0s autopkgtest [03:28:25]: starting date and time: 2024-03-28 03:28:25+0000 0s autopkgtest [03:28:25]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [03:28:25]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.dxg8ji96/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed --apt-upgrade samtools --timeout-short=300 --timeout-copy=20000 --timeout-test=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=samtools/1.19.2-1build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-big --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-s390x-10.secgroup --name adt-noble-s390x-samtools-20240328-032825-juju-7f2275-prod-proposed-migration-environment-2-fc2764d8-3de6-4bc5-b3f3-3948ae01cc15 --image adt/ubuntu-noble-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_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,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 100s autopkgtest [03:30:05]: testbed dpkg architecture: s390x 101s autopkgtest [03:30:06]: testbed apt version: 2.7.12 101s autopkgtest [03:30:06]: @@@@@@@@@@@@@@@@@@@@ test bed setup 102s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 102s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [8504 B] 102s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3949 kB] 103s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [471 kB] 103s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [55.9 kB] 103s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [648 kB] 103s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 103s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 103s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 103s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4036 kB] 104s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 104s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [46.2 kB] 104s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 105s Fetched 9343 kB in 3s (2832 kB/s) 106s Reading package lists... 108s Reading package lists... 108s Building dependency tree... 108s Reading state information... 108s Calculating upgrade... 108s The following packages will be upgraded: 108s binutils binutils-common binutils-s390x-linux-gnu dmsetup gcc-13-base 108s gcc-14-base initramfs-tools initramfs-tools-bin initramfs-tools-core jq 108s libbinutils libctf-nobfd0 libctf0 libdevmapper1.02.1 libexpat1 libftdi1-2 108s libgcc-s1 libjq1 libpam-modules libpam-modules-bin libpam-runtime libpam0g 108s libseccomp2 libsframe1 libstdc++6 libusb-1.0-0 python3-yaml 108s 27 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 108s Need to get 5565 kB of archives. 108s After this operation, 200 kB disk space will be freed. 108s Get:1 http://ftpmaster.internal/ubuntu noble/main s390x libpam0g s390x 1.5.3-5ubuntu3 [69.8 kB] 108s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x libpam-modules-bin s390x 1.5.3-5ubuntu3 [57.4 kB] 108s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x libpam-modules s390x 1.5.3-5ubuntu3 [289 kB] 109s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x gcc-14-base s390x 14-20240315-1ubuntu1 [47.0 kB] 109s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libstdc++6 s390x 14-20240315-1ubuntu1 [908 kB] 109s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x libgcc-s1 s390x 14-20240315-1ubuntu1 [35.9 kB] 109s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x libpam-runtime all 1.5.3-5ubuntu3 [40.8 kB] 110s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x libseccomp2 s390x 2.5.5-1ubuntu2 [53.4 kB] 110s Get:9 http://ftpmaster.internal/ubuntu noble/main s390x libdevmapper1.02.1 s390x 2:1.02.185-3ubuntu2 [142 kB] 110s Get:10 http://ftpmaster.internal/ubuntu noble/main s390x dmsetup s390x 2:1.02.185-3ubuntu2 [80.4 kB] 110s Get:11 http://ftpmaster.internal/ubuntu noble/main s390x libexpat1 s390x 2.6.1-2 [94.8 kB] 110s Get:12 http://ftpmaster.internal/ubuntu noble/main s390x python3-yaml s390x 6.0.1-2build1 [121 kB] 110s Get:13 http://ftpmaster.internal/ubuntu noble/main s390x libusb-1.0-0 s390x 2:1.0.27-1 [54.8 kB] 110s Get:14 http://ftpmaster.internal/ubuntu noble/main s390x libctf0 s390x 2.42-4ubuntu1 [98.4 kB] 110s Get:15 http://ftpmaster.internal/ubuntu noble/main s390x libctf-nobfd0 s390x 2.42-4ubuntu1 [100 kB] 110s Get:16 http://ftpmaster.internal/ubuntu noble/main s390x binutils-s390x-linux-gnu s390x 2.42-4ubuntu1 [2270 kB] 111s Get:17 http://ftpmaster.internal/ubuntu noble/main s390x libbinutils s390x 2.42-4ubuntu1 [477 kB] 111s Get:18 http://ftpmaster.internal/ubuntu noble/main s390x binutils s390x 2.42-4ubuntu1 [3056 B] 111s Get:19 http://ftpmaster.internal/ubuntu noble/main s390x binutils-common s390x 2.42-4ubuntu1 [217 kB] 111s Get:20 http://ftpmaster.internal/ubuntu noble/main s390x libsframe1 s390x 2.42-4ubuntu1 [14.2 kB] 111s Get:21 http://ftpmaster.internal/ubuntu noble/main s390x gcc-13-base s390x 13.2.0-21ubuntu1 [48.3 kB] 111s Get:22 http://ftpmaster.internal/ubuntu noble/main s390x initramfs-tools all 0.142ubuntu23 [9058 B] 111s Get:23 http://ftpmaster.internal/ubuntu noble/main s390x initramfs-tools-core all 0.142ubuntu23 [50.1 kB] 111s Get:24 http://ftpmaster.internal/ubuntu noble/main s390x initramfs-tools-bin s390x 0.142ubuntu23 [20.5 kB] 111s Get:25 http://ftpmaster.internal/ubuntu noble/main s390x jq s390x 1.7.1-3 [66.5 kB] 111s Get:26 http://ftpmaster.internal/ubuntu noble/main s390x libjq1 s390x 1.7.1-3 [168 kB] 111s Get:27 http://ftpmaster.internal/ubuntu noble/main s390x libftdi1-2 s390x 1.5-6build4 [29.3 kB] 111s Preconfiguring packages ... 111s Fetched 5565 kB in 3s (1921 kB/s) 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 ... 52167 files and directories currently installed.) 111s Preparing to unpack .../libpam0g_1.5.3-5ubuntu3_s390x.deb ... 111s Unpacking libpam0g:s390x (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 111s Setting up libpam0g:s390x (1.5.3-5ubuntu3) ... 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 ... 52167 files and directories currently installed.) 111s Preparing to unpack .../libpam-modules-bin_1.5.3-5ubuntu3_s390x.deb ... 111s Unpacking libpam-modules-bin (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 112s Setting up libpam-modules-bin (1.5.3-5ubuntu3) ... 112s pam_namespace.service is a disabled or a static unit not running, not starting it. 112s (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 ... 52167 files and directories currently installed.) 112s Preparing to unpack .../libpam-modules_1.5.3-5ubuntu3_s390x.deb ... 112s Unpacking libpam-modules:s390x (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 112s Setting up libpam-modules:s390x (1.5.3-5ubuntu3) ... 112s Installing new version of config file /etc/security/namespace.init ... 112s (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 ... 52165 files and directories currently installed.) 112s Preparing to unpack .../gcc-14-base_14-20240315-1ubuntu1_s390x.deb ... 112s Unpacking gcc-14-base:s390x (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 112s Setting up gcc-14-base:s390x (14-20240315-1ubuntu1) ... 112s (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 ... 52165 files and directories currently installed.) 112s Preparing to unpack .../libstdc++6_14-20240315-1ubuntu1_s390x.deb ... 112s Unpacking libstdc++6:s390x (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 112s Setting up libstdc++6:s390x (14-20240315-1ubuntu1) ... 112s (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 ... 52165 files and directories currently installed.) 112s Preparing to unpack .../libgcc-s1_14-20240315-1ubuntu1_s390x.deb ... 112s Unpacking libgcc-s1:s390x (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 112s Setting up libgcc-s1:s390x (14-20240315-1ubuntu1) ... 112s (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 ... 52165 files and directories currently installed.) 112s Preparing to unpack .../libpam-runtime_1.5.3-5ubuntu3_all.deb ... 112s Unpacking libpam-runtime (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 112s Setting up libpam-runtime (1.5.3-5ubuntu3) ... 112s (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 ... 52165 files and directories currently installed.) 112s Preparing to unpack .../libseccomp2_2.5.5-1ubuntu2_s390x.deb ... 112s Unpacking libseccomp2:s390x (2.5.5-1ubuntu2) over (2.5.5-1ubuntu1) ... 112s Setting up libseccomp2:s390x (2.5.5-1ubuntu2) ... 112s (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 ... 52165 files and directories currently installed.) 112s Preparing to unpack .../00-libdevmapper1.02.1_2%3a1.02.185-3ubuntu2_s390x.deb ... 112s Unpacking libdevmapper1.02.1:s390x (2:1.02.185-3ubuntu2) over (2:1.02.185-3ubuntu1) ... 112s Preparing to unpack .../01-dmsetup_2%3a1.02.185-3ubuntu2_s390x.deb ... 112s Unpacking dmsetup (2:1.02.185-3ubuntu2) over (2:1.02.185-3ubuntu1) ... 112s Preparing to unpack .../02-libexpat1_2.6.1-2_s390x.deb ... 112s Unpacking libexpat1:s390x (2.6.1-2) over (2.6.0-1) ... 112s Preparing to unpack .../03-python3-yaml_6.0.1-2build1_s390x.deb ... 113s Unpacking python3-yaml (6.0.1-2build1) over (6.0.1-2) ... 113s Preparing to unpack .../04-libusb-1.0-0_2%3a1.0.27-1_s390x.deb ... 113s Unpacking libusb-1.0-0:s390x (2:1.0.27-1) over (2:1.0.26-1) ... 113s Preparing to unpack .../05-libctf0_2.42-4ubuntu1_s390x.deb ... 113s Unpacking libctf0:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../06-libctf-nobfd0_2.42-4ubuntu1_s390x.deb ... 113s Unpacking libctf-nobfd0:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../07-binutils-s390x-linux-gnu_2.42-4ubuntu1_s390x.deb ... 113s Unpacking binutils-s390x-linux-gnu (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../08-libbinutils_2.42-4ubuntu1_s390x.deb ... 113s Unpacking libbinutils:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../09-binutils_2.42-4ubuntu1_s390x.deb ... 113s Unpacking binutils (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../10-binutils-common_2.42-4ubuntu1_s390x.deb ... 113s Unpacking binutils-common:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../11-libsframe1_2.42-4ubuntu1_s390x.deb ... 113s Unpacking libsframe1:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../12-gcc-13-base_13.2.0-21ubuntu1_s390x.deb ... 113s Unpacking gcc-13-base:s390x (13.2.0-21ubuntu1) over (13.2.0-17ubuntu2) ... 113s Preparing to unpack .../13-initramfs-tools_0.142ubuntu23_all.deb ... 113s Unpacking initramfs-tools (0.142ubuntu23) over (0.142ubuntu20) ... 113s Preparing to unpack .../14-initramfs-tools-core_0.142ubuntu23_all.deb ... 113s Unpacking initramfs-tools-core (0.142ubuntu23) over (0.142ubuntu20) ... 113s Preparing to unpack .../15-initramfs-tools-bin_0.142ubuntu23_s390x.deb ... 113s Unpacking initramfs-tools-bin (0.142ubuntu23) over (0.142ubuntu20) ... 113s Preparing to unpack .../16-jq_1.7.1-3_s390x.deb ... 113s Unpacking jq (1.7.1-3) over (1.7.1-2) ... 113s Preparing to unpack .../17-libjq1_1.7.1-3_s390x.deb ... 113s Unpacking libjq1:s390x (1.7.1-3) over (1.7.1-2) ... 113s Preparing to unpack .../18-libftdi1-2_1.5-6build4_s390x.deb ... 113s Unpacking libftdi1-2:s390x (1.5-6build4) over (1.5-6build3) ... 113s Setting up libexpat1:s390x (2.6.1-2) ... 113s Setting up libjq1:s390x (1.7.1-3) ... 113s Setting up binutils-common:s390x (2.42-4ubuntu1) ... 113s Setting up libctf-nobfd0:s390x (2.42-4ubuntu1) ... 113s Setting up python3-yaml (6.0.1-2build1) ... 113s Setting up libsframe1:s390x (2.42-4ubuntu1) ... 113s Setting up gcc-13-base:s390x (13.2.0-21ubuntu1) ... 113s Setting up libdevmapper1.02.1:s390x (2:1.02.185-3ubuntu2) ... 113s Setting up dmsetup (2:1.02.185-3ubuntu2) ... 113s Setting up jq (1.7.1-3) ... 113s Setting up libusb-1.0-0:s390x (2:1.0.27-1) ... 113s Setting up libbinutils:s390x (2.42-4ubuntu1) ... 113s Setting up initramfs-tools-bin (0.142ubuntu23) ... 113s Setting up libctf0:s390x (2.42-4ubuntu1) ... 113s Setting up binutils-s390x-linux-gnu (2.42-4ubuntu1) ... 113s Setting up binutils (2.42-4ubuntu1) ... 113s Setting up libftdi1-2:s390x (1.5-6build4) ... 113s Setting up initramfs-tools-core (0.142ubuntu23) ... 113s Setting up initramfs-tools (0.142ubuntu23) ... 113s update-initramfs: deferring update (trigger activated) 113s Processing triggers for man-db (2.12.0-3) ... 114s Processing triggers for libc-bin (2.39-0ubuntu6) ... 114s Processing triggers for initramfs-tools (0.142ubuntu23) ... 114s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 114s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 117s Using config file '/etc/zipl.conf' 117s Building bootmap in '/boot' 117s Adding IPL section 'ubuntu' (default) 117s Preparing boot device for LD-IPL: vda (0000). 117s Done. 117s Reading package lists... 117s Building dependency tree... 117s Reading state information... 118s 0 upgraded, 0 newly installed, 0 to remove and 217 not upgraded. 118s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 118s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 118s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 118s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 119s Reading package lists... 119s Reading package lists... 119s Building dependency tree... 119s Reading state information... 120s Calculating upgrade... 120s The following packages were automatically installed and are no longer required: 120s libaio1 libnetplan0 python3-distutils python3-lib2to3 120s Use 'sudo apt autoremove' to remove them. 120s The following packages will be REMOVED: 120s libapt-pkg6.0 libarchive13 libatm1 libcurl3-gnutls libcurl4 libdb5.3 libelf1 120s libext2fs2 libgdbm-compat4 libgdbm6 libglib2.0-0 libgnutls30 libgpgme11 120s libhogweed6 libmagic1 libnettle8 libnpth0 libnvme1 libparted2 libperl5.38 120s libpng16-16 libpsl5 libreadline8 libreiserfscore0 libssl3 libtirpc3 liburcu8 120s libuv1 120s The following NEW packages will be installed: 120s bpfcc-tools bpftrace fontconfig-config fonts-dejavu-core fonts-dejavu-mono 120s hwdata ieee-data libaio1t64 libapt-pkg6.0t64 libarchive13t64 libatm1t64 120s libbpfcc libc-dev-bin libc-devtools libc6-dev libclang-cpp18 libclang1-18 120s libcrypt-dev libcurl3t64-gnutls libcurl4t64 libdb5.3t64 libdeflate0 120s libdw1t64 libelf1t64 libext2fs2t64 libfontconfig1 libfreetype6 libgd3 120s libgdbm-compat4t64 libgdbm6t64 libglib2.0-0t64 libgnutls30t64 libgpgme11t64 120s libhogweed6t64 libjbig0 libjpeg-turbo8 libjpeg8 libllvm18 libmagic1t64 120s libnetplan1 libnettle8t64 libnpth0t64 libnvme1t64 libparted2t64 120s libperl5.38t64 libpng16-16t64 libpsl5t64 libreadline8t64 libreiserfscore0t64 120s libsharpyuv0 libssl3t64 libtiff6 libtirpc3t64 liburcu8t64 libuv1t64 libwebp7 120s libxpm4 linux-headers-6.8.0-20 linux-headers-6.8.0-20-generic 120s linux-image-6.8.0-20-generic linux-libc-dev linux-modules-6.8.0-20-generic 120s linux-modules-extra-6.8.0-20-generic linux-tools-6.8.0-20 120s linux-tools-6.8.0-20-generic linux-tools-common manpages manpages-dev 120s python3-bpfcc python3-netaddr rpcsvc-proto ubuntu-kernel-accessories 120s xdg-user-dirs 120s The following packages have been kept back: 120s s390-tools 120s The following packages will be upgraded: 120s apparmor apt apt-utils base-files bash bind9-dnsutils bind9-host bind9-libs 120s bolt bsdextrautils bsdutils btrfs-progs coreutils cryptsetup-bin curl dbus 120s dbus-bin dbus-daemon dbus-session-bus-common dbus-system-bus-common 120s dbus-user-session dhcpcd-base dirmngr dpkg dpkg-dev e2fsprogs e2fsprogs-l10n 120s eject fdisk file ftp fwupd gawk gir1.2-girepository-2.0 gir1.2-glib-2.0 120s gnupg gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client gpgconf gpgsm gpgv 120s groff-base ibverbs-providers inetutils-telnet info install-info iproute2 120s keyboxd kmod kpartx krb5-locales libapparmor1 libaudit-common libaudit1 120s libblkid1 libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 120s libblockdev-mdraid3 libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 120s libblockdev-utils3 libblockdev3 libbpf1 libbrotli1 libcap-ng0 libcom-err2 120s libcryptsetup12 libdbus-1-3 libdebconfclient0 libdpkg-perl 120s libevent-core-2.1-7 libfdisk1 libfido2-1 libfwupd2 libgirepository-1.0-1 120s libglib2.0-data libgssapi-krb5-2 libgudev-1.0-0 libgusb2 libibverbs1 120s libjcat1 libjson-glib-1.0-0 libjson-glib-1.0-common libk5crypto3 libkmod2 120s libkrb5-3 libkrb5support0 libldap-common libldap2 liblocale-gettext-perl 120s liblzma5 libmagic-mgc libmbim-glib4 libmbim-proxy libmm-glib0 libmount1 120s libnghttp2-14 libnsl2 libnss-systemd libpam-systemd libplymouth5 120s libpolkit-agent-1-0 libpolkit-gobject-1-0 libproc2-0 libprotobuf-c1 120s libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib 120s libpython3.12-minimal libpython3.12-stdlib libqmi-glib5 libqmi-proxy 120s libqrtr-glib0 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db 120s libselinux1 libsemanage-common libsemanage2 libslang2 libsmartcols1 120s libsqlite3-0 libss2 libssh-4 libsystemd-shared libsystemd0 120s libtext-charwidth-perl libtext-iconv-perl libtirpc-common libudev1 120s libudisks2-0 libuuid1 libvolume-key1 libxml2 libxmlb2 libxmuu1 linux-generic 120s linux-headers-generic linux-headers-virtual linux-image-generic 120s linux-image-virtual linux-virtual logsave lshw lsof man-db motd-news-config 120s mount mtr-tiny multipath-tools netplan-generator netplan.io openssh-client 120s openssh-server openssh-sftp-server openssl parted perl perl-base 120s perl-modules-5.38 pinentry-curses plymouth plymouth-theme-ubuntu-text procps 120s python-apt-common python3 python3-apt python3-cryptography python3-dbus 120s python3-distutils python3-gdbm python3-gi python3-lib2to3 python3-minimal 120s python3-netplan python3-pkg-resources python3-pyrsistent python3-setuptools 120s python3-typing-extensions python3.11 python3.11-minimal python3.12 120s python3.12-minimal readline-common rsync rsyslog s390-tools-data 120s shared-mime-info sudo systemd systemd-dev systemd-resolved systemd-sysv 120s systemd-timesyncd tcpdump telnet tnftp ubuntu-pro-client 120s ubuntu-pro-client-l10n udev udisks2 usb.ids util-linux uuid-runtime 120s vim-common vim-tiny wget xxd xz-utils zlib1g 120s 216 upgraded, 73 newly installed, 28 to remove and 1 not upgraded. 120s Need to get 223 MB of archives. 120s After this operation, 524 MB of additional disk space will be used. 120s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main s390x motd-news-config all 13ubuntu8 [5098 B] 120s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x base-files s390x 13ubuntu8 [74.2 kB] 120s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bash s390x 5.2.21-2ubuntu3 [845 kB] 121s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bsdutils s390x 1:2.39.3-9ubuntu2 [96.1 kB] 121s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libbrotli1 s390x 1.1.0-2build1 [375 kB] 122s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgssapi-krb5-2 s390x 1.20.1-6ubuntu1 [149 kB] 122s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkrb5-3 s390x 1.20.1-6ubuntu1 [360 kB] 122s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkrb5support0 s390x 1.20.1-6ubuntu1 [34.6 kB] 122s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libk5crypto3 s390x 1.20.1-6ubuntu1 [90.3 kB] 122s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcom-err2 s390x 1.47.0-2.4~exp1ubuntu2 [22.9 kB] 122s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main s390x zlib1g s390x 1:1.3.dfsg-3.1ubuntu1 [75.7 kB] 122s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main s390x librtmp1 s390x 2.4+20151223.gitfa8646d.1-2build6 [58.4 kB] 122s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main s390x udisks2 s390x 2.10.1-6 [298 kB] 122s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libudisks2-0 s390x 2.10.1-6 [179 kB] 122s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblkid1 s390x 2.39.3-9ubuntu2 [128 kB] 122s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main s390x liblzma5 s390x 5.6.0-0.2 [137 kB] 122s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main s390x kmod s390x 31+20240202-2ubuntu4 [107 kB] 123s Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkmod2 s390x 31+20240202-2ubuntu4 [56.3 kB] 123s Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-dev all 255.4-1ubuntu5 [103 kB] 123s Get:20 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-timesyncd s390x 255.4-1ubuntu5 [35.3 kB] 123s Get:21 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-session-bus-common all 1.14.10-4ubuntu2 [80.3 kB] 123s Get:22 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-sysv s390x 255.4-1ubuntu5 [11.9 kB] 123s Get:23 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-systemd s390x 255.4-1ubuntu5 [242 kB] 123s Get:24 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-user-session s390x 1.14.10-4ubuntu2 [9960 B] 123s Get:25 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libapparmor1 s390x 4.0.0-beta3-0ubuntu2 [50.8 kB] 123s Get:26 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libaudit-common all 1:3.1.2-2.1 [5674 B] 123s Get:27 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcap-ng0 s390x 0.8.4-2build1 [15.7 kB] 123s Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libaudit1 s390x 1:3.1.2-2.1 [48.9 kB] 123s Get:29 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libselinux1 s390x 3.5-2ubuntu1 [84.7 kB] 123s Get:30 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl4t64 s390x 8.5.0-2ubuntu8 [363 kB] 123s Get:31 http://ftpmaster.internal/ubuntu noble-proposed/main s390x curl s390x 8.5.0-2ubuntu8 [227 kB] 123s Get:32 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpsl5t64 s390x 0.21.2-1.1 [57.6 kB] 123s Get:33 http://ftpmaster.internal/ubuntu noble-proposed/main s390x wget s390x 1.21.4-1ubuntu2 [351 kB] 123s Get:34 http://ftpmaster.internal/ubuntu noble-proposed/main s390x tnftp s390x 20230507-2build1 [107 kB] 124s Get:35 http://ftpmaster.internal/ubuntu noble-proposed/main s390x tcpdump s390x 4.99.4-3ubuntu2 [490 kB] 124s Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsystemd-shared s390x 255.4-1ubuntu5 [2131 kB] 125s Get:37 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-resolved s390x 255.4-1ubuntu5 [304 kB] 125s Get:38 http://ftpmaster.internal/ubuntu noble-proposed/main s390x sudo s390x 1.9.15p5-3ubuntu3 [968 kB] 125s Get:39 http://ftpmaster.internal/ubuntu noble-proposed/main s390x rsync s390x 3.2.7-1build1 [446 kB] 126s Get:40 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-cryptography s390x 41.0.7-4build2 [918 kB] 126s Get:41 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssl s390x 3.0.13-0ubuntu2 [1010 kB] 127s Get:42 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-sftp-server s390x 1:9.6p1-3ubuntu11 [39.0 kB] 127s Get:43 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-client s390x 1:9.6p1-3ubuntu11 [935 kB] 127s Get:44 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-server s390x 1:9.6p1-3ubuntu11 [529 kB] 128s Get:45 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssh-4 s390x 0.10.6-2build1 [189 kB] 128s Get:46 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-modules s390x 2.1.28+dfsg1-5ubuntu1 [76.6 kB] 128s Get:47 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.12 s390x 3.12.2-4build3 [645 kB] 128s Get:48 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.12-minimal s390x 3.12.2-4build3 [2419 kB] 129s Get:49 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.12-minimal s390x 3.12.2-4build3 [829 kB] 130s Get:50 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libparted2t64 s390x 3.6-3.1build2 [172 kB] 130s Get:51 http://ftpmaster.internal/ubuntu noble-proposed/main s390x parted s390x 3.6-3.1build2 [44.6 kB] 130s Get:52 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.11 s390x 3.11.8-1build4 [589 kB] 130s Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.11-minimal s390x 3.11.8-1build4 [2280 kB] 132s Get:54 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.11-minimal s390x 3.11.8-1build4 [838 kB] 132s Get:55 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.11-stdlib s390x 3.11.8-1build4 [1944 kB] 134s Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main s390x shared-mime-info s390x 2.4-1build1 [474 kB] 134s Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gir1.2-girepository-2.0 s390x 1.79.1-1ubuntu6 [24.5 kB] 134s Get:58 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gir1.2-glib-2.0 s390x 2.79.3-3ubuntu5 [180 kB] 134s Get:59 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgirepository-1.0-1 s390x 1.79.1-1ubuntu6 [84.0 kB] 134s Get:60 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-gi s390x 3.47.0-3build1 [236 kB] 135s Get:61 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-dbus s390x 1.3.2-5build2 [100 kB] 135s Get:62 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnetplan1 s390x 1.0-1 [123 kB] 135s Get:63 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-netplan s390x 1.0-1 [23.0 kB] 135s Get:64 http://ftpmaster.internal/ubuntu noble-proposed/main s390x netplan-generator s390x 1.0-1 [59.1 kB] 135s Get:65 http://ftpmaster.internal/ubuntu noble-proposed/main s390x netplan.io s390x 1.0-1 [65.4 kB] 135s Get:66 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxmlb2 s390x 0.3.15-1build1 [70.6 kB] 135s Get:67 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgpgme11t64 s390x 1.18.0-4.1ubuntu3 [150 kB] 135s Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libvolume-key1 s390x 0.3.12-7build1 [40.8 kB] 135s Get:69 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqrtr-glib0 s390x 1.2.2-1ubuntu3 [17.5 kB] 135s Get:70 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqmi-glib5 s390x 1.35.2-0ubuntu1 [918 kB] 136s Get:71 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqmi-proxy s390x 1.35.2-0ubuntu1 [6122 B] 136s Get:72 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpolkit-agent-1-0 s390x 124-1ubuntu1 [17.8 kB] 136s Get:73 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpolkit-gobject-1-0 s390x 124-1ubuntu1 [48.3 kB] 136s Get:74 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmm-glib0 s390x 1.23.4-0ubuntu1 [251 kB] 136s Get:75 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmbim-glib4 s390x 1.31.2-0ubuntu2 [238 kB] 136s Get:76 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmbim-proxy s390x 1.31.2-0ubuntu2 [6154 B] 136s Get:77 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjson-glib-1.0-common all 1.8.0-2build1 [4210 B] 136s Get:78 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjson-glib-1.0-0 s390x 1.8.0-2build1 [68.4 kB] 136s Get:79 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgusb2 s390x 0.4.8-1build1 [39.0 kB] 136s Get:80 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgudev-1.0-0 s390x 1:238-3ubuntu2 [15.7 kB] 136s Get:81 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libarchive13t64 s390x 3.7.2-1.1ubuntu2 [419 kB] 136s Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main s390x fwupd s390x 1.9.15-2 [4435 kB] 139s Get:83 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl3t64-gnutls s390x 8.5.0-2ubuntu8 [356 kB] 139s Get:84 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfwupd2 s390x 1.9.15-2 [136 kB] 139s Get:85 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev3 s390x 3.1.0-1build1 [52.3 kB] 139s Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-utils3 s390x 3.1.0-1build1 [19.2 kB] 139s Get:87 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-swap3 s390x 3.1.0-1build1 [7778 B] 139s Get:88 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-part3 s390x 3.1.0-1build1 [15.4 kB] 139s Get:89 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnvme1t64 s390x 1.8-3 [78.7 kB] 139s Get:90 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-nvme3 s390x 3.1.0-1build1 [18.3 kB] 139s Get:91 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-mdraid3 s390x 3.1.0-1build1 [13.2 kB] 139s Get:92 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-loop3 s390x 3.1.0-1build1 [7138 B] 139s Get:93 http://ftpmaster.internal/ubuntu noble-proposed/main s390x logsave s390x 1.47.0-2.4~exp1ubuntu2 [22.5 kB] 139s Get:94 http://ftpmaster.internal/ubuntu noble-proposed/main s390x e2fsprogs-l10n all 1.47.0-2.4~exp1ubuntu2 [5996 B] 139s Get:95 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libext2fs2t64 s390x 1.47.0-2.4~exp1ubuntu2 [235 kB] 140s Get:96 http://ftpmaster.internal/ubuntu noble-proposed/main s390x e2fsprogs s390x 1.47.0-2.4~exp1ubuntu2 [615 kB] 140s Get:97 http://ftpmaster.internal/ubuntu noble/main s390x libreiserfscore0t64 s390x 1:3.6.27-7.1 [85.5 kB] 140s Get:98 http://ftpmaster.internal/ubuntu noble-proposed/main s390x btrfs-progs s390x 6.6.3-1.1build1 [959 kB] 141s Get:99 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-fs3 s390x 3.1.0-1build1 [36.5 kB] 141s Get:100 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-crypto3 s390x 3.1.0-1build1 [21.6 kB] 141s Get:101 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bolt s390x 0.9.6-2build1 [142 kB] 141s Get:102 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libglib2.0-0t64 s390x 2.79.3-3ubuntu5 [1566 kB] 142s Get:103 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjcat1 s390x 0.2.0-2build2 [34.4 kB] 142s Get:104 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libldap2 s390x 2.6.7+dfsg-1~exp1ubuntu6 [202 kB] 142s Get:105 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ubuntu-pro-client-l10n s390x 31.2.2 [19.4 kB] 142s Get:106 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ubuntu-pro-client s390x 31.2.2 [214 kB] 142s Get:107 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg-utils s390x 2.4.4-2ubuntu15 [116 kB] 143s Get:108 http://ftpmaster.internal/ubuntu noble-proposed/main s390x keyboxd s390x 2.4.4-2ubuntu15 [83.1 kB] 143s Get:109 http://ftpmaster.internal/ubuntu noble/main s390x libnpth0t64 s390x 1.6-3.1 [8148 B] 143s Get:110 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgv s390x 2.4.4-2ubuntu15 [165 kB] 143s Get:111 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg-wks-client s390x 2.4.4-2ubuntu15 [76.8 kB] 143s Get:112 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg-agent s390x 2.4.4-2ubuntu15 [240 kB] 143s Get:113 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg s390x 2.4.4-2ubuntu15 [589 kB] 143s Get:114 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dirmngr s390x 2.4.4-2ubuntu15 [340 kB] 143s Get:115 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg all 2.4.4-2ubuntu15 [359 kB] 144s Get:116 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-apt s390x 2.7.7 [171 kB] 144s Get:117 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apt-utils s390x 2.7.14 [214 kB] 144s Get:118 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libapt-pkg6.0t64 s390x 2.7.14 [1014 kB] 144s Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnettle8t64 s390x 3.9.1-2.2 [210 kB] 144s Get:120 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libhogweed6t64 s390x 3.9.1-2.2 [204 kB] 144s Get:121 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgnutls30t64 s390x 3.8.3-1.1ubuntu2 [1044 kB] 145s Get:122 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apt s390x 2.7.14 [1390 kB] 146s Get:123 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgconf s390x 2.4.4-2ubuntu15 [111 kB] 146s Get:124 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgsm s390x 2.4.4-2ubuntu15 [244 kB] 146s Get:125 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libreadline8t64 s390x 8.2-4 [170 kB] 146s Get:126 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gawk s390x 1:5.2.1-2build2 [496 kB] 146s Get:127 http://ftpmaster.internal/ubuntu noble-proposed/main s390x fdisk s390x 2.39.3-9ubuntu2 [124 kB] 146s Get:128 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.12-stdlib s390x 3.12.2-4build3 [2046 kB] 148s Get:129 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl-base s390x 5.38.2-3.2 [1961 kB] 149s Get:130 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl-modules-5.38 all 5.38.2-3.2 [3110 kB] 150s Get:131 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-gdbm s390x 3.12.2-3ubuntu1.1 [19.0 kB] 150s Get:132 http://ftpmaster.internal/ubuntu noble-proposed/main s390x man-db s390x 2.12.0-3build4 [1246 kB] 151s Get:133 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgdbm6t64 s390x 1.23-5.1 [36.4 kB] 151s Get:134 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgdbm-compat4t64 s390x 1.23-5.1 [6880 B] 151s Get:135 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libperl5.38t64 s390x 5.38.2-3.2 [5007 kB] 154s Get:136 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl s390x 5.38.2-3.2 [231 kB] 154s Get:137 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdb5.3t64 s390x 5.3.28+dfsg2-6 [763 kB] 154s Get:138 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-modules-db s390x 2.1.28+dfsg1-5ubuntu1 [21.1 kB] 154s Get:139 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-2 s390x 2.1.28+dfsg1-5ubuntu1 [57.8 kB] 154s Get:140 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfido2-1 s390x 1.14.0-1build1 [81.0 kB] 154s Get:141 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcryptsetup12 s390x 2:2.7.0-1ubuntu2 [264 kB] 154s Get:142 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dhcpcd-base s390x 1:10.0.6-1ubuntu2 [217 kB] 155s Get:143 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libuv1t64 s390x 1.48.0-1.1 [101 kB] 155s Get:144 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-host s390x 1:9.18.24-0ubuntu3 [50.5 kB] 155s Get:145 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-dnsutils s390x 1:9.18.24-0ubuntu3 [162 kB] 155s Get:146 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-libs s390x 1:9.18.24-0ubuntu3 [1243 kB] 155s Get:147 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl3t64 s390x 3.0.13-0ubuntu2 [1675 kB] 156s Get:148 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnss-systemd s390x 255.4-1ubuntu5 [166 kB] 157s Get:149 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libudev1 s390x 255.4-1ubuntu5 [178 kB] 157s Get:150 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd s390x 255.4-1ubuntu5 [3533 kB] 159s Get:151 http://ftpmaster.internal/ubuntu noble-proposed/main s390x udev s390x 255.4-1ubuntu5 [1887 kB] 160s Get:152 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsystemd0 s390x 255.4-1ubuntu5 [443 kB] 160s Get:153 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-system-bus-common all 1.14.10-4ubuntu2 [81.5 kB] 160s Get:154 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-bin s390x 1.14.10-4ubuntu2 [41.4 kB] 160s Get:155 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus s390x 1.14.10-4ubuntu2 [24.3 kB] 160s Get:156 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-daemon s390x 1.14.10-4ubuntu2 [118 kB] 160s Get:157 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdbus-1-3 s390x 1.14.10-4ubuntu2 [213 kB] 160s Get:158 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmount1 s390x 2.39.3-9ubuntu2 [138 kB] 161s Get:159 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libuuid1 s390x 2.39.3-9ubuntu2 [35.6 kB] 161s Get:160 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfdisk1 s390x 2.39.3-9ubuntu2 [151 kB] 161s Get:161 http://ftpmaster.internal/ubuntu noble-proposed/main s390x mount s390x 2.39.3-9ubuntu2 [119 kB] 161s Get:162 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsqlite3-0 s390x 3.45.1-1ubuntu1 [747 kB] 161s Get:163 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dpkg s390x 1.22.6ubuntu5 [1278 kB] 162s Get:164 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-minimal s390x 3.12.2-0ubuntu1 [27.1 kB] 162s Get:165 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3 s390x 3.12.2-0ubuntu1 [24.1 kB] 162s Get:166 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3-stdlib s390x 3.12.2-0ubuntu1 [9804 B] 162s Get:167 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsmartcols1 s390x 2.39.3-9ubuntu2 [67.9 kB] 162s Get:168 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bsdextrautils s390x 2.39.3-9ubuntu2 [76.3 kB] 162s Get:169 http://ftpmaster.internal/ubuntu noble-proposed/main s390x groff-base s390x 1.23.0-3build1 [1049 kB] 163s Get:170 http://ftpmaster.internal/ubuntu noble-proposed/main s390x pinentry-curses s390x 1.2.1-3ubuntu4 [37.6 kB] 163s Get:171 http://ftpmaster.internal/ubuntu noble-proposed/main s390x readline-common all 8.2-4 [56.4 kB] 163s Get:172 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxml2 s390x 2.9.14+dfsg-1.3ubuntu2 [818 kB] 163s Get:173 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libbpf1 s390x 1:1.3.0-2build1 [176 kB] 163s Get:174 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libelf1t64 s390x 0.190-1.1build2 [69.7 kB] 163s Get:175 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtirpc-common all 1.3.4+ds-1.1 [8018 B] 163s Get:176 http://ftpmaster.internal/ubuntu noble-proposed/main s390x lsof s390x 4.95.0-1build2 [248 kB] 164s Get:177 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnsl2 s390x 1.3.0-3build2 [44.1 kB] 164s Get:178 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtirpc3t64 s390x 1.3.4+ds-1.1 [85.8 kB] 164s Get:179 http://ftpmaster.internal/ubuntu noble-proposed/main s390x iproute2 s390x 6.1.0-1ubuntu5 [1156 kB] 164s Get:180 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libprotobuf-c1 s390x 1.4.1-1ubuntu3 [23.4 kB] 164s Get:181 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnghttp2-14 s390x 1.59.0-1build1 [77.8 kB] 164s Get:182 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libproc2-0 s390x 2:4.0.4-4ubuntu2 [60.1 kB] 164s Get:183 http://ftpmaster.internal/ubuntu noble-proposed/main s390x procps s390x 2:4.0.4-4ubuntu2 [724 kB] 165s Get:184 http://ftpmaster.internal/ubuntu noble-proposed/main s390x coreutils s390x 9.4-3ubuntu3 [1482 kB] 166s Get:185 http://ftpmaster.internal/ubuntu noble-proposed/main s390x util-linux s390x 2.39.3-9ubuntu2 [1143 kB] 166s Get:186 http://ftpmaster.internal/ubuntu noble-proposed/main s390x file s390x 1:5.45-3 [22.2 kB] 166s Get:187 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmagic-mgc s390x 1:5.45-3 [305 kB] 166s Get:188 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmagic1t64 s390x 1:5.45-3 [93.1 kB] 166s Get:189 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libplymouth5 s390x 24.004.60-1ubuntu6 [151 kB] 166s Get:190 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpng16-16t64 s390x 1.6.43-3 [200 kB] 166s Get:191 http://ftpmaster.internal/ubuntu noble-proposed/main s390x multipath-tools s390x 0.9.4-5ubuntu6 [318 kB] 167s Get:192 http://ftpmaster.internal/ubuntu noble/main s390x liburcu8t64 s390x 0.14.0-3.1 [67.3 kB] 167s Get:193 http://ftpmaster.internal/ubuntu noble-proposed/main s390x liblocale-gettext-perl s390x 1.07-6ubuntu4 [15.8 kB] 167s Get:194 http://ftpmaster.internal/ubuntu noble-proposed/main s390x uuid-runtime s390x 2.39.3-9ubuntu2 [33.4 kB] 167s Get:195 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdebconfclient0 s390x 0.271ubuntu2 [11.4 kB] 167s Get:196 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsemanage-common all 3.5-1build4 [10.1 kB] 167s Get:197 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsemanage2 s390x 3.5-1build4 [96.7 kB] 167s Get:198 http://ftpmaster.internal/ubuntu noble-proposed/main s390x install-info s390x 7.1-3build1 [64.5 kB] 167s Get:199 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libss2 s390x 1.47.0-2.4~exp1ubuntu2 [17.2 kB] 167s Get:200 http://ftpmaster.internal/ubuntu noble-proposed/main s390x eject s390x 2.39.3-9ubuntu2 [26.2 kB] 167s Get:201 http://ftpmaster.internal/ubuntu noble-proposed/main s390x krb5-locales all 1.20.1-6ubuntu1 [13.8 kB] 167s Get:202 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libglib2.0-data all 2.79.3-3ubuntu5 [46.6 kB] 167s Get:203 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libslang2 s390x 2.3.3-3build1 [501 kB] 167s Get:204 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtext-charwidth-perl s390x 0.04-11build2 [9484 B] 167s Get:205 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtext-iconv-perl s390x 1.7-8build2 [13.8 kB] 167s Get:206 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python-apt-common all 2.7.7 [19.8 kB] 167s Get:207 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-setuptools all 68.1.2-2ubuntu1 [396 kB] 168s Get:208 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-pkg-resources all 68.1.2-2ubuntu1 [168 kB] 168s Get:209 http://ftpmaster.internal/ubuntu noble-proposed/main s390x rsyslog s390x 8.2312.0-3ubuntu7 [536 kB] 168s Get:210 http://ftpmaster.internal/ubuntu noble-proposed/main s390x vim-tiny s390x 2:9.1.0016-1ubuntu6 [879 kB] 168s Get:211 http://ftpmaster.internal/ubuntu noble-proposed/main s390x vim-common all 2:9.1.0016-1ubuntu6 [385 kB] 169s Get:212 http://ftpmaster.internal/ubuntu noble/main s390x xdg-user-dirs s390x 0.18-1 [18.5 kB] 169s Get:213 http://ftpmaster.internal/ubuntu noble-proposed/main s390x xxd s390x 2:9.1.0016-1ubuntu6 [63.5 kB] 169s Get:214 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apparmor s390x 4.0.0-beta3-0ubuntu2 [710 kB] 169s Get:215 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ftp all 20230507-2build1 [4724 B] 170s Get:216 http://ftpmaster.internal/ubuntu noble-proposed/main s390x inetutils-telnet s390x 2:2.5-3ubuntu3 [105 kB] 170s Get:217 http://ftpmaster.internal/ubuntu noble-proposed/main s390x info s390x 7.1-3build1 [152 kB] 170s Get:218 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxmuu1 s390x 2:1.1.3-3build1 [8860 B] 170s Get:219 http://ftpmaster.internal/ubuntu noble-proposed/main s390x lshw s390x 02.19.git.2021.06.19.996aaad9c7-2build2 [346 kB] 170s Get:220 http://ftpmaster.internal/ubuntu noble/main s390x manpages all 6.05.01-1 [1340 kB] 171s Get:221 http://ftpmaster.internal/ubuntu noble-proposed/main s390x mtr-tiny s390x 0.95-1.1build1 [57.0 kB] 171s Get:222 http://ftpmaster.internal/ubuntu noble-proposed/main s390x plymouth-theme-ubuntu-text s390x 24.004.60-1ubuntu6 [10.2 kB] 171s Get:223 http://ftpmaster.internal/ubuntu noble-proposed/main s390x plymouth s390x 24.004.60-1ubuntu6 [147 kB] 171s Get:224 http://ftpmaster.internal/ubuntu noble-proposed/main s390x telnet all 0.17+2.5-3ubuntu3 [3682 B] 171s Get:225 http://ftpmaster.internal/ubuntu noble-proposed/main s390x usb.ids all 2024.03.18-1 [223 kB] 171s Get:226 http://ftpmaster.internal/ubuntu noble-proposed/main s390x xz-utils s390x 5.6.0-0.2 [274 kB] 171s Get:227 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libllvm18 s390x 1:18.1.2-1ubuntu2 [33.4 MB] 187s Get:228 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libclang-cpp18 s390x 1:18.1.2-1ubuntu2 [16.1 MB] 199s Get:229 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libbpfcc s390x 0.29.1+ds-1ubuntu4 [697 kB] 199s Get:230 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x python3-bpfcc all 0.29.1+ds-1ubuntu4 [40.2 kB] 199s Get:231 http://ftpmaster.internal/ubuntu noble/main s390x ieee-data all 20220827.1 [2113 kB] 201s Get:232 http://ftpmaster.internal/ubuntu noble/main s390x python3-netaddr all 0.8.0-2ubuntu1 [319 kB] 201s Get:233 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x bpfcc-tools all 0.29.1+ds-1ubuntu4 [687 kB] 202s Get:234 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libclang1-18 s390x 1:18.1.2-1ubuntu2 [9349 kB] 207s Get:235 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdw1t64 s390x 0.190-1.1build2 [286 kB] 208s Get:236 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x bpftrace s390x 0.20.2-1ubuntu1 [1139 kB] 208s Get:237 http://ftpmaster.internal/ubuntu noble-proposed/main s390x cryptsetup-bin s390x 2:2.7.0-1ubuntu2 [211 kB] 208s Get:238 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dpkg-dev all 1.22.6ubuntu5 [1074 kB] 209s Get:239 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdpkg-perl all 1.22.6ubuntu5 [269 kB] 209s Get:240 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 209s Get:241 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 210s Get:242 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu1 [37.4 kB] 210s Get:243 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg-l10n all 2.4.4-2ubuntu15 [65.8 kB] 210s Get:244 http://ftpmaster.internal/ubuntu noble/main s390x hwdata all 0.379-1 [29.1 kB] 210s Get:245 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libibverbs1 s390x 50.0-2build1 [70.0 kB] 210s Get:246 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ibverbs-providers s390x 50.0-2build1 [408 kB] 211s Get:247 http://ftpmaster.internal/ubuntu noble/main s390x libaio1t64 s390x 0.3.113-6 [7290 B] 211s Get:248 http://ftpmaster.internal/ubuntu noble/main s390x libatm1t64 s390x 1:2.5.1-5.1 [24.5 kB] 211s Get:249 http://ftpmaster.internal/ubuntu noble/main s390x libc-dev-bin s390x 2.39-0ubuntu6 [20.2 kB] 211s Get:250 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfreetype6 s390x 2.13.2+dfsg-1build2 [437 kB] 211s Get:251 http://ftpmaster.internal/ubuntu noble/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu1 [150 kB] 211s Get:252 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB] 211s Get:253 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 212s Get:254 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB] 212s Get:255 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB] 212s Get:256 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsharpyuv0 s390x 1.3.2-0.4build2 [14.9 kB] 212s Get:257 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libwebp7 s390x 1.3.2-0.4build2 [207 kB] 212s Get:258 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu1 [218 kB] 212s Get:259 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxpm4 s390x 1:3.5.17-1build1 [41.4 kB] 212s Get:260 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgd3 s390x 2.3.3-9ubuntu3 [141 kB] 212s Get:261 http://ftpmaster.internal/ubuntu noble/main s390x libc-devtools s390x 2.39-0ubuntu6 [30.6 kB] 213s Get:262 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-libc-dev s390x 6.8.0-20.20 [1592 kB] 214s Get:263 http://ftpmaster.internal/ubuntu noble/main s390x libcrypt-dev s390x 1:4.4.36-4 [135 kB] 214s Get:264 http://ftpmaster.internal/ubuntu noble/main s390x rpcsvc-proto s390x 1.4.2-0ubuntu6 [64.7 kB] 214s Get:265 http://ftpmaster.internal/ubuntu noble/main s390x libc6-dev s390x 2.39-0ubuntu6 [1629 kB] 215s Get:266 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libevent-core-2.1-7 s390x 2.1.12-stable-9build1 [94.3 kB] 215s Get:267 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libldap-common all 2.6.7+dfsg-1~exp1ubuntu6 [31.3 kB] 215s Get:268 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-modules-6.8.0-20-generic s390x 6.8.0-20.20 [21.0 MB] 224s Get:269 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-6.8.0-20-generic s390x 6.8.0-20.20 [9872 kB] 228s Get:270 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-modules-extra-6.8.0-20-generic s390x 6.8.0-20.20 [11.7 MB] 233s Get:271 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-generic s390x 6.8.0-20.20+1 [1734 B] 233s Get:272 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-generic s390x 6.8.0-20.20+1 [9688 B] 233s Get:273 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-virtual s390x 6.8.0-20.20+1 [1682 B] 233s Get:274 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-virtual s390x 6.8.0-20.20+1 [9700 B] 233s Get:275 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-virtual s390x 6.8.0-20.20+1 [1642 B] 233s Get:276 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-6.8.0-20 all 6.8.0-20.20 [13.6 MB] 241s Get:277 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-6.8.0-20-generic s390x 6.8.0-20.20 [2579 kB] 243s Get:278 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-generic s390x 6.8.0-20.20+1 [9608 B] 243s Get:279 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-common all 6.8.0-20.20 [437 kB] 243s Get:280 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-6.8.0-20 s390x 6.8.0-20.20 [2674 kB] 245s Get:281 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-6.8.0-20-generic s390x 6.8.0-20.20 [1724 B] 245s Get:282 http://ftpmaster.internal/ubuntu noble/main s390x manpages-dev all 6.05.01-1 [2018 kB] 246s Get:283 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-distutils all 3.12.2-3ubuntu1.1 [133 kB] 246s Get:284 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-lib2to3 all 3.12.2-3ubuntu1.1 [79.1 kB] 247s Get:285 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-pyrsistent s390x 0.20.0-1build1 [55.8 kB] 247s Get:286 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-typing-extensions all 4.10.0-1 [60.7 kB] 247s Get:287 http://ftpmaster.internal/ubuntu noble-proposed/main s390x s390-tools-data all 2.31.0-0ubuntu3 [17.8 kB] 247s Get:288 http://ftpmaster.internal/ubuntu noble/main s390x ubuntu-kernel-accessories s390x 1.536build1 [10.5 kB] 247s Get:289 http://ftpmaster.internal/ubuntu noble-proposed/main s390x kpartx s390x 0.9.4-5ubuntu6 [32.8 kB] 248s Preconfiguring packages ... 248s Fetched 223 MB in 2min 7s (1755 kB/s) 248s (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 ... 52165 files and directories currently installed.) 248s Preparing to unpack .../motd-news-config_13ubuntu8_all.deb ... 248s Unpacking motd-news-config (13ubuntu8) over (13ubuntu7) ... 248s Preparing to unpack .../base-files_13ubuntu8_s390x.deb ... 248s Unpacking base-files (13ubuntu8) over (13ubuntu7) ... 248s Setting up base-files (13ubuntu8) ... 249s motd-news.service is a disabled or a static unit not running, not starting it. 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../bash_5.2.21-2ubuntu3_s390x.deb ... 249s Unpacking bash (5.2.21-2ubuntu3) over (5.2.21-2ubuntu2) ... 249s Setting up bash (5.2.21-2ubuntu3) ... 249s update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../bsdutils_1%3a2.39.3-9ubuntu2_s390x.deb ... 249s Unpacking bsdutils (1:2.39.3-9ubuntu2) over (1:2.39.3-6ubuntu2) ... 249s Setting up bsdutils (1:2.39.3-9ubuntu2) ... 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../0-libbrotli1_1.1.0-2build1_s390x.deb ... 249s Unpacking libbrotli1:s390x (1.1.0-2build1) over (1.1.0-2) ... 249s Preparing to unpack .../1-libgssapi-krb5-2_1.20.1-6ubuntu1_s390x.deb ... 249s Unpacking libgssapi-krb5-2:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 249s Preparing to unpack .../2-libkrb5-3_1.20.1-6ubuntu1_s390x.deb ... 249s Unpacking libkrb5-3:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 249s Preparing to unpack .../3-libkrb5support0_1.20.1-6ubuntu1_s390x.deb ... 249s Unpacking libkrb5support0:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 249s Preparing to unpack .../4-libk5crypto3_1.20.1-6ubuntu1_s390x.deb ... 249s Unpacking libk5crypto3:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 249s Preparing to unpack .../5-libcom-err2_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 249s Unpacking libcom-err2:s390x (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 249s Preparing to unpack .../6-zlib1g_1%3a1.3.dfsg-3.1ubuntu1_s390x.deb ... 249s Unpacking zlib1g:s390x (1:1.3.dfsg-3.1ubuntu1) over (1:1.3.dfsg-3ubuntu1) ... 249s Setting up zlib1g:s390x (1:1.3.dfsg-3.1ubuntu1) ... 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../librtmp1_2.4+20151223.gitfa8646d.1-2build6_s390x.deb ... 249s Unpacking librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build6) over (2.4+20151223.gitfa8646d.1-2build4) ... 249s Preparing to unpack .../udisks2_2.10.1-6_s390x.deb ... 249s Unpacking udisks2 (2.10.1-6) over (2.10.1-1ubuntu2) ... 249s Preparing to unpack .../libudisks2-0_2.10.1-6_s390x.deb ... 249s Unpacking libudisks2-0:s390x (2.10.1-6) over (2.10.1-1ubuntu2) ... 249s Preparing to unpack .../libblkid1_2.39.3-9ubuntu2_s390x.deb ... 249s Unpacking libblkid1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 249s Setting up libblkid1:s390x (2.39.3-9ubuntu2) ... 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../liblzma5_5.6.0-0.2_s390x.deb ... 249s Unpacking liblzma5:s390x (5.6.0-0.2) over (5.4.5-0.3) ... 249s Setting up liblzma5:s390x (5.6.0-0.2) ... 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../0-kmod_31+20240202-2ubuntu4_s390x.deb ... 249s Unpacking kmod (31+20240202-2ubuntu4) over (30+20230601-2ubuntu1) ... 249s Preparing to unpack .../1-libkmod2_31+20240202-2ubuntu4_s390x.deb ... 249s Unpacking libkmod2:s390x (31+20240202-2ubuntu4) over (30+20230601-2ubuntu1) ... 249s Preparing to unpack .../2-systemd-dev_255.4-1ubuntu5_all.deb ... 249s Unpacking systemd-dev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 249s Preparing to unpack .../3-systemd-timesyncd_255.4-1ubuntu5_s390x.deb ... 249s Unpacking systemd-timesyncd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 249s Preparing to unpack .../4-dbus-session-bus-common_1.14.10-4ubuntu2_all.deb ... 249s Unpacking dbus-session-bus-common (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 249s Preparing to unpack .../5-systemd-sysv_255.4-1ubuntu5_s390x.deb ... 249s Unpacking systemd-sysv (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 249s Preparing to unpack .../6-libpam-systemd_255.4-1ubuntu5_s390x.deb ... 249s Unpacking libpam-systemd:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 249s Preparing to unpack .../7-dbus-user-session_1.14.10-4ubuntu2_s390x.deb ... 249s Unpacking dbus-user-session (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 249s Preparing to unpack .../8-libapparmor1_4.0.0-beta3-0ubuntu2_s390x.deb ... 249s Unpacking libapparmor1:s390x (4.0.0-beta3-0ubuntu2) over (4.0.0~alpha4-0ubuntu1) ... 249s Preparing to unpack .../9-libaudit-common_1%3a3.1.2-2.1_all.deb ... 249s Unpacking libaudit-common (1:3.1.2-2.1) over (1:3.1.2-2) ... 249s Setting up libaudit-common (1:3.1.2-2.1) ... 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../libcap-ng0_0.8.4-2build1_s390x.deb ... 249s Unpacking libcap-ng0:s390x (0.8.4-2build1) over (0.8.4-2) ... 249s Setting up libcap-ng0:s390x (0.8.4-2build1) ... 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../libaudit1_1%3a3.1.2-2.1_s390x.deb ... 249s Unpacking libaudit1:s390x (1:3.1.2-2.1) over (1:3.1.2-2) ... 249s Setting up libaudit1:s390x (1:3.1.2-2.1) ... 249s (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 ... 52165 files and directories currently installed.) 249s Preparing to unpack .../libselinux1_3.5-2ubuntu1_s390x.deb ... 249s Unpacking libselinux1:s390x (3.5-2ubuntu1) over (3.5-2build1) ... 249s Setting up libselinux1:s390x (3.5-2ubuntu1) ... 249s dpkg: libcurl4:s390x: dependency problems, but removing anyway as you requested: 249s s390-tools depends on libcurl4 (>= 7.16.2). 249s curl depends on libcurl4 (= 8.5.0-2ubuntu2). 249s 250s (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 ... 52165 files and directories currently installed.) 250s Removing libcurl4:s390x (8.5.0-2ubuntu2) ... 250s Selecting previously unselected package libcurl4t64:s390x. 250s (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 ... 52160 files and directories currently installed.) 250s Preparing to unpack .../libcurl4t64_8.5.0-2ubuntu8_s390x.deb ... 250s Unpacking libcurl4t64:s390x (8.5.0-2ubuntu8) ... 250s Preparing to unpack .../curl_8.5.0-2ubuntu8_s390x.deb ... 250s Unpacking curl (8.5.0-2ubuntu8) over (8.5.0-2ubuntu2) ... 250s dpkg: libpsl5:s390x: dependency problems, but removing anyway as you requested: 250s wget depends on libpsl5 (>= 0.16.0). 250s libcurl3-gnutls:s390x depends on libpsl5 (>= 0.16.0). 250s 250s (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 ... 52166 files and directories currently installed.) 250s Removing libpsl5:s390x (0.21.2-1build1) ... 250s Selecting previously unselected package libpsl5t64:s390x. 250s (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 ... 52161 files and directories currently installed.) 250s Preparing to unpack .../00-libpsl5t64_0.21.2-1.1_s390x.deb ... 250s Unpacking libpsl5t64:s390x (0.21.2-1.1) ... 250s Preparing to unpack .../01-wget_1.21.4-1ubuntu2_s390x.deb ... 250s Unpacking wget (1.21.4-1ubuntu2) over (1.21.4-1ubuntu1) ... 250s Preparing to unpack .../02-tnftp_20230507-2build1_s390x.deb ... 250s Unpacking tnftp (20230507-2build1) over (20230507-2) ... 250s Preparing to unpack .../03-tcpdump_4.99.4-3ubuntu2_s390x.deb ... 250s Unpacking tcpdump (4.99.4-3ubuntu2) over (4.99.4-3ubuntu1) ... 250s Preparing to unpack .../04-libsystemd-shared_255.4-1ubuntu5_s390x.deb ... 250s Unpacking libsystemd-shared:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 250s Preparing to unpack .../05-systemd-resolved_255.4-1ubuntu5_s390x.deb ... 250s Unpacking systemd-resolved (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 250s Preparing to unpack .../06-sudo_1.9.15p5-3ubuntu3_s390x.deb ... 250s Unpacking sudo (1.9.15p5-3ubuntu3) over (1.9.15p5-3ubuntu1) ... 250s Preparing to unpack .../07-rsync_3.2.7-1build1_s390x.deb ... 250s Unpacking rsync (3.2.7-1build1) over (3.2.7-1) ... 250s Preparing to unpack .../08-python3-cryptography_41.0.7-4build2_s390x.deb ... 250s Unpacking python3-cryptography (41.0.7-4build2) over (41.0.7-3) ... 250s Preparing to unpack .../09-openssl_3.0.13-0ubuntu2_s390x.deb ... 250s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 250s Preparing to unpack .../10-openssh-sftp-server_1%3a9.6p1-3ubuntu11_s390x.deb ... 250s Unpacking openssh-sftp-server (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 250s Preparing to unpack .../11-openssh-client_1%3a9.6p1-3ubuntu11_s390x.deb ... 250s Unpacking openssh-client (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 250s Preparing to unpack .../12-openssh-server_1%3a9.6p1-3ubuntu11_s390x.deb ... 250s Unpacking openssh-server (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 250s Preparing to unpack .../13-libssh-4_0.10.6-2build1_s390x.deb ... 250s Unpacking libssh-4:s390x (0.10.6-2build1) over (0.10.6-2) ... 250s Preparing to unpack .../14-libsasl2-modules_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 250s Unpacking libsasl2-modules:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 250s Preparing to unpack .../15-python3.12_3.12.2-4build3_s390x.deb ... 250s Unpacking python3.12 (3.12.2-4build3) over (3.12.2-1) ... 250s Preparing to unpack .../16-python3.12-minimal_3.12.2-4build3_s390x.deb ... 250s Unpacking python3.12-minimal (3.12.2-4build3) over (3.12.2-1) ... 251s Preparing to unpack .../17-libpython3.12-minimal_3.12.2-4build3_s390x.deb ... 251s Unpacking libpython3.12-minimal:s390x (3.12.2-4build3) over (3.12.2-1) ... 251s dpkg: libparted2:s390x: dependency problems, but removing anyway as you requested: 251s parted depends on libparted2 (= 3.6-3). 251s 251s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 251s Removing libparted2:s390x (3.6-3) ... 251s Selecting previously unselected package libparted2t64:s390x. 251s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52161 files and directories currently installed.) 251s Preparing to unpack .../00-libparted2t64_3.6-3.1build2_s390x.deb ... 251s Unpacking libparted2t64:s390x (3.6-3.1build2) ... 251s Preparing to unpack .../01-parted_3.6-3.1build2_s390x.deb ... 251s Unpacking parted (3.6-3.1build2) over (3.6-3) ... 251s Preparing to unpack .../02-python3.11_3.11.8-1build4_s390x.deb ... 251s Unpacking python3.11 (3.11.8-1build4) over (3.11.8-1) ... 251s Preparing to unpack .../03-python3.11-minimal_3.11.8-1build4_s390x.deb ... 251s Unpacking python3.11-minimal (3.11.8-1build4) over (3.11.8-1) ... 251s Preparing to unpack .../04-libpython3.11-minimal_3.11.8-1build4_s390x.deb ... 251s Unpacking libpython3.11-minimal:s390x (3.11.8-1build4) over (3.11.8-1) ... 251s Preparing to unpack .../05-libpython3.11-stdlib_3.11.8-1build4_s390x.deb ... 251s Unpacking libpython3.11-stdlib:s390x (3.11.8-1build4) over (3.11.8-1) ... 251s Preparing to unpack .../06-shared-mime-info_2.4-1build1_s390x.deb ... 251s Unpacking shared-mime-info (2.4-1build1) over (2.4-1) ... 251s Preparing to unpack .../07-gir1.2-girepository-2.0_1.79.1-1ubuntu6_s390x.deb ... 251s Unpacking gir1.2-girepository-2.0:s390x (1.79.1-1ubuntu6) over (1.79.1-1) ... 251s Preparing to unpack .../08-gir1.2-glib-2.0_2.79.3-3ubuntu5_s390x.deb ... 251s Unpacking gir1.2-glib-2.0:s390x (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 251s Preparing to unpack .../09-libgirepository-1.0-1_1.79.1-1ubuntu6_s390x.deb ... 251s Unpacking libgirepository-1.0-1:s390x (1.79.1-1ubuntu6) over (1.79.1-1) ... 251s Preparing to unpack .../10-python3-gi_3.47.0-3build1_s390x.deb ... 252s Unpacking python3-gi (3.47.0-3build1) over (3.47.0-3) ... 252s Preparing to unpack .../11-python3-dbus_1.3.2-5build2_s390x.deb ... 252s Unpacking python3-dbus (1.3.2-5build2) over (1.3.2-5build1) ... 252s Selecting previously unselected package libnetplan1:s390x. 252s Preparing to unpack .../12-libnetplan1_1.0-1_s390x.deb ... 252s Unpacking libnetplan1:s390x (1.0-1) ... 252s Preparing to unpack .../13-python3-netplan_1.0-1_s390x.deb ... 252s Unpacking python3-netplan (1.0-1) over (0.107.1-3) ... 252s Preparing to unpack .../14-netplan-generator_1.0-1_s390x.deb ... 252s Adding 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 252s Unpacking netplan-generator (1.0-1) over (0.107.1-3) ... 252s Preparing to unpack .../15-netplan.io_1.0-1_s390x.deb ... 252s Unpacking netplan.io (1.0-1) over (0.107.1-3) ... 252s Preparing to unpack .../16-libxmlb2_0.3.15-1build1_s390x.deb ... 252s Unpacking libxmlb2:s390x (0.3.15-1build1) over (0.3.15-1) ... 252s dpkg: libgpgme11:s390x: dependency problems, but removing anyway as you requested: 252s libvolume-key1:s390x depends on libgpgme11 (>= 1.4.1). 252s libjcat1:s390x depends on libgpgme11 (>= 1.2.0). 252s 252s (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 ... 52169 files and directories currently installed.) 252s Removing libgpgme11:s390x (1.18.0-4ubuntu1) ... 252s Selecting previously unselected package libgpgme11t64:s390x. 252s (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 ... 52163 files and directories currently installed.) 252s Preparing to unpack .../00-libgpgme11t64_1.18.0-4.1ubuntu3_s390x.deb ... 252s Unpacking libgpgme11t64:s390x (1.18.0-4.1ubuntu3) ... 252s Preparing to unpack .../01-libvolume-key1_0.3.12-7build1_s390x.deb ... 252s Unpacking libvolume-key1:s390x (0.3.12-7build1) over (0.3.12-5build2) ... 252s Preparing to unpack .../02-libqrtr-glib0_1.2.2-1ubuntu3_s390x.deb ... 252s Unpacking libqrtr-glib0:s390x (1.2.2-1ubuntu3) over (1.2.2-1ubuntu2) ... 252s Preparing to unpack .../03-libqmi-glib5_1.35.2-0ubuntu1_s390x.deb ... 252s Unpacking libqmi-glib5:s390x (1.35.2-0ubuntu1) over (1.34.0-2) ... 252s Preparing to unpack .../04-libqmi-proxy_1.35.2-0ubuntu1_s390x.deb ... 252s Unpacking libqmi-proxy (1.35.2-0ubuntu1) over (1.34.0-2) ... 252s Preparing to unpack .../05-libpolkit-agent-1-0_124-1ubuntu1_s390x.deb ... 252s Unpacking libpolkit-agent-1-0:s390x (124-1ubuntu1) over (124-1) ... 252s Preparing to unpack .../06-libpolkit-gobject-1-0_124-1ubuntu1_s390x.deb ... 252s Unpacking libpolkit-gobject-1-0:s390x (124-1ubuntu1) over (124-1) ... 252s Preparing to unpack .../07-libmm-glib0_1.23.4-0ubuntu1_s390x.deb ... 252s Unpacking libmm-glib0:s390x (1.23.4-0ubuntu1) over (1.22.0-3) ... 252s Preparing to unpack .../08-libmbim-glib4_1.31.2-0ubuntu2_s390x.deb ... 252s Unpacking libmbim-glib4:s390x (1.31.2-0ubuntu2) over (1.30.0-1) ... 252s Preparing to unpack .../09-libmbim-proxy_1.31.2-0ubuntu2_s390x.deb ... 252s Unpacking libmbim-proxy (1.31.2-0ubuntu2) over (1.30.0-1) ... 252s Preparing to unpack .../10-libjson-glib-1.0-common_1.8.0-2build1_all.deb ... 252s Unpacking libjson-glib-1.0-common (1.8.0-2build1) over (1.8.0-2) ... 252s Preparing to unpack .../11-libjson-glib-1.0-0_1.8.0-2build1_s390x.deb ... 252s Unpacking libjson-glib-1.0-0:s390x (1.8.0-2build1) over (1.8.0-2) ... 252s Preparing to unpack .../12-libgusb2_0.4.8-1build1_s390x.deb ... 252s Unpacking libgusb2:s390x (0.4.8-1build1) over (0.4.8-1) ... 252s Preparing to unpack .../13-libgudev-1.0-0_1%3a238-3ubuntu2_s390x.deb ... 252s Unpacking libgudev-1.0-0:s390x (1:238-3ubuntu2) over (1:238-3) ... 252s dpkg: libarchive13:s390x: dependency problems, but removing anyway as you requested: 252s fwupd depends on libarchive13 (>= 3.2.1). 252s 252s (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 ... 52170 files and directories currently installed.) 252s Removing libarchive13:s390x (3.7.2-1ubuntu2) ... 252s Selecting previously unselected package libarchive13t64:s390x. 252s (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 ... 52164 files and directories currently installed.) 252s Preparing to unpack .../libarchive13t64_3.7.2-1.1ubuntu2_s390x.deb ... 252s Unpacking libarchive13t64:s390x (3.7.2-1.1ubuntu2) ... 252s Preparing to unpack .../fwupd_1.9.15-2_s390x.deb ... 252s Unpacking fwupd (1.9.15-2) over (1.9.14-1) ... 252s dpkg: libcurl3-gnutls:s390x: dependency problems, but removing anyway as you requested: 252s libfwupd2:s390x depends on libcurl3-gnutls (>= 7.63.0). 252s 252s (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 ... 52171 files and directories currently installed.) 252s Removing libcurl3-gnutls:s390x (8.5.0-2ubuntu2) ... 253s Selecting previously unselected package libcurl3t64-gnutls:s390x. 253s (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 ... 52164 files and directories currently installed.) 253s Preparing to unpack .../0-libcurl3t64-gnutls_8.5.0-2ubuntu8_s390x.deb ... 253s Unpacking libcurl3t64-gnutls:s390x (8.5.0-2ubuntu8) ... 253s Preparing to unpack .../1-libfwupd2_1.9.15-2_s390x.deb ... 253s Unpacking libfwupd2:s390x (1.9.15-2) over (1.9.14-1) ... 253s Preparing to unpack .../2-libblockdev3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s Preparing to unpack .../3-libblockdev-utils3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev-utils3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s Preparing to unpack .../4-libblockdev-swap3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev-swap3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s Preparing to unpack .../5-libblockdev-part3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev-part3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s dpkg: libnvme1: dependency problems, but removing anyway as you requested: 253s libblockdev-nvme3:s390x depends on libnvme1 (>= 1.7.1). 253s 253s (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 ... 52171 files and directories currently installed.) 253s Removing libnvme1 (1.8-2) ... 253s Selecting previously unselected package libnvme1t64. 253s (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 ... 52164 files and directories currently installed.) 253s Preparing to unpack .../0-libnvme1t64_1.8-3_s390x.deb ... 253s Unpacking libnvme1t64 (1.8-3) ... 253s Preparing to unpack .../1-libblockdev-nvme3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev-nvme3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s Preparing to unpack .../2-libblockdev-mdraid3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev-mdraid3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s Preparing to unpack .../3-libblockdev-loop3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev-loop3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s Preparing to unpack .../4-logsave_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 253s Unpacking logsave (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 253s Preparing to unpack .../5-e2fsprogs-l10n_1.47.0-2.4~exp1ubuntu2_all.deb ... 253s Unpacking e2fsprogs-l10n (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 253s dpkg: libext2fs2:s390x: dependency problems, but removing anyway as you requested: 253s libblockdev-fs3:s390x depends on libext2fs2 (>= 1.42.11). 253s e2fsprogs depends on libext2fs2 (= 1.47.0-2ubuntu1). 253s btrfs-progs depends on libext2fs2 (>= 1.42). 253s 253s (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 ... 52172 files and directories currently installed.) 253s Removing libext2fs2:s390x (1.47.0-2ubuntu1) ... 253s Selecting previously unselected package libext2fs2t64:s390x. 253s (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 ... 52165 files and directories currently installed.) 253s Preparing to unpack .../libext2fs2t64_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 253s Adding 'diversion of /lib/s390x-linux-gnu/libe2p.so.2 to /lib/s390x-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' 253s Adding 'diversion of /lib/s390x-linux-gnu/libe2p.so.2.3 to /lib/s390x-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64' 253s Adding 'diversion of /lib/s390x-linux-gnu/libext2fs.so.2 to /lib/s390x-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' 253s Adding 'diversion of /lib/s390x-linux-gnu/libext2fs.so.2.4 to /lib/s390x-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' 253s Unpacking libext2fs2t64:s390x (1.47.0-2.4~exp1ubuntu2) ... 253s Setting up libcom-err2:s390x (1.47.0-2.4~exp1ubuntu2) ... 253s Setting up libext2fs2t64:s390x (1.47.0-2.4~exp1ubuntu2) ... 253s (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 ... 52181 files and directories currently installed.) 253s Preparing to unpack .../e2fsprogs_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 253s Unpacking e2fsprogs (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 253s dpkg: libreiserfscore0: dependency problems, but removing anyway as you requested: 253s btrfs-progs depends on libreiserfscore0 (>= 1:3.6.27). 253s 253s (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 ... 52181 files and directories currently installed.) 253s Removing libreiserfscore0 (1:3.6.27-7) ... 253s Selecting previously unselected package libreiserfscore0t64. 253s (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 ... 52176 files and directories currently installed.) 253s Preparing to unpack .../libreiserfscore0t64_1%3a3.6.27-7.1_s390x.deb ... 253s Unpacking libreiserfscore0t64 (1:3.6.27-7.1) ... 253s Preparing to unpack .../btrfs-progs_6.6.3-1.1build1_s390x.deb ... 253s Unpacking btrfs-progs (6.6.3-1.1build1) over (6.6.3-1.1) ... 253s Preparing to unpack .../libblockdev-fs3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev-fs3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s Preparing to unpack .../libblockdev-crypto3_3.1.0-1build1_s390x.deb ... 253s Unpacking libblockdev-crypto3:s390x (3.1.0-1build1) over (3.1.0-1) ... 253s Preparing to unpack .../bolt_0.9.6-2build1_s390x.deb ... 253s Unpacking bolt (0.9.6-2build1) over (0.9.6-2) ... 253s dpkg: libglib2.0-0:s390x: dependency problems, but removing anyway as you requested: 253s s390-tools depends on libglib2.0-0 (>= 2.77.0). 253s libnetplan0:s390x depends on libglib2.0-0 (>= 2.75.3). 253s libjcat1:s390x depends on libglib2.0-0 (>= 2.75.3). 253s 253s (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 ... 52182 files and directories currently installed.) 253s Removing libglib2.0-0:s390x (2.79.2-1~ubuntu1) ... 253s Selecting previously unselected package libglib2.0-0t64:s390x. 253s (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 ... 52157 files and directories currently installed.) 253s Preparing to unpack .../0-libglib2.0-0t64_2.79.3-3ubuntu5_s390x.deb ... 253s libglib2.0-0t64.preinst: Removing /var/lib/dpkg/info/libglib2.0-0:s390x.postrm to avoid loss of /usr/share/glib-2.0/schemas/gschemas.compiled... 253s removed '/var/lib/dpkg/info/libglib2.0-0:s390x.postrm' 253s Unpacking libglib2.0-0t64:s390x (2.79.3-3ubuntu5) ... 253s Preparing to unpack .../1-libjcat1_0.2.0-2build2_s390x.deb ... 253s Unpacking libjcat1:s390x (0.2.0-2build2) over (0.2.0-2) ... 253s Preparing to unpack .../2-libldap2_2.6.7+dfsg-1~exp1ubuntu6_s390x.deb ... 253s Unpacking libldap2:s390x (2.6.7+dfsg-1~exp1ubuntu6) over (2.6.7+dfsg-1~exp1ubuntu1) ... 253s Preparing to unpack .../3-ubuntu-pro-client-l10n_31.2.2_s390x.deb ... 253s Unpacking ubuntu-pro-client-l10n (31.2.2) over (31.1) ... 253s Preparing to unpack .../4-ubuntu-pro-client_31.2.2_s390x.deb ... 253s Unpacking ubuntu-pro-client (31.2.2) over (31.1) ... 254s Preparing to unpack .../5-gnupg-utils_2.4.4-2ubuntu15_s390x.deb ... 254s Unpacking gnupg-utils (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 254s Preparing to unpack .../6-keyboxd_2.4.4-2ubuntu15_s390x.deb ... 254s Unpacking keyboxd (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 254s dpkg: libnpth0:s390x: dependency problems, but removing anyway as you requested: 254s gpgv depends on libnpth0 (>= 0.90). 254s gpgsm depends on libnpth0 (>= 0.90). 254s gpg-agent depends on libnpth0 (>= 0.90). 254s gpg depends on libnpth0 (>= 0.90). 254s dirmngr depends on libnpth0 (>= 0.90). 254s 254s (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 ... 52182 files and directories currently installed.) 254s Removing libnpth0:s390x (1.6-3build2) ... 254s Selecting previously unselected package libnpth0t64:s390x. 254s (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 ... 52177 files and directories currently installed.) 254s Preparing to unpack .../libnpth0t64_1.6-3.1_s390x.deb ... 254s Unpacking libnpth0t64:s390x (1.6-3.1) ... 254s Setting up libnpth0t64:s390x (1.6-3.1) ... 254s (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 ... 52183 files and directories currently installed.) 254s Preparing to unpack .../gpgv_2.4.4-2ubuntu15_s390x.deb ... 254s Unpacking gpgv (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 254s Setting up gpgv (2.4.4-2ubuntu15) ... 254s (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 ... 52183 files and directories currently installed.) 254s Preparing to unpack .../0-gpg-wks-client_2.4.4-2ubuntu15_s390x.deb ... 254s Unpacking gpg-wks-client (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 254s Preparing to unpack .../1-gpg-agent_2.4.4-2ubuntu15_s390x.deb ... 254s Unpacking gpg-agent (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 254s Preparing to unpack .../2-gpg_2.4.4-2ubuntu15_s390x.deb ... 254s Unpacking gpg (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 254s Preparing to unpack .../3-dirmngr_2.4.4-2ubuntu15_s390x.deb ... 254s Unpacking dirmngr (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 254s Preparing to unpack .../4-gnupg_2.4.4-2ubuntu15_all.deb ... 254s Unpacking gnupg (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 254s Preparing to unpack .../5-python3-apt_2.7.7_s390x.deb ... 254s Unpacking python3-apt (2.7.7) over (2.7.6) ... 254s Preparing to unpack .../6-apt-utils_2.7.14_s390x.deb ... 254s Unpacking apt-utils (2.7.14) over (2.7.12) ... 254s dpkg: libapt-pkg6.0:s390x: dependency problems, but removing anyway as you requested: 254s apt depends on libapt-pkg6.0 (>= 2.7.12). 254s 254s (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 ... 52181 files and directories currently installed.) 254s Removing libapt-pkg6.0:s390x (2.7.12) ... 254s dpkg: libnettle8:s390x: dependency problems, but removing anyway as you requested: 254s libhogweed6:s390x depends on libnettle8. 254s libgnutls30:s390x depends on libnettle8 (>= 3.9~). 254s 254s Removing libnettle8:s390x (3.9.1-2) ... 254s Selecting previously unselected package libapt-pkg6.0t64:s390x. 254s (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 ... 52125 files and directories currently installed.) 254s Preparing to unpack .../libapt-pkg6.0t64_2.7.14_s390x.deb ... 254s Unpacking libapt-pkg6.0t64:s390x (2.7.14) ... 254s Setting up libapt-pkg6.0t64:s390x (2.7.14) ... 254s Selecting previously unselected package libnettle8t64:s390x. 254s (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 ... 52175 files and directories currently installed.) 254s Preparing to unpack .../libnettle8t64_3.9.1-2.2_s390x.deb ... 254s Unpacking libnettle8t64:s390x (3.9.1-2.2) ... 254s Setting up libnettle8t64:s390x (3.9.1-2.2) ... 254s dpkg: libhogweed6:s390x: dependency problems, but removing anyway as you requested: 254s libgnutls30:s390x depends on libhogweed6 (>= 3.6). 254s 254s (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 ... 52183 files and directories currently installed.) 254s Removing libhogweed6:s390x (3.9.1-2) ... 254s Selecting previously unselected package libhogweed6t64:s390x. 254s (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 ... 52178 files and directories currently installed.) 254s Preparing to unpack .../libhogweed6t64_3.9.1-2.2_s390x.deb ... 254s Unpacking libhogweed6t64:s390x (3.9.1-2.2) ... 254s Setting up libhogweed6t64:s390x (3.9.1-2.2) ... 254s dpkg: libgnutls30:s390x: dependency problems, but removing anyway as you requested: 254s apt depends on libgnutls30 (>= 3.8.1). 254s 254s (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 ... 52184 files and directories currently installed.) 254s Removing libgnutls30:s390x (3.8.3-1ubuntu1) ... 254s Selecting previously unselected package libgnutls30t64:s390x. 254s (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 ... 52175 files and directories currently installed.) 254s Preparing to unpack .../libgnutls30t64_3.8.3-1.1ubuntu2_s390x.deb ... 254s Unpacking libgnutls30t64:s390x (3.8.3-1.1ubuntu2) ... 254s Setting up libgnutls30t64:s390x (3.8.3-1.1ubuntu2) ... 254s (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 ... 52203 files and directories currently installed.) 254s Preparing to unpack .../archives/apt_2.7.14_s390x.deb ... 254s Unpacking apt (2.7.14) over (2.7.12) ... 255s Setting up apt (2.7.14) ... 255s (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 ... 52203 files and directories currently installed.) 255s Preparing to unpack .../gpgconf_2.4.4-2ubuntu15_s390x.deb ... 255s Unpacking gpgconf (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 255s Preparing to unpack .../gpgsm_2.4.4-2ubuntu15_s390x.deb ... 255s Unpacking gpgsm (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 255s dpkg: libreadline8:s390x: dependency problems, but removing anyway as you requested: 255s libpython3.12-stdlib:s390x depends on libreadline8 (>= 7.0~beta). 255s gawk depends on libreadline8 (>= 6.0). 255s fdisk depends on libreadline8 (>= 6.0). 255s 255s (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 ... 52203 files and directories currently installed.) 255s Removing libreadline8:s390x (8.2-3) ... 255s Selecting previously unselected package libreadline8t64:s390x. 255s (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 ... 52191 files and directories currently installed.) 255s Preparing to unpack .../libreadline8t64_8.2-4_s390x.deb ... 255s Adding 'diversion of /lib/s390x-linux-gnu/libhistory.so.8 to /lib/s390x-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' 255s Adding 'diversion of /lib/s390x-linux-gnu/libhistory.so.8.2 to /lib/s390x-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' 255s Adding 'diversion of /lib/s390x-linux-gnu/libreadline.so.8 to /lib/s390x-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' 255s Adding 'diversion of /lib/s390x-linux-gnu/libreadline.so.8.2 to /lib/s390x-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' 255s Unpacking libreadline8t64:s390x (8.2-4) ... 255s Setting up libreadline8t64:s390x (8.2-4) ... 255s (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 ... 52211 files and directories currently installed.) 255s Preparing to unpack .../gawk_1%3a5.2.1-2build2_s390x.deb ... 255s Unpacking gawk (1:5.2.1-2build2) over (1:5.2.1-2) ... 255s Preparing to unpack .../fdisk_2.39.3-9ubuntu2_s390x.deb ... 255s Unpacking fdisk (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 255s Preparing to unpack .../libpython3.12-stdlib_3.12.2-4build3_s390x.deb ... 255s Unpacking libpython3.12-stdlib:s390x (3.12.2-4build3) over (3.12.2-1) ... 255s Preparing to unpack .../perl-base_5.38.2-3.2_s390x.deb ... 255s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ... 256s Setting up perl-base (5.38.2-3.2) ... 256s (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 ... 52209 files and directories currently installed.) 256s Preparing to unpack .../perl-modules-5.38_5.38.2-3.2_all.deb ... 256s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ... 256s Preparing to unpack .../python3-gdbm_3.12.2-3ubuntu1.1_s390x.deb ... 256s Unpacking python3-gdbm:s390x (3.12.2-3ubuntu1.1) over (3.11.5-1) ... 256s Preparing to unpack .../man-db_2.12.0-3build4_s390x.deb ... 256s Unpacking man-db (2.12.0-3build4) over (2.12.0-3) ... 256s dpkg: libgdbm-compat4:s390x: dependency problems, but removing anyway as you requested: 256s libperl5.38:s390x depends on libgdbm-compat4 (>= 1.18-3). 256s 256s (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 ... 52209 files and directories currently installed.) 256s Removing libgdbm-compat4:s390x (1.23-5) ... 256s dpkg: libgdbm6:s390x: dependency problems, but removing anyway as you requested: 256s libperl5.38:s390x depends on libgdbm6 (>= 1.21). 256s 256s Removing libgdbm6:s390x (1.23-5) ... 256s Selecting previously unselected package libgdbm6t64:s390x. 256s (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 ... 52199 files and directories currently installed.) 256s Preparing to unpack .../libgdbm6t64_1.23-5.1_s390x.deb ... 256s Unpacking libgdbm6t64:s390x (1.23-5.1) ... 256s Selecting previously unselected package libgdbm-compat4t64:s390x. 256s Preparing to unpack .../libgdbm-compat4t64_1.23-5.1_s390x.deb ... 256s Unpacking libgdbm-compat4t64:s390x (1.23-5.1) ... 256s dpkg: libperl5.38:s390x: dependency problems, but removing anyway as you requested: 256s perl depends on libperl5.38 (= 5.38.2-3). 256s 256s (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 ... 52211 files and directories currently installed.) 256s Removing libperl5.38:s390x (5.38.2-3) ... 256s Selecting previously unselected package libperl5.38t64:s390x. 256s (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 ... 51689 files and directories currently installed.) 256s Preparing to unpack .../libperl5.38t64_5.38.2-3.2_s390x.deb ... 256s Unpacking libperl5.38t64:s390x (5.38.2-3.2) ... 256s Preparing to unpack .../perl_5.38.2-3.2_s390x.deb ... 256s Unpacking perl (5.38.2-3.2) over (5.38.2-3) ... 256s dpkg: libdb5.3:s390x: dependency problems, but removing anyway as you requested: 256s libsasl2-modules-db:s390x depends on libdb5.3. 256s iproute2 depends on libdb5.3. 256s 257s (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 ... 52211 files and directories currently installed.) 257s Removing libdb5.3:s390x (5.3.28+dfsg2-4) ... 257s Selecting previously unselected package libdb5.3t64:s390x. 257s (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 ... 52205 files and directories currently installed.) 257s Preparing to unpack .../0-libdb5.3t64_5.3.28+dfsg2-6_s390x.deb ... 257s Unpacking libdb5.3t64:s390x (5.3.28+dfsg2-6) ... 257s Preparing to unpack .../1-libsasl2-modules-db_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 257s Unpacking libsasl2-modules-db:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 257s Preparing to unpack .../2-libsasl2-2_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 257s Unpacking libsasl2-2:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 257s Preparing to unpack .../3-libfido2-1_1.14.0-1build1_s390x.deb ... 257s Unpacking libfido2-1:s390x (1.14.0-1build1) over (1.14.0-1) ... 257s Preparing to unpack .../4-libcryptsetup12_2%3a2.7.0-1ubuntu2_s390x.deb ... 257s Unpacking libcryptsetup12:s390x (2:2.7.0-1ubuntu2) over (2:2.7.0-1ubuntu1) ... 257s Preparing to unpack .../5-dhcpcd-base_1%3a10.0.6-1ubuntu2_s390x.deb ... 257s Unpacking dhcpcd-base (1:10.0.6-1ubuntu2) over (1:10.0.6-1ubuntu1) ... 257s dpkg: libuv1:s390x: dependency problems, but removing anyway as you requested: 257s bind9-libs:s390x depends on libuv1 (>= 1.40.0). 257s 257s (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 ... 52211 files and directories currently installed.) 257s Removing libuv1:s390x (1.48.0-1) ... 257s Selecting previously unselected package libuv1t64:s390x. 257s (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 ... 52206 files and directories currently installed.) 257s Preparing to unpack .../libuv1t64_1.48.0-1.1_s390x.deb ... 257s Unpacking libuv1t64:s390x (1.48.0-1.1) ... 257s Preparing to unpack .../bind9-host_1%3a9.18.24-0ubuntu3_s390x.deb ... 257s Unpacking bind9-host (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 257s Preparing to unpack .../bind9-dnsutils_1%3a9.18.24-0ubuntu3_s390x.deb ... 257s Unpacking bind9-dnsutils (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 257s Preparing to unpack .../bind9-libs_1%3a9.18.24-0ubuntu3_s390x.deb ... 257s Unpacking bind9-libs:s390x (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 257s dpkg: libssl3:s390x: dependency problems, but removing anyway as you requested: 257s systemd depends on libssl3 (>= 3.0.0). 257s s390-tools depends on libssl3 (>= 3.0.0). 257s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 257s 257s (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 ... 52212 files and directories currently installed.) 257s Removing libssl3:s390x (3.0.10-1ubuntu4) ... 257s Selecting previously unselected package libssl3t64:s390x. 257s (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 ... 52201 files and directories currently installed.) 257s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_s390x.deb ... 257s Unpacking libssl3t64:s390x (3.0.13-0ubuntu2) ... 257s Setting up libssl3t64:s390x (3.0.13-0ubuntu2) ... 257s (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 ... 52214 files and directories currently installed.) 257s Preparing to unpack .../libnss-systemd_255.4-1ubuntu5_s390x.deb ... 257s Unpacking libnss-systemd:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 257s Preparing to unpack .../libudev1_255.4-1ubuntu5_s390x.deb ... 257s Unpacking libudev1:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 257s Setting up libudev1:s390x (255.4-1ubuntu5) ... 257s (Reading database ... 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(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 ... 52214 files and directories currently installed.) 259s Preparing to unpack .../python3_3.12.2-0ubuntu1_s390x.deb ... 260s Unpacking python3 (3.12.2-0ubuntu1) over (3.12.1-0ubuntu2) ... 260s Preparing to unpack .../libpython3-stdlib_3.12.2-0ubuntu1_s390x.deb ... 260s Unpacking libpython3-stdlib:s390x (3.12.2-0ubuntu1) over (3.12.1-0ubuntu2) ... 260s Preparing to unpack .../libsmartcols1_2.39.3-9ubuntu2_s390x.deb ... 260s Unpacking libsmartcols1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 260s Setting up libsmartcols1:s390x (2.39.3-9ubuntu2) ... 260s (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 ... 52214 files and directories currently installed.) 260s Preparing to unpack .../0-bsdextrautils_2.39.3-9ubuntu2_s390x.deb ... 260s Unpacking bsdextrautils (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 260s Preparing to unpack .../1-groff-base_1.23.0-3build1_s390x.deb ... 260s Unpacking groff-base (1.23.0-3build1) over (1.23.0-3) ... 260s Preparing to unpack .../2-pinentry-curses_1.2.1-3ubuntu4_s390x.deb ... 260s Unpacking pinentry-curses (1.2.1-3ubuntu4) over (1.2.1-3ubuntu1) ... 260s Preparing to unpack .../3-readline-common_8.2-4_all.deb ... 260s Unpacking readline-common (8.2-4) over (8.2-3) ... 260s Preparing to unpack .../4-libxml2_2.9.14+dfsg-1.3ubuntu2_s390x.deb ... 260s Unpacking libxml2:s390x (2.9.14+dfsg-1.3ubuntu2) over (2.9.14+dfsg-1.3ubuntu1) ... 260s Preparing to unpack .../5-libbpf1_1%3a1.3.0-2build1_s390x.deb ... 260s Unpacking libbpf1:s390x (1:1.3.0-2build1) over (1:1.3.0-2) ... 260s dpkg: libelf1:s390x: dependency problems, but removing anyway as you requested: 260s linux-headers-6.8.0-11-generic depends on libelf1 (>= 0.144). 260s iproute2 depends on libelf1 (>= 0.131). 260s 260s (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 ... 52214 files and directories currently installed.) 260s Removing libelf1:s390x (0.190-1) ... 260s Selecting previously unselected package libelf1t64:s390x. 260s (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 ... 52209 files and directories currently installed.) 260s Preparing to unpack .../libelf1t64_0.190-1.1build2_s390x.deb ... 260s Unpacking libelf1t64:s390x (0.190-1.1build2) ... 260s Preparing to unpack .../libtirpc-common_1.3.4+ds-1.1_all.deb ... 260s Unpacking libtirpc-common (1.3.4+ds-1.1) over (1.3.4+ds-1build1) ... 260s Preparing to unpack .../lsof_4.95.0-1build2_s390x.deb ... 260s Unpacking lsof (4.95.0-1build2) over (4.95.0-1build1) ... 260s Preparing to unpack .../libnsl2_1.3.0-3build2_s390x.deb ... 260s Unpacking libnsl2:s390x (1.3.0-3build2) over (1.3.0-3) ... 260s dpkg: libtirpc3:s390x: dependency problems, but removing anyway as you requested: 260s iproute2 depends on libtirpc3 (>= 1.0.2). 260s 260s (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 ... 52214 files and directories currently installed.) 260s Removing libtirpc3:s390x (1.3.4+ds-1build1) ... 260s Selecting previously unselected package libtirpc3t64:s390x. 260s (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 ... 52208 files and directories currently installed.) 260s Preparing to unpack .../0-libtirpc3t64_1.3.4+ds-1.1_s390x.deb ... 260s Adding 'diversion of /lib/s390x-linux-gnu/libtirpc.so.3 to /lib/s390x-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' 260s Adding 'diversion of /lib/s390x-linux-gnu/libtirpc.so.3.0.0 to /lib/s390x-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' 260s Unpacking libtirpc3t64:s390x (1.3.4+ds-1.1) ... 260s Preparing to unpack .../1-iproute2_6.1.0-1ubuntu5_s390x.deb ... 260s Unpacking iproute2 (6.1.0-1ubuntu5) over (6.1.0-1ubuntu2) ... 260s Preparing to unpack .../2-libprotobuf-c1_1.4.1-1ubuntu3_s390x.deb ... 260s Unpacking libprotobuf-c1:s390x (1.4.1-1ubuntu3) over (1.4.1-1ubuntu2) ... 260s Preparing to unpack .../3-libnghttp2-14_1.59.0-1build1_s390x.deb ... 260s Unpacking libnghttp2-14:s390x (1.59.0-1build1) over (1.59.0-1) ... 260s Preparing to unpack .../4-libproc2-0_2%3a4.0.4-4ubuntu2_s390x.deb ... 260s Unpacking libproc2-0:s390x (2:4.0.4-4ubuntu2) over (2:4.0.4-4ubuntu1) ... 260s Preparing to unpack .../5-procps_2%3a4.0.4-4ubuntu2_s390x.deb ... 260s Unpacking procps (2:4.0.4-4ubuntu2) over (2:4.0.4-4ubuntu1) ... 260s Preparing to unpack .../6-coreutils_9.4-3ubuntu3_s390x.deb ... 260s Unpacking coreutils (9.4-3ubuntu3) over (9.4-2ubuntu4) ... 260s Setting up coreutils (9.4-3ubuntu3) ... 260s (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 ... 52220 files and directories currently installed.) 260s Preparing to unpack .../util-linux_2.39.3-9ubuntu2_s390x.deb ... 260s Unpacking util-linux (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 260s Setting up util-linux (2.39.3-9ubuntu2) ... 261s fstrim.service is a disabled or a static unit not running, not starting it. 261s (Reading database ... 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(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 ... 52205 files and directories currently installed.) 261s Preparing to unpack .../libmagic-mgc_1%3a5.45-3_s390x.deb ... 261s Unpacking libmagic-mgc (1:5.45-3) over (1:5.45-2) ... 261s Selecting previously unselected package libmagic1t64:s390x. 261s Preparing to unpack .../libmagic1t64_1%3a5.45-3_s390x.deb ... 261s Unpacking libmagic1t64:s390x (1:5.45-3) ... 261s Preparing to unpack .../libplymouth5_24.004.60-1ubuntu6_s390x.deb ... 261s Unpacking libplymouth5:s390x (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 261s (Reading database ... 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(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 ... 52206 files and directories currently installed.) 261s Preparing to unpack .../libpng16-16t64_1.6.43-3_s390x.deb ... 261s Unpacking libpng16-16t64:s390x (1.6.43-3) ... 261s Preparing to unpack .../multipath-tools_0.9.4-5ubuntu6_s390x.deb ... 261s Unpacking multipath-tools (0.9.4-5ubuntu6) over (0.9.4-5ubuntu3) ... 261s dpkg: liburcu8:s390x: dependency problems, but removing anyway as you requested: 261s xfsprogs depends on liburcu8 (>= 0.13.0). 261s 261s (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 ... 52216 files and directories currently installed.) 261s Removing liburcu8:s390x (0.14.0-3) ... 261s Selecting previously unselected package liburcu8t64:s390x. 261s (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 ... 52197 files and directories currently installed.) 261s Preparing to unpack .../liburcu8t64_0.14.0-3.1_s390x.deb ... 261s Unpacking liburcu8t64:s390x (0.14.0-3.1) ... 261s Preparing to unpack .../liblocale-gettext-perl_1.07-6ubuntu4_s390x.deb ... 261s Unpacking liblocale-gettext-perl (1.07-6ubuntu4) over (1.07-6build1) ... 261s Preparing to unpack .../uuid-runtime_2.39.3-9ubuntu2_s390x.deb ... 261s Unpacking uuid-runtime (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 261s Preparing to unpack .../libdebconfclient0_0.271ubuntu2_s390x.deb ... 261s Unpacking libdebconfclient0:s390x (0.271ubuntu2) over (0.271ubuntu1) ... 261s Setting up libdebconfclient0:s390x (0.271ubuntu2) ... 262s (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 ... 52217 files and directories currently installed.) 262s Preparing to unpack .../libsemanage-common_3.5-1build4_all.deb ... 262s Unpacking libsemanage-common (3.5-1build4) over (3.5-1build2) ... 262s Setting up libsemanage-common (3.5-1build4) ... 262s (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 ... 52217 files and directories currently installed.) 262s Preparing to unpack .../libsemanage2_3.5-1build4_s390x.deb ... 262s Unpacking libsemanage2:s390x (3.5-1build4) over (3.5-1build2) ... 262s Setting up libsemanage2:s390x (3.5-1build4) ... 262s (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 ... 52217 files and directories currently installed.) 262s Preparing to unpack .../install-info_7.1-3build1_s390x.deb ... 262s Unpacking install-info (7.1-3build1) over (7.1-3) ... 262s Setting up install-info (7.1-3build1) ... 262s (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 ... 52217 files and directories currently installed.) 262s Preparing to unpack .../00-libss2_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 262s Unpacking libss2:s390x (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 262s Preparing to unpack .../01-eject_2.39.3-9ubuntu2_s390x.deb ... 262s Unpacking eject (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 262s Preparing to unpack .../02-krb5-locales_1.20.1-6ubuntu1_all.deb ... 262s Unpacking krb5-locales (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 262s Preparing to unpack .../03-libglib2.0-data_2.79.3-3ubuntu5_all.deb ... 262s Unpacking libglib2.0-data (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 262s Preparing to unpack .../04-libslang2_2.3.3-3build1_s390x.deb ... 262s Unpacking libslang2:s390x (2.3.3-3build1) over (2.3.3-3) ... 262s Preparing to unpack .../05-libtext-charwidth-perl_0.04-11build2_s390x.deb ... 262s Unpacking libtext-charwidth-perl:s390x (0.04-11build2) over (0.04-11build1) ... 262s Preparing to unpack .../06-libtext-iconv-perl_1.7-8build2_s390x.deb ... 262s Unpacking libtext-iconv-perl:s390x (1.7-8build2) over (1.7-8build1) ... 262s Preparing to unpack .../07-python-apt-common_2.7.7_all.deb ... 262s Unpacking python-apt-common (2.7.7) over (2.7.6) ... 262s Preparing to unpack .../08-python3-setuptools_68.1.2-2ubuntu1_all.deb ... 262s Unpacking python3-setuptools (68.1.2-2ubuntu1) over (68.1.2-2) ... 262s Preparing to unpack .../09-python3-pkg-resources_68.1.2-2ubuntu1_all.deb ... 262s Unpacking python3-pkg-resources (68.1.2-2ubuntu1) over (68.1.2-2) ... 262s Preparing to unpack .../10-rsyslog_8.2312.0-3ubuntu7_s390x.deb ... 262s Unpacking rsyslog (8.2312.0-3ubuntu7) over (8.2312.0-3ubuntu3) ... 262s Preparing to unpack .../11-vim-tiny_2%3a9.1.0016-1ubuntu6_s390x.deb ... 262s Unpacking vim-tiny (2:9.1.0016-1ubuntu6) over (2:9.1.0016-1ubuntu2) ... 262s Preparing to unpack .../12-vim-common_2%3a9.1.0016-1ubuntu6_all.deb ... 262s Unpacking vim-common (2:9.1.0016-1ubuntu6) over (2:9.1.0016-1ubuntu2) ... 262s Selecting previously unselected package xdg-user-dirs. 262s Preparing to unpack .../13-xdg-user-dirs_0.18-1_s390x.deb ... 262s Unpacking xdg-user-dirs (0.18-1) ... 262s Preparing to unpack .../14-xxd_2%3a9.1.0016-1ubuntu6_s390x.deb ... 262s Unpacking xxd (2:9.1.0016-1ubuntu6) over (2:9.1.0016-1ubuntu2) ... 262s Preparing to unpack .../15-apparmor_4.0.0-beta3-0ubuntu2_s390x.deb ... 263s Unpacking apparmor (4.0.0-beta3-0ubuntu2) over (4.0.0~alpha4-0ubuntu1) ... 263s Preparing to unpack .../16-ftp_20230507-2build1_all.deb ... 263s Unpacking ftp (20230507-2build1) over (20230507-2) ... 263s Preparing to unpack .../17-inetutils-telnet_2%3a2.5-3ubuntu3_s390x.deb ... 263s Unpacking inetutils-telnet (2:2.5-3ubuntu3) over (2:2.5-3ubuntu1) ... 263s Preparing to unpack .../18-info_7.1-3build1_s390x.deb ... 263s Unpacking info (7.1-3build1) over (7.1-3) ... 263s Preparing to unpack .../19-libxmuu1_2%3a1.1.3-3build1_s390x.deb ... 263s Unpacking libxmuu1:s390x (2:1.1.3-3build1) over (2:1.1.3-3) ... 263s Preparing to unpack .../20-lshw_02.19.git.2021.06.19.996aaad9c7-2build2_s390x.deb ... 263s Unpacking lshw (02.19.git.2021.06.19.996aaad9c7-2build2) over (02.19.git.2021.06.19.996aaad9c7-2build1) ... 263s Selecting previously unselected package manpages. 263s Preparing to unpack .../21-manpages_6.05.01-1_all.deb ... 263s Unpacking manpages (6.05.01-1) ... 263s Preparing to unpack .../22-mtr-tiny_0.95-1.1build1_s390x.deb ... 263s Unpacking mtr-tiny (0.95-1.1build1) over (0.95-1.1) ... 263s Preparing to unpack .../23-plymouth-theme-ubuntu-text_24.004.60-1ubuntu6_s390x.deb ... 263s Unpacking plymouth-theme-ubuntu-text (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 263s Preparing to unpack .../24-plymouth_24.004.60-1ubuntu6_s390x.deb ... 263s Unpacking plymouth (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 263s Preparing to unpack .../25-telnet_0.17+2.5-3ubuntu3_all.deb ... 263s Unpacking telnet (0.17+2.5-3ubuntu3) over (0.17+2.5-3ubuntu1) ... 263s Preparing to unpack .../26-usb.ids_2024.03.18-1_all.deb ... 263s Unpacking usb.ids (2024.03.18-1) over (2024.01.30-1) ... 263s Preparing to unpack .../27-xz-utils_5.6.0-0.2_s390x.deb ... 263s Unpacking xz-utils (5.6.0-0.2) over (5.4.5-0.3) ... 263s Selecting previously unselected package libllvm18:s390x. 263s Preparing to unpack .../28-libllvm18_1%3a18.1.2-1ubuntu2_s390x.deb ... 263s Unpacking libllvm18:s390x (1:18.1.2-1ubuntu2) ... 264s Selecting previously unselected package libclang-cpp18. 264s Preparing to unpack .../29-libclang-cpp18_1%3a18.1.2-1ubuntu2_s390x.deb ... 264s Unpacking libclang-cpp18 (1:18.1.2-1ubuntu2) ... 265s Selecting previously unselected package libbpfcc:s390x. 265s Preparing to unpack .../30-libbpfcc_0.29.1+ds-1ubuntu4_s390x.deb ... 265s Unpacking libbpfcc:s390x (0.29.1+ds-1ubuntu4) ... 265s Selecting previously unselected package python3-bpfcc. 265s Preparing to unpack .../31-python3-bpfcc_0.29.1+ds-1ubuntu4_all.deb ... 265s Unpacking python3-bpfcc (0.29.1+ds-1ubuntu4) ... 265s Selecting previously unselected package ieee-data. 265s Preparing to unpack .../32-ieee-data_20220827.1_all.deb ... 265s Unpacking ieee-data (20220827.1) ... 265s Selecting previously unselected package python3-netaddr. 265s Preparing to unpack .../33-python3-netaddr_0.8.0-2ubuntu1_all.deb ... 265s Unpacking python3-netaddr (0.8.0-2ubuntu1) ... 265s Selecting previously unselected package bpfcc-tools. 265s Preparing to unpack .../34-bpfcc-tools_0.29.1+ds-1ubuntu4_all.deb ... 265s Unpacking bpfcc-tools (0.29.1+ds-1ubuntu4) ... 265s Selecting previously unselected package libclang1-18. 265s Preparing to unpack .../35-libclang1-18_1%3a18.1.2-1ubuntu2_s390x.deb ... 265s Unpacking libclang1-18 (1:18.1.2-1ubuntu2) ... 265s Selecting previously unselected package libdw1t64:s390x. 265s Preparing to unpack .../36-libdw1t64_0.190-1.1build2_s390x.deb ... 265s Unpacking libdw1t64:s390x (0.190-1.1build2) ... 265s Selecting previously unselected package bpftrace. 265s Preparing to unpack .../37-bpftrace_0.20.2-1ubuntu1_s390x.deb ... 265s Unpacking bpftrace (0.20.2-1ubuntu1) ... 265s Preparing to unpack .../38-cryptsetup-bin_2%3a2.7.0-1ubuntu2_s390x.deb ... 265s Unpacking cryptsetup-bin (2:2.7.0-1ubuntu2) over (2:2.7.0-1ubuntu1) ... 265s Preparing to unpack .../39-dpkg-dev_1.22.6ubuntu5_all.deb ... 265s Unpacking dpkg-dev (1.22.6ubuntu5) over (1.22.4ubuntu5) ... 265s Preparing to unpack .../40-libdpkg-perl_1.22.6ubuntu5_all.deb ... 265s Unpacking libdpkg-perl (1.22.6ubuntu5) over (1.22.4ubuntu5) ... 265s Selecting previously unselected package fonts-dejavu-mono. 265s Preparing to unpack .../41-fonts-dejavu-mono_2.37-8_all.deb ... 265s Unpacking fonts-dejavu-mono (2.37-8) ... 265s Selecting previously unselected package fonts-dejavu-core. 265s Preparing to unpack .../42-fonts-dejavu-core_2.37-8_all.deb ... 265s Unpacking fonts-dejavu-core (2.37-8) ... 265s Selecting previously unselected package fontconfig-config. 265s Preparing to unpack .../43-fontconfig-config_2.15.0-1.1ubuntu1_s390x.deb ... 266s Unpacking fontconfig-config (2.15.0-1.1ubuntu1) ... 266s Preparing to unpack .../44-gnupg-l10n_2.4.4-2ubuntu15_all.deb ... 266s Unpacking gnupg-l10n (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 266s Selecting previously unselected package hwdata. 266s Preparing to unpack .../45-hwdata_0.379-1_all.deb ... 266s Unpacking hwdata (0.379-1) ... 266s Preparing to unpack .../46-libibverbs1_50.0-2build1_s390x.deb ... 266s Unpacking libibverbs1:s390x (50.0-2build1) over (50.0-2) ... 266s Preparing to unpack .../47-ibverbs-providers_50.0-2build1_s390x.deb ... 266s Unpacking ibverbs-providers:s390x (50.0-2build1) over (50.0-2) ... 266s Selecting previously unselected package libaio1t64:s390x. 266s Preparing to unpack .../48-libaio1t64_0.3.113-6_s390x.deb ... 266s Unpacking libaio1t64:s390x (0.3.113-6) ... 266s Selecting previously unselected package libatm1t64:s390x. 266s Preparing to unpack .../49-libatm1t64_1%3a2.5.1-5.1_s390x.deb ... 266s Unpacking libatm1t64:s390x (1:2.5.1-5.1) ... 266s Selecting previously unselected package libc-dev-bin. 266s Preparing to unpack .../50-libc-dev-bin_2.39-0ubuntu6_s390x.deb ... 266s Unpacking libc-dev-bin (2.39-0ubuntu6) ... 266s Selecting previously unselected package libfreetype6:s390x. 266s Preparing to unpack .../51-libfreetype6_2.13.2+dfsg-1build2_s390x.deb ... 266s Unpacking libfreetype6:s390x (2.13.2+dfsg-1build2) ... 266s Selecting previously unselected package libfontconfig1:s390x. 266s Preparing to unpack .../52-libfontconfig1_2.15.0-1.1ubuntu1_s390x.deb ... 266s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu1) ... 266s Selecting previously unselected package libjpeg-turbo8:s390x. 266s Preparing to unpack .../53-libjpeg-turbo8_2.1.5-2ubuntu1_s390x.deb ... 266s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 266s Selecting previously unselected package libjpeg8:s390x. 266s Preparing to unpack .../54-libjpeg8_8c-2ubuntu11_s390x.deb ... 266s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 266s Selecting previously unselected package libdeflate0:s390x. 266s Preparing to unpack .../55-libdeflate0_1.19-1_s390x.deb ... 266s Unpacking libdeflate0:s390x (1.19-1) ... 266s Selecting previously unselected package libjbig0:s390x. 266s Preparing to unpack .../56-libjbig0_2.1-6.1ubuntu1_s390x.deb ... 266s Unpacking libjbig0:s390x (2.1-6.1ubuntu1) ... 266s Selecting previously unselected package libsharpyuv0:s390x. 266s Preparing to unpack .../57-libsharpyuv0_1.3.2-0.4build2_s390x.deb ... 266s Unpacking libsharpyuv0:s390x (1.3.2-0.4build2) ... 266s Selecting previously unselected package libwebp7:s390x. 266s Preparing to unpack .../58-libwebp7_1.3.2-0.4build2_s390x.deb ... 266s Unpacking libwebp7:s390x (1.3.2-0.4build2) ... 266s Selecting previously unselected package libtiff6:s390x. 266s Preparing to unpack .../59-libtiff6_4.5.1+git230720-4ubuntu1_s390x.deb ... 266s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu1) ... 266s Selecting previously unselected package libxpm4:s390x. 266s Preparing to unpack .../60-libxpm4_1%3a3.5.17-1build1_s390x.deb ... 266s Unpacking libxpm4:s390x (1:3.5.17-1build1) ... 266s Selecting previously unselected package libgd3:s390x. 266s Preparing to unpack .../61-libgd3_2.3.3-9ubuntu3_s390x.deb ... 266s Unpacking libgd3:s390x (2.3.3-9ubuntu3) ... 266s Selecting previously unselected package libc-devtools. 266s Preparing to unpack .../62-libc-devtools_2.39-0ubuntu6_s390x.deb ... 266s Unpacking libc-devtools (2.39-0ubuntu6) ... 266s Selecting previously unselected package linux-libc-dev:s390x. 266s Preparing to unpack .../63-linux-libc-dev_6.8.0-20.20_s390x.deb ... 266s Unpacking linux-libc-dev:s390x (6.8.0-20.20) ... 266s Selecting previously unselected package libcrypt-dev:s390x. 266s Preparing to unpack .../64-libcrypt-dev_1%3a4.4.36-4_s390x.deb ... 266s Unpacking libcrypt-dev:s390x (1:4.4.36-4) ... 266s Selecting previously unselected package rpcsvc-proto. 266s Preparing to unpack .../65-rpcsvc-proto_1.4.2-0ubuntu6_s390x.deb ... 266s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... 266s Selecting previously unselected package libc6-dev:s390x. 266s Preparing to unpack .../66-libc6-dev_2.39-0ubuntu6_s390x.deb ... 266s Unpacking libc6-dev:s390x (2.39-0ubuntu6) ... 266s Preparing to unpack .../67-libevent-core-2.1-7_2.1.12-stable-9build1_s390x.deb ... 266s Unpacking libevent-core-2.1-7:s390x 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... 270s Unpacking ubuntu-kernel-accessories (1.536build1) ... 270s Preparing to unpack .../90-kpartx_0.9.4-5ubuntu6_s390x.deb ... 270s Unpacking kpartx (0.9.4-5ubuntu6) over (0.9.4-5ubuntu3) ... 270s Setting up pinentry-curses (1.2.1-3ubuntu4) ... 270s Setting up motd-news-config (13ubuntu8) ... 270s Setting up libtext-iconv-perl:s390x (1.7-8build2) ... 270s Setting up libtext-charwidth-perl:s390x (0.04-11build2) ... 270s Setting up libsharpyuv0:s390x (1.3.2-0.4build2) ... 270s Setting up liburcu8t64:s390x (0.14.0-3.1) ... 270s Setting up tcpdump (4.99.4-3ubuntu2) ... 270s Setting up libibverbs1:s390x (50.0-2build1) ... 270s Setting up ubuntu-kernel-accessories (1.536build1) ... 270s Setting up libapparmor1:s390x (4.0.0-beta3-0ubuntu2) ... 270s Setting up libatm1t64:s390x (1:2.5.1-5.1) ... 270s Setting up libgdbm6t64:s390x (1.23-5.1) ... 270s Setting up bsdextrautils (2.39.3-9ubuntu2) ... 270s Setting up libxpm4:s390x (1:3.5.17-1build1) ... 270s Setting up libgdbm-compat4t64:s390x (1.23-5.1) ... 270s Setting up xdg-user-dirs (0.18-1) ... 270s Setting up ibverbs-providers:s390x (50.0-2build1) ... 270s Setting up linux-headers-6.8.0-20 (6.8.0-20.20) ... 270s Setting up libmagic-mgc (1:5.45-3) ... 270s Setting up gawk (1:5.2.1-2build2) ... 270s Setting up manpages (6.05.01-1) ... 270s Setting up libtirpc-common (1.3.4+ds-1.1) ... 270s Setting up libbrotli1:s390x (1.1.0-2build1) ... 270s Setting up libsqlite3-0:s390x (3.45.1-1ubuntu1) ... 270s Setting up libsasl2-modules:s390x (2.1.28+dfsg1-5ubuntu1) ... 270s Setting up libuv1t64:s390x (1.48.0-1.1) ... 270s Setting up libmagic1t64:s390x (1:5.45-3) ... 270s Setting up rsyslog (8.2312.0-3ubuntu7) ... 270s info: The user `syslog' is already a member of `adm'. 271s Setting up libpsl5t64:s390x (0.21.2-1.1) ... 271s Setting up libnghttp2-14:s390x (1.59.0-1build1) ... 271s Setting up libdeflate0:s390x (1.19-1) ... 271s Setting up linux-libc-dev:s390x (6.8.0-20.20) ... 271s Setting up libreiserfscore0t64 (1:3.6.27-7.1) ... 271s Setting up systemd-dev (255.4-1ubuntu5) ... 271s Setting up libparted2t64:s390x (3.6-3.1build2) ... 271s Setting up krb5-locales (1.20.1-6ubuntu1) ... 271s Setting up file (1:5.45-3) ... 271s Setting up lshw (02.19.git.2021.06.19.996aaad9c7-2build2) ... 271s Setting up libldap-common (2.6.7+dfsg-1~exp1ubuntu6) ... 271s Setting up libprotobuf-c1:s390x (1.4.1-1ubuntu3) ... 271s Setting up libjbig0:s390x (2.1-6.1ubuntu1) ... 271s Setting up xxd (2:9.1.0016-1ubuntu6) ... 271s Setting up libelf1t64:s390x (0.190-1.1build2) ... 271s Setting up libkrb5support0:s390x (1.20.1-6ubuntu1) ... 271s Setting up libdw1t64:s390x (0.190-1.1build2) ... 271s Setting up linux-headers-6.8.0-20-generic (6.8.0-20.20) ... 271s Setting up eject (2.39.3-9ubuntu2) ... 271s Setting up apparmor (4.0.0-beta3-0ubuntu2) ... 271s Installing new version of config file /etc/apparmor.d/abstractions/authentication ... 271s Installing new version of config file /etc/apparmor.d/abstractions/crypto ... 271s Installing new version of config file /etc/apparmor.d/abstractions/kde-open5 ... 271s Installing new version of config file /etc/apparmor.d/abstractions/openssl ... 271s Installing new version of config file /etc/apparmor.d/code ... 271s Installing new version of config file /etc/apparmor.d/firefox ... 272s Reloading AppArmor profiles 272s Setting up libglib2.0-0t64:s390x (2.79.3-3ubuntu5) ... 272s No schema files found: doing nothing. 272s Setting up libglib2.0-data (2.79.3-3ubuntu5) ... 272s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... 272s Setting up vim-common (2:9.1.0016-1ubuntu6) ... 272s Setting up libqrtr-glib0:s390x (1.2.2-1ubuntu3) ... 272s Setting up libslang2:s390x (2.3.3-3build1) ... 272s Setting up libnvme1t64 (1.8-3) ... 272s Setting up mtr-tiny (0.95-1.1build1) ... 272s Setting up gnupg-l10n (2.4.4-2ubuntu15) ... 272s Setting up librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build6) ... 272s Setting up libdbus-1-3:s390x (1.14.10-4ubuntu2) ... 272s Setting up xz-utils (5.6.0-0.2) ... 272s Setting up perl-modules-5.38 (5.38.2-3.2) ... 272s Setting up libproc2-0:s390x (2:4.0.4-4ubuntu2) ... 272s Setting up fonts-dejavu-mono (2.37-8) ... 272s Setting up libpng16-16t64:s390x (1.6.43-3) ... 272s Setting up libevent-core-2.1-7:s390x (2.1.12-stable-9build1) ... 272s Setting up libss2:s390x (1.47.0-2.4~exp1ubuntu2) ... 272s Setting up usb.ids (2024.03.18-1) ... 272s Setting up sudo (1.9.15p5-3ubuntu3) ... 272s Setting up fonts-dejavu-core (2.37-8) ... 272s Setting up dhcpcd-base (1:10.0.6-1ubuntu2) ... 272s Setting up gir1.2-glib-2.0:s390x (2.79.3-3ubuntu5) ... 272s Setting up libk5crypto3:s390x (1.20.1-6ubuntu1) ... 272s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 272s Setting up logsave (1.47.0-2.4~exp1ubuntu2) ... 272s Setting up libwebp7:s390x (1.3.2-0.4build2) ... 272s Setting up libfdisk1:s390x (2.39.3-9ubuntu2) ... 272s Setting up libdb5.3t64:s390x (5.3.28+dfsg2-6) ... 272s Setting up libaio1t64:s390x (0.3.113-6) ... 272s Setting up python-apt-common (2.7.7) ... 272s Setting up mount (2.39.3-9ubuntu2) ... 272s Setting up uuid-runtime (2.39.3-9ubuntu2) ... 273s uuidd.service is a disabled or a static unit not running, not starting it. 273s Setting up libmm-glib0:s390x (1.23.4-0ubuntu1) ... 273s Setting up groff-base (1.23.0-3build1) ... 273s Setting up libcrypt-dev:s390x (1:4.4.36-4) ... 273s Setting up libplymouth5:s390x (24.004.60-1ubuntu6) ... 273s Setting up dbus-session-bus-common (1.14.10-4ubuntu2) ... 273s Setting up procps (2:4.0.4-4ubuntu2) ... 273s Setting up gpgconf (2.4.4-2ubuntu15) ... 273s Setting up libcryptsetup12:s390x (2:2.7.0-1ubuntu2) ... 273s Setting up libgirepository-1.0-1:s390x (1.79.1-1ubuntu6) ... 273s Setting up libjson-glib-1.0-common (1.8.0-2build1) ... 273s Setting up libkrb5-3:s390x (1.20.1-6ubuntu1) ... 273s Setting up libpython3.11-minimal:s390x (3.11.8-1build4) ... 273s Setting up libperl5.38t64:s390x (5.38.2-3.2) ... 273s Setting up tnftp (20230507-2build1) ... 273s Setting up dbus-system-bus-common (1.14.10-4ubuntu2) ... 273s Setting up libfido2-1:s390x (1.14.0-1build1) ... 273s Setting up libc-dev-bin (2.39-0ubuntu6) ... 273s Setting up openssl (3.0.13-0ubuntu2) ... 273s Setting up linux-modules-6.8.0-20-generic (6.8.0-20.20) ... 274s Setting up readline-common (8.2-4) ... 274s Setting up libxml2:s390x (2.9.14+dfsg-1.3ubuntu2) ... 274s Setting up libxmuu1:s390x (2:1.1.3-3build1) ... 274s Setting up dbus-bin (1.14.10-4ubuntu2) ... 274s Setting up info (7.1-3build1) ... 274s Setting up liblocale-gettext-perl (1.07-6ubuntu4) ... 274s Setting up gpg (2.4.4-2ubuntu15) ... 274s Setting up libgudev-1.0-0:s390x (1:238-3ubuntu2) ... 274s Setting up libpolkit-gobject-1-0:s390x (124-1ubuntu1) ... 274s Setting up libbpf1:s390x (1:1.3.0-2build1) ... 274s Setting up libmbim-glib4:s390x (1.31.2-0ubuntu2) ... 274s Setting up rsync (3.2.7-1build1) ... 274s rsync.service is a disabled or a static unit not running, not starting it. 274s Setting up libudisks2-0:s390x (2.10.1-6) ... 274s Setting up libkmod2:s390x (31+20240202-2ubuntu4) ... 274s Setting up bolt (0.9.6-2build1) ... 275s bolt.service is a disabled or a static unit not running, not starting it. 275s Setting up s390-tools-data (2.31.0-0ubuntu3) ... 275s Setting up libllvm18:s390x (1:18.1.2-1ubuntu2) ... 275s Setting up gnupg-utils (2.4.4-2ubuntu15) ... 275s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 275s Setting up cryptsetup-bin (2:2.7.0-1ubuntu2) ... 275s Setting up python3.11-minimal (3.11.8-1build4) ... 276s Setting up libclang1-18 (1:18.1.2-1ubuntu2) ... 276s Setting up manpages-dev (6.05.01-1) ... 276s Setting up linux-modules-extra-6.8.0-20-generic (6.8.0-20.20) ... 276s Setting up apt-utils (2.7.14) ... 276s Setting up gpg-agent (2.4.4-2ubuntu15) ... 277s Setting up libpython3.12-stdlib:s390x (3.12.2-4build3) ... 277s Setting up wget (1.21.4-1ubuntu2) ... 277s Setting up fontconfig-config (2.15.0-1.1ubuntu1) ... 277s Setting up libxmlb2:s390x (0.3.15-1build1) ... 277s Setting up btrfs-progs (6.6.3-1.1build1) ... 277s Setting up libpython3.11-stdlib:s390x (3.11.8-1build4) ... 277s Setting up python3.12 (3.12.2-4build3) ... 278s Setting up gpgsm (2.4.4-2ubuntu15) ... 278s Setting up inetutils-telnet (2:2.5-3ubuntu3) ... 278s Setting up parted (3.6-3.1build2) ... 278s Setting up e2fsprogs (1.47.0-2.4~exp1ubuntu2) ... 278s update-initramfs: deferring update (trigger activated) 278s e2scrub_all.service is a disabled or a static unit not running, not starting it. 278s Setting up linux-headers-generic (6.8.0-20.20+1) ... 278s Setting up dbus-daemon (1.14.10-4ubuntu2) ... 278s Setting up libmbim-proxy (1.31.2-0ubuntu2) ... 278s Setting up vim-tiny (2:9.1.0016-1ubuntu6) ... 278s Setting up kmod (31+20240202-2ubuntu4) ... 279s Setting up libnetplan1:s390x (1.0-1) ... 279s Setting up man-db (2.12.0-3build4) ... 279s Updating database of manual pages ... 280s man-db.service is a disabled or a static unit not running, not starting it. 280s Setting up fdisk (2.39.3-9ubuntu2) ... 280s Setting up libjson-glib-1.0-0:s390x (1.8.0-2build1) ... 280s Setting up libsasl2-modules-db:s390x (2.1.28+dfsg1-5ubuntu1) ... 280s Setting up hwdata (0.379-1) ... 280s Setting up perl (5.38.2-3.2) ... 280s Setting up libfreetype6:s390x (2.13.2+dfsg-1build2) ... 280s Setting up gir1.2-girepository-2.0:s390x (1.79.1-1ubuntu6) ... 280s Setting up dbus (1.14.10-4ubuntu2) ... 280s A reboot is required to replace the running dbus-daemon. 280s Please reboot the system when convenient. 281s Setting up shared-mime-info (2.4-1build1) ... 281s Setting up libblockdev-utils3:s390x (3.1.0-1build1) ... 281s Setting up libgssapi-krb5-2:s390x (1.20.1-6ubuntu1) ... 281s Setting up libsystemd-shared:s390x (255.4-1ubuntu5) ... 281s Setting up ftp (20230507-2build1) ... 281s Setting up keyboxd (2.4.4-2ubuntu15) ... 281s Setting up libdpkg-perl (1.22.6ubuntu5) ... 281s Setting up libsasl2-2:s390x (2.1.28+dfsg1-5ubuntu1) ... 281s Setting up libssh-4:s390x (0.10.6-2build1) ... 281s Setting up libblockdev-nvme3:s390x (3.1.0-1build1) ... 281s Setting up libblockdev-fs3:s390x (3.1.0-1build1) ... 281s Setting up ieee-data (20220827.1) ... 281s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu1) ... 281s Setting up libpolkit-agent-1-0:s390x (124-1ubuntu1) ... 281s Setting up libc6-dev:s390x (2.39-0ubuntu6) ... 281s Setting up libgpgme11t64:s390x (1.18.0-4.1ubuntu3) ... 281s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu1) ... 281s Setting up libclang-cpp18 (1:18.1.2-1ubuntu2) ... 281s Setting up libbpfcc:s390x (0.29.1+ds-1ubuntu4) ... 281s Setting up linux-tools-common (6.8.0-20.20) ... 281s Setting up libarchive13t64:s390x (3.7.2-1.1ubuntu2) ... 281s Setting up libldap2:s390x (2.6.7+dfsg-1~exp1ubuntu6) ... 281s Setting up libpython3-stdlib:s390x (3.12.2-0ubuntu1) ... 281s Setting up python3.11 (3.11.8-1build4) ... 282s Setting up telnet (0.17+2.5-3ubuntu3) ... 282s Setting up libblockdev-mdraid3:s390x (3.1.0-1build1) ... 282s Setting up linux-headers-virtual (6.8.0-20.20+1) ... 282s Setting up libcurl4t64:s390x (8.5.0-2ubuntu8) ... 282s Setting up bpftrace (0.20.2-1ubuntu1) ... 282s Setting up bind9-libs:s390x (1:9.18.24-0ubuntu3) ... 282s Setting up linux-image-6.8.0-20-generic (6.8.0-20.20) ... 283s I: /boot/vmlinuz is now a symlink to vmlinuz-6.8.0-20-generic 283s I: /boot/initrd.img is now a symlink to initrd.img-6.8.0-20-generic 283s Setting up libtirpc3t64:s390x (1.3.4+ds-1.1) ... 283s Setting up e2fsprogs-l10n (1.47.0-2.4~exp1ubuntu2) ... 283s Setting up libblockdev-swap3:s390x (3.1.0-1build1) ... 283s Setting up iproute2 (6.1.0-1ubuntu5) ... 283s Setting up openssh-client (1:9.6p1-3ubuntu11) ... 283s Setting up libgusb2:s390x (0.4.8-1build1) ... 283s Setting up libblockdev-loop3:s390x (3.1.0-1build1) ... 283s Setting up libcurl3t64-gnutls:s390x (8.5.0-2ubuntu8) ... 283s Setting up libqmi-glib5:s390x (1.35.2-0ubuntu1) ... 283s Setting up linux-tools-6.8.0-20 (6.8.0-20.20) ... 283s Setting up python3 (3.12.2-0ubuntu1) ... 283s Setting up systemd (255.4-1ubuntu5) ... 284s Setting up libblockdev3:s390x (3.1.0-1build1) ... 284s Setting up libjcat1:s390x (0.2.0-2build2) ... 284s Setting up dpkg-dev (1.22.6ubuntu5) ... 284s Setting up libblockdev-part3:s390x (3.1.0-1build1) ... 284s Setting up dirmngr (2.4.4-2ubuntu15) ... 284s Setting up linux-tools-6.8.0-20-generic (6.8.0-20.20) ... 284s Setting up python3-cryptography (41.0.7-4build2) ... 284s Setting up python3-gi (3.47.0-3build1) ... 284s Setting up libgd3:s390x (2.3.3-9ubuntu3) ... 284s Setting up systemd-timesyncd (255.4-1ubuntu5) ... 285s Setting up udev (255.4-1ubuntu5) ... 285s Setting up python3-typing-extensions (4.10.0-1) ... 286s Setting up lsof (4.95.0-1build2) ... 286s Setting up python3-pyrsistent:s390x (0.20.0-1build1) ... 286s Setting up python3-netaddr (0.8.0-2ubuntu1) ... 286s Setting up kpartx (0.9.4-5ubuntu6) ... 286s Setting up libnsl2:s390x (1.3.0-3build2) ... 286s Setting up gnupg (2.4.4-2ubuntu15) ... 286s Setting up python3-netplan (1.0-1) ... 286s Setting up curl (8.5.0-2ubuntu8) ... 286s Setting up libvolume-key1:s390x (0.3.12-7build1) ... 286s Setting up linux-image-virtual (6.8.0-20.20+1) ... 286s Setting up netplan-generator (1.0-1) ... 286s Removing 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 286s Setting up bind9-host (1:9.18.24-0ubuntu3) ... 286s Setting up python3-lib2to3 (3.12.2-3ubuntu1.1) ... 286s Setting up python3-bpfcc (0.29.1+ds-1ubuntu4) ... 286s Setting up libc-devtools (2.39-0ubuntu6) ... 286s Setting up systemd-resolved (255.4-1ubuntu5) ... 287s Setting up python3-pkg-resources (68.1.2-2ubuntu1) ... 287s Setting up python3-distutils (3.12.2-3ubuntu1.1) ... 287s python3.12: can't get files for byte-compilation 287s Setting up openssh-sftp-server (1:9.6p1-3ubuntu11) ... 287s Setting up linux-image-generic (6.8.0-20.20+1) ... 287s Setting up systemd-sysv (255.4-1ubuntu5) ... 287s Setting up python3-dbus (1.3.2-5build2) ... 287s Setting up python3-setuptools (68.1.2-2ubuntu1) ... 288s Setting up gpg-wks-client (2.4.4-2ubuntu15) ... 288s Setting up openssh-server (1:9.6p1-3ubuntu11) ... 288s Replacing config file /etc/ssh/sshd_config with new version 289s Created symlink /etc/systemd/system/ssh.service.requires/ssh.socket → /usr/lib/systemd/system/ssh.socket. 290s Setting up linux-generic (6.8.0-20.20+1) ... 290s Setting up libblockdev-crypto3:s390x (3.1.0-1build1) ... 290s Setting up python3-gdbm:s390x (3.12.2-3ubuntu1.1) ... 290s Setting up plymouth (24.004.60-1ubuntu6) ... 290s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 290s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 294s Not invoking zipl: initrd doesn't exist yet 294s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 294s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 294s Setting up python3-apt (2.7.7) ... 295s Setting up libfwupd2:s390x (1.9.15-2) ... 295s Setting up libnss-systemd:s390x (255.4-1ubuntu5) ... 295s Setting up libqmi-proxy (1.35.2-0ubuntu1) ... 295s Setting up multipath-tools (0.9.4-5ubuntu6) ... 295s Setting up netplan.io (1.0-1) ... 295s Setting up linux-virtual (6.8.0-20.20+1) ... 295s Setting up plymouth-theme-ubuntu-text (24.004.60-1ubuntu6) ... 295s update-initramfs: deferring update (trigger activated) 295s Setting up bpfcc-tools (0.29.1+ds-1ubuntu4) ... 295s Setting up libpam-systemd:s390x (255.4-1ubuntu5) ... 295s Setting up bind9-dnsutils (1:9.18.24-0ubuntu3) ... 295s Setting up ubuntu-pro-client (31.2.2) ... 297s Setting up fwupd (1.9.15-2) ... 297s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 297s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 297s Setting up ubuntu-pro-client-l10n (31.2.2) ... 297s Setting up udisks2 (2.10.1-6) ... 298s Setting up dbus-user-session (1.14.10-4ubuntu2) ... 298s Processing triggers for install-info (7.1-3build1) ... 298s Processing triggers for initramfs-tools (0.142ubuntu23) ... 298s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 298s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 301s Not invoking zipl: initrd doesn't exist yet 301s Processing triggers for libc-bin (2.39-0ubuntu6) ... 301s Processing triggers for ufw (0.36.2-5) ... 301s Processing triggers for debianutils (5.17) ... 301s Processing triggers for linux-image-6.8.0-20-generic (6.8.0-20.20) ... 301s /etc/kernel/postinst.d/initramfs-tools: 301s update-initramfs: Generating /boot/initrd.img-6.8.0-20-generic 302s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 305s Using config file '/etc/zipl.conf' 305s Building bootmap in '/boot' 305s Adding IPL section 'ubuntu' (default) 305s Preparing boot device for LD-IPL: vda (0000). 305s Done. 305s /etc/kernel/postinst.d/zz-zipl: 305s Using config file '/etc/zipl.conf' 305s Building bootmap in '/boot' 305s Adding IPL section 'ubuntu' (default) 305s Preparing boot device for LD-IPL: vda (0000). 305s Done. 307s Reading package lists... 307s Building dependency tree... 307s Reading state information... 307s The following packages will be REMOVED: 307s libaio1* libnetplan0* python3-distutils* python3-lib2to3* 307s 0 upgraded, 0 newly installed, 4 to remove and 1 not upgraded. 307s After this operation, 1445 kB disk space will be freed. 307s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81786 files and directories currently installed.) 307s Removing libaio1:s390x (0.3.113-5) ... 307s Removing libnetplan0:s390x (0.107.1-3) ... 307s Removing python3-distutils (3.12.2-3ubuntu1.1) ... 307s Removing python3-lib2to3 (3.12.2-3ubuntu1.1) ... 307s Processing triggers for libc-bin (2.39-0ubuntu6) ... 308s autopkgtest [03:33:33]: rebooting testbed after setup commands that affected boot 338s autopkgtest [03:34:03]: testbed running kernel: Linux 6.8.0-20-generic #20-Ubuntu SMP Mon Mar 18 10:49:25 UTC 2024 341s autopkgtest [03:34:06]: @@@@@@@@@@@@@@@@@@@@ apt-source samtools 347s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/universe samtools 1.19.2-1build1 (dsc) [2398 B] 347s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe samtools 1.19.2-1build1 (tar) [5666 kB] 347s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe samtools 1.19.2-1build1 (diff) [21.9 kB] 347s gpgv: Signature made Fri Mar 22 16:54:57 2024 UTC 347s gpgv: using RSA key 4FB588A84C2DDE79A74C77876FA458DD1DB03F71 347s gpgv: issuer "juliank@ubuntu.com" 347s gpgv: Can't check signature: No public key 347s dpkg-source: warning: cannot verify inline signature for ./samtools_1.19.2-1build1.dsc: no acceptable signature found 348s autopkgtest [03:34:13]: testing package samtools version 1.19.2-1build1 348s autopkgtest [03:34:13]: build not needed 353s autopkgtest [03:34:18]: test run-unit-test: preparing testbed 356s Reading package lists... 356s Building dependency tree... 356s Reading state information... 356s Starting pkgProblemResolver with broken count: 0 356s Starting 2 pkgProblemResolver with broken count: 0 356s Done 357s The following additional packages will be installed: 357s libhts3t64 libhtscodecs2 samtools samtools-test tabix 357s Suggested packages: 357s cwltool 357s Recommended packages: 357s libio-pty-perl 357s The following NEW packages will be installed: 357s autopkgtest-satdep libhts3t64 libhtscodecs2 samtools samtools-test tabix 357s 0 upgraded, 6 newly installed, 0 to remove and 1 not upgraded. 357s Need to get 4117 kB/4118 kB of archives. 357s After this operation, 23.1 MB of additional disk space will be used. 357s Get:1 /tmp/autopkgtest.84QegE/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [720 B] 357s Get:2 http://ftpmaster.internal/ubuntu noble/universe s390x libhtscodecs2 s390x 1.6.0-1 [87.2 kB] 357s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libhts3t64 s390x 1.19+ds-1.1build2 [474 kB] 358s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x samtools s390x 1.19.2-1build1 [612 kB] 358s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x samtools-test all 1.19.2-1build1 [2401 kB] 359s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x tabix s390x 1.19+ds-1.1build2 [543 kB] 359s Fetched 4117 kB in 2s (1743 kB/s) 359s Selecting previously unselected package libhtscodecs2:s390x. 359s (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 ... 81562 files and directories currently installed.) 359s Preparing to unpack .../0-libhtscodecs2_1.6.0-1_s390x.deb ... 359s Unpacking libhtscodecs2:s390x (1.6.0-1) ... 359s Selecting previously unselected package libhts3t64:s390x. 359s Preparing to unpack .../1-libhts3t64_1.19+ds-1.1build2_s390x.deb ... 359s Unpacking libhts3t64:s390x (1.19+ds-1.1build2) ... 360s Selecting previously unselected package samtools. 360s Preparing to unpack .../2-samtools_1.19.2-1build1_s390x.deb ... 360s Unpacking samtools (1.19.2-1build1) ... 360s Selecting previously unselected package samtools-test. 360s Preparing to unpack .../3-samtools-test_1.19.2-1build1_all.deb ... 360s Unpacking samtools-test (1.19.2-1build1) ... 360s Selecting previously unselected package tabix. 360s Preparing to unpack .../4-tabix_1.19+ds-1.1build2_s390x.deb ... 360s Unpacking tabix (1.19+ds-1.1build2) ... 360s Selecting previously unselected package autopkgtest-satdep. 360s Preparing to unpack .../5-1-autopkgtest-satdep.deb ... 360s Unpacking autopkgtest-satdep (0) ... 360s Setting up libhtscodecs2:s390x (1.6.0-1) ... 360s Setting up libhts3t64:s390x (1.19+ds-1.1build2) ... 360s Setting up samtools-test (1.19.2-1build1) ... 360s Setting up tabix (1.19+ds-1.1build2) ... 360s Setting up samtools (1.19.2-1build1) ... 360s Setting up autopkgtest-satdep (0) ... 360s Processing triggers for man-db (2.12.0-3build4) ... 360s Processing triggers for libc-bin (2.39-0ubuntu6) ... 363s (Reading database ... 82399 files and directories currently installed.) 363s Removing autopkgtest-satdep (0) ... 363s autopkgtest [03:34:28]: test run-unit-test: [----------------------- 364s test_reference: 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reference test/reference/mpileup.1.tmp.cram 364s .. ok 364s 364s test_reference: 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reference -e test/reference/mpileup.1.tmp.cram 364s .. ok 364s 364s test_reference: 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reference -r 17:1000-1500 test/reference/mpileup.1.tmp.cram 364s .. ok 364s 364s test_reference: 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reference -r 17:1000-1500 -e test/reference/mpileup.1.tmp.cram 364s .. ok 364s 364s test_reference: 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reference -@ 2 test/reference/mpileup.1.tmp.cram 364s .. ok 364s 364s test_reference: 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reference -@ 2 -e test/reference/mpileup.1.tmp.cram 364s .. ok 364s 364s test_reference: 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reference -@ 2 -r 17:1000-1500 test/reference/mpileup.1.tmp.cram 364s .. ok 364s 364s test_reference: 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reference -@ 2 -r 17:1000-1500 -e test/reference/mpileup.1.tmp.cram 364s .. ok 364s 364s bgzip -c -b 65272 -s 5 /tmp/lVq3A0wV5Y/bgzip.dat.gz 364s .. ok 364s 364s bgzip -c -b 979200 -s 6 /tmp/lVq3A0wV5Y/bgzip.dat.gz 364s .. ok 364s 364s bgzip -c -b 652804 -s 6 /tmp/lVq3A0wV5Y/bgzip.dat.gz 364s .. ok 364s 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools faidx /tmp/lVq3A0wV5Y/faidx.fa 3:11-13 | grep -v '^>' 364s .. ok 364s 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools faidx /tmp/lVq3A0wV5Y/faidx.fa.gz 3:11-13 | grep -v '^>' 364s .. ok 364s 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools faidx /tmp/lVq3A0wV5Y/faidx.fa 2:998-1003 | grep -v '^>' 364s .. ok 364s 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools faidx /tmp/lVq3A0wV5Y/faidx.fa.gz 2:998-1003 | grep -v '^>' 364s .. ok 364s 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools faidx /tmp/lVq3A0wV5Y/faidx.fa 1:100-104 | grep -v '^>' 364s .. ok 364s 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools faidx /tmp/lVq3A0wV5Y/faidx.fa.gz 1:100-104 | grep -v '^>' 364s .. ok 364s 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools faidx /tmp/lVq3A0wV5Y/faidx.fa 1:99998-100007 | grep -v '^>' 364s .. ok 364s 364s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools faidx /tmp/lVq3A0wV5Y/faidx.fa.gz 1:99998-100007 | grep -v '^>' 364s .. ok 364s 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fqidx /tmp/lVq3A0wV5Y/fqidx.fq 3:11-13 365s .. ok 365s 365s .. ok 365s 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fqidx /tmp/lVq3A0wV5Y/fqidx.fq.gz 3:11-13 365s .. ok 365s 365s .. ok 365s 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fqidx /tmp/lVq3A0wV5Y/fqidx.fq 2:998-1003 365s .. ok 365s 365s .. ok 365s 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fqidx /tmp/lVq3A0wV5Y/fqidx.fq.gz 2:998-1003 365s .. ok 365s 365s .. ok 365s 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fqidx /tmp/lVq3A0wV5Y/fqidx.fq 1:100-104 365s .. ok 365s 365s .. ok 365s 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fqidx /tmp/lVq3A0wV5Y/fqidx.fq.gz 1:100-104 365s .. ok 365s 365s .. ok 365s 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fqidx /tmp/lVq3A0wV5Y/fqidx.fq 1:99998-100007 365s .. ok 365s 365s .. ok 365s 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fqidx /tmp/lVq3A0wV5Y/fqidx.fq.gz 1:99998-100007 365s .. ok 365s 365s .. ok 365s 365s test_dict: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/dict.fa 365s .. ok 365s 365s test_dict: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz /tmp/lVq3A0wV5Y/dict.fa.gz 365s .. ok 365s 365s test_dict: 365s cat /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/dict.fa | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz 365s .. ok 365s 365s test_dict: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools dict -AH < /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/dict.alias.fa 365s .. ok 365s 365s test_dict: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools dict -H -l /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/dict.alt < /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/dict.alias.fa 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view /tmp/lVq3A0wV5Y/large_chrom.bam ref2 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view /tmp/lVq3A0wV5Y/large_chrom.bam ref2:1-541556283 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam && cat /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -X /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/lVq3A0wV5Y/test_input_1_b.bam.bai ref2 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -X /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/lVq3A0wV5Y/test_input_1_b.bam.bai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -O sam - -X -cp -R ref2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai /tmp/lVq3A0wV5Y/test_input_1_b.bam.bai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -X /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/lVq3A0wV5Y/test_input_1_b_opt.bam.bai ref2 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam && cat /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -X /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam.bai ref2 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -c /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam /tmp/lVq3A0wV5Y/auto_indexed.csi && cat /tmp/lVq3A0wV5Y/auto_indexed.csi 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.cram /tmp/lVq3A0wV5Y/auto_indexed.crai && cat /tmp/lVq3A0wV5Y/auto_indexed.crai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -c /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.sam /tmp/lVq3A0wV5Y/auto_indexed.csi && cat /tmp/lVq3A0wV5Y/auto_indexed.csi 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -@ 2 /tmp/lVq3A0wV5Y/large_chrom.bam ref2 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -@ 2 /tmp/lVq3A0wV5Y/large_chrom.bam ref2:1-541556283 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -@ 2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam && cat /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -@ 2 -X /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/lVq3A0wV5Y/test_input_1_b.bam.bai ref2 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -@ 2 -X /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/lVq3A0wV5Y/test_input_1_b.bam.bai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -O sam - -X -cp -R ref2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai /tmp/lVq3A0wV5Y/test_input_1_b.bam.bai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -@ 2 -X /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/lVq3A0wV5Y/test_input_1_b_opt.bam.bai ref2 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -@ 2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -@ 2 -M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam && cat /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -@ 2 -X /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam.bai ref2 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -@ 2 -c /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam /tmp/lVq3A0wV5Y/auto_indexed.csi && cat /tmp/lVq3A0wV5Y/auto_indexed.csi 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -@ 2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.cram /tmp/lVq3A0wV5Y/auto_indexed.crai && cat /tmp/lVq3A0wV5Y/auto_indexed.crai 365s .. ok 365s 365s test_index: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools index -@ 2 -c /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.sam /tmp/lVq3A0wV5Y/auto_indexed.csi && cat /tmp/lVq3A0wV5Y/auto_indexed.csi 365s .. ok 365s 365s test_mpileup: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools mpileup -b /tmp/lVq3A0wV5Y/mpileup.bam.list -f /tmp/lVq3A0wV5Y/mpileup.ref.fa.gz -r17:100-150 365s .. ok 365s 365s test_mpileup: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools mpileup -b /tmp/lVq3A0wV5Y/mpileup.cram.list -f /tmp/lVq3A0wV5Y/mpileup.ref.fa.gz -r17:100-150 365s .. ok 365s 365s test_mpileup: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools mpileup -b /tmp/lVq3A0wV5Y/mpileup.bam.urllist -f /tmp/lVq3A0wV5Y/mpileup.ref.fa.gz -r17:100-150 365s .. ok 365s 365s test_mpileup: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools mpileup -b /tmp/lVq3A0wV5Y/mpileup.cram.urllist -f /tmp/lVq3A0wV5Y/mpileup.ref.fa.gz -r17:100-150 365s .. ok 365s 365s test_mpileup: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools mpileup -B --ff 0x14 -f /tmp/lVq3A0wV5Y/mpileup.ref.fa.gz -r17:1050-1060 /tmp/lVq3A0wV5Y/mpileup.1.bam | grep -v mpileup 365s .. ok 365s 365s test_mpileup: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools mpileup -B --ff 0x14 -f /tmp/lVq3A0wV5Y/mpileup.ref.fa.gz -r17:1050-1060 /tmp/lVq3A0wV5Y/mpileup.1.cram | grep -v mpileup 365s .. ok 365s 365s test_mpileup: 365s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools mpileup /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/mpileup/overlap.bam | grep 128814202 365s ./test/test.pl: no IO::Pty module or can't open pty; skipping usage tests 365s .. ok 365s 365s test_usage: 365s samtools 365s test_view: 366s Generating test data file .................. done 366s 1: SAM -> BAM -> SAM .. ok 366s 366s 2: SAM -> uncompressed BAM .. ok 366s 366s 3: uncompressed BAM -> SAM and compare .. ok 366s 366s 4: SAM -> fast compressed BAM .. ok 366s 366s 5: fast compressed BAM -> SAM and compare .. ok 366s 367s 6: SAM -> CRAM -> SAM (UR header tags) .. ok 367s 367s 7: SAM -> CRAM -> SAM (M5 header tags) .. ok 367s 368s 8: BAM -> CRAM with UR -> SAM .. ok 368s 368s 9: SAM -> BAM (M5 header tags) .. ok 368s 368s 10: SAM -> BAM -> CRAM -> SAM (M5 header tags) .. ok 368s 369s 11: CRAM -> BAM with UR .. ok 369s 369s 12: CRAM -> BAM with M5 .. ok 369s 369s 13: SAM -> SAM via stdout .. ok 369s 369s 14: SAM -> BAM via stdout .. ok 369s 370s 15: SAM -> CRAM via stdout .. ok 370s 370s 16: SAM from stdin -> SAM .. ok 370s 370s 17: BAM from stdin -> SAM .. ok 370s 370s 18: CRAM from stdin -> SAM .. ok 370s 370s 19: samtools view -H (SAM input) .. ok 370s 370s 20: samtools view -H (BAM input) .. ok 370s 370s 21: samtools view -H (CRAM input) .. ok 370s 370s 22: No headers (SAM input) .. ok 370s 370s 23: No headers (BAM input) .. ok 370s 371s 24: No headers (CRAM input) .. ok 371s 371s 25: Filter -f 128 (SAM input) .. ok 371s 371s 26: Count -f 128 (SAM input) .. ok 371s 371s 27: Filter -f 128 (BAM input) .. ok 371s 371s 28: Count -f 128 (BAM input) .. ok 371s 371s 29: Filter -f 128 (CRAM input) .. ok 371s 371s 30: Count -f 128 (CRAM input) .. ok 371s 371s 31: Filter -F 128 (SAM input) .. ok 371s 371s 32: Count -F 128 (SAM input) .. ok 371s 371s 33: Filter -F 128 (BAM input) .. ok 371s 371s 34: Count -F 128 (BAM input) .. ok 371s 372s 35: Filter -F 128 (CRAM input) .. ok 372s 372s 36: Count -F 128 (CRAM input) .. ok 372s 372s 37: Filter -F 128 -f 2 (SAM input) .. ok 372s 372s 38: Count -F 128 -f 2 (SAM input) .. ok 372s 372s 39: Filter -F 128 -f 2 (BAM input) .. ok 372s 372s 40: Count -F 128 -f 2 (BAM input) .. ok 372s 372s 41: Filter -F 128 -f 2 (CRAM input) .. ok 372s 372s 42: Count -F 128 -f 2 (CRAM input) .. ok 372s 372s 43: Filter -r grp2 (SAM input) .. ok 372s 372s 44: Count -r grp2 (SAM input) .. ok 372s 372s 45: Filter -r grp2 (BAM input) .. ok 372s 372s 46: Count -r grp2 (BAM input) .. ok 372s 373s 47: Filter -r grp2 (CRAM input) .. ok 373s 373s 48: Count -r grp2 (CRAM input) .. ok 373s 373s 49: Filter -R /tmp/lVq3A0wV5Y/view.001.fogn (SAM input) .. ok 373s 373s 50: Count -R /tmp/lVq3A0wV5Y/view.001.fogn (SAM input) .. ok 373s 373s 51: Filter -R /tmp/lVq3A0wV5Y/view.001.fogn (BAM input) .. ok 373s 373s 52: Count -R /tmp/lVq3A0wV5Y/view.001.fogn (BAM input) .. ok 373s 373s 53: Filter -R /tmp/lVq3A0wV5Y/view.001.fogn (CRAM input) .. ok 373s 373s 54: Count -R /tmp/lVq3A0wV5Y/view.001.fogn (CRAM input) .. ok 373s 373s 55: Filter -R /tmp/lVq3A0wV5Y/view.001.fogn -r grp2 (SAM input).. ok 373s 373s 56: Count -R /tmp/lVq3A0wV5Y/view.001.fogn -r grp2 (SAM input).. ok 373s 373s 57: Filter -R /tmp/lVq3A0wV5Y/view.001.fogn -r grp2 (BAM input).. ok 373s 373s 58: Count -R /tmp/lVq3A0wV5Y/view.001.fogn -r grp2 (BAM input).. ok 373s 374s 59: Filter -R /tmp/lVq3A0wV5Y/view.001.fogn -r grp2 (CRAM input).. ok 374s 374s 60: Count -R /tmp/lVq3A0wV5Y/view.001.fogn -r grp2 (CRAM input).. ok 374s 374s 61: Filter -r grp2 -R /tmp/lVq3A0wV5Y/view.001.fogn (SAM input).. ok 374s 374s 62: Count -r grp2 -R /tmp/lVq3A0wV5Y/view.001.fogn (SAM input).. ok 374s 374s 63: Filter -r grp2 -R /tmp/lVq3A0wV5Y/view.001.fogn (BAM input).. ok 374s 374s 64: Count -r grp2 -R /tmp/lVq3A0wV5Y/view.001.fogn (BAM input).. ok 374s 374s 65: Filter -r grp2 -R /tmp/lVq3A0wV5Y/view.001.fogn (CRAM input).. ok 374s 374s 66: Count -r grp2 -R /tmp/lVq3A0wV5Y/view.001.fogn (CRAM input).. ok 374s 374s 67: Filter -N /tmp/lVq3A0wV5Y/view.001.forn (SAM input) .. ok 374s 374s 68: Count -N /tmp/lVq3A0wV5Y/view.001.forn (SAM input) .. ok 374s 374s 69: Filter -N /tmp/lVq3A0wV5Y/view.001.forn (BAM input) .. ok 374s 374s 70: Count -N /tmp/lVq3A0wV5Y/view.001.forn (BAM input) .. ok 374s 375s 71: Filter -N /tmp/lVq3A0wV5Y/view.001.forn (CRAM input) .. ok 375s 375s 72: Count -N /tmp/lVq3A0wV5Y/view.001.forn (CRAM input) .. ok 375s 375s 73: Filter -d BC (SAM input) .. ok 375s 375s 74: Count -d BC (SAM input) .. ok 375s 375s 75: Filter -d BC (BAM input) .. ok 375s 375s 76: Count -d BC (BAM input) .. ok 375s 375s 77: Filter -d BC (CRAM input) .. ok 375s 375s 78: Count -d BC (CRAM input) .. ok 375s 375s 79: Filter -d BC:TGCA (SAM input) .. ok 375s 375s 80: Count -d BC:TGCA (SAM input) .. ok 375s 375s 81: Filter -d BC:TGCA (BAM input) .. ok 375s 375s 82: Count -d BC:TGCA (BAM input) .. ok 375s 376s 83: Filter -d BC:TGCA (CRAM input) .. ok 376s 376s 84: Count -d BC:TGCA (CRAM input) .. ok 376s 376s 85: Filter -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (SAM input) .. ok 376s 376s 86: Count -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (SAM input) .. ok 376s 376s 87: Filter -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (BAM input) .. ok 376s 376s 88: Count -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (BAM input) .. ok 376s 377s 89: Filter -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (CRAM input) .. ok 377s 377s 90: Count -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (CRAM input) .. ok 377s 377s 91: Filter -D BC:/tmp/lVq3A0wV5Y/view.001.fobc -d BC:TGCA (SAM input).. ok 377s 377s 92: Count -D BC:/tmp/lVq3A0wV5Y/view.001.fobc -d BC:TGCA (SAM input).. ok 377s 377s 93: Filter -D BC:/tmp/lVq3A0wV5Y/view.001.fobc -d BC:TGCA (BAM input).. ok 377s 377s 94: Count -D BC:/tmp/lVq3A0wV5Y/view.001.fobc -d BC:TGCA (BAM input).. ok 377s 377s 95: Filter -D BC:/tmp/lVq3A0wV5Y/view.001.fobc -d BC:TGCA (CRAM input).. ok 377s 377s 96: Count -D BC:/tmp/lVq3A0wV5Y/view.001.fobc -d BC:TGCA (CRAM input).. ok 377s 377s 97: Filter -d BC:TGCA -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (SAM input).. ok 377s 377s 98: Count -d BC:TGCA -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (SAM input).. ok 377s 377s 99: Filter -d BC:TGCA -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (BAM input).. ok 377s 377s 100: Count -d BC:TGCA -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (BAM input).. ok 377s 378s 101: Filter -d BC:TGCA -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (CRAM input).. ok 378s 378s 102: Count -d BC:TGCA -D BC:/tmp/lVq3A0wV5Y/view.001.fobc (CRAM input).. ok 378s 378s 103: Filter -D RG:/tmp/lVq3A0wV5Y/view.001.fogn (SAM input) .. ok 378s 378s 104: Count -D RG:/tmp/lVq3A0wV5Y/view.001.fogn (SAM input) .. ok 378s 378s 105: Filter -D RG:/tmp/lVq3A0wV5Y/view.001.fogn (BAM input) .. ok 378s 378s 106: Count -D RG:/tmp/lVq3A0wV5Y/view.001.fogn (BAM input) .. ok 378s 378s 107: Filter -D RG:/tmp/lVq3A0wV5Y/view.001.fogn (CRAM input).. ok 378s 378s 108: Count -D RG:/tmp/lVq3A0wV5Y/view.001.fogn (CRAM input) .. ok 378s 378s 109: Filter -d NE:TGCA (SAM input) .. ok 378s 378s 110: Count -d NE:TGCA (SAM input) .. ok 378s 378s 111: Filter -d NE:TGCA (BAM input) .. ok 378s 378s 112: Count -d NE:TGCA (BAM input) .. ok 378s 379s 113: Filter -d NE:TGCA (CRAM input) .. ok 379s 379s 114: Count -d NE:TGCA (CRAM input) .. ok 379s 379s 115: Filter -d TGCA (SAM input) samtools view: Invalid "tag:value" option: "TGCA" 379s Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test115.sam -h -d TGCA /tmp/lVq3A0wV5Y/view.001.sam --no-PG 379s 379s 379s .. expected failure 379s 379s 116: Count -d TGCA (SAM input) samtools view: Invalid "tag:value" option: "TGCA" 379s Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -d TGCA /tmp/lVq3A0wV5Y/view.001.sam --no-PG 379s 379s 379s .. expected failure 379s 379s 117: Filter -d TGCA (BAM input) samtools view: Invalid "tag:value" option: "TGCA" 379s Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test117.sam -h -d TGCA /tmp/lVq3A0wV5Y/view.test001.bam --no-PG 379s 379s 379s .. expected failure 379s 379s 118: Count -d TGCA (BAM input) samtools view: Invalid "tag:value" option: "TGCA" 379s Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -d TGCA /tmp/lVq3A0wV5Y/view.test001.bam --no-PG 379s 379s 379s .. expected failure 379s 379s 119: Filter -d TGCA (CRAM input) samtools view: Invalid "tag:value" option: "TGCA" 379s samtools view: Invalid "tag:value" option: "TGCA" 379s samtools view: Invalid "tag:file" option: "BClong:/tmp/lVq3A0wV5Y/view.001.fobc" 379s samtools view: Invalid "tag:file" option: "BClong:/tmp/lVq3A0wV5Y/view.001.fobc" 379s samtools view: Invalid "tag:file" option: "BClong:/tmp/lVq3A0wV5Y/view.001.fobc" 379s samtools view: Invalid "tag:file" option: "BClong:/tmp/lVq3A0wV5Y/view.001.fobc" 379s samtools view: Invalid "tag:file" option: "BClong:/tmp/lVq3A0wV5Y/view.001.fobc" 379s Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test119.sam -h -d TGCA /tmp/lVq3A0wV5Y/view.test006.cram --no-PG 379s 379s 379s .. expected failure 379s 379s 120: Count -d TGCA (CRAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -d TGCA /tmp/lVq3A0wV5Y/view.test006.cram --no-PG 379s 379s 379s .. expected failure 379s 379s 121: Filter -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc (SAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test121.sam -h -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc /tmp/lVq3A0wV5Y/view.001.sam --no-PG 379s 379s 379s .. expected failure 379s 379s 122: Count -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc (SAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc /tmp/lVq3A0wV5Y/view.001.sam --no-PG 379s 379s 379s .. expected failure 379s 379s 123: Filter -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc (BAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test123.sam -h -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc /tmp/lVq3A0wV5Y/view.test001.bam --no-PG 379s 379s 379s .. expected failure 379s 379s 124: Count -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc (BAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc /tmp/lVq3A0wV5Y/view.test001.bam --no-PG 379s 379s 379s .. expected failure 379s 379s 125: Filter -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc (CRAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/lVq3A0wV5Y/view.001.fobc" 379s samtools view: Different tag "BC" was specified before: "RG:grp2" 379s samtools view: Different tag "BC" was specified before: "RG:grp2" 379s samtools view: Different tag "BC" was specified before: "RG:grp2" 379s Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test125.sam -h -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc /tmp/lVq3A0wV5Y/view.test006.cram --no-PG 379s 379s 379s .. expected failure 379s 379s 126: Count -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc (CRAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -D BClong:/tmp/lVq3A0wV5Y/view.001.fobc /tmp/lVq3A0wV5Y/view.test006.cram --no-PG 379s 379s 379s .. expected failure 379s 379s 127: Filter -d BC:ACGT -d RG:grp2 (SAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test127.sam -h -d BC:ACGT -d RG:grp2 /tmp/lVq3A0wV5Y/view.001.sam --no-PG 379s 379s 379s .. expected failure 379s 379s 128: Count -d BC:ACGT -d RG:grp2 (SAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/lVq3A0wV5Y/view.001.sam --no-PG 379s 379s 379s .. expected failure 379s 379s 129: Filter -d BC:ACGT -d RG:grp2 (BAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test129.sam -h -d BC:ACGT -d RG:grp2 /tmp/lVq3A0wV5Y/view.test001.bam --no-PG 379s 379s 379s .. expected failure 379s 379s 130: Count -d BC:ACGT -d RG:grp2 (BAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/lVq3A0wV5Y/view.test001.bam --no-PG 379s 379s 379s .. expected failure 379s 379s 131: Filter -d BC:ACGT -d RG:grp2 (CRAM input) Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -o /tmp/lVq3A0wV5Y/view.test131.sam -h -d BC:ACGT -d RG:grp2 /tmp/lVq3A0wV5Y/view.test006.cram --no-PG 379s 379s 379s .. expected failure 379s 379s 132: Count -d BC:ACGT -d RG:grp2 (CRAM input) samtools view: Different tag "BC" was specified before: "RG:grp2" 379s samtools view: Different tag "BC" was specified before: "RG:grp2" 379s samtools view: Different tag "BC" was specified before: "RG:grp2" 379s Failed command: 379s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/lVq3A0wV5Y/view.test006.cram --no-PG 379s 379s 379s .. expected failure 379s 379s 133: Filter -d NM:13 (SAM input) .. ok 379s 379s 134: Count -d NM:13 (SAM input) .. ok 379s 379s 135: Filter -d NM:13 (BAM input) .. ok 379s 379s 136: Count -d NM:13 (BAM input) .. ok 379s 379s 137: Filter -d NM:13 (CRAM input) .. ok 379s 380s 138: Count -d NM:13 (CRAM input) .. ok 380s 380s 139: Filter -d ab:z (SAM input) .. ok 380s 380s 140: Count -d ab:z (SAM input) .. ok 380s 380s 141: Filter -d ab:z (BAM input) .. ok 380s 380s 142: Count -d ab:z (BAM input) .. ok 380s 380s 143: Filter -d ab:z (CRAM input) .. ok 380s 380s 144: Count -d ab:z (CRAM input) .. ok 380s 380s 145: Filter -l Library 2 (SAM input) .. ok 380s 380s 146: Count -l Library 2 (SAM input) .. ok 380s 380s 147: Filter -l Library 2 (BAM input) .. ok 380s 380s 148: Count -l Library 2 (BAM input) .. ok 380s 381s 149: Filter -l Library 2 (CRAM input) .. ok 381s 381s 150: Count -l Library 2 (CRAM input) .. ok 381s 381s 151: Filter -l Library 3 (SAM input) .. ok 381s 381s 152: Count -l Library 3 (SAM input) .. ok 381s 381s 153: Filter -l Library 3 (BAM input) .. ok 381s 381s 154: Count -l Library 3 (BAM input) .. ok 381s 381s 155: Filter -l Library 3 (CRAM input) .. ok 381s 381s 156: Count -l Library 3 (CRAM input) .. ok 381s 381s 157: Filter -q 50 (SAM input) .. ok 381s 381s 158: Count -q 50 (SAM input) .. ok 381s 381s 159: Filter -q 50 (BAM input) .. ok 381s 381s 160: Count -q 50 (BAM input) .. ok 381s 382s 161: Filter -q 50 (CRAM input) .. ok 382s 382s 162: Count -q 50 (CRAM input) .. ok 382s 382s 163: Filter -q 99 (SAM input) .. ok 382s 382s 164: Count -q 99 (SAM input) .. ok 382s 382s 165: Filter -q 99 (BAM input) .. ok 382s 382s 166: Count -q 99 (BAM input) .. ok 382s 382s 167: Filter -q 99 (CRAM input) .. ok 382s 382s 168: Count -q 99 (CRAM input) .. ok 382s 382s 169: Filter -q 100 (SAM input) .. ok 382s 382s 170: Count -q 100 (SAM input) .. ok 382s 383s 171: Filter -q 100 (BAM input) .. ok 383s 383s 172: Count -q 100 (BAM input) .. ok 383s 383s 173: Filter -q 100 (CRAM input) .. ok 383s 383s 174: Count -q 100 (CRAM input) .. ok 383s 383s 175: Filter -x fa (SAM input) .. ok 383s 383s 176: Count -x fa (SAM input) .. ok 383s 383s 177: Filter -x fa (BAM input) .. ok 383s 383s 178: Count -x fa (BAM input) .. ok 383s 383s 179: Filter -x fa (CRAM input) .. ok 383s 383s 180: Count -x fa (CRAM input) .. ok 383s 383s 181: Filter -x fa -x ha (SAM input) .. ok 383s 383s 182: Count -x fa -x ha (SAM input) .. ok 383s 383s 183: Filter -x fa -x ha (BAM input) .. ok 383s 383s 184: Count -x fa -x ha (BAM input) .. ok 383s 384s 185: Filter -x fa -x ha (CRAM input) .. ok 384s 384s 186: Count -x fa -x ha (CRAM input) .. ok 384s 384s 187: Filter -x fa,ha (SAM input) .. ok 384s 384s 188: Count -x fa,ha (SAM input) .. ok 384s 384s 189: Filter -x fa,ha (BAM input) .. ok 384s 384s 190: Count -x fa,ha (BAM input) .. ok 384s 384s 191: Filter -x fa,ha (CRAM input) .. ok 384s 384s 192: Count -x fa,ha (CRAM input) .. ok 384s 384s 193: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 384s 384s 194: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 384s 384s 195: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 384s 384s 196: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 384s 385s 197: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 385s 385s 198: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 385s 385s 199: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 385s 385s 200: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 385s 385s 201: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 385s 385s 202: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 385s 385s 203: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 385s 385s 204: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 385s 385s 205: Filter -x fa -r grp2 (SAM input) .. ok 385s 385s 206: Count -x fa -r grp2 (SAM input) .. ok 385s 385s 207: Filter -x fa -r grp2 (BAM input) .. ok 385s 385s 208: Count -x fa -r grp2 (BAM input) .. ok 385s 386s 209: Filter -x fa -r grp2 (CRAM input) .. ok 386s 386s 210: Count -x fa -r grp2 (CRAM input) .. ok 386s 386s 211: Filter -x RG -r grp2 (SAM input) .. ok 386s 386s 212: Count -x RG -r grp2 (SAM input) .. ok 386s 386s 213: Filter -x RG -r grp2 (BAM input) .. ok 386s 386s 214: Count -x RG -r grp2 (BAM input) .. ok 386s 386s 215: Filter -x RG -r grp2 (CRAM input) .. ok 386s 386s 216: Count -x RG -r grp2 (CRAM input) .. ok 386s 386s 217: Filter -m 10 (SAM input) .. ok 386s 386s 218: Count -m 10 (SAM input) .. ok 386s 386s 219: Filter -m 10 (BAM input) .. ok 386s 386s 220: Count -m 10 (BAM input) .. ok 386s 387s 221: Filter -m 10 (CRAM input) .. ok 387s 387s 222: Count -m 10 (CRAM input) .. ok 387s 387s 223: Filter -m 11 (SAM input) .. ok 387s 387s 224: Count -m 11 (SAM input) .. ok 387s 387s 225: Filter -m 11 (BAM input) .. ok 387s 387s 226: Count -m 11 (BAM input) .. ok 387s 388s 227: Filter -m 11 (CRAM input) .. ok 388s 388s 228: Count -m 11 (CRAM input) .. ok 388s 388s 229: Filter -m 15 (SAM input) .. ok 388s 388s 230: Count -m 15 (SAM input) .. ok 388s 388s 231: Filter -m 15 (BAM input) .. ok 388s 388s 232: Count -m 15 (BAM input) .. ok 388s 389s 233: Filter -m 15 (CRAM input) .. ok 389s 389s 234: Count -m 15 (CRAM input) .. ok 389s 389s 235: Filter -m 16 (SAM input) .. ok 389s 389s 236: Count -m 16 (SAM input) .. ok 389s 389s 237: Filter -m 16 (BAM input) .. ok 389s 389s 238: Count -m 16 (BAM input) .. ok 389s 390s 239: Filter -m 16 (CRAM input) .. ok 390s 390s 240: Count -m 16 (CRAM input) .. ok 390s 390s 241: Filter -e !(flag & 128) && (flag & 2) (SAM input) .. ok 390s 390s 242: Count -e !(flag & 128) && (flag & 2) (SAM input) .. ok 390s 390s 243: Filter -e !(flag & 128) && (flag & 2) (BAM input) .. ok 390s 390s 244: Count -e !(flag & 128) && (flag & 2) (BAM input) .. ok 390s 391s 245: Filter -e !(flag & 128) && (flag & 2) (CRAM input) .. ok 391s 391s 246: Count -e !(flag & 128) && (flag & 2) (CRAM input) .. ok 391s 391s 247: Filter -e [BC] (SAM input) .. ok 391s 391s 248: Count -e [BC] (SAM input) .. ok 391s 391s 249: Filter -e [BC] (BAM input) .. ok 391s 391s 250: Count -e [BC] (BAM input) .. ok 391s 392s 251: Filter -e [BC] (CRAM input) .. ok 392s 392s 252: Count -e [BC] (CRAM input) .. ok 392s 392s 253: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (SAM input).. ok 392s 392s 254: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (SAM input).. ok 392s 392s 255: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (BAM input).. ok 392s 392s 256: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (BAM input).. ok 392s 393s 257: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (CRAM input).. ok 393s 393s 258: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (CRAM input).. ok 393s 393s 259: Filter -e mapq >= 50 (SAM input) .. ok 393s 393s 260: Count -e mapq >= 50 (SAM input) .. ok 393s 393s 261: Filter -e mapq >= 50 (BAM input) .. ok 393s 393s 262: Count -e mapq >= 50 (BAM input) .. ok 393s 394s 263: Filter -e mapq >= 50 (CRAM input) .. ok 394s 394s 264: Count -e mapq >= 50 (CRAM input) .. ok 394s 394s 265: Filter -e mapq >= 99 (SAM input) .. ok 394s 394s 266: Count -e mapq >= 99 (SAM input) .. ok 394s 394s 267: Filter -e mapq >= 99 (BAM input) .. ok 394s 394s 268: Count -e mapq >= 99 (BAM input) .. ok 394s 396s 269: Filter -e mapq >= 99 (CRAM input) .. ok 396s 396s 270: Count -e mapq >= 99 (CRAM input) .. ok 396s 396s 271: Filter -e mapq >= 100 (SAM input) .. ok 396s 396s 272: Count -e mapq >= 100 (SAM input) .. ok 396s 396s 273: Filter -e mapq >= 100 (BAM input) .. ok 396s 396s 274: Count -e mapq >= 100 (BAM input) .. ok 396s 396s 275: Filter -e mapq >= 100 (CRAM input) .. ok 396s 396s 276: Count -e mapq >= 100 (CRAM input) .. ok 396s 396s 277: 1bp reads file SAM -> BAM -> SAM .. ok 396s 397s 278: 1bp reads file SAM -> CRAM -> SAM .. ok 397s 397s 278: Region Z (BAM input) .. ok 397s 397s 279: Count Z (BAM input) .. ok 397s 398s 280: Region Z (CRAM input) .. ok 398s 398s 281: Count Z (CRAM input) .. ok 398s 398s 282: Region Z:30 (BAM input) .. ok 398s 398s 283: Count Z:30 (BAM input) .. ok 398s 398s 284: Region Z:30 (CRAM input) .. ok 398s 398s 285: Count Z:30 (CRAM input) .. ok 398s 398s 286: Region Z:20-40 (BAM input) .. ok 398s 398s 287: Count Z:20-40 (BAM input) .. ok 398s 399s 288: Region Z:20-40 (CRAM input) .. ok 399s 399s 289: Count Z:20-40 (CRAM input) .. ok 399s 399s 290: Region ref1 (BAM input) .. ok 399s 399s 291: Count ref1 (BAM input) .. ok 399s 399s 292: Region ref1 (CRAM input) .. ok 399s 399s 293: Count ref1 (CRAM input) .. ok 399s 399s 294: Region ref1:15 (BAM input) .. ok 399s 399s 295: Count ref1:15 (BAM input) .. ok 399s 400s 296: Region ref1:15 (CRAM input) .. ok 400s 400s 297: Count ref1:15 (CRAM input) .. ok 400s 400s 298: Region ref1:15-45 (BAM input) .. ok 400s 400s 299: Count ref1:15-45 (BAM input) .. ok 400s 400s 300: Region ref1:15-45 (CRAM input) .. ok 400s 400s 301: Count ref1:15-45 (CRAM input) .. ok 400s 400s 302: Region ref1:15-45 ref2 (BAM input) .. ok 400s 400s 303: Count ref1:15-45 ref2 (BAM input) .. ok 400s 401s 304: Region ref1:15-45 ref2 (CRAM input) .. ok 401s 401s 305: Count ref1:15-45 ref2 (CRAM input) .. ok 401s 401s 306: Region ref1:15-45 ref2:16 (BAM input) .. ok 401s 401s 307: Count ref1:15-45 ref2:16 (BAM input) .. ok 401s 401s 308: Region ref1:15-45 ref2:16 (CRAM input) .. ok 401s 401s 309: Count ref1:15-45 ref2:16 (CRAM input) .. ok 401s 401s 310: Region ref1:15-45 ref2:16-31 (BAM input) .. ok 401s 401s 311: Count ref1:15-45 ref2:16-31 (BAM input) .. ok 401s 402s 312: Region ref1:15-45 ref2:16-31 (CRAM input) .. ok 402s 402s 313: Count ref1:15-45 ref2:16-31 (CRAM input) .. ok 402s 402s 314: Region ref1:15-15 ref1:45-45 (BAM input) .. ok 402s 402s 315: Count ref1:15-15 ref1:45-45 (BAM input) .. ok 402s 402s 316: Region ref1:15-15 ref1:45-45 (CRAM input) .. ok 402s 402s 317: Count ref1:15-15 ref1:45-45 (CRAM input) .. ok 402s 402s 318: Region -f 128 ref1 (BAM input) .. ok 402s 402s 319: Count -f 128 ref1 (BAM input) .. ok 402s 403s 320: Region -f 128 ref1 (CRAM input) .. ok 403s 403s 321: Count -f 128 ref1 (CRAM input) .. ok 403s 403s 322: Region -q 50 ref1:15-45 (BAM input) .. ok 403s 403s 323: Count -q 50 ref1:15-45 (BAM input) .. ok 403s 403s 324: Region -q 50 ref1:15-45 (CRAM input) .. ok 403s 403s 325: Count -q 50 ref1:15-45 (CRAM input) .. ok 403s 403s 326: Region -r grp2 ref1:15-45 (BAM input) .. ok 403s 403s 327: Count -r grp2 ref1:15-45 (BAM input) .. ok 403s 404s 328: Region -r grp2 ref1:15-45 (CRAM input) .. ok 404s 404s 329: Count -r grp2 ref1:15-45 (CRAM input) .. ok 404s 404s 330: Region * (BAM input) .. ok 404s 404s 331: Count * (BAM input) .. ok 404s 404s 332: Region * (CRAM input) .. ok 404s 404s 333: Count * (CRAM input) .. ok 404s 404s 334: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed (BAM input).. ok 404s 404s 335: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed (BAM input).. ok 404s 404s 336: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed (CRAM input).. ok 404s 404s 337: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed (CRAM input).. ok 404s 404s 338: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.02.bed (BAM input).. ok 404s 404s 339: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.02.bed (BAM input).. ok 404s 405s 340: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.02.bed (CRAM input).. ok 405s 405s 341: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.02.bed (CRAM input).. ok 405s 405s 342: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed (BAM input).. ok 405s 405s 343: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed (BAM input).. ok 405s 405s 344: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed (CRAM input).. ok 405s 405s 345: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed (CRAM input).. ok 405s 405s 346: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.02.bed (BAM input).. ok 405s 405s 347: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.02.bed (BAM input).. ok 405s 406s 348: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.02.bed (CRAM input).. ok 406s 406s 349: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.02.bed (CRAM input).. ok 406s 406s 350: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.03.bed (BAM input).. ok 406s 406s 351: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.03.bed (BAM input).. ok 406s 406s 352: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.03.bed (CRAM input).. ok 406s 406s 353: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.03.bed (CRAM input).. ok 406s 406s 354: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z (BAM input).. ok 406s 406s 355: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z (BAM input).. ok 406s 407s 356: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z (CRAM input).. ok 407s 407s 357: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z (CRAM input).. ok 407s 407s 358: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:30 (BAM input).. ok 407s 407s 359: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:30 (BAM input).. ok 407s 407s 360: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:30 (CRAM input).. ok 407s 407s 361: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:30 (CRAM input).. ok 407s 407s 362: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:10-30 (BAM input).. ok 407s 407s 363: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:10-30 (BAM input).. ok 407s 408s 364: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:10-30 (CRAM input).. ok 408s 408s 365: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:10-30 (CRAM input).. ok 408s 408s 366: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:25-35 (BAM input).. ok 408s 408s 367: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:25-35 (BAM input).. ok 408s 408s 368: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:25-35 (CRAM input).. ok 408s 408s 369: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.002.01.bed Z:25-35 (CRAM input).. ok 408s 408s 370: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref1:11-16 (BAM input).. ok 408s 408s 371: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref1:11-16 (BAM input).. ok 408s 409s 372: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref1:11-16 (CRAM input).. ok 409s 409s 373: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref1:11-16 (CRAM input).. ok 409s 409s 374: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref2 (BAM input).. ok 409s 409s 375: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref2 (BAM input).. ok 409s 409s 376: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref2 (CRAM input).. ok 409s 409s 377: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref2 (CRAM input).. ok 409s 409s 378: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (BAM input).. ok 409s 409s 379: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (BAM input).. ok 409s 410s 380: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (CRAM input).. ok 410s 410s 381: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (CRAM input).. ok 410s 410s 382: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 (BAM input).. ok 410s 410s 383: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 (BAM input).. ok 410s 410s 384: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 (CRAM input).. ok 410s 410s 385: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 (CRAM input).. ok 410s 410s 386: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -f 128 (BAM input).. ok 410s 410s 387: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -f 128 (BAM input).. ok 410s 411s 388: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -f 128 (CRAM input).. ok 411s 411s 389: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -f 128 (CRAM input).. ok 411s 411s 390: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -q 5 (BAM input).. ok 411s 411s 391: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -q 5 (BAM input).. ok 411s 411s 392: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -q 5 (CRAM input).. ok 411s 411s 393: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -q 5 (CRAM input).. ok 411s 411s 394: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 ref1:11-16 (BAM input).. ok 411s 411s 395: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 ref1:11-16 (BAM input).. ok 411s 412s 396: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 ref1:11-16 (CRAM input).. ok 412s 412s 397: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 ref1:11-16 (CRAM input).. ok 412s 412s 398: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap (BAM input).. ok 412s 412s 399: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap (BAM input).. ok 412s 412s 400: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap (CRAM input).. ok 412s 412s 401: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap (CRAM input).. ok 412s 412s 402: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap ref1:11-30 (BAM input).. ok 412s 412s 403: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap ref1:11-30 (BAM input).. ok 412s 413s 404: Region -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap ref1:11-30 (CRAM input).. ok 413s 413s 405: Count -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap ref1:11-30 (CRAM input).. ok 413s 413s 406: Make BAM with no M5/UR tags .. ok 413s 413s 407: Add @SQ with -t (SAM -> SAM) .. ok 413s 413s 408: Add @SQ with -T (SAM -> SAM) .. ok 413s 413s 409: Add @SQ with -t (BAM -> SAM) .. ok 413s 413s 410: Add @SQ with -T (BAM -> SAM) .. ok 413s 413s 411: Add @SQ with -t (SAM -> BAM) .. ok 413s 413s 412: Add @SQ with -T (SAM -> BAM) .. ok 413s 413s 413: Add @SQ with -t (BAM -> BAM) .. ok 413s 413s 414: Add @SQ with -T (BAM -> BAM) .. ok 413s 413s 415: Add @SQ with -t (SAM -> CRAM) .. ok 413s 414s 416: Add @SQ with -T (SAM -> CRAM) .. ok 414s 414s 417: Add @SQ with -t (BAM -> CRAM) .. ok 414s 414s 418: Add @SQ with -T (BAM -> CRAM) .. ok 414s 414s 419: Make CRAM with no UR field .. ok 414s 414s 420: Decoding CRAM with no UR field via -T .. ok 414s 414s 421: CIGAR B-operator removal .. ok 414s 415s 422: Big SAM -> BAM .. ok 415s 415s 423: Big SAM -> BAM (2 threads) .. ok 415s 416s 424: Big SAM -> BAM (4 threads) .. ok 416s 417s 425: Big SAM -> CRAM .. ok 417s 419s 426: Big SAM -> CRAM (2 threads) .. ok 419s 420s 427: Big SAM -> CRAM (4 threads) .. ok 420s 421s 428: Subsample 0.2 (SAM input) ............ ok 421s 423s 429: Subsample 0.5 (SAM input) ............ ok 423s 425s 430: Subsample 0.8 (SAM input) ............ ok 425s 425s 431: Subsample 0.2 (BAM input) ............ ok 425s 426s 432: Subsample 0.5 (BAM input) ............ ok 426s 428s 433: Subsample 0.8 (BAM input) ............ ok 428s 434s 434: Subsample 0.2 (CRAM input) ............ ok 434s 440s 435: Subsample 0.5 (CRAM input) ............ ok 440s 447s 436: Subsample 0.8 (CRAM input) ............ ok 447s 447s 437: SAM add PG .. ok 447s 447s 438: Unset dup flag, remove dt and do tags .. ok 447s 447s 439: Unmap dup flagged reads. .. ok 447s 447s 440: Unmap dup flagged reads. .. ok 447s 447s 441: fetch pairs .. ok 447s 447s 442: fetch pairs .. ok 447s 447s 443: fetch pairs .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -h 0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -h 1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -h 5 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -h 29 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -h 30 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -n 0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -n 1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -n 5 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_head: 447s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools head -h 5 -n 5 < /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.sam 447s .. ok 447s 447s test_cat: 447s Generating test data file .................. done 447s Generate BAM file #1 .. ok 447s 447s Generate CRAM file #1 .. ok 447s 447s Generating test data file .................. done 447s Generate BAM file #2 .. ok 447s 448s Generate CRAM file #2 .. ok 448s 448s Generating test data file .................. done 448s Generate BAM file #3 .. ok 448s 449s Generate CRAM file #3 .. ok 449s 449s Generating test data file .................. done 449s Generate BAM file #4 .. ok 449s 449s Generate CRAM file #4 .. ok 449s 449s 1: cat BAM files .. ok 449s 449s 2: cat recompressed BAM files .. ok 449s 450s 3: cat CRAM files .. ok 450s 450s 4: cat BAM files to stdout .. ok 450s 450s 5: cat recompressed BAM files to stdout .. ok 450s 450s 6: cat CRAM files to stdout .. ok 450s 450s 7: cat BAM files with new header .. ok 450s 450s 8: cat recompressed BAM files with new header .. ok 450s 451s 9: cat CRAM files with new header .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import -0 test/bam2fq/1.1.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/0.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import -s test/bam2fq/1.1.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/0.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import -s test/bam2fq/5.s.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/bam2fq/5.1.fq.expected test/bam2fq/5.2.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import -i -1 test/bam2fq/12.1.fq.expected -2 test/bam2fq/12.2.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -i --index-format 'i*i*' -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import --barcode-tag OX -i -1 test/bam2fq/12.1.fq.expected -2 test/bam2fq/12.2.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq --barcode-tag OX -i --index-format 'i*i*' -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import -T "" -1 test/bam2fq/6.1.fq.expected -2 test/bam2fq/6.2.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -T RG,BC,QT -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import -T "*" -1 test/bam2fq/7.1.fq.expected -2 test/bam2fq/7.2.fq.expected | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -T RG,BC,QT,MD,ia -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -R rgid 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -r ID:rgid 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -r '@RG ID:rgid' 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/import/2.interleaved.fq -T "" 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/import/3.interleaved.fq -i 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/import/4.aux.fq -T "*" 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/import/4.aux.fq -T "" 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import test/import/4.aux.fq -T XZ,XA,AA 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import --i1 test/import/5-i1.fq --i2 test/import/5-i2.fq --r1 test/import/5-r1.fq --r2 test/import/5-r2.fq 451s .. ok 451s 451s test_import: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools import --i1 test/import/5-i1.fq --i2 test/import/5-i2.fq --r1 test/import/5-r1.fq --r2 test/import/5-r2.fq --barcode-tag OX --quality-tag BZ 451s .. ok 451s 451s test_bam2fq: 451s Generate BAM file .. ok 451s 451s Generate CRAM file .. ok 451s 451s 1: fastq (SAM input) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 2: fastq -n (SAM input) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 3: fastq (BAM input) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 4: fastq -n (BAM input) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 5: fastq (CRAM input) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 6: fastq -n (CRAM input) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.002.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.003.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq --barcode-tag BC --index-format 'n2i2' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.004.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq --barcode-tag BC -O --index-format 'n2i2' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.004.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq --barcode-tag BC -O --index-format 'n2i2' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.010.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq --barcode-tag BC -N --index-format 'n*i*' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bc_split.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -t -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -t -T MD,ia -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq --barcode-tag BC -i --index-format 'n2i2' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/i.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.004.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq --barcode-tag BC -i --index-format 'i*i*' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/i.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -i --index-format 'i*i*' -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.703.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fasta -N -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fa -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -s /tmp/lVq3A0wV5Y/bam2fq.discard.s.fq -0 /tmp/lVq3A0wV5Y/bam2fq.discard.0.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -T ba,bb,bc,bd,be,bf,bg /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.013.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq --index-format 'i8n1i8' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/i1.fq --i2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/i2.fq -0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/0.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.014.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -T '' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -t -T '*' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -T '*' -d MD:10 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -T '*' -d NM:0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -N -T '*' -d ia /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s Generate BAM file (2 threads) .. ok 451s 451s Generate CRAM file (2 threads) .. ok 451s 451s 1: fastq (SAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 2: fastq -n (SAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 3: fastq (BAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 4: fastq -n (BAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 5: fastq (CRAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s 6: fastq -n (CRAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 451s [M::bam2fq_mainloop] processed 36 reads 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.002.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.003.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC --index-format 'n2i2' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.004.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -O --index-format 'n2i2' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.004.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -O --index-format 'n2i2' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.010.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -N --index-format 'n*i*' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bc_split.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -t -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -t -T MD,ia -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -i --index-format 'n2i2' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/i.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.004.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -i --index-format 'i*i*' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/i.fq -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -i --index-format 'i*i*' -s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.005.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.703.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fq -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fasta -@ 2 -N -1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fa -2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/o.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -s /tmp/lVq3A0wV5Y/bam2fq.discard.s.fq -0 /tmp/lVq3A0wV5Y/bam2fq.discard.0.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -T ba,bb,bc,bd,be,bf,bg /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.013.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 --index-format 'i8n1i8' --i1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/i1.fq --i2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/i2.fq -0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/0.fq /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.014.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -T '' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -t -T '*' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -T '*' -d MD:10 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 451s .. ok 451s 451s test_bam2fq: 451s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -T '*' -d NM:0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 452s .. ok 452s 452s test_bam2fq: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fastq -@ 2 -N -T '*' -d ia /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/bam2fq.001.sam 452s .. ok 452s 452s test_depad: 452s Generate BAM file .. ok 452s 452s depad (SAM input) .. ok 452s 452s depad -s (SAM input) .. ok 452s 452s depad -u (SAM input) .. ok 452s 452s depad -1 (SAM input) .. ok 452s 452s depad (BAM input) .. ok 452s 452s depad -s (BAM input) .. ok 452s 452s depad -u (BAM input) .. ok 452s 452s depad -1 (BAM input) .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/1_map_cigar.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/1_map_cigar_large.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/2_equal_cigar_full_seq.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/2_equal_cigar_full_seq_large.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/3_map_cigar_equal_seq.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/3_map_cigar_equal_seq_large.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/4_X_cigar_full_seq.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/4_X_cigar_full_seq_large.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/5_insert_cigar.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/5_insert_cigar_large.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa -i 0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/5_insert_cigar.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/7_supp.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/7_supp_large.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/8_secondary.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/8_secondary_large.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -S RG -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/1_map_cigar.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -S RG -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/10_map_cigar.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -t /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11.stats.targets /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11_target.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11_target.bam ref1:10-24 ref1:30-46 ref1:39-56 | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -g 4 -t /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11.stats.targets /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11_target.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -g 4 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11_target.bam ref1:10-24 ref1:30-46 ref1:39-56 | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/12_overlaps.bam -t /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/12_3reads.bed | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/12_overlaps.bam -p -t /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/12_3reads.bed | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/12_overlaps.bam -t /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/12_2reads.bed | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/12_overlaps.bam -p -t /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/12_2reads.bed | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/13_barcodes_ok.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/13_barcodes_ok_ox_bz.sam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/13_barcodes_fail_bc_length.sam | tail -n+4 452s 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/13.barcodes.fail.expected: No such file or directory 452s .. expected failure 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/13_barcodes_fail_hyphen.sam | tail -n+4 452s 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/13.barcodes.fail.expected: No such file or directory 452s .. expected failure 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/13_barcodes_fail_qt_length.sam | tail -n+4 452s 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/13.barcodes.fail.expected: No such file or directory 452s .. expected failure 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -I s1 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11_target.bam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -I grp2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11_target.bam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -I grp3 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11_target.bam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -I Sample /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/11_target.bam | tail -n+4 452s .. ok 452s 452s test_stats: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/mpileup/ce.fa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/stat/15.big_del.sam | tail -n+4 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_c.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_c.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -s 1 -O sam -b /tmp/hhaRqXjG6u - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -r -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_c.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -cp -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a_regex.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b_regex.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -o - -s 1 -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_c.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -s 1 -p -c -t PG -O SAM - /tmp/lVq3A0wV5Y/merge.tag.1.bam /tmp/lVq3A0wV5Y/merge.tag.2.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -s 1 -p -c -n -t PG -O SAM - /tmp/lVq3A0wV5Y/merge.tag.3.bam /tmp/lVq3A0wV5Y/merge.tag.4.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge --no-PG -O SAM - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/merge/test_no_pg_rg_co.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge --no-PG -O SAM -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/merge/merge.bed - /tmp/lVq3A0wV5Y/merge.bed.1.bam /tmp/lVq3A0wV5Y/merge.bed.2.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge --no-PG -r -O SAM - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/merge/test_no_pg_rg_co.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_c.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_c.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam -b /tmp/DmXbwt3SZn - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -r -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_c.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -cp -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a_regex.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b_regex.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -o - -s 1 -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_c.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -s 1 -p -c -t PG -O SAM - /tmp/lVq3A0wV5Y/merge.tag.1.bam /tmp/lVq3A0wV5Y/merge.tag.2.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 -s 1 -p -c -n -t PG -O SAM - /tmp/lVq3A0wV5Y/merge.tag.3.bam /tmp/lVq3A0wV5Y/merge.tag.4.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 --no-PG -O SAM - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/merge/test_no_pg_rg_co.sam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 --no-PG -O SAM -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/merge/merge.bed - /tmp/lVq3A0wV5Y/merge.bed.1.bam /tmp/lVq3A0wV5Y/merge.bed.2.bam 452s .. ok 452s 452s test_merge: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -@ 2 --no-PG -r -O SAM - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/merge/test_no_pg_rg_co.sam 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/lVq3A0wV5Y/sortout 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/lVq3A0wV5Y/sortout.bam 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/lVq3A0wV5Y/sorttmp 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -n -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -N -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -t RG -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -n -t RG -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -t AS -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -t FI -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort --template-coordinate -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/sort/template-coordinate.sort.sam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -M -K10 -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -M -K10 -I /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.ref.fa -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -MH -K10 -I /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.ref.fa -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/lVq3A0wV5Y/sortout 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/lVq3A0wV5Y/sortout.bam 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/lVq3A0wV5Y/sorttmp 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -n -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -N -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_b.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -t RG -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -n -t RG -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -t AS -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -t FI -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 --template-coordinate -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/sort/template-coordinate.sort.sam -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -M -K10 -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -M -K10 -I /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.ref.fa -O SAM -o - 452s .. ok 452s 452s test_sort: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -@ 2 -MH -K10 -I /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.ref.fa -O SAM -o - 452s .. ok 452s 452s test_collate: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate --output-fmt=sam -O /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam 452s .. ok 452s 452s test_collate: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/collate1.tmp.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam 452s .. ok 452s 452s test_collate: 452s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/collate2.tmp.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/collate2.tmp 453s .. ok 453s 453s test_collate: 453s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate --output-fmt=sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/collate3.tmp 453s .. ok 453s 453s test_collate: 453s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate --output-fmt=sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/fast_collate.sam -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/1_fast_collate.sam 453s .. ok 453s 453s test_collate: 453s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate --output-fmt=sam -f -r 4 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/fast_collate.sam -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/2_fast_collate_with_tmp.sam 453s .. ok 453s 453s test_collate: 453s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate -@ 2 --output-fmt=sam -O /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam 454s .. ok 454s 454s test_collate: 454s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate -@ 2 -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/collate1.tmp.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam 454s .. ok 454s 454s test_collate: 454s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate -@ 2 -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/collate2.tmp.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/collate2.tmp 455s .. ok 455s 455s test_collate: 455s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate -@ 2 --output-fmt=sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_d.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/collate3.tmp 456s .. ok 456s 456s test_collate: 456s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate -@ 2 --output-fmt=sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/fast_collate.sam -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/1_fast_collate.sam 457s .. ok 457s 457s test_collate: 457s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools collate -@ 2 --output-fmt=sam -f -r 4 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/fast_collate.sam -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/collate/2_fast_collate_with_tmp.sam 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/1_coord_sort.sam - 458s 458s ERR: [bam_mating_core] ERROR: Coordinate sorted, require grouped/sorted by queryname. 458s 458s .. expected failure 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -z off -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/2_isize_overflow.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/3_reverse_read_pp_lt.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/4_reverse_read_pp_equal.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -cO sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/5_ct.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -cO sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/6_ct_replace.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -z off -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/7_two_read_mapped.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -z off -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/8_isize_overflow_64bit.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/sanitize.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/1_coord_sort.sam - 458s 458s ERR: [bam_mating_core] ERROR: Coordinate sorted, require grouped/sorted by queryname. 458s 458s .. expected failure 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -z off -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/2_isize_overflow.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/3_reverse_read_pp_lt.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/4_reverse_read_pp_equal.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -cO sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/5_ct.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -cO sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/6_ct_replace.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -z off -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/7_two_read_mapped.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -z off -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/8_isize_overflow_64bit.sam - 458s .. ok 458s 458s test_fixmate: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -@ 2 -O sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/fixmate/sanitize.sam - 458s .. ok 458s 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools calmd -uAr /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.ref.fa 458s .. ok 458s 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools calmd -@ 2 -uAr /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.ref.fa 458s .. ok 458s 458s test_idxstat: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools idxstats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam 458s .. ok 458s 458s test_idxstat: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools idxstats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.cram 458s .. ok 458s 458s test_idxstat: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools idxstats /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.sam 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/1.quickcheck.badeof.bam 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/2.quickcheck.badheader.bam 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/3.quickcheck.ok.bam 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/4.quickcheck.ok.bam 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/5.quickcheck.scramble30.truncated.cram 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/6.quickcheck.cram21.ok.cram 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/7.quickcheck.cram30.ok.cram 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/8.quickcheck.cram21.truncated.cram 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/9.quickcheck.cram30.truncated.cram 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/10.quickcheck.notargets.bam 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck -v /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/1.quickcheck.badeof.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/2.quickcheck.badheader.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/3.quickcheck.ok.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/4.quickcheck.ok.bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/5.quickcheck.scramble30.truncated.cram /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/6.quickcheck.cram21.ok.cram /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/7.quickcheck.cram30.ok.cram /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/8.quickcheck.cram21.truncated.cram /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/9.quickcheck.cram30.truncated.cram /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/10.quickcheck.notargets.bam | sed 's,.*/quickcheck/,,' 458s .. ok 458s 458s test_quickcheck: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools quickcheck -uv /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/quickcheck/10.quickcheck.notargets.bam | sed 's,.*/quickcheck/,,' 458s .. ok 458s 458s test_reheader: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reheader /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.bam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 458s .. ok 458s 458s test_reheader: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reheader /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.v21.cram | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 458s .. ok 458s 458s test_reheader: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reheader /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.v30.cram | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 458s .. ok 458s 458s test_reheader: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reheader --in-place /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.v21.cram && /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.v21.cram | perl -pe 's/ VN:.*//' 458s .. ok 458s 458s test_reheader: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reheader --in-place /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.v30.cram && /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.v30.cram | perl -pe 's/ VN:.*//' 458s .. ok 458s 458s test_reheader: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reheader -c "sed 's/2014 Genome/2019 Genome/g'" /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.bam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 458s .. ok 458s 458s test_reheader: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reheader -c "sed 's/2014 Genome/2019 Genome/g'" /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/view.001.tmp.v30.cram | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -O sam -m overwrite_all /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/1_fixup.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -O sam -m orphan_only /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/2_fixup_orphan.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -O sam -R '1#9' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/1_fixup.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -O sam -r '@RG\tID:1#8\tCN:SC' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/4_fixup_norg.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -O sam -m overwrite_all -R '1#8' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/1_fixup.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -O sam -r 'ID:1#8' -r 'CN:SC' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/4_fixup_norg.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -O sam -w -r '@RG\tID:1#8\tCN:Sanger\tDS:Testing the editing code.' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/1_fixup.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -m overwrite_all /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/1_fixup.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -m orphan_only /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/2_fixup_orphan.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -R '1#9' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/1_fixup.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -r '@RG\tID:1#8\tCN:SC' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/4_fixup_norg.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -m overwrite_all -R '1#8' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/1_fixup.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -r 'ID:1#8' -r 'CN:SC' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/4_fixup_norg.sam 458s .. ok 458s 458s test_addrprg: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -w -r '@RG\tID:1#8\tCN:Sanger\tDS:Testing the editing code.' /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/addrprg/1_fixup.sam 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/1_name_sort.sam - 458s 458s ERR: samtools markdup: error, queryname sorted, must be sorted by coordinate. 458s 458s 458s .. expected failure 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/2_bad_order.sam - 458s 458s ERR: samtools markdup: error, not in coordinate sorted order. 458s 458s 458s .. expected failure 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/3_missing_mc.sam - 458s 458s ERR: samtools markdup: error, no MC tag. Please run samtools fixmate on file first. 458s 458s samtools markdup: error, unable to assign pair hash key. 458s 458s 458s .. expected failure 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/4_missing_ms.sam - 458s 458s ERR: samtools markdup: error, no ms score tag. Please run samtools fixmate on file first. 458s 458s samtools markdup: error, no ms score tag. Please run samtools fixmate on file first. 458s 458s 458s .. expected failure 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/5_markdup.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -O sam -r --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/6_remove_dups.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/7_mark_supp_dup.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/8_optical_dup.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 2500 --mode s -t --include-fails -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/9_optical_dup_qcfail.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 2500 --mode s -t -O sam --no-PG -S /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/10_optical_chain.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+):([[:digit:]]+)$' --no-PG -S /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/10_optical_chain.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+):([[:print:]]+)' --coords-order xyt --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/11_optical_dup_regex.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+)' --coords-order xy --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/11_optical_dup_regex.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+)$' --coords-order xy --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/12_optical_chain_regex.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t --barcode-tag BX -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/13_optical_barcode_tag.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t --barcode-name -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/14_optical_barcode_name.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t --barcode-rgx '^([!-9;-?A-~]+):[0-9]+:' --read-coords '^[!-9;-?A-~]+:([0-9]+):([0-9]+)' --coords-order xy -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/15_optical_barcode_rgx_name.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t --barcode-rgx '^([!-9;-?A-~]+):[0-9]+:' --read-coords '^[!-9;-?A-~]+:([0-9]{4})([0-9]{4})' --coords-order xy -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/16_optical_barcode_rgx_name_test_2.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -d 100 --mode s -t --use-read-groups -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/17_read_group.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup --mode t -t -O sam --no-PG --duplicate-count --barcode-tag BC -S /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/18_primary_duplicate_count.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/1_name_sort.sam - 458s 458s ERR: samtools markdup: error, queryname sorted, must be sorted by coordinate. 458s 458s 458s .. expected failure 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/2_bad_order.sam - 458s 458s ERR: samtools markdup: error, not in coordinate sorted order. 458s 458s 458s .. expected failure 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/3_missing_mc.sam - 458s 458s ERR: samtools markdup: error, no MC tag. Please run samtools fixmate on file first. 458s 458s samtools markdup: error, unable to assign pair hash key. 458s 458s 458s .. expected failure 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/4_missing_ms.sam - 458s 458s ERR: samtools markdup: error, no ms score tag. Please run samtools fixmate on file first. 458s 458s samtools markdup: error, no ms score tag. Please run samtools fixmate on file first. 458s 458s 458s .. expected failure 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/5_markdup.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -O sam -r --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/6_remove_dups.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/7_mark_supp_dup.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/8_optical_dup.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 2500 --mode s -t --include-fails -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/9_optical_dup_qcfail.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --no-PG -S /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/10_optical_chain.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+):([[:digit:]]+)$' --no-PG -S /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/10_optical_chain.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+):([[:print:]]+)' --coords-order xyt --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/11_optical_dup_regex.sam - 458s .. ok 458s 458s test_markdup: 458s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+)' --coords-order xy --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/11_optical_dup_regex.sam - 459s .. ok 459s 459s test_markdup: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+)$' --coords-order xy --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/12_optical_chain_regex.sam - 459s .. ok 459s 459s test_markdup: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t --barcode-tag BX -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/13_optical_barcode_tag.sam - 459s .. ok 459s 459s test_markdup: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t --barcode-name -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/14_optical_barcode_name.sam - 459s .. ok 459s 459s test_markdup: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t --barcode-rgx '^([!-9;-?A-~]+):[0-9]+:' --read-coords '^[!-9;-?A-~]+:([0-9]+):([0-9]+)' --coords-order xy -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/15_optical_barcode_rgx_name.sam - 459s .. ok 459s 459s test_markdup: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t --barcode-rgx '^([!-9;-?A-~]+):[0-9]+:' --read-coords '^[!-9;-?A-~]+:([0-9]{4})([0-9]{4})' --coords-order xy -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/16_optical_barcode_rgx_name_test_2.sam - 459s .. ok 459s 459s test_markdup: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 -d 100 --mode s -t --use-read-groups -O sam --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/17_read_group.sam - 459s .. ok 459s 459s test_markdup: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools markdup -@ 2 --mode t -t -O sam --no-PG --duplicate-count --barcode-tag BC -S /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/markdup/18_primary_duplicate_count.sam - 459s .. ok 459s 459s test_bedcov: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools bedcov /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bedcov/bedcov.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bedcov/bedcov.bam 459s .. ok 459s 459s test_bedcov: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools bedcov -j /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bedcov/bedcov.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bedcov/bedcov.bam 459s .. ok 459s 459s test_bedcov: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools bedcov -g512 -G2048 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bedcov/bedcov_gG.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bedcov/bedcov.bam 459s .. ok 459s 459s test_bedcov: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools bedcov -c /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bedcov/bedcov_gG.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/bedcov/bedcov.bam 459s .. ok 459s 459s test_split: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools split --output-fmt sam -u /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.sam 459s .. ok 459s 459s test_split: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools split --output-fmt sam -d RG -u /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.sam 459s .. ok 459s 459s test_split: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools split --output-fmt sam -d an -u /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.sam 459s .. ok 459s 459s test_split: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools split --output-fmt sam -d an -M 3 -u /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.sam 459s .. ok 459s 459s test_split: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools split -@ 2 --output-fmt sam -u /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.sam 459s .. ok 459s 459s test_split: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools split -@ 2 --output-fmt sam -d RG -u /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.sam 459s .. ok 459s 459s test_split: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools split -@ 2 --output-fmt sam -d an -u /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.sam 459s .. ok 459s 459s test_split: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools split -@ 2 --output-fmt sam -d an -M 3 -u /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/split/split.sam 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG /tmp/lVq3A0wV5Y/longref.sam.gz 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG /tmp/lVq3A0wV5Y/longref.sam.gz CHROMOSOME_I:10000000114-10000000168 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view -h --no-PG -L /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/large_pos/test.bed /tmp/lVq3A0wV5Y/longref.sam.gz 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -O sam --no-PG -m 10M /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/large_pos/longref_name.sam 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools merge -O sam --no-PG - /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/large_pos/longref.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/large_pos/longref2.sam 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools depth /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/large_pos/longref.sam 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools depth -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/large_pos/test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/large_pos/longref.sam 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools tview -d T -p CHROMOSOME_I:10000000000 /tmp/lVq3A0wV5Y/longref.sam.gz 459s .. ok 459s 459s test_large_positions: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -O sam --no-PG -n -m 10M test/large_pos/longref3.sam | 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools fixmate -O sam --no-PG - - | 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools sort -O sam --no-PG -m 10M 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --hard-clip -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --filter-len 185 -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --fail-len 185 -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --original -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --output-fmt=sam -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --both-ends -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/2_both_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip --no-PG --output-fmt=sam --hard-clip -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test2.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/4_total_hc_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --hard-clip -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --filter-len 185 -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --fail-len 185 -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --original -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --output-fmt=sam -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --both-ends -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/2_both_test_data.sam 459s .. ok 459s 459s test_ampliconclip: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --output-fmt=sam --hard-clip -b /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test2.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/4_total_hc_data.sam 459s .. ok 459s 459s test_ampliconstats: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconstats -@ 2 -S -t 50 -d 1,20,100 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_hard_clipped.expected.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_soft_clipped.expected.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/1_soft_clipped_strand.expected.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/2_both_clipped.expected.sam | grep -E -v 'Samtools version|Command line' 459s .. ok 459s 459s test_ampliconstats: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconstats -@ 2 -c 0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/multi_ref.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconstats/mixed_clipped.sam | grep -E -v 'Samtools version|Command line' 459s .. ok 459s 459s test_ampliconstats: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools ampliconstats -@ 2 -c 0 /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/ampliconstats/mixed_clipped.sam | grep -E -v 'Samtools version|Command line' 459s .. ok 459s 459s test_reset: 459s cat /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view 459s .. ok 459s 459s test_reset: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset < /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view 459s .. ok 459s 459s test_reset: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools view 459s .. ok 459s 459s test_reset: 459s cat /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam | /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam 459s .. ok 459s 459s test_reset: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.bam 459s .. ok 459s 459s test_reset: 459s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/test_input_1_a.cram 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa_index /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam; grep /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam -e"@PG ID:samtools PN:samtools" | wc -l | sed 's/ //g' 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG sam_to_fixed_bam /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam; grep /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam -e"@PG ID:" | wc -l | sed 's/ //g' 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa_index --no-PG /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam; grep /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output.tmp.sam -e"@PG" 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --keep-tag RG -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --keep-tag X0,MD -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --remove-tag X0,X1,MD --keep-tag X0,MD -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --remove-tag X0,X1,MD -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG -x X0,X1,MD -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --remove-tag ^X0,MD --keep-tag X1 -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output 460s .. ok 460s 460s test_reset: 460s /tmp/autopkgtest.84QegE/autopkgtest_tmp/samtools reset /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/seq.sam -o /tmp/autopkgtest.84QegE/autopkgtest_tmp/test/reset/output 460s .. ok 460s 460s 460s Number of tests: 460s total .. 894 460s passed .. 863 460s failed .. 0 460s expected failure .. 31 460s unexpected pass .. 0 460s 460s autopkgtest [03:36:05]: test run-unit-test: -----------------------] 461s run-unit-test PASS 461s autopkgtest [03:36:06]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 461s autopkgtest [03:36:06]: @@@@@@@@@@@@@@@@@@@@ summary 461s run-unit-test PASS 473s Creating nova instance adt-noble-s390x-samtools-20240328-032825-juju-7f2275-prod-proposed-migration-environment-2-fc2764d8-3de6-4bc5-b3f3-3948ae01cc15 from image adt/ubuntu-noble-s390x-server-20240327.img (UUID 4dc0c4c2-a3ae-40cd-8411-e7fc228c10ae)...