 392s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-base armhf 14.2.0-7ubuntu1 [51.2 kB] 392s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++6 armhf 14.2.0-7ubuntu1 [711 kB] 392s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-s1 armhf 14.2.0-7ubuntu1 [40.8 kB] 393s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf install-info armhf 7.1.1-1 [61.4 kB] 393s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf distro-info-data all 0.63 [6588 B] 393s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libdw1t64 armhf 0.192-4 [243 kB] 393s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libelf1t64 armhf 0.192-4 [50.2 kB] 393s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf iproute2 armhf 6.10.0-2ubuntu1 [1082 kB] 393s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libkeyutils1 armhf 1.6.3-4ubuntu2 [8712 B] 393s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf vim-tiny armhf 2:9.1.0777-1ubuntu1 [693 kB] 393s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 393s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf xxd armhf 2:9.1.0777-1ubuntu1 [66.8 kB] 393s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf info armhf 7.1.1-1 [126 kB] 393s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf libevdev2 armhf 1.13.3+dfsg-1 [29.7 kB] 393s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libpipeline1 armhf 1.5.8-1 [26.9 kB] 393s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf nano armhf 8.2-1 [276 kB] 393s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf libfwupd2 armhf 1.9.26-2 [125 kB] 393s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf fwupd armhf 1.9.26-2 [4404 kB] 393s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-utils3 armhf 3.2.0-2 [17.4 kB] 393s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-crypto3 armhf 3.2.0-2 [22.3 kB] 393s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-fs3 armhf 3.2.0-2 [34.3 kB] 393s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-loop3 armhf 3.2.0-2 [6552 B] 393s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-mdraid3 armhf 3.2.0-2 [13.4 kB] 393s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-nvme3 armhf 3.2.0-2 [17.6 kB] 393s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-part3 armhf 3.2.0-2 [16.5 kB] 393s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-swap3 armhf 3.2.0-2 [8942 B] 393s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev3 armhf 3.2.0-2 [44.2 kB] 393s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf libftdi1-2 armhf 1.5-7 [25.7 kB] 393s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf libinih1 armhf 58-1ubuntu1 [6750 B] 393s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libsgutils2-1.46-2 armhf 1.46-3ubuntu5 [82.5 kB] 393s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf python3-configobj all 5.0.9-1 [33.9 kB] 393s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf python3-json-pointer all 2.4-2 [8396 B] 393s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lazr.uri all 1.0.6-4 [13.6 kB] 393s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf python3-zipp all 3.20.2-1 [10.1 kB] 393s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils armhf 1.46-3ubuntu5 [816 kB] 393s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils-udev all 1.46-3ubuntu5 [5916 B] 393s Preconfiguring packages ... 394s Fetched 19.6 MB in 1s (13.5 MB/s) 394s (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 ... 59386 files and directories currently installed.) 394s Preparing to unpack .../motd-news-config_13.5ubuntu2_all.deb ... 394s Unpacking motd-news-config (13.5ubuntu2) over (13.3ubuntu6) ... 394s Preparing to unpack .../base-files_13.5ubuntu2_armhf.deb ... 394s Unpacking base-files (13.5ubuntu2) over (13.3ubuntu6) ... 394s Setting up base-files (13.5ubuntu2) ... 394s Installing new version of config file /etc/issue ... 394s Installing new version of config file /etc/issue.net ... 394s Installing new version of config file /etc/lsb-release ... 395s motd-news.service is a disabled or a static unit not running, not starting it. 395s (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 ... 59386 files and directories currently installed.) 395s Preparing to unpack .../perl_5.40.0-6_armhf.deb ... 395s Unpacking perl (5.40.0-6) over (5.38.2-5) ... 395s Selecting previously unselected package perl-modules-5.40. 395s Preparing to unpack .../perl-modules-5.40_5.40.0-6_all.deb ... 395s Unpacking perl-modules-5.40 (5.40.0-6) ... 395s Selecting previously unselected package libperl5.40:armhf. 395s Preparing to unpack .../libperl5.40_5.40.0-6_armhf.deb ... 395s Unpacking libperl5.40:armhf (5.40.0-6) ... 395s Preparing to unpack .../perl-base_5.40.0-6_armhf.deb ... 395s Unpacking perl-base (5.40.0-6) over (5.38.2-5) ... 396s Setting up perl-base (5.40.0-6) ... 396s (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 ... 61462 files and directories currently installed.) 396s Preparing to unpack .../liblocale-gettext-perl_1.07-7build1_armhf.deb ... 396s Unpacking liblocale-gettext-perl (1.07-7build1) over (1.07-7) ... 396s Preparing to unpack .../libtext-iconv-perl_1.7-8build4_armhf.deb ... 396s Unpacking libtext-iconv-perl:armhf (1.7-8build4) over (1.7-8build3) ... 396s Preparing to unpack .../libtext-charwidth-perl_0.04-11build4_armhf.deb ... 396s Unpacking libtext-charwidth-perl:armhf (0.04-11build4) over (0.04-11build3) ... 396s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-9_armhf.deb ... 396s Unpacking libdb5.3t64:armhf (5.3.28+dfsg2-9) over (5.3.28+dfsg2-7) ... 396s Setting up libdb5.3t64:armhf (5.3.28+dfsg2-9) ... 396s (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 ... 61462 files and directories currently installed.) 396s Preparing to unpack .../libatomic1_14.2.0-7ubuntu1_armhf.deb ... 396s Unpacking libatomic1:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 396s Preparing to unpack .../gcc-14-base_14.2.0-7ubuntu1_armhf.deb ... 396s Unpacking gcc-14-base:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 396s Setting up gcc-14-base:armhf (14.2.0-7ubuntu1) ... 396s (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 ... 61462 files and directories currently installed.) 396s Preparing to unpack .../libstdc++6_14.2.0-7ubuntu1_armhf.deb ... 396s Unpacking libstdc++6:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 396s Setting up libstdc++6:armhf (14.2.0-7ubuntu1) ... 396s (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 ... 61462 files and directories currently installed.) 396s Preparing to unpack .../libgcc-s1_14.2.0-7ubuntu1_armhf.deb ... 396s Unpacking libgcc-s1:armhf (14.2.0-7ubuntu1) over (14.2.0-4ubuntu2) ... 396s Setting up libgcc-s1:armhf (14.2.0-7ubuntu1) ... 396s (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 ... 61462 files and directories currently installed.) 396s Preparing to unpack .../install-info_7.1.1-1_armhf.deb ... 396s Unpacking install-info (7.1.1-1) over (7.1-3build2) ... 396s Setting up install-info (7.1.1-1) ... 396s (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 ... 61462 files and directories currently installed.) 396s Preparing to unpack .../00-distro-info-data_0.63_all.deb ... 396s Unpacking distro-info-data (0.63) over (0.62) ... 396s Preparing to unpack .../01-libdw1t64_0.192-4_armhf.deb ... 396s Unpacking libdw1t64:armhf (0.192-4) over (0.191-2) ... 396s Preparing to unpack .../02-libelf1t64_0.192-4_armhf.deb ... 396s Unpacking libelf1t64:armhf (0.192-4) over (0.191-2) ... 396s Preparing to unpack .../03-iproute2_6.10.0-2ubuntu1_armhf.deb ... 397s Unpacking iproute2 (6.10.0-2ubuntu1) over (6.10.0-2) ... 397s Preparing to unpack .../04-libkeyutils1_1.6.3-4ubuntu2_armhf.deb ... 397s Unpacking libkeyutils1:armhf (1.6.3-4ubuntu2) over (1.6.3-3build1) ... 397s Preparing to unpack .../05-vim-tiny_2%3a9.1.0777-1ubuntu1_armhf.deb ... 397s Unpacking vim-tiny (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 397s Preparing to unpack .../06-vim-common_2%3a9.1.0777-1ubuntu1_all.deb ... 397s Unpacking vim-common (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 397s Preparing to unpack .../07-xxd_2%3a9.1.0777-1ubuntu1_armhf.deb ... 397s Unpacking xxd (2:9.1.0777-1ubuntu1) over (2:9.1.0496-1ubuntu6) ... 397s Preparing to unpack .../08-info_7.1.1-1_armhf.deb ... 397s Unpacking info (7.1.1-1) over (7.1-3build2) ... 397s Preparing to unpack .../09-libevdev2_1.13.3+dfsg-1_armhf.deb ... 397s Unpacking libevdev2:armhf (1.13.3+dfsg-1) over (1.13.2+dfsg-1) ... 397s Preparing to unpack .../10-libpipeline1_1.5.8-1_armhf.deb ... 397s Unpacking libpipeline1:armhf (1.5.8-1) over (1.5.7-2) ... 397s Preparing to unpack .../11-nano_8.2-1_armhf.deb ... 397s Unpacking nano (8.2-1) over (8.1-1) ... 397s Preparing to unpack .../12-libfwupd2_1.9.26-2_armhf.deb ... 397s Unpacking libfwupd2:armhf (1.9.26-2) over (1.9.24-1) ... 397s Preparing to unpack .../13-fwupd_1.9.26-2_armhf.deb ... 397s Unpacking fwupd (1.9.26-2) over (1.9.24-1) ... 397s Preparing to unpack .../14-libblockdev-utils3_3.2.0-2_armhf.deb ... 397s Unpacking libblockdev-utils3:armhf (3.2.0-2) over (3.1.1-2) ... 397s Preparing to unpack .../15-libblockdev-crypto3_3.2.0-2_armhf.deb ... 397s Unpacking libblockdev-crypto3:armhf (3.2.0-2) over (3.1.1-2) ... 397s Preparing to unpack .../16-libblockdev-fs3_3.2.0-2_armhf.deb ... 397s Unpacking libblockdev-fs3:armhf (3.2.0-2) over (3.1.1-2) ... 398s Preparing to unpack .../17-libblockdev-loop3_3.2.0-2_armhf.deb ... 398s Unpacking libblockdev-loop3:armhf (3.2.0-2) over (3.1.1-2) ... 398s Preparing to unpack .../18-libblockdev-mdraid3_3.2.0-2_armhf.deb ... 398s Unpacking libblockdev-mdraid3:armhf (3.2.0-2) over (3.1.1-2) ... 398s Preparing to unpack .../19-libblockdev-nvme3_3.2.0-2_armhf.deb ... 398s Unpacking libblockdev-nvme3:armhf (3.2.0-2) over (3.1.1-2) ... 398s Preparing to unpack .../20-libblockdev-part3_3.2.0-2_armhf.deb ... 398s Unpacking libblockdev-part3:armhf (3.2.0-2) over (3.1.1-2) ... 398s Preparing to unpack .../21-libblockdev-swap3_3.2.0-2_armhf.deb ... 398s Unpacking libblockdev-swap3:armhf (3.2.0-2) over (3.1.1-2) ... 398s Preparing to unpack .../22-libblockdev3_3.2.0-2_armhf.deb ... 398s Unpacking libblockdev3:armhf (3.2.0-2) over (3.1.1-2) ... 398s Preparing to unpack .../23-libftdi1-2_1.5-7_armhf.deb ... 398s Unpacking libftdi1-2:armhf (1.5-7) over (1.5-6build5) ... 398s Preparing to unpack .../24-libinih1_58-1ubuntu1_armhf.deb ... 398s Unpacking libinih1:armhf (58-1ubuntu1) over (55-1ubuntu2) ... 398s Preparing to unpack .../25-libsgutils2-1.46-2_1.46-3ubuntu5_armhf.deb ... 398s Unpacking libsgutils2-1.46-2:armhf (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 398s Preparing to unpack .../26-python3-configobj_5.0.9-1_all.deb ... 398s Unpacking python3-configobj (5.0.9-1) over (5.0.8-3) ... 398s Preparing to unpack .../27-python3-json-pointer_2.4-2_all.deb ... 398s Unpacking python3-json-pointer (2.4-2) over (2.0-0ubuntu1) ... 398s Preparing to unpack .../28-python3-lazr.uri_1.0.6-4_all.deb ... 398s Unpacking python3-lazr.uri (1.0.6-4) over (1.0.6-3) ... 398s Preparing to unpack .../29-python3-zipp_3.20.2-1_all.deb ... 398s Unpacking python3-zipp (3.20.2-1) over (3.20.0-1) ... 398s Preparing to unpack .../30-sg3-utils_1.46-3ubuntu5_armhf.deb ... 398s Unpacking sg3-utils (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 398s Preparing to unpack .../31-sg3-utils-udev_1.46-3ubuntu5_all.deb ... 398s Unpacking sg3-utils-udev (1.46-3ubuntu5) over (1.46-3ubuntu4) ... 399s Setting up libpipeline1:armhf (1.5.8-1) ... 399s Setting up motd-news-config (13.5ubuntu2) ... 399s Setting up libtext-iconv-perl:armhf (1.7-8build4) ... 399s Setting up libtext-charwidth-perl:armhf (0.04-11build4) ... 399s Setting up libkeyutils1:armhf (1.6.3-4ubuntu2) ... 399s Setting up distro-info-data (0.63) ... 399s Setting up libinih1:armhf (58-1ubuntu1) ... 399s Setting up libfwupd2:armhf (1.9.26-2) ... 399s Setting up libsgutils2-1.46-2:armhf (1.46-3ubuntu5) ... 399s Setting up python3-lazr.uri (1.0.6-4) ... 399s Setting up python3-zipp (3.20.2-1) ... 399s Setting up xxd (2:9.1.0777-1ubuntu1) ... 399s Setting up libelf1t64:armhf (0.192-4) ... 399s Setting up libdw1t64:armhf (0.192-4) ... 399s Setting up libftdi1-2:armhf (1.5-7) ... 399s Setting up python3-configobj (5.0.9-1) ... 399s Setting up vim-common (2:9.1.0777-1ubuntu1) ... 399s Installing new version of config file /etc/vim/vimrc ... 399s Setting up libblockdev-utils3:armhf (3.2.0-2) ... 399s Setting up libatomic1:armhf (14.2.0-7ubuntu1) ... 399s Setting up libblockdev-nvme3:armhf (3.2.0-2) ... 399s Setting up nano (8.2-1) ... 399s Setting up libblockdev-fs3:armhf (3.2.0-2) ... 399s Setting up perl-modules-5.40 (5.40.0-6) ... 399s Setting up python3-json-pointer (2.4-2) ... 399s Setting up libevdev2:armhf (1.13.3+dfsg-1) ... 399s Setting up fwupd (1.9.26-2) ... 399s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 399s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 399s fwupd.service is a disabled or a static unit not running, not starting it. 400s Setting up info (7.1.1-1) ... 400s Setting up liblocale-gettext-perl (1.07-7build1) ... 400s Setting up sg3-utils (1.46-3ubuntu5) ... 400s Setting up libblockdev-mdraid3:armhf (3.2.0-2) ... 400s Setting up libblockdev-crypto3:armhf (3.2.0-2) ... 400s Setting up libblockdev-swap3:armhf (3.2.0-2) ... 400s Setting up iproute2 (6.10.0-2ubuntu1) ... 400s Setting up libblockdev-loop3:armhf (3.2.0-2) ... 400s Setting up vim-tiny (2:9.1.0777-1ubuntu1) ... 400s Setting up libblockdev3:armhf (3.2.0-2) ... 400s Installing new version of config file /etc/libblockdev/3/conf.d/00-default.cfg ... 400s Setting up libblockdev-part3:armhf (3.2.0-2) ... 400s Setting up sg3-utils-udev (1.46-3ubuntu5) ... 400s update-initramfs: deferring update (trigger activated) 400s Setting up libperl5.40:armhf (5.40.0-6) ... 400s Setting up perl (5.40.0-6) ... 400s Processing triggers for dbus (1.14.10-4ubuntu5) ... 400s Processing triggers for install-info (7.1.1-1) ... 400s Processing triggers for initramfs-tools (0.142ubuntu34) ... 400s Processing triggers for libc-bin (2.40-1ubuntu3) ... 400s Processing triggers for man-db (2.12.1-3) ... 402s Processing triggers for plymouth-theme-ubuntu-text (24.004.60-1ubuntu10) ... 402s update-initramfs: deferring update (trigger activated) 402s Processing triggers for initramfs-tools (0.142ubuntu34) ... 402s Reading package lists... 402s Building dependency tree... 402s Reading state information... 403s The following packages will be REMOVED: 403s libperl5.38t64* perl-modules-5.38* 403s 0 upgraded, 0 newly installed, 2 to remove and 0 not upgraded. 403s After this operation, 41.6 MB disk space will be freed. 403s (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 ... 61462 files and directories currently installed.) 403s Removing libperl5.38t64:armhf (5.38.2-5) ... 403s Removing perl-modules-5.38 (5.38.2-5) ... 403s Processing triggers for man-db (2.12.1-3) ... 404s Processing triggers for libc-bin (2.40-1ubuntu3) ... 406s autopkgtest [00:47:06]: rebooting testbed after setup commands that affected boot 507s Reading package lists... 507s Building dependency tree... 507s Reading state information... 507s Starting pkgProblemResolver with broken count: 0 508s Starting 2 pkgProblemResolver with broken count: 0 508s Done 508s The following additional packages will be installed: 508s autodep8 dctrl-tools libbio-db-hts-perl libbio-perl-perl libdata-stag-perl 508s libdeflate0 libhts3t64 libhtscodecs2 libio-string-perl pkg-perl-autopkgtest 508s Suggested packages: 508s debtags bioperl libxml-sax-expatxs-perl 508s Recommended packages: 508s bioperl-run | libbio-perl-run-perl libace-perl libalgorithm-munkres-perl 508s libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl 508s libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl 508s libdbd-pg-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-parser-perl 508s libhtml-tableextract-perl liblist-moreutils-perl libpostscript-perl 508s libset-scalar-perl libsoap-lite-perl libsort-naturally-perl 508s libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl 508s libsvg-graph-perl liburi-perl libxml-dom-xpath-perl libxml-parser-perl 508s libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl 508s libxml-writer-perl libxml-libxml-perl libwww-perl perl-tk libgd-gd2-perl 508s | libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl libxml-perl 508s The following NEW packages will be installed: 508s autodep8 autopkgtest-satdep dctrl-tools libbio-db-hts-perl libbio-perl-perl 508s libdata-stag-perl libdeflate0 libhts3t64 libhtscodecs2 libio-string-perl 508s pkg-perl-autopkgtest 508s 0 upgraded, 11 newly installed, 0 to remove and 0 not upgraded. 508s Need to get 3727 kB/3727 kB of archives. 508s After this operation, 11.2 MB of additional disk space will be used. 508s Get:1 /tmp/autopkgtest.Dqv6FJ/2-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [720 B] 509s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf dctrl-tools armhf 2.24-3build3 [94.7 kB] 509s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf autodep8 all 0.28+nmu1ubuntu1 [13.7 kB] 509s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate0 armhf 1.21-1 [38.8 kB] 509s Get:5 http://ftpmaster.internal/ubuntu plucky/universe armhf libhtscodecs2 armhf 1.6.0-1build1 [65.8 kB] 509s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf libhts3t64 armhf 1.20+ds-2 [394 kB] 509s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libio-string-perl all 1.08-4 [11.1 kB] 509s Get:8 http://ftpmaster.internal/ubuntu plucky/universe armhf libdata-stag-perl all 0.14-3 [372 kB] 509s Get:9 http://ftpmaster.internal/ubuntu plucky/universe armhf libbio-perl-perl all 1.7.8-1 [2580 kB] 509s Get:10 http://ftpmaster.internal/ubuntu plucky/universe armhf libbio-db-hts-perl armhf 3.01-4build4 [137 kB] 509s Get:11 http://ftpmaster.internal/ubuntu plucky/universe armhf pkg-perl-autopkgtest all 0.79 [18.5 kB] 510s Fetched 3727 kB in 1s (5263 kB/s) 510s Selecting previously unselected package dctrl-tools. 510s (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 ... 59532 files and directories currently installed.) 510s Preparing to unpack .../00-dctrl-tools_2.24-3build3_armhf.deb ... 510s Unpacking dctrl-tools (2.24-3build3) ... 510s Selecting previously unselected package autodep8. 510s Preparing to unpack .../01-autodep8_0.28+nmu1ubuntu1_all.deb ... 510s Unpacking autodep8 (0.28+nmu1ubuntu1) ... 510s Selecting previously unselected package libdeflate0:armhf. 510s Preparing to unpack .../02-libdeflate0_1.21-1_armhf.deb ... 510s Unpacking libdeflate0:armhf (1.21-1) ... 510s Selecting previously unselected package libhtscodecs2:armhf. 510s Preparing to unpack .../03-libhtscodecs2_1.6.0-1build1_armhf.deb ... 510s Unpacking libhtscodecs2:armhf (1.6.0-1build1) ... 510s Selecting previously unselected package libhts3t64:armhf. 510s Preparing to unpack .../04-libhts3t64_1.20+ds-2_armhf.deb ... 510s Unpacking libhts3t64:armhf (1.20+ds-2) ... 510s Selecting previously unselected package libio-string-perl. 510s Preparing to unpack .../05-libio-string-perl_1.08-4_all.deb ... 510s Unpacking libio-string-perl (1.08-4) ... 510s Selecting previously unselected package libdata-stag-perl. 510s Preparing to unpack .../06-libdata-stag-perl_0.14-3_all.deb ... 510s Unpacking libdata-stag-perl (0.14-3) ... 510s Selecting previously unselected package libbio-perl-perl. 510s Preparing to unpack .../07-libbio-perl-perl_1.7.8-1_all.deb ... 510s Unpacking libbio-perl-perl (1.7.8-1) ... 510s Selecting previously unselected package libbio-db-hts-perl. 510s Preparing to unpack .../08-libbio-db-hts-perl_3.01-4build4_armhf.deb ... 510s Unpacking libbio-db-hts-perl (3.01-4build4) ... 510s Selecting previously unselected package pkg-perl-autopkgtest. 510s Preparing to unpack .../09-pkg-perl-autopkgtest_0.79_all.deb ... 510s Unpacking pkg-perl-autopkgtest (0.79) ... 510s Selecting previously unselected package autopkgtest-satdep. 510s Preparing to unpack .../10-2-autopkgtest-satdep.deb ... 510s Unpacking autopkgtest-satdep (0) ... 510s Setting up libhtscodecs2:armhf (1.6.0-1build1) ... 510s Setting up libdeflate0:armhf (1.21-1) ... 510s Setting up libio-string-perl (1.08-4) ... 510s Setting up libdata-stag-perl (0.14-3) ... 510s Setting up libhts3t64:armhf (1.20+ds-2) ... 510s Setting up libbio-perl-perl (1.7.8-1) ... 510s Setting up dctrl-tools (2.24-3build3) ... 510s Setting up autodep8 (0.28+nmu1ubuntu1) ... 510s Setting up libbio-db-hts-perl (3.01-4build4) ... 510s Setting up pkg-perl-autopkgtest (0.79) ... 510s Setting up autopkgtest-satdep (0) ... 510s Processing triggers for man-db (2.12.1-3) ... 511s Processing triggers for libc-bin (2.40-1ubuntu3) ... 522s (Reading database ... 60885 files and directories currently installed.) 522s Removing autopkgtest-satdep (0) ... 534s autopkgtest [00:49:14]: test autodep8-perl: /usr/share/pkg-perl-autopkgtest/runner runtime-deps 534s autopkgtest [00:49:14]: test autodep8-perl: [----------------------- 536s /usr/share/pkg-perl-autopkgtest/runtime-deps.d/use.t .. 536s 1..4 536s ok 1 - /usr/bin/perl -w -M"Bio::DB::HTS" -e 1 2>&1 exited successfully 536s ok 2 - /usr/bin/perl -w -M"Bio::DB::HTS" -e 1 2>&1 produced no (non-whitelisted) output 536s ok 3 - env PERL_DL_NONLAZY=1 /usr/bin/perl -w -M"Bio::DB::HTS" -e 1 2>&1 exited successfully 536s ok 4 - env PERL_DL_NONLAZY=1 /usr/bin/perl -w -M"Bio::DB::HTS" -e 1 2>&1 produced no (non-whitelisted) output 536s ok 536s All tests successful. 536s Files=1, Tests=4, 0 wallclock secs ( 0.02 usr 0.00 sys + 0.21 cusr 0.03 csys = 0.26 CPU) 536s Result: PASS 536s autopkgtest [00:49:16]: test autodep8-perl: -----------------------] 540s autopkgtest [00:49:20]: test autodep8-perl: - - - - - - - - - - results - - - - - - - - - - 540s autodep8-perl PASS (superficial) 544s autopkgtest [00:49:24]: test autodep8-perl-recommends: preparing testbed 553s Reading package lists... 553s Building dependency tree... 553s Reading state information... 554s Starting pkgProblemResolver with broken count: 0 554s Starting 2 pkgProblemResolver with broken count: 0 554s Done 554s The following NEW packages will be installed: 554s autopkgtest-satdep 554s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 554s Need to get 0 B/724 B of archives. 554s After this operation, 0 B of additional disk space will be used. 554s Get:1 /tmp/autopkgtest.Dqv6FJ/3-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [724 B] 555s Selecting previously unselected package autopkgtest-satdep. 555s (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 ... 60885 files and directories currently installed.) 555s Preparing to unpack .../3-autopkgtest-satdep.deb ... 555s Unpacking autopkgtest-satdep (0) ... 555s Setting up autopkgtest-satdep (0) ... 566s (Reading database ... 60885 files and directories currently installed.) 566s Removing autopkgtest-satdep (0) ... 572s autopkgtest [00:49:52]: test autodep8-perl-recommends: /usr/share/pkg-perl-autopkgtest/runner runtime-deps-and-recommends 572s autopkgtest [00:49:52]: test autodep8-perl-recommends: [----------------------- 575s /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t .. 575s 1..4 575s ok 1 - Package libbio-db-hts-perl is known to dpkg 575s ok 2 - Got status information for package libbio-db-hts-perl 575s ok 3 - Got file list for package libbio-db-hts-perl 575s # Subtest: all modules in libbio-db-hts-perl pass the syntax check 575s 1..22 575s ok 1 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/AlignWrapper.pm exited successfully 575s # Subroutine each_tag_value redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 461. 575s # Subroutine get_tag_values redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 463. 575s # Subroutine has_tag redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 479. 575s # Subroutine get_all_tags redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 495. 575s # Subroutine start redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 502. 575s # Subroutine end redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 508. 575s # Subroutine stop redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 514. 575s # Subroutine strand redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 517. 575s # Subroutine abs_strand redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 521. 575s # Subroutine mstrand redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 523. 575s # Subroutine display_name redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 528. 575s # Subroutine qscore redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 532. 575s # Subroutine qstring redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 539. 575s # Subroutine primary_id redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 543. 575s # Subroutine cigar_str redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 550. 575s # Subroutine cigar_array redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 563. 575s # Subroutine flag_str redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 577. 575s # Subroutine length redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 586. 575s # Subroutine mate_start redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 593. 575s # Subroutine mate_len redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 599. 575s # Subroutine mate_end redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 618. 575s # Subroutine query redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 624. 575s # Subroutine get_SeqFeatures redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 629. 575s # Subroutine target redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 633. 575s # Subroutine primary_tag redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 638. 575s # Subroutine source_tag redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 639. 575s # Subroutine hit redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm line 641. 575s ok 2 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Alignment.pm exited successfully 575s ok 3 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Constants.pm exited successfully 575s ok 4 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Faidx.pm exited successfully 575s ok 5 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/FetchIterator.pm exited successfully 575s ok 6 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Kseq/Record.pm exited successfully 575s ok 7 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Kseq.pm exited successfully 575s ok 8 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Pileup.pm exited successfully 575s ok 9 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/PileupWrapper.pm exited successfully 575s # Constant subroutine Bio::DB::HTS::Query::CIGAR_SKIP redefined at /usr/lib/arm-linux-gnueabihf/perl-base/constant.pm line 171. 575s # Subroutine new redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 64. 575s # Subroutine seq_id redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 76. 575s # Subroutine name redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 87. 575s # Subroutine display_name redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 98. 575s # Subroutine primary_tag redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 106. 575s # Subroutine source_tag redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 114. 575s # Subroutine start redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 122. 575s # Subroutine end redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 133. 575s # Subroutine low redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 138. 575s # Subroutine high redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 150. 575s # Subroutine length redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 171. 575s # Subroutine seq redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 184. 575s # Subroutine qscore redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 198. 575s # Subroutine dna redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 210. 575s # Subroutine strand redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 221. 575s # Subroutine subseq redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm line 233. 575s ok 10 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Query.pm exited successfully 575s ok 11 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/ReadIterator.pm exited successfully 575s # Name "Bio::DB::HTS::Segment::sourceseq" used only once: possible typo at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Segment.pm line 70. 575s # Name "Bio::DB::HTS::Segment::abs_ref" used only once: possible typo at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Segment.pm line 70. 575s # Name "Bio::DB::HTS::Segment::ref" used only once: possible typo at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Segment.pm line 70. 575s ok 12 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Segment.pm exited successfully 575s ok 13 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Tabix/Iterator.pm exited successfully 575s ok 14 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Tabix.pm exited successfully 575s # Subroutine dna redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Target.pm line 43. 575s # Subroutine qscore redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Target.pm line 49. 575s # Subroutine start redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Target.pm line 56. 575s # Subroutine end redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Target.pm line 61. 575s # Subroutine reversec redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Target.pm line 68. 575s ok 15 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/Target.pm exited successfully 575s ok 16 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/VCF/Header.pm exited successfully 575s ok 17 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/VCF/HeaderPtr.pm exited successfully 575s ok 18 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/VCF/Iterator.pm exited successfully 575s ok 19 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/VCF/Row.pm exited successfully 575s ok 20 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/VCF/RowPtr.pm exited successfully 575s ok 21 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS/VCF.pm exited successfully 575s # Constant subroutine Bio::DB::HTS::DUMP_INTERVAL redefined at /usr/lib/arm-linux-gnueabihf/perl-base/constant.pm line 171. 575s # Subroutine new redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1375. 575s # Subroutine hts_file redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1409. 575s # Subroutine clone redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1412. 575s # Subroutine header redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1420. 575s # Subroutine hts_path redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1426. 575s # Subroutine fai redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1431. 575s # Subroutine new_dna_accessor redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1433. 575s # Subroutine can_do_seq redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1455. 575s # Subroutine seq redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1462. 575s # Subroutine expand_flags redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1473. 575s # Subroutine split_splices redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1480. 575s # Subroutine autoindex redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1487. 575s # Subroutine force_refseq redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1494. 575s # Subroutine n_targets redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1501. 575s # Subroutine target_name redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1505. 575s # Subroutine target_len redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1512. 575s # Subroutine seq_ids redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1519. 575s # Subroutine _cache_targets redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1524. 575s # Subroutine length redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1535. 575s # Subroutine _fetch redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1541. 575s # Subroutine fetch redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1554. 575s # Subroutine pileup redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1566. 575s # Subroutine fast_pileup redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1588. 575s # Subroutine segment redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1611. 575s # Subroutine get_features_by_location redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1636. 575s # Subroutine get_features_by_attribute redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1652. 575s # Subroutine get_features_by_tag redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1658. 575s # Subroutine get_features_by_flag redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1662. 575s # Subroutine get_feature_by_name redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1666. 575s # Subroutine get_features_by_name redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1678. 575s # Subroutine get_feature_by_id redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1680. 575s # Subroutine get_seq_stream redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1698. 575s # Subroutine get_seq_fh redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1703. 575s # Subroutine types redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1708. 575s # Subroutine features redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1712. 575s # Subroutine coverage2BedGraph redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1816. 575s # Subroutine _filter_features redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1860. 575s # Subroutine _push_features redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1904. 575s # Subroutine last_feature_count redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1928. 575s # Subroutine _features redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1930. 575s # Subroutine _build_mates redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 1950. 575s # Subroutine _coverage redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2000. 575s # Subroutine _segment_search redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2038. 575s # Subroutine hts_index redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2053. 575s # Subroutine _features_fh redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2062. 575s # Subroutine tam_fh redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2076. 575s # Subroutine max_pileup_cnt redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2081. 575s # Subroutine _filter_by_name redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2088. 575s # Subroutine _filter_by_attribute redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2104. 575s # Subroutine _glob_match redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2132. 575s # Subroutine open redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2146. 575s # Subroutine seq redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2148. 575s # Subroutine coverage redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2163. 575s # Subroutine source redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2169. 575s # Subroutine method redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2176. 575s # Subroutine gff3_string redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2183. 575s # Subroutine index redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2199. 575s # Ambiguous call resolved as CORE::open(), qualify as such or use & at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2238. 575s # Ambiguous call resolved as CORE::open(), qualify as such or use & at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2243. 575s # Subroutine reindex redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2230. 575s # Subroutine index_open_in_safewd redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2269. 575s # Subroutine mtime redefined at /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm line 2280. 575s ok 22 - /usr/bin/perl -wc /usr/lib/arm-linux-gnueabihf/perl5/5.40/Bio/DB/HTS.pm exited successfully 575s ok 4 - all modules in libbio-db-hts-perl pass the syntax check 575s ok 575s All tests successful. 575s Files=1, Tests=4, 1 wallclock secs ( 0.04 usr 0.00 sys + 1.03 cusr 0.18 csys = 1.25 CPU) 575s Result: PASS 576s autopkgtest [00:49:56]: test autodep8-perl-recommends: -----------------------] 579s autopkgtest [00:49:59]: test autodep8-perl-recommends: - - - - - - - - - - results - - - - - - - - - - 579s autodep8-perl-recommends PASS (superficial) 583s autopkgtest [00:50:03]: @@@@@@@@@@@@@@@@@@@@ summary 583s autodep8-perl-build-deps PASS 583s autodep8-perl PASS (superficial) 583s autodep8-perl-recommends PASS (superficial)