0s autopkgtest [22:31:03]: starting date and time: 2024-03-22 22:31:03+0000 0s autopkgtest [22:31:03]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [22:31:03]: host juju-7f2275-prod-proposed-migration-environment-4; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.98u7o1eo/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com\n" >> /etc/environment' --apt-pocket=proposed --apt-upgrade samtools --timeout-short=300 --timeout-copy=20000 --timeout-test=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=samtools/1.19.2-1build1 curl/8.5.0-2ubuntu7 gnutls28/3.8.3-1.1ubuntu2 htslib/1.19+ds-1.1build2 libpsl/0.21.2-1.1 nettle/3.9.1-2.2 openssl/3.0.13-0ubuntu2' -- lxd -r lxd-armhf-10.145.243.79 lxd-armhf-10.145.243.79:autopkgtest/ubuntu/noble/armhf 25s autopkgtest [22:31:28]: testbed dpkg architecture: armhf 27s autopkgtest [22:31:30]: testbed apt version: 2.7.12 27s autopkgtest [22:31:30]: @@@@@@@@@@@@@@@@@@@@ test bed setup 34s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 35s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 35s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [58.8 kB] 35s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [498 kB] 35s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [4004 kB] 35s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main armhf Packages [641 kB] 35s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main armhf c-n-f Metadata [2492 B] 35s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted armhf Packages [1372 B] 35s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted armhf c-n-f Metadata [116 B] 35s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf Packages [4091 kB] 35s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf c-n-f Metadata [7776 B] 35s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse armhf Packages [49.6 kB] 35s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse armhf c-n-f Metadata [116 B] 38s Fetched 9478 kB in 2s (4770 kB/s) 38s Reading package lists... 47s tee: /proc/self/fd/2: Permission denied 68s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 68s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 68s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 68s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 70s Reading package lists... 70s Reading package lists... 70s Building dependency tree... 70s Reading state information... 71s Calculating upgrade... 71s The following packages were automatically installed and are no longer required: 71s linux-headers-6.8.0-11 python3-lib2to3 71s Use 'apt autoremove' to remove them. 71s The following packages will be REMOVED: 71s libapt-pkg6.0 libarchive13 libatm1 libcurl3-gnutls libcurl4 libdb5.3 libelf1 71s libext2fs2 libgdbm-compat4 libgdbm6 libglib2.0-0 libgnutls30 libgpgme11 71s libhogweed6 libmagic1 libnetplan0 libnettle8 libnpth0 libnvme1 libparted2 71s libpcap0.8 libperl5.38 libpng16-16 libpsl5 libreadline8 libreiserfscore0 71s libssl3 libtirpc3 libuv1 linux-headers-6.8.0-11-generic python3-distutils 71s The following NEW packages will be installed: 71s libapt-pkg6.0t64 libarchive13t64 libatm1t64 libcurl3t64-gnutls libcurl4t64 71s libdb5.3t64 libelf1t64 libext2fs2t64 libgdbm-compat4t64 libgdbm6t64 71s libglib2.0-0t64 libgnutls30t64 libgpgme11t64 libhogweed6t64 libmagic1t64 71s libnetplan1 libnettle8t64 libnpth0t64 libnvme1t64 libparted2t64 71s libpcap0.8t64 libperl5.38t64 libpng16-16t64 libpsl5t64 libreadline8t64 71s libreiserfscore0t64 libssl3t64 libtirpc3t64 libuv1t64 linux-headers-6.8.0-20 71s linux-headers-6.8.0-20-generic xdg-user-dirs 71s The following packages have been kept back: 71s multipath-tools 71s The following packages will be upgraded: 71s apparmor apt apt-utils bind9-dnsutils bind9-host bind9-libs binutils 71s binutils-arm-linux-gnueabihf binutils-common bolt bsdextrautils bsdutils 71s btrfs-progs coreutils cryptsetup-bin curl dbus dbus-bin dbus-daemon 71s dbus-session-bus-common dbus-system-bus-common dbus-user-session dhcpcd-base 71s dirmngr dmsetup dpkg dpkg-dev e2fsprogs e2fsprogs-l10n eject fdisk file ftp 71s fwupd gawk gcc-13-base gcc-14-base gir1.2-girepository-2.0 gir1.2-glib-2.0 71s gnupg gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client gpgconf gpgsm gpgv 71s groff-base ibverbs-providers inetutils-telnet info initramfs-tools 71s initramfs-tools-bin initramfs-tools-core install-info iproute2 jq keyboxd 71s kmod kpartx krb5-locales libapparmor1 libaudit-common libaudit1 libbinutils 71s libblkid1 libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 71s libblockdev-mdraid3 libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 71s libblockdev-utils3 libblockdev3 libbpf1 libbrotli1 libbsd0 libc-bin libc6 71s libcap-ng0 libcom-err2 libcryptsetup12 libctf-nobfd0 libctf0 libdbus-1-3 71s libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libevent-core-2.1-7 71s libexpat1 libfdisk1 libfido2-1 libftdi1-2 libfwupd2 libgcc-s1 71s libgirepository-1.0-1 libglib2.0-data libgssapi-krb5-2 libgudev-1.0-0 71s libgusb2 libibverbs1 libjcat1 libjq1 libjson-glib-1.0-0 71s libjson-glib-1.0-common libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 71s libldap-common libldap2 liblocale-gettext-perl liblzma5 libmagic-mgc 71s libmbim-glib4 libmbim-proxy libmm-glib0 libmount1 libnghttp2-14 libnsl2 71s libnss-systemd libpam-modules libpam-modules-bin libpam-runtime 71s libpam-systemd libpam0g libplymouth5 libpolkit-agent-1-0 71s libpolkit-gobject-1-0 libprotobuf-c1 libpython3-stdlib libpython3.11-minimal 71s libpython3.11-stdlib libpython3.12-minimal libpython3.12-stdlib libqmi-glib5 71s libqmi-proxy libqrtr-glib0 librtmp1 libsasl2-2 libsasl2-modules 71s libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage2 71s libsframe1 libslang2 libsmartcols1 libsqlite3-0 libss2 libssh-4 libstdc++6 71s libsystemd-shared libsystemd0 libtext-charwidth-perl libtext-iconv-perl 71s libtirpc-common libudev1 libudisks2-0 libusb-1.0-0 libuuid1 libvolume-key1 71s libxml2 libxmlb2 libxmuu1 linux-headers-generic locales logsave lshw lsof 71s man-db mount mtr-tiny netplan-generator netplan.io openssh-client 71s openssh-server openssh-sftp-server openssl parted perl perl-base 71s perl-modules-5.38 pinentry-curses plymouth plymouth-theme-ubuntu-text psmisc 71s python-apt-common python3 python3-apt python3-cryptography python3-dbus 71s python3-gdbm python3-gi python3-lib2to3 python3-minimal python3-netplan 71s python3-pkg-resources python3-pyrsistent python3-setuptools 71s python3-typing-extensions python3-yaml python3.11 python3.11-minimal 71s python3.12 python3.12-minimal readline-common rsync shared-mime-info sudo 71s systemd systemd-dev systemd-resolved systemd-sysv systemd-timesyncd tcpdump 71s telnet tnftp ubuntu-pro-client ubuntu-pro-client-l10n udev udisks2 usb.ids 71s util-linux uuid-runtime vim-common vim-tiny wget xxd xz-utils zlib1g 71s 234 upgraded, 32 newly installed, 31 to remove and 1 not upgraded. 71s Need to get 106 MB of archives. 71s After this operation, 84.4 MB of additional disk space will be used. 71s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bsdutils armhf 1:2.39.3-9ubuntu2 [102 kB] 72s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gcc-14-base armhf 14-20240315-1ubuntu1 [47.0 kB] 72s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgcc-s1 armhf 14-20240315-1ubuntu1 [41.5 kB] 72s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libstdc++6 armhf 14-20240315-1ubuntu1 [714 kB] 72s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc6 armhf 2.39-0ubuntu6 [2827 kB] 72s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libbrotli1 armhf 1.1.0-2build1 [319 kB] 72s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgssapi-krb5-2 armhf 1.20.1-5.1ubuntu1 [119 kB] 72s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libkrb5-3 armhf 1.20.1-5.1ubuntu1 [321 kB] 72s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libkrb5support0 armhf 1.20.1-5.1ubuntu1 [31.4 kB] 72s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libk5crypto3 armhf 1.20.1-5.1ubuntu1 [78.6 kB] 72s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcom-err2 armhf 1.47.0-2.4~exp1ubuntu2 [21.9 kB] 72s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main armhf zlib1g armhf 1:1.3.dfsg-3.1ubuntu1 [49.2 kB] 72s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2build6 [51.3 kB] 72s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main armhf udisks2 armhf 2.10.1-6 [276 kB] 72s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libudisks2-0 armhf 2.10.1-6 [143 kB] 72s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblkid1 armhf 2.39.3-9ubuntu2 [160 kB] 72s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main armhf liblzma5 armhf 5.6.0-0.2 [117 kB] 72s Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main armhf kmod armhf 31+20240202-2ubuntu4 [91.8 kB] 72s Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libkmod2 armhf 31+20240202-2ubuntu4 [44.9 kB] 72s Get:20 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd-dev all 255.4-1ubuntu5 [103 kB] 72s Get:21 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd-timesyncd armhf 255.4-1ubuntu5 [36.0 kB] 72s Get:22 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dbus-session-bus-common all 1.14.10-4ubuntu2 [80.3 kB] 72s Get:23 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libaudit-common all 1:3.1.2-2.1 [5674 B] 72s Get:24 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcap-ng0 armhf 0.8.4-2build1 [13.5 kB] 72s Get:25 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libaudit1 armhf 1:3.1.2-2.1 [44.3 kB] 72s Get:26 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam0g armhf 1.5.3-5ubuntu3 [62.0 kB] 72s Get:27 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libselinux1 armhf 3.5-2ubuntu1 [70.9 kB] 72s Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcurl4t64 armhf 8.5.0-2ubuntu7 [296 kB] 72s Get:29 http://ftpmaster.internal/ubuntu noble-proposed/main armhf curl armhf 8.5.0-2ubuntu7 [219 kB] 72s Get:30 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpsl5t64 armhf 0.21.2-1.1 [55.7 kB] 72s Get:31 http://ftpmaster.internal/ubuntu noble-proposed/main armhf wget armhf 1.21.4-1ubuntu2 [317 kB] 72s Get:32 http://ftpmaster.internal/ubuntu noble-proposed/main armhf tnftp armhf 20230507-2build1 [98.6 kB] 72s Get:33 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpcap0.8t64 armhf 1.10.4-4.1ubuntu1 [137 kB] 72s Get:34 http://ftpmaster.internal/ubuntu noble-proposed/main armhf tcpdump armhf 4.99.4-3ubuntu2 [425 kB] 72s Get:35 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsystemd-shared armhf 255.4-1ubuntu5 [2009 kB] 72s Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd-resolved armhf 255.4-1ubuntu5 [289 kB] 72s Get:37 http://ftpmaster.internal/ubuntu noble-proposed/main armhf sudo armhf 1.9.15p5-3ubuntu3 [936 kB] 72s Get:38 http://ftpmaster.internal/ubuntu noble-proposed/main armhf rsync armhf 3.2.7-1build1 [413 kB] 72s Get:39 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-cryptography armhf 41.0.7-4build2 [788 kB] 72s Get:40 http://ftpmaster.internal/ubuntu noble-proposed/main armhf openssl armhf 3.0.13-0ubuntu2 [975 kB] 72s Get:41 http://ftpmaster.internal/ubuntu noble-proposed/main armhf openssh-sftp-server armhf 1:9.6p1-3ubuntu11 [35.5 kB] 72s Get:42 http://ftpmaster.internal/ubuntu noble-proposed/main armhf openssh-client armhf 1:9.6p1-3ubuntu11 [890 kB] 72s Get:43 http://ftpmaster.internal/ubuntu noble-proposed/main armhf openssh-server armhf 1:9.6p1-3ubuntu11 [503 kB] 72s Get:44 http://ftpmaster.internal/ubuntu noble-proposed/main armhf linux-headers-6.8.0-20 all 6.8.0-20.20 [13.6 MB] 73s Get:45 http://ftpmaster.internal/ubuntu noble-proposed/main armhf linux-headers-6.8.0-20-generic armhf 6.8.0-20.20 [1287 kB] 73s Get:46 http://ftpmaster.internal/ubuntu noble-proposed/main armhf linux-headers-generic armhf 6.8.0-20.20+1 [9610 B] 73s Get:47 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libssl3t64 armhf 3.0.13-0ubuntu2 [1558 kB] 73s Get:48 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnss-systemd armhf 255.4-1ubuntu5 [148 kB] 73s Get:49 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libudev1 armhf 255.4-1ubuntu5 [166 kB] 73s Get:50 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd armhf 255.4-1ubuntu5 [3502 kB] 73s Get:51 http://ftpmaster.internal/ubuntu noble-proposed/main armhf udev armhf 255.4-1ubuntu5 [1852 kB] 73s Get:52 http://ftpmaster.internal/ubuntu noble-proposed/main armhf systemd-sysv armhf 255.4-1ubuntu5 [11.9 kB] 73s Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam-systemd armhf 255.4-1ubuntu5 [216 kB] 73s Get:54 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsystemd0 armhf 255.4-1ubuntu5 [410 kB] 73s Get:55 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam-modules-bin armhf 1.5.3-5ubuntu3 [47.0 kB] 73s Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam-modules armhf 1.5.3-5ubuntu3 [261 kB] 73s Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpam-runtime all 1.5.3-5ubuntu3 [40.8 kB] 73s Get:58 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dbus-user-session armhf 1.14.10-4ubuntu2 [9962 B] 73s Get:59 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libapparmor1 armhf 4.0.0-beta3-0ubuntu2 [45.0 kB] 73s Get:60 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libexpat1 armhf 2.6.1-2 [65.9 kB] 73s Get:61 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dbus-system-bus-common all 1.14.10-4ubuntu2 [81.5 kB] 73s Get:62 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dbus-bin armhf 1.14.10-4ubuntu2 [37.1 kB] 73s Get:63 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dbus armhf 1.14.10-4ubuntu2 [28.1 kB] 73s Get:64 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dbus-daemon armhf 1.14.10-4ubuntu2 [109 kB] 73s Get:65 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdbus-1-3 armhf 1.14.10-4ubuntu2 [190 kB] 73s Get:66 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmount1 armhf 2.39.3-9ubuntu2 [171 kB] 73s Get:67 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libseccomp2 armhf 2.5.5-1ubuntu2 [49.5 kB] 73s Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdevmapper1.02.1 armhf 2:1.02.185-3ubuntu2 [135 kB] 73s Get:69 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libuuid1 armhf 2.39.3-9ubuntu2 [34.4 kB] 73s Get:70 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcryptsetup12 armhf 2:2.7.0-1ubuntu2 [238 kB] 73s Get:71 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libfdisk1 armhf 2.39.3-9ubuntu2 [196 kB] 73s Get:72 http://ftpmaster.internal/ubuntu noble-proposed/main armhf mount armhf 2.39.3-9ubuntu2 [134 kB] 73s Get:73 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev-utils3 armhf 3.1.0-1build1 [16.9 kB] 73s Get:74 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libvolume-key1 armhf 0.3.12-7build1 [38.4 kB] 73s Get:75 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libjcat1 armhf 0.2.0-2build2 [30.4 kB] 73s Get:76 http://ftpmaster.internal/ubuntu noble-proposed/main armhf parted armhf 3.6-3.1build2 [39.4 kB] 73s Get:77 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libparted2t64 armhf 3.6-3.1build2 [143 kB] 73s Get:78 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3.12 armhf 3.12.2-4build3 [645 kB] 73s Get:79 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3.12-minimal armhf 3.12.2-4build3 [1942 kB] 73s Get:80 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3.12-stdlib armhf 3.12.2-4build3 [1906 kB] 73s Get:81 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3.12-minimal armhf 3.12.2-4build3 [816 kB] 73s Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-5ubuntu1 [19.0 kB] 73s Get:83 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3.11 armhf 3.11.8-1build4 [589 kB] 73s Get:84 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3.11-minimal armhf 3.11.8-1build4 [1795 kB] 73s Get:85 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3.11-stdlib armhf 3.11.8-1build4 [1810 kB] 74s Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3.11-minimal armhf 3.11.8-1build4 [826 kB] 74s Get:87 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsqlite3-0 armhf 3.45.1-1ubuntu1 [599 kB] 74s Get:88 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtext-iconv-perl armhf 1.7-8build2 [12.7 kB] 74s Get:89 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtext-charwidth-perl armhf 0.04-11build2 [8962 B] 74s Get:90 http://ftpmaster.internal/ubuntu noble-proposed/main armhf perl-modules-5.38 all 5.38.2-3.2 [3110 kB] 74s Get:91 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdb5.3t64 armhf 5.3.28+dfsg2-6 [661 kB] 74s Get:92 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-gdbm armhf 3.12.2-3ubuntu2 [17.1 kB] 74s Get:93 http://ftpmaster.internal/ubuntu noble-proposed/main armhf man-db armhf 2.12.0-3build4 [1196 kB] 74s Get:94 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgdbm6t64 armhf 1.23-5.1 [30.3 kB] 74s Get:95 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgdbm-compat4t64 armhf 1.23-5.1 [6208 B] 74s Get:96 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libperl5.38t64 armhf 5.38.2-3.2 [4101 kB] 74s Get:97 http://ftpmaster.internal/ubuntu noble-proposed/main armhf perl armhf 5.38.2-3.2 [231 kB] 74s Get:98 http://ftpmaster.internal/ubuntu noble-proposed/main armhf perl-base armhf 5.38.2-3.2 [1671 kB] 74s Get:99 http://ftpmaster.internal/ubuntu noble-proposed/main armhf liblocale-gettext-perl armhf 1.07-6ubuntu4 [15.0 kB] 74s Get:100 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnettle8t64 armhf 3.9.1-2.2 [187 kB] 74s Get:101 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libhogweed6t64 armhf 3.9.1-2.2 [187 kB] 74s Get:102 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgnutls30t64 armhf 3.8.3-1.1ubuntu2 [1046 kB] 74s Get:103 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libldap2 armhf 2.6.7+dfsg-1~exp1ubuntu6 [172 kB] 74s Get:104 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libcurl3t64-gnutls armhf 8.5.0-2ubuntu7 [290 kB] 74s Get:105 http://ftpmaster.internal/ubuntu noble-proposed/main armhf shared-mime-info armhf 2.4-1build1 [470 kB] 74s Get:106 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gir1.2-girepository-2.0 armhf 1.79.1-1ubuntu6 [24.8 kB] 74s Get:107 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gir1.2-glib-2.0 armhf 2.79.3-3ubuntu5 [182 kB] 74s Get:108 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgirepository-1.0-1 armhf 1.79.1-1ubuntu6 [106 kB] 74s Get:109 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-gi armhf 3.47.0-3build1 [219 kB] 74s Get:110 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-dbus armhf 1.3.2-5build2 [94.7 kB] 74s Get:111 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnetplan1 armhf 1.0-1 [113 kB] 74s Get:112 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-netplan armhf 1.0-1 [22.5 kB] 75s Get:113 http://ftpmaster.internal/ubuntu noble-proposed/main armhf netplan-generator armhf 1.0-1 [58.7 kB] 75s Get:114 http://ftpmaster.internal/ubuntu noble-proposed/main armhf initramfs-tools-bin armhf 0.142ubuntu23 [20.3 kB] 75s Get:115 http://ftpmaster.internal/ubuntu noble-proposed/main armhf initramfs-tools-core all 0.142ubuntu23 [50.1 kB] 75s Get:116 http://ftpmaster.internal/ubuntu noble-proposed/main armhf initramfs-tools all 0.142ubuntu23 [9058 B] 75s Get:117 http://ftpmaster.internal/ubuntu noble-proposed/main armhf netplan.io armhf 1.0-1 [64.3 kB] 75s Get:118 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libxmlb2 armhf 0.3.15-1build1 [57.0 kB] 75s Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libqrtr-glib0 armhf 1.2.2-1ubuntu3 [15.4 kB] 75s Get:120 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libqmi-glib5 armhf 1.35.2-0ubuntu1 [908 kB] 75s Get:121 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libqmi-proxy armhf 1.35.2-0ubuntu1 [5732 B] 75s Get:122 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpolkit-agent-1-0 armhf 124-1ubuntu1 [15.3 kB] 75s Get:123 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpolkit-gobject-1-0 armhf 124-1ubuntu1 [44.1 kB] 75s Get:124 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libglib2.0-0t64 armhf 2.79.3-3ubuntu5 [1414 kB] 75s Get:125 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libfwupd2 armhf 1.9.15-1 [123 kB] 75s Get:126 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libarchive13t64 armhf 3.7.2-1.1ubuntu2 [330 kB] 75s Get:127 http://ftpmaster.internal/ubuntu noble-proposed/main armhf fwupd armhf 1.9.15-1 [4349 kB] 75s Get:128 http://ftpmaster.internal/ubuntu noble-proposed/main armhf apt-utils armhf 2.7.13ubuntu1 [210 kB] 75s Get:129 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libapt-pkg6.0t64 armhf 2.7.13ubuntu1 [986 kB] 75s Get:130 http://ftpmaster.internal/ubuntu noble-proposed/main armhf apt armhf 2.7.13ubuntu1 [1367 kB] 75s Get:131 http://ftpmaster.internal/ubuntu noble-proposed/main armhf ubuntu-pro-client-l10n armhf 31.2.1 [19.4 kB] 75s Get:132 http://ftpmaster.internal/ubuntu noble-proposed/main armhf ubuntu-pro-client armhf 31.2.1 [216 kB] 75s Get:133 http://ftpmaster.internal/ubuntu noble-proposed/main armhf keyboxd armhf 2.4.4-2ubuntu15 [111 kB] 75s Get:134 http://ftpmaster.internal/ubuntu noble/main armhf libnpth0t64 armhf 1.6-3.1 [6940 B] 75s Get:135 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpgv armhf 2.4.4-2ubuntu15 [224 kB] 75s Get:136 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpg armhf 2.4.4-2ubuntu15 [524 kB] 75s Get:137 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpg-wks-client armhf 2.4.4-2ubuntu15 [87.4 kB] 75s Get:138 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gnupg-utils armhf 2.4.4-2ubuntu15 [158 kB] 75s Get:139 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpg-agent armhf 2.4.4-2ubuntu15 [235 kB] 75s Get:140 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpgsm armhf 2.4.4-2ubuntu15 [241 kB] 75s Get:141 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libreadline8t64 armhf 8.2-3.1build1 [129 kB] 75s Get:142 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gawk armhf 1:5.2.1-2build2 [415 kB] 75s Get:143 http://ftpmaster.internal/ubuntu noble-proposed/main armhf fdisk armhf 2.39.3-9ubuntu2 [135 kB] 75s Get:144 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gpgconf armhf 2.4.4-2ubuntu15 [115 kB] 75s Get:145 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dirmngr armhf 2.4.4-2ubuntu15 [346 kB] 75s Get:146 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gnupg all 2.4.4-2ubuntu15 [359 kB] 75s Get:147 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-apt armhf 2.7.6build1 [162 kB] 75s Get:148 http://ftpmaster.internal/ubuntu noble-proposed/main armhf pinentry-curses armhf 1.2.1-3ubuntu4 [36.7 kB] 75s Get:149 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-yaml armhf 6.0.1-2build1 [117 kB] 75s Get:150 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python-apt-common all 2.7.6build1 [19.8 kB] 75s Get:151 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-setuptools all 68.1.2-2ubuntu1 [396 kB] 75s Get:152 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-pkg-resources all 68.1.2-2ubuntu1 [168 kB] 75s Get:153 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dpkg armhf 1.22.6ubuntu4 [1229 kB] 75s Get:154 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-minimal armhf 3.12.2-0ubuntu1 [27.1 kB] 75s Get:155 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3 armhf 3.12.2-0ubuntu1 [24.1 kB] 75s Get:156 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpython3-stdlib armhf 3.12.2-0ubuntu1 [9802 B] 75s Get:157 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsmartcols1 armhf 2.39.3-9ubuntu2 [117 kB] 75s Get:158 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bsdextrautils armhf 2.39.3-9ubuntu2 [78.7 kB] 75s Get:159 http://ftpmaster.internal/ubuntu noble-proposed/main armhf groff-base armhf 1.23.0-3build1 [946 kB] 75s Get:160 http://ftpmaster.internal/ubuntu noble-proposed/main armhf readline-common all 8.2-3.1build1 [56.5 kB] 75s Get:161 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgpgme11t64 armhf 1.18.0-4.1ubuntu3 [120 kB] 75s Get:162 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev-crypto3 armhf 3.1.0-1build1 [20.3 kB] 75s Get:163 http://ftpmaster.internal/ubuntu noble-proposed/main armhf e2fsprogs-l10n all 1.47.0-2.4~exp1ubuntu2 [5996 B] 75s Get:164 http://ftpmaster.internal/ubuntu noble-proposed/main armhf logsave armhf 1.47.0-2.4~exp1ubuntu2 [21.9 kB] 75s Get:165 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dhcpcd-base armhf 1:10.0.6-1ubuntu2 [186 kB] 75s Get:166 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev-fs3 armhf 3.1.0-1build1 [34.4 kB] 75s Get:167 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libreiserfscore0t64 armhf 1:3.6.27-7.1 [66.2 kB] 75s Get:168 http://ftpmaster.internal/ubuntu noble-proposed/main armhf btrfs-progs armhf 6.6.3-1.1build1 [852 kB] 75s Get:169 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libext2fs2t64 armhf 1.47.0-2.4~exp1ubuntu2 [201 kB] 75s Get:170 http://ftpmaster.internal/ubuntu noble-proposed/main armhf e2fsprogs armhf 1.47.0-2.4~exp1ubuntu2 [571 kB] 75s Get:171 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev-loop3 armhf 3.1.0-1build1 [6502 B] 75s Get:172 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev-mdraid3 armhf 3.1.0-1build1 [13.3 kB] 75s Get:173 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev-nvme3 armhf 3.1.0-1build1 [17.5 kB] 75s Get:174 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnvme1t64 armhf 1.8-3 [67.5 kB] 75s Get:175 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev-part3 armhf 3.1.0-1build1 [16.4 kB] 75s Get:176 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev-swap3 armhf 3.1.0-1build1 [8894 B] 75s Get:177 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libblockdev3 armhf 3.1.0-1build1 [42.9 kB] 75s Get:178 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgudev-1.0-0 armhf 1:238-3ubuntu2 [13.6 kB] 75s Get:179 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libxml2 armhf 2.9.14+dfsg-1.3ubuntu2 [595 kB] 76s Get:180 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libbpf1 armhf 1:1.3.0-2build1 [146 kB] 76s Get:181 http://ftpmaster.internal/ubuntu noble-proposed/main armhf iproute2 armhf 6.1.0-1ubuntu5 [1060 kB] 76s Get:182 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libelf1t64 armhf 0.190-1.1build2 [49.9 kB] 76s Get:183 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtirpc-common all 1.3.4+ds-1.1 [8018 B] 76s Get:184 http://ftpmaster.internal/ubuntu noble-proposed/main armhf lsof armhf 4.95.0-1build2 [248 kB] 76s Get:185 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnsl2 armhf 1.3.0-3build2 [36.5 kB] 76s Get:186 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libtirpc3t64 armhf 1.3.4+ds-1.1 [73.2 kB] 76s Get:187 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmbim-proxy armhf 1.31.2-0ubuntu2 [5748 B] 76s Get:188 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmbim-glib4 armhf 1.31.2-0ubuntu2 [216 kB] 76s Get:189 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libjson-glib-1.0-common all 1.8.0-2build1 [4210 B] 76s Get:190 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libjson-glib-1.0-0 armhf 1.8.0-2build1 [61.2 kB] 76s Get:191 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libnghttp2-14 armhf 1.59.0-1build1 [68.1 kB] 76s Get:192 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libssh-4 armhf 0.10.6-2build1 [169 kB] 76s Get:193 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libusb-1.0-0 armhf 2:1.0.27-1 [48.7 kB] 76s Get:194 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libgusb2 armhf 0.4.8-1build1 [34.6 kB] 76s Get:195 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmm-glib0 armhf 1.23.4-0ubuntu1 [214 kB] 76s Get:196 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libprotobuf-c1 armhf 1.4.1-1ubuntu3 [17.7 kB] 76s Get:197 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsasl2-2 armhf 2.1.28+dfsg1-5ubuntu1 [49.7 kB] 76s Get:198 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libibverbs1 armhf 50.0-2build1 [57.9 kB] 76s Get:199 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libfido2-1 armhf 1.14.0-1build1 [75.8 kB] 76s Get:200 http://ftpmaster.internal/ubuntu noble-proposed/main armhf coreutils armhf 9.4-3ubuntu3 [1280 kB] 76s Get:201 http://ftpmaster.internal/ubuntu noble-proposed/main armhf util-linux armhf 2.39.3-9ubuntu2 [1216 kB] 76s Get:202 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libc-bin armhf 2.39-0ubuntu6 [530 kB] 76s Get:203 http://ftpmaster.internal/ubuntu noble-proposed/main armhf file armhf 1:5.45-3 [21.1 kB] 76s Get:204 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmagic-mgc armhf 1:5.45-3 [307 kB] 76s Get:205 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libmagic1t64 armhf 1:5.45-3 [81.4 kB] 76s Get:206 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libplymouth5 armhf 24.004.60-1ubuntu6 [140 kB] 76s Get:207 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libpng16-16t64 armhf 1.6.43-3 [166 kB] 76s Get:208 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bind9-host armhf 1:9.18.24-0ubuntu3 [47.4 kB] 76s Get:209 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bind9-dnsutils armhf 1:9.18.24-0ubuntu3 [149 kB] 76s Get:210 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bind9-libs armhf 1:9.18.24-0ubuntu3 [1148 kB] 76s Get:211 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libuv1t64 armhf 1.48.0-1.1 [82.9 kB] 76s Get:212 http://ftpmaster.internal/ubuntu noble-proposed/main armhf uuid-runtime armhf 2.39.3-9ubuntu2 [41.7 kB] 76s Get:213 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdebconfclient0 armhf 0.271ubuntu2 [10.8 kB] 76s Get:214 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsemanage-common all 3.5-1build4 [10.1 kB] 76s Get:215 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsemanage2 armhf 3.5-1build4 [84.5 kB] 77s Get:216 http://ftpmaster.internal/ubuntu noble-proposed/main armhf install-info armhf 7.1-3build1 [60.5 kB] 77s Get:217 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gcc-13-base armhf 13.2.0-19ubuntu1 [47.7 kB] 77s Get:218 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libss2 armhf 1.47.0-2.4~exp1ubuntu2 [14.7 kB] 77s Get:219 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dmsetup armhf 2:1.02.185-3ubuntu2 [81.1 kB] 77s Get:220 http://ftpmaster.internal/ubuntu noble-proposed/main armhf eject armhf 2.39.3-9ubuntu2 [43.2 kB] 77s Get:221 http://ftpmaster.internal/ubuntu noble-proposed/main armhf krb5-locales all 1.20.1-5.1ubuntu1 [13.9 kB] 77s Get:222 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libbsd0 armhf 0.12.1-1 [36.6 kB] 77s Get:223 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libglib2.0-data all 2.79.3-3ubuntu5 [46.6 kB] 77s Get:224 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libslang2 armhf 2.3.3-3build1 [478 kB] 77s Get:225 http://ftpmaster.internal/ubuntu noble-proposed/main armhf locales all 2.39-0ubuntu6 [4232 kB] 77s Get:226 http://ftpmaster.internal/ubuntu noble-proposed/main armhf vim-tiny armhf 2:9.1.0016-1ubuntu5 [665 kB] 77s Get:227 http://ftpmaster.internal/ubuntu noble-proposed/main armhf vim-common all 2:9.1.0016-1ubuntu5 [385 kB] 77s Get:228 http://ftpmaster.internal/ubuntu noble/main armhf xdg-user-dirs armhf 0.18-1 [17.3 kB] 77s Get:229 http://ftpmaster.internal/ubuntu noble-proposed/main armhf xxd armhf 2:9.1.0016-1ubuntu5 [62.4 kB] 77s Get:230 http://ftpmaster.internal/ubuntu noble-proposed/main armhf apparmor armhf 4.0.0-beta3-0ubuntu2 [562 kB] 77s Get:231 http://ftpmaster.internal/ubuntu noble-proposed/main armhf ftp all 20230507-2build1 [4724 B] 77s Get:232 http://ftpmaster.internal/ubuntu noble-proposed/main armhf inetutils-telnet armhf 2:2.5-3ubuntu3 [90.7 kB] 77s Get:233 http://ftpmaster.internal/ubuntu noble-proposed/main armhf info armhf 7.1-3build1 [127 kB] 77s Get:234 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libxmuu1 armhf 2:1.1.3-3build1 [8004 B] 77s Get:235 http://ftpmaster.internal/ubuntu noble-proposed/main armhf lshw armhf 02.19.git.2021.06.19.996aaad9c7-2build2 [310 kB] 77s Get:236 http://ftpmaster.internal/ubuntu noble-proposed/main armhf mtr-tiny armhf 0.95-1.1build1 [51.7 kB] 77s Get:237 http://ftpmaster.internal/ubuntu noble-proposed/main armhf plymouth-theme-ubuntu-text armhf 24.004.60-1ubuntu6 [9818 B] 77s Get:238 http://ftpmaster.internal/ubuntu noble-proposed/main armhf plymouth armhf 24.004.60-1ubuntu6 [142 kB] 77s Get:239 http://ftpmaster.internal/ubuntu noble-proposed/main armhf psmisc armhf 23.7-1 [176 kB] 77s Get:240 http://ftpmaster.internal/ubuntu noble-proposed/main armhf telnet all 0.17+2.5-3ubuntu3 [3682 B] 77s Get:241 http://ftpmaster.internal/ubuntu noble-proposed/main armhf usb.ids all 2024.03.18-1 [223 kB] 77s Get:242 http://ftpmaster.internal/ubuntu noble-proposed/main armhf xz-utils armhf 5.6.0-0.2 [271 kB] 77s Get:243 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libctf0 armhf 2.42-4ubuntu1 [87.7 kB] 77s Get:244 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libctf-nobfd0 armhf 2.42-4ubuntu1 [88.0 kB] 77s Get:245 http://ftpmaster.internal/ubuntu noble-proposed/main armhf binutils-arm-linux-gnueabihf armhf 2.42-4ubuntu1 [2925 kB] 77s Get:246 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libbinutils armhf 2.42-4ubuntu1 [464 kB] 77s Get:247 http://ftpmaster.internal/ubuntu noble-proposed/main armhf binutils armhf 2.42-4ubuntu1 [3078 B] 77s Get:248 http://ftpmaster.internal/ubuntu noble-proposed/main armhf binutils-common armhf 2.42-4ubuntu1 [217 kB] 77s Get:249 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsframe1 armhf 2.42-4ubuntu1 [13.1 kB] 77s Get:250 http://ftpmaster.internal/ubuntu noble-proposed/main armhf bolt armhf 0.9.6-2build1 [138 kB] 77s Get:251 http://ftpmaster.internal/ubuntu noble-proposed/main armhf cryptsetup-bin armhf 2:2.7.0-1ubuntu2 [214 kB] 77s Get:252 http://ftpmaster.internal/ubuntu noble-proposed/main armhf dpkg-dev all 1.22.6ubuntu4 [1074 kB] 77s Get:253 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libdpkg-perl all 1.22.6ubuntu4 [268 kB] 77s Get:254 http://ftpmaster.internal/ubuntu noble-proposed/main armhf gnupg-l10n all 2.4.4-2ubuntu15 [65.8 kB] 77s Get:255 http://ftpmaster.internal/ubuntu noble-proposed/main armhf ibverbs-providers armhf 50.0-2build1 [27.4 kB] 77s Get:256 http://ftpmaster.internal/ubuntu noble-proposed/main armhf jq armhf 1.7.1-3 [65.2 kB] 77s Get:257 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libjq1 armhf 1.7.1-3 [156 kB] 77s Get:258 http://ftpmaster.internal/ubuntu noble/main armhf libatm1t64 armhf 1:2.5.1-5.1 [20.0 kB] 77s Get:259 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libevent-core-2.1-7 armhf 2.1.12-stable-9build1 [82.3 kB] 77s Get:260 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libftdi1-2 armhf 1.5-6build4 [25.7 kB] 77s Get:261 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libldap-common all 2.6.7+dfsg-1~exp1ubuntu6 [31.3 kB] 77s Get:262 http://ftpmaster.internal/ubuntu noble-proposed/main armhf libsasl2-modules armhf 2.1.28+dfsg1-5ubuntu1 [61.3 kB] 77s Get:263 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-lib2to3 all 3.12.2-3ubuntu2 [79.3 kB] 77s Get:264 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-pyrsistent armhf 0.20.0-1build1 [53.0 kB] 77s Get:265 http://ftpmaster.internal/ubuntu noble-proposed/main armhf python3-typing-extensions all 4.10.0-1 [60.7 kB] 77s Get:266 http://ftpmaster.internal/ubuntu noble-proposed/main armhf kpartx armhf 0.9.4-5ubuntu6 [31.5 kB] 78s Preconfiguring packages ... 79s Fetched 106 MB in 6s (17.1 MB/s) 79s (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 ... 58619 files and directories currently installed.) 79s Preparing to unpack .../bsdutils_1%3a2.39.3-9ubuntu2_armhf.deb ... 79s Unpacking bsdutils (1:2.39.3-9ubuntu2) over (1:2.39.3-6ubuntu2) ... 79s Setting up bsdutils (1:2.39.3-9ubuntu2) ... 79s (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 ... 58619 files and directories currently installed.) 79s Preparing to unpack .../gcc-14-base_14-20240315-1ubuntu1_armhf.deb ... 79s Unpacking gcc-14-base:armhf (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 79s Setting up gcc-14-base:armhf (14-20240315-1ubuntu1) ... 79s (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 ... 58619 files and directories currently installed.) 79s Preparing to unpack .../libgcc-s1_14-20240315-1ubuntu1_armhf.deb ... 79s Unpacking libgcc-s1:armhf (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 79s Setting up libgcc-s1:armhf (14-20240315-1ubuntu1) ... 79s (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 ... 58619 files and directories currently installed.) 79s Preparing to unpack .../libstdc++6_14-20240315-1ubuntu1_armhf.deb ... 79s Unpacking libstdc++6:armhf (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 79s Setting up libstdc++6:armhf (14-20240315-1ubuntu1) ... 79s (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 ... 58619 files and directories currently installed.) 79s Preparing to unpack .../libc6_2.39-0ubuntu6_armhf.deb ... 79s Unpacking libc6:armhf (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 80s Setting up libc6:armhf (2.39-0ubuntu6) ... 80s (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 ... 58619 files and directories currently installed.) 80s Preparing to unpack .../0-libbrotli1_1.1.0-2build1_armhf.deb ... 80s Unpacking libbrotli1:armhf (1.1.0-2build1) over (1.1.0-2) ... 80s Preparing to unpack .../1-libgssapi-krb5-2_1.20.1-5.1ubuntu1_armhf.deb ... 80s Unpacking libgssapi-krb5-2:armhf (1.20.1-5.1ubuntu1) over (1.20.1-5build1) ... 80s Preparing to unpack .../2-libkrb5-3_1.20.1-5.1ubuntu1_armhf.deb ... 80s Unpacking libkrb5-3:armhf (1.20.1-5.1ubuntu1) over (1.20.1-5build1) ... 80s Preparing to unpack .../3-libkrb5support0_1.20.1-5.1ubuntu1_armhf.deb ... 80s Unpacking libkrb5support0:armhf (1.20.1-5.1ubuntu1) over (1.20.1-5build1) ... 80s Preparing to unpack .../4-libk5crypto3_1.20.1-5.1ubuntu1_armhf.deb ... 80s Unpacking libk5crypto3:armhf (1.20.1-5.1ubuntu1) over (1.20.1-5build1) ... 80s Preparing to unpack .../5-libcom-err2_1.47.0-2.4~exp1ubuntu2_armhf.deb ... 80s Unpacking libcom-err2:armhf (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 80s Preparing to unpack .../6-zlib1g_1%3a1.3.dfsg-3.1ubuntu1_armhf.deb ... 80s Unpacking zlib1g:armhf (1:1.3.dfsg-3.1ubuntu1) over (1:1.3.dfsg-3ubuntu1) ... 80s Setting up zlib1g:armhf (1:1.3.dfsg-3.1ubuntu1) ... 80s (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 ... 58619 files and directories currently installed.) 80s Preparing to unpack .../librtmp1_2.4+20151223.gitfa8646d.1-2build6_armhf.deb ... 80s Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2build6) over (2.4+20151223.gitfa8646d.1-2build4) ... 80s Preparing to unpack .../udisks2_2.10.1-6_armhf.deb ... 80s Unpacking udisks2 (2.10.1-6) over (2.10.1-1ubuntu2) ... 80s Preparing to unpack .../libudisks2-0_2.10.1-6_armhf.deb ... 80s Unpacking libudisks2-0:armhf (2.10.1-6) over (2.10.1-1ubuntu2) ... 80s Preparing to unpack .../libblkid1_2.39.3-9ubuntu2_armhf.deb ... 80s Unpacking libblkid1:armhf (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 80s Setting up libblkid1:armhf (2.39.3-9ubuntu2) ... 80s (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 ... 58619 files and directories currently installed.) 80s Preparing to unpack .../liblzma5_5.6.0-0.2_armhf.deb ... 80s Unpacking liblzma5:armhf (5.6.0-0.2) over (5.4.5-0.3) ... 80s Setting up liblzma5:armhf (5.6.0-0.2) ... 81s (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 ... 58619 files and directories currently installed.) 81s Preparing to unpack .../0-kmod_31+20240202-2ubuntu4_armhf.deb ... 81s Unpacking kmod (31+20240202-2ubuntu4) over (30+20230601-2ubuntu1) ... 81s dpkg: warning: unable to delete old directory '/lib/modprobe.d': Directory not empty 81s Preparing to unpack .../1-libkmod2_31+20240202-2ubuntu4_armhf.deb ... 81s Unpacking libkmod2:armhf (31+20240202-2ubuntu4) over (30+20230601-2ubuntu1) ... 81s Preparing to unpack .../2-systemd-dev_255.4-1ubuntu5_all.deb ... 81s Unpacking systemd-dev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 81s Preparing to unpack .../3-systemd-timesyncd_255.4-1ubuntu5_armhf.deb ... 81s Unpacking systemd-timesyncd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 81s Preparing to unpack .../4-dbus-session-bus-common_1.14.10-4ubuntu2_all.deb ... 81s Unpacking dbus-session-bus-common (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 81s Preparing to unpack .../5-libaudit-common_1%3a3.1.2-2.1_all.deb ... 81s Unpacking libaudit-common (1:3.1.2-2.1) over (1:3.1.2-2) ... 81s Setting up libaudit-common (1:3.1.2-2.1) ... 81s (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 ... 58618 files and directories currently installed.) 81s Preparing to unpack .../libcap-ng0_0.8.4-2build1_armhf.deb ... 81s Unpacking libcap-ng0:armhf (0.8.4-2build1) over (0.8.4-2) ... 81s Setting up libcap-ng0:armhf (0.8.4-2build1) ... 81s (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 ... 58618 files and directories currently installed.) 81s Preparing to unpack .../libaudit1_1%3a3.1.2-2.1_armhf.deb ... 81s Unpacking libaudit1:armhf (1:3.1.2-2.1) over (1:3.1.2-2) ... 81s Setting up libaudit1:armhf (1:3.1.2-2.1) ... 81s (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 ... 58618 files and directories currently installed.) 81s Preparing to unpack .../libpam0g_1.5.3-5ubuntu3_armhf.deb ... 81s Unpacking libpam0g:armhf (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 81s Setting up libpam0g:armhf (1.5.3-5ubuntu3) ... 81s (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 ... 58618 files and directories currently installed.) 81s Preparing to unpack .../libselinux1_3.5-2ubuntu1_armhf.deb ... 81s Unpacking libselinux1:armhf (3.5-2ubuntu1) over (3.5-2build1) ... 81s Setting up libselinux1:armhf (3.5-2ubuntu1) ... 81s dpkg: libcurl4:armhf: dependency problems, but removing anyway as you requested: 81s curl depends on libcurl4 (= 8.5.0-2ubuntu2). 81s 81s (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 ... 58618 files and directories currently installed.) 81s Removing libcurl4:armhf (8.5.0-2ubuntu2) ... 81s Selecting previously unselected package libcurl4t64:armhf. 81s (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 ... 58613 files and directories currently installed.) 81s Preparing to unpack .../libcurl4t64_8.5.0-2ubuntu7_armhf.deb ... 81s Unpacking libcurl4t64:armhf (8.5.0-2ubuntu7) ... 81s Preparing to unpack .../curl_8.5.0-2ubuntu7_armhf.deb ... 81s Unpacking curl (8.5.0-2ubuntu7) over (8.5.0-2ubuntu2) ... 81s dpkg: libpsl5:armhf: dependency problems, but removing anyway as you requested: 81s wget depends on libpsl5 (>= 0.16.0). 81s libcurl3-gnutls:armhf depends on libpsl5 (>= 0.16.0). 81s 81s (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 ... 58619 files and directories currently installed.) 81s Removing libpsl5:armhf (0.21.2-1build1) ... 81s Selecting previously unselected package libpsl5t64:armhf. 81s (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 ... 58614 files and directories currently installed.) 81s Preparing to unpack .../libpsl5t64_0.21.2-1.1_armhf.deb ... 81s Unpacking libpsl5t64:armhf (0.21.2-1.1) ... 81s Preparing to unpack .../wget_1.21.4-1ubuntu2_armhf.deb ... 81s Unpacking wget (1.21.4-1ubuntu2) over (1.21.4-1ubuntu1) ... 82s Preparing to unpack .../tnftp_20230507-2build1_armhf.deb ... 82s Unpacking tnftp (20230507-2build1) over (20230507-2) ... 82s dpkg: libpcap0.8:armhf: dependency problems, but removing anyway as you requested: 82s tcpdump depends on libpcap0.8 (>= 1.9.1). 82s 82s (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 ... 58620 files and directories currently installed.) 82s Removing libpcap0.8:armhf (1.10.4-4ubuntu3) ... 82s Selecting previously unselected package libpcap0.8t64:armhf. 82s (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 ... 58609 files and directories currently installed.) 82s Preparing to unpack .../00-libpcap0.8t64_1.10.4-4.1ubuntu1_armhf.deb ... 82s Unpacking libpcap0.8t64:armhf (1.10.4-4.1ubuntu1) ... 82s Preparing to unpack .../01-tcpdump_4.99.4-3ubuntu2_armhf.deb ... 82s Unpacking tcpdump (4.99.4-3ubuntu2) over (4.99.4-3ubuntu1) ... 82s Preparing to unpack .../02-libsystemd-shared_255.4-1ubuntu5_armhf.deb ... 82s Unpacking libsystemd-shared:armhf (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 82s Preparing to unpack .../03-systemd-resolved_255.4-1ubuntu5_armhf.deb ... 82s Unpacking systemd-resolved (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 82s Preparing to unpack .../04-sudo_1.9.15p5-3ubuntu3_armhf.deb ... 82s Unpacking sudo (1.9.15p5-3ubuntu3) over (1.9.15p5-3ubuntu1) ... 82s Preparing to unpack .../05-rsync_3.2.7-1build1_armhf.deb ... 82s Unpacking rsync (3.2.7-1build1) over (3.2.7-1) ... 82s Preparing to unpack .../06-python3-cryptography_41.0.7-4build2_armhf.deb ... 82s Unpacking python3-cryptography (41.0.7-4build2) over (41.0.7-3) ... 82s Preparing to unpack .../07-openssl_3.0.13-0ubuntu2_armhf.deb ... 82s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 82s Preparing to unpack .../08-openssh-sftp-server_1%3a9.6p1-3ubuntu11_armhf.deb ... 82s Unpacking openssh-sftp-server (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 82s Preparing to unpack .../09-openssh-client_1%3a9.6p1-3ubuntu11_armhf.deb ... 82s Unpacking openssh-client (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 83s Preparing to unpack .../10-openssh-server_1%3a9.6p1-3ubuntu11_armhf.deb ... 83s Unpacking openssh-server (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 83s Selecting previously unselected package linux-headers-6.8.0-20. 83s Preparing to unpack .../11-linux-headers-6.8.0-20_6.8.0-20.20_all.deb ... 83s Unpacking linux-headers-6.8.0-20 (6.8.0-20.20) ... 86s Selecting previously unselected package linux-headers-6.8.0-20-generic. 86s Preparing to unpack .../12-linux-headers-6.8.0-20-generic_6.8.0-20.20_armhf.deb ... 86s Unpacking linux-headers-6.8.0-20-generic (6.8.0-20.20) ... 87s Preparing to unpack .../13-linux-headers-generic_6.8.0-20.20+1_armhf.deb ... 87s Unpacking linux-headers-generic (6.8.0-20.20+1) over (6.8.0-11.11+1) ... 87s (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 ... 89772 files and directories currently installed.) 87s Removing linux-headers-6.8.0-11-generic (6.8.0-11.11) ... 87s dpkg: libssl3:armhf: dependency problems, but removing anyway as you requested: 87s systemd depends on libssl3 (>= 3.0.0). 87s libssh-4:armhf depends on libssl3 (>= 3.0.0). 87s libsasl2-modules:armhf depends on libssl3 (>= 3.0.0). 87s libsasl2-2:armhf depends on libssl3 (>= 3.0.0). 87s libpython3.12-minimal:armhf depends on libssl3 (>= 3.0.0). 87s libpython3.11-minimal:armhf depends on libssl3 (>= 3.0.0). 87s libnvme1 depends on libssl3 (>= 3.0.0). 87s libfido2-1:armhf depends on libssl3 (>= 3.0.0). 87s libcryptsetup12:armhf depends on libssl3 (>= 3.0.0). 87s dhcpcd-base depends on libssl3 (>= 3.0.0). 87s bind9-libs:armhf depends on libssl3 (>= 3.0.0). 87s 87s Removing libssl3:armhf (3.0.10-1ubuntu4) ... 87s Selecting previously unselected package libssl3t64:armhf. 88s (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 ... 78622 files and directories currently installed.) 88s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_armhf.deb ... 88s Unpacking libssl3t64:armhf (3.0.13-0ubuntu2) ... 88s Setting up libssl3t64:armhf (3.0.13-0ubuntu2) ... 88s (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 ... 78635 files and directories currently installed.) 88s Preparing to unpack .../libnss-systemd_255.4-1ubuntu5_armhf.deb ... 88s Unpacking libnss-systemd:armhf (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 88s Preparing to unpack .../libudev1_255.4-1ubuntu5_armhf.deb ... 88s Unpacking libudev1:armhf (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 88s Setting up libudev1:armhf (255.4-1ubuntu5) ... 88s (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 ... 78635 files and directories currently installed.) 88s Preparing to unpack .../systemd_255.4-1ubuntu5_armhf.deb ... 88s Unpacking systemd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 89s Preparing to unpack .../udev_255.4-1ubuntu5_armhf.deb ... 89s Unpacking udev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 89s Preparing to unpack .../libsystemd0_255.4-1ubuntu5_armhf.deb ... 89s Unpacking libsystemd0:armhf (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 89s Setting up libsystemd0:armhf (255.4-1ubuntu5) ... 89s Setting up libkmod2:armhf (31+20240202-2ubuntu4) ... 89s Setting up libsystemd-shared:armhf (255.4-1ubuntu5) ... 89s Setting up systemd-dev (255.4-1ubuntu5) ... 89s Setting up systemd (255.4-1ubuntu5) ... 90s (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 ... 78635 files and directories currently installed.) 90s Preparing to unpack .../systemd-sysv_255.4-1ubuntu5_armhf.deb ... 90s Unpacking systemd-sysv (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 90s Preparing to unpack .../libpam-systemd_255.4-1ubuntu5_armhf.deb ... 90s Unpacking libpam-systemd:armhf (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 90s Preparing to unpack .../libpam-modules-bin_1.5.3-5ubuntu3_armhf.deb ... 90s Unpacking libpam-modules-bin (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 90s Setting up libpam-modules-bin (1.5.3-5ubuntu3) ... 90s pam_namespace.service is a disabled or a static unit not running, not starting it. 90s (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 ... 78635 files and directories currently installed.) 90s Preparing to unpack .../libpam-modules_1.5.3-5ubuntu3_armhf.deb ... 90s Unpacking libpam-modules:armhf (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 90s Setting up libpam-modules:armhf (1.5.3-5ubuntu3) ... 90s Installing new version of config file /etc/security/namespace.init ... 90s (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 ... 78633 files and directories currently installed.) 91s Preparing to unpack .../0-dbus-user-session_1.14.10-4ubuntu2_armhf.deb ... 91s Unpacking dbus-user-session (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 91s Preparing to unpack .../1-libapparmor1_4.0.0-beta3-0ubuntu2_armhf.deb ... 91s Unpacking libapparmor1:armhf (4.0.0-beta3-0ubuntu2) over (4.0.0~alpha4-0ubuntu1) ... 91s Preparing to unpack .../2-libexpat1_2.6.1-2_armhf.deb ... 91s Unpacking libexpat1:armhf (2.6.1-2) over (2.6.0-1) ... 91s Preparing to unpack .../3-dbus-system-bus-common_1.14.10-4ubuntu2_all.deb ... 91s Unpacking dbus-system-bus-common (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 91s Preparing to unpack .../4-dbus-bin_1.14.10-4ubuntu2_armhf.deb ... 91s Unpacking dbus-bin (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 91s Preparing to unpack .../5-dbus_1.14.10-4ubuntu2_armhf.deb ... 91s Unpacking dbus (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 91s Preparing to unpack .../6-dbus-daemon_1.14.10-4ubuntu2_armhf.deb ... 91s Unpacking dbus-daemon (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 91s Preparing to unpack .../7-libdbus-1-3_1.14.10-4ubuntu2_armhf.deb ... 91s Unpacking libdbus-1-3:armhf (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 91s Preparing to unpack .../8-libmount1_2.39.3-9ubuntu2_armhf.deb ... 91s Unpacking libmount1:armhf (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 91s Setting up libmount1:armhf (2.39.3-9ubuntu2) ... 91s (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 ... 78633 files and directories currently installed.) 91s Preparing to unpack .../libdevmapper1.02.1_2%3a1.02.185-3ubuntu2_armhf.deb ... 91s Unpacking libdevmapper1.02.1:armhf (2:1.02.185-3ubuntu2) over (2:1.02.185-3ubuntu1) ... 91s Preparing to unpack .../libuuid1_2.39.3-9ubuntu2_armhf.deb ... 91s Unpacking libuuid1:armhf (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 91s Setting up libuuid1:armhf (2.39.3-9ubuntu2) ... 91s (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 ... 78633 files and directories currently installed.) 91s Preparing to unpack .../0-libcryptsetup12_2%3a2.7.0-1ubuntu2_armhf.deb ... 91s Unpacking libcryptsetup12:armhf (2:2.7.0-1ubuntu2) over (2:2.7.0-1ubuntu1) ... 91s Preparing to unpack .../1-libfdisk1_2.39.3-9ubuntu2_armhf.deb ... 91s Unpacking libfdisk1:armhf (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 91s Preparing to unpack .../2-mount_2.39.3-9ubuntu2_armhf.deb ... 91s Unpacking mount (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 91s Preparing to unpack .../3-libblockdev-utils3_3.1.0-1build1_armhf.deb ... 91s Unpacking libblockdev-utils3:armhf (3.1.0-1build1) over (3.1.0-1) ... 91s Preparing to unpack .../4-libvolume-key1_0.3.12-7build1_armhf.deb ... 91s Unpacking libvolume-key1:armhf (0.3.12-7build1) over (0.3.12-5build2) ... 91s Preparing to unpack .../5-libjcat1_0.2.0-2build2_armhf.deb ... 91s Unpacking libjcat1:armhf (0.2.0-2build2) over (0.2.0-2) ... 92s (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 ... 78633 files and directories currently installed.) 92s Removing libgpgme11:armhf (1.18.0-4ubuntu1) ... 92s (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 ... 78627 files and directories currently installed.) 92s Preparing to unpack .../parted_3.6-3.1build2_armhf.deb ... 92s Unpacking parted (3.6-3.1build2) over (3.6-3) ... 92s (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 ... 78627 files and directories currently installed.) 92s Removing libparted2:armhf (3.6-3) ... 92s Selecting previously unselected package libparted2t64:armhf. 92s (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 ... 78621 files and directories currently installed.) 92s Preparing to unpack .../00-libparted2t64_3.6-3.1build2_armhf.deb ... 92s Unpacking libparted2t64:armhf (3.6-3.1build2) ... 92s Preparing to unpack .../01-python3.12_3.12.2-4build3_armhf.deb ... 92s Unpacking python3.12 (3.12.2-4build3) over (3.12.2-1) ... 92s Preparing to unpack .../02-python3.12-minimal_3.12.2-4build3_armhf.deb ... 92s Unpacking python3.12-minimal (3.12.2-4build3) over (3.12.2-1) ... 92s Preparing to unpack .../03-libpython3.12-stdlib_3.12.2-4build3_armhf.deb ... 92s Unpacking libpython3.12-stdlib:armhf (3.12.2-4build3) over (3.12.2-1) ... 92s Preparing to unpack .../04-libpython3.12-minimal_3.12.2-4build3_armhf.deb ... 92s Unpacking libpython3.12-minimal:armhf (3.12.2-4build3) over (3.12.2-1) ... 93s Preparing to unpack .../05-libsasl2-modules-db_2.1.28+dfsg1-5ubuntu1_armhf.deb ... 93s Unpacking libsasl2-modules-db:armhf (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 93s Preparing to unpack .../06-python3.11_3.11.8-1build4_armhf.deb ... 93s Unpacking python3.11 (3.11.8-1build4) over (3.11.8-1) ... 93s Preparing to unpack .../07-python3.11-minimal_3.11.8-1build4_armhf.deb ... 93s Unpacking python3.11-minimal (3.11.8-1build4) over (3.11.8-1) ... 93s Preparing to unpack .../08-libpython3.11-stdlib_3.11.8-1build4_armhf.deb ... 93s Unpacking libpython3.11-stdlib:armhf (3.11.8-1build4) over (3.11.8-1) ... 94s Preparing to unpack .../09-libpython3.11-minimal_3.11.8-1build4_armhf.deb ... 94s Unpacking libpython3.11-minimal:armhf (3.11.8-1build4) over (3.11.8-1) ... 94s Preparing to unpack .../10-libsqlite3-0_3.45.1-1ubuntu1_armhf.deb ... 94s Unpacking libsqlite3-0:armhf (3.45.1-1ubuntu1) over (3.45.1-1) ... 94s Preparing to unpack .../11-libtext-iconv-perl_1.7-8build2_armhf.deb ... 94s Unpacking libtext-iconv-perl:armhf (1.7-8build2) over (1.7-8build1) ... 94s Preparing to unpack .../12-libtext-charwidth-perl_0.04-11build2_armhf.deb ... 94s Unpacking libtext-charwidth-perl:armhf (0.04-11build2) over (0.04-11build1) ... 94s Preparing to unpack .../13-perl-modules-5.38_5.38.2-3.2_all.deb ... 94s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ... 95s dpkg: libperl5.38:armhf: dependency problems, but removing anyway as you requested: 95s perl depends on libperl5.38 (= 5.38.2-3). 95s 95s (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 ... 78624 files and directories currently installed.) 95s Removing libperl5.38:armhf (5.38.2-3) ... 95s dpkg: libdb5.3:armhf: dependency problems, but removing anyway as you requested: 95s iproute2 depends on libdb5.3. 95s apt-utils depends on libdb5.3. 95s 95s Removing libdb5.3:armhf (5.3.28+dfsg2-4) ... 95s Selecting previously unselected package libdb5.3t64:armhf. 95s (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 ... 78099 files and directories currently installed.) 95s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-6_armhf.deb ... 95s Unpacking libdb5.3t64:armhf (5.3.28+dfsg2-6) ... 95s Preparing to unpack .../python3-gdbm_3.12.2-3ubuntu2_armhf.deb ... 95s Unpacking python3-gdbm:armhf (3.12.2-3ubuntu2) over (3.11.5-1) ... 95s Preparing to unpack .../man-db_2.12.0-3build4_armhf.deb ... 95s Unpacking man-db (2.12.0-3build4) over (2.12.0-3) ... 96s (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 ... 78105 files and directories currently installed.) 96s Removing libgdbm-compat4:armhf (1.23-5) ... 96s Removing libgdbm6:armhf (1.23-5) ... 96s Selecting previously unselected package libgdbm6t64:armhf. 96s (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 ... 78095 files and directories currently installed.) 96s Preparing to unpack .../libgdbm6t64_1.23-5.1_armhf.deb ... 96s Unpacking libgdbm6t64:armhf (1.23-5.1) ... 96s Selecting previously unselected package libgdbm-compat4t64:armhf. 96s Preparing to unpack .../libgdbm-compat4t64_1.23-5.1_armhf.deb ... 96s Unpacking libgdbm-compat4t64:armhf (1.23-5.1) ... 96s Selecting previously unselected package libperl5.38t64:armhf. 96s Preparing to unpack .../libperl5.38t64_5.38.2-3.2_armhf.deb ... 96s Unpacking libperl5.38t64:armhf (5.38.2-3.2) ... 96s Preparing to unpack .../perl_5.38.2-3.2_armhf.deb ... 96s Unpacking perl (5.38.2-3.2) over (5.38.2-3) ... 97s Preparing to unpack .../perl-base_5.38.2-3.2_armhf.deb ... 97s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ... 97s Setting up perl-base (5.38.2-3.2) ... 97s (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 ... 78626 files and directories currently installed.) 97s Preparing to unpack .../liblocale-gettext-perl_1.07-6ubuntu4_armhf.deb ... 97s Unpacking liblocale-gettext-perl (1.07-6ubuntu4) over (1.07-6build1) ... 97s dpkg: libnettle8:armhf: dependency problems, but removing anyway as you requested: 97s libhogweed6:armhf depends on libnettle8. 97s libgnutls30:armhf depends on libnettle8 (>= 3.9~). 97s libcurl3-gnutls:armhf depends on libnettle8. 97s libarchive13:armhf depends on libnettle8. 97s 97s (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 ... 78626 files and directories currently installed.) 97s Removing libnettle8:armhf (3.9.1-2) ... 97s Selecting previously unselected package libnettle8t64:armhf. 97s (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 ... 78619 files and directories currently installed.) 97s Preparing to unpack .../libnettle8t64_3.9.1-2.2_armhf.deb ... 97s Unpacking libnettle8t64:armhf (3.9.1-2.2) ... 97s Setting up libnettle8t64:armhf (3.9.1-2.2) ... 97s dpkg: libhogweed6:armhf: dependency problems, but removing anyway as you requested: 97s libgnutls30:armhf depends on libhogweed6 (>= 3.6). 97s 97s (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 ... 78627 files and directories currently installed.) 97s Removing libhogweed6:armhf (3.9.1-2) ... 97s Selecting previously unselected package libhogweed6t64:armhf. 97s (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 ... 78622 files and directories currently installed.) 97s Preparing to unpack .../libhogweed6t64_3.9.1-2.2_armhf.deb ... 97s Unpacking libhogweed6t64:armhf (3.9.1-2.2) ... 97s Setting up libhogweed6t64:armhf (3.9.1-2.2) ... 97s dpkg: libgnutls30:armhf: dependency problems, but removing anyway as you requested: 97s libldap2:armhf depends on libgnutls30 (>= 3.8.2). 97s libcurl3-gnutls:armhf depends on libgnutls30 (>= 3.8.2). 97s fwupd depends on libgnutls30 (>= 3.7.3). 97s dirmngr depends on libgnutls30 (>= 3.8.1). 97s apt depends on libgnutls30 (>= 3.8.1). 97s 97s (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 ... 78628 files and directories currently installed.) 97s Removing libgnutls30:armhf (3.8.3-1ubuntu1) ... 97s Selecting previously unselected package libgnutls30t64:armhf. 97s (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 ... 78619 files and directories currently installed.) 97s Preparing to unpack .../libgnutls30t64_3.8.3-1.1ubuntu2_armhf.deb ... 97s Unpacking libgnutls30t64:armhf (3.8.3-1.1ubuntu2) ... 97s Setting up libgnutls30t64:armhf (3.8.3-1.1ubuntu2) ... 98s (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 ... 78647 files and directories currently installed.) 98s Preparing to unpack .../libldap2_2.6.7+dfsg-1~exp1ubuntu6_armhf.deb ... 98s Unpacking libldap2:armhf (2.6.7+dfsg-1~exp1ubuntu6) over (2.6.7+dfsg-1~exp1ubuntu1) ... 98s dpkg: libcurl3-gnutls:armhf: dependency problems, but removing anyway as you requested: 98s libfwupd2:armhf depends on libcurl3-gnutls (>= 7.63.0). 98s fwupd depends on libcurl3-gnutls (>= 7.63.0). 98s 98s (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 ... 78647 files and directories currently installed.) 98s Removing libcurl3-gnutls:armhf (8.5.0-2ubuntu2) ... 98s Selecting previously unselected package libcurl3t64-gnutls:armhf. 98s (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 ... 78640 files and directories currently installed.) 98s Preparing to unpack .../00-libcurl3t64-gnutls_8.5.0-2ubuntu7_armhf.deb ... 98s Unpacking libcurl3t64-gnutls:armhf (8.5.0-2ubuntu7) ... 98s Preparing to unpack .../01-shared-mime-info_2.4-1build1_armhf.deb ... 98s Unpacking shared-mime-info (2.4-1build1) over (2.4-1) ... 98s Preparing to unpack .../02-gir1.2-girepository-2.0_1.79.1-1ubuntu6_armhf.deb ... 98s Unpacking gir1.2-girepository-2.0:armhf (1.79.1-1ubuntu6) over (1.79.1-1) ... 98s Preparing to unpack .../03-gir1.2-glib-2.0_2.79.3-3ubuntu5_armhf.deb ... 98s Unpacking gir1.2-glib-2.0:armhf (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 98s Preparing to unpack .../04-libgirepository-1.0-1_1.79.1-1ubuntu6_armhf.deb ... 98s Unpacking libgirepository-1.0-1:armhf (1.79.1-1ubuntu6) over (1.79.1-1) ... 98s Preparing to unpack .../05-python3-gi_3.47.0-3build1_armhf.deb ... 98s Unpacking python3-gi (3.47.0-3build1) over (3.47.0-3) ... 98s Preparing to unpack .../06-python3-dbus_1.3.2-5build2_armhf.deb ... 99s Unpacking python3-dbus (1.3.2-5build2) over (1.3.2-5build1) ... 99s Selecting previously unselected package libnetplan1:armhf. 99s Preparing to unpack .../07-libnetplan1_1.0-1_armhf.deb ... 99s Unpacking libnetplan1:armhf (1.0-1) ... 99s Preparing to unpack .../08-python3-netplan_1.0-1_armhf.deb ... 99s Unpacking python3-netplan (1.0-1) over (0.107.1-3) ... 99s Preparing to unpack .../09-netplan-generator_1.0-1_armhf.deb ... 99s Adding 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 99s Unpacking netplan-generator (1.0-1) over (0.107.1-3) ... 99s Preparing to unpack .../10-initramfs-tools-bin_0.142ubuntu23_armhf.deb ... 99s Unpacking initramfs-tools-bin (0.142ubuntu23) over (0.142ubuntu20) ... 99s Preparing to unpack .../11-initramfs-tools-core_0.142ubuntu23_all.deb ... 99s Unpacking initramfs-tools-core (0.142ubuntu23) over (0.142ubuntu20) ... 99s Preparing to unpack .../12-initramfs-tools_0.142ubuntu23_all.deb ... 99s Unpacking initramfs-tools (0.142ubuntu23) over (0.142ubuntu20) ... 99s Preparing to unpack .../13-netplan.io_1.0-1_armhf.deb ... 99s Unpacking netplan.io (1.0-1) over (0.107.1-3) ... 99s Preparing to unpack .../14-libxmlb2_0.3.15-1build1_armhf.deb ... 99s Unpacking libxmlb2:armhf (0.3.15-1build1) over (0.3.15-1) ... 99s Preparing to unpack .../15-libqrtr-glib0_1.2.2-1ubuntu3_armhf.deb ... 99s Unpacking libqrtr-glib0:armhf (1.2.2-1ubuntu3) over (1.2.2-1ubuntu2) ... 99s Preparing to unpack .../16-libqmi-glib5_1.35.2-0ubuntu1_armhf.deb ... 99s Unpacking libqmi-glib5:armhf (1.35.2-0ubuntu1) over (1.34.0-2) ... 99s Preparing to unpack .../17-libqmi-proxy_1.35.2-0ubuntu1_armhf.deb ... 99s Unpacking libqmi-proxy (1.35.2-0ubuntu1) over (1.34.0-2) ... 99s Preparing to unpack .../18-libpolkit-agent-1-0_124-1ubuntu1_armhf.deb ... 99s Unpacking libpolkit-agent-1-0:armhf (124-1ubuntu1) over (124-1) ... 99s Preparing to unpack .../19-libpolkit-gobject-1-0_124-1ubuntu1_armhf.deb ... 99s Unpacking libpolkit-gobject-1-0:armhf (124-1ubuntu1) over (124-1) ... 99s (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 ... 78651 files and directories currently installed.) 99s Removing libnetplan0:armhf (0.107.1-3) ... 99s dpkg: libglib2.0-0:armhf: dependency problems, but removing anyway as you requested: 99s libmm-glib0:armhf depends on libglib2.0-0 (>= 2.62.0). 99s libmbim-proxy depends on libglib2.0-0 (>= 2.56). 99s libmbim-glib4:armhf depends on libglib2.0-0 (>= 2.56). 99s libjson-glib-1.0-0:armhf depends on libglib2.0-0 (>= 2.75.3). 99s libgusb2:armhf depends on libglib2.0-0 (>= 2.75.3). 99s libgudev-1.0-0:armhf depends on libglib2.0-0 (>= 2.38.0). 99s libfwupd2:armhf depends on libglib2.0-0 (>= 2.79.0). 99s libblockdev3:armhf depends on libglib2.0-0 (>= 2.42.2). 99s libblockdev-swap3:armhf depends on libglib2.0-0 (>= 2.42.2). 99s libblockdev-part3:armhf depends on libglib2.0-0 (>= 2.42.2). 99s libblockdev-nvme3:armhf depends on libglib2.0-0 (>= 2.42.2). 99s libblockdev-mdraid3:armhf depends on libglib2.0-0 (>= 2.42.2). 99s libblockdev-loop3:armhf depends on libglib2.0-0 (>= 2.42.2). 99s libblockdev-fs3:armhf depends on libglib2.0-0 (>= 2.42.2). 99s libblockdev-crypto3:armhf depends on libglib2.0-0 (>= 2.42.2). 99s fwupd depends on libglib2.0-0 (>= 2.79.0). 99s bolt depends on libglib2.0-0 (>= 2.56.0). 99s 99s Removing libglib2.0-0:armhf (2.79.2-1~ubuntu1) ... 99s Selecting previously unselected package libglib2.0-0t64:armhf. 99s (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 ... 78622 files and directories currently installed.) 99s Preparing to unpack .../libglib2.0-0t64_2.79.3-3ubuntu5_armhf.deb ... 99s libglib2.0-0t64.preinst: Removing /var/lib/dpkg/info/libglib2.0-0:armhf.postrm to avoid loss of /usr/share/glib-2.0/schemas/gschemas.compiled... 99s removed '/var/lib/dpkg/info/libglib2.0-0:armhf.postrm' 99s Unpacking libglib2.0-0t64:armhf (2.79.3-3ubuntu5) ... 99s Preparing to unpack .../libfwupd2_1.9.15-1_armhf.deb ... 99s Unpacking libfwupd2:armhf (1.9.15-1) over (1.9.14-1) ... 99s dpkg: libarchive13:armhf: dependency problems, but removing anyway as you requested: 99s fwupd depends on libarchive13 (>= 3.2.1). 99s 99s (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 ... 78647 files and directories currently installed.) 99s Removing libarchive13:armhf (3.7.2-1ubuntu2) ... 99s Selecting previously unselected package libarchive13t64:armhf. 99s (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 ... 78641 files and directories currently installed.) 99s Preparing to unpack .../libarchive13t64_3.7.2-1.1ubuntu2_armhf.deb ... 99s Unpacking libarchive13t64:armhf (3.7.2-1.1ubuntu2) ... 100s Preparing to unpack .../fwupd_1.9.15-1_armhf.deb ... 100s Unpacking fwupd (1.9.15-1) over (1.9.14-1) ... 100s Preparing to unpack .../apt-utils_2.7.13ubuntu1_armhf.deb ... 100s Unpacking apt-utils (2.7.13ubuntu1) over (2.7.12) ... 100s dpkg: libapt-pkg6.0:armhf: dependency problems, but removing anyway as you requested: 100s ubuntu-pro-client depends on libapt-pkg6.0 (>= 1.9~). 100s python3-apt depends on libapt-pkg6.0 (>= 2.7.11). 100s apt depends on libapt-pkg6.0 (>= 2.7.12). 100s 100s (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 ... 78648 files and directories currently installed.) 100s Removing libapt-pkg6.0:armhf (2.7.12) ... 100s Selecting previously unselected package libapt-pkg6.0t64:armhf. 100s (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 ... 78599 files and directories currently installed.) 100s Preparing to unpack .../libapt-pkg6.0t64_2.7.13ubuntu1_armhf.deb ... 100s Unpacking libapt-pkg6.0t64:armhf (2.7.13ubuntu1) ... 100s Setting up libapt-pkg6.0t64:armhf (2.7.13ubuntu1) ... 100s (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 ... 78649 files and directories currently installed.) 100s Preparing to unpack .../apt_2.7.13ubuntu1_armhf.deb ... 100s Unpacking apt (2.7.13ubuntu1) over (2.7.12) ... 100s Setting up apt (2.7.13ubuntu1) ... 101s (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 ... 78649 files and directories currently installed.) 101s Preparing to unpack .../ubuntu-pro-client-l10n_31.2.1_armhf.deb ... 101s Unpacking ubuntu-pro-client-l10n (31.2.1) over (31.1) ... 101s Preparing to unpack .../ubuntu-pro-client_31.2.1_armhf.deb ... 101s Unpacking ubuntu-pro-client (31.2.1) over (31.1) ... 101s Preparing to unpack .../keyboxd_2.4.4-2ubuntu15_armhf.deb ... 101s Unpacking keyboxd (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 101s dpkg: libnpth0:armhf: dependency problems, but removing anyway as you requested: 101s gpgv depends on libnpth0 (>= 0.90). 101s gpgsm depends on libnpth0 (>= 0.90). 101s gpg-agent depends on libnpth0 (>= 0.90). 101s gpg depends on libnpth0 (>= 0.90). 101s dirmngr depends on libnpth0 (>= 0.90). 101s 101s (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 ... 78649 files and directories currently installed.) 101s Removing libnpth0:armhf (1.6-3build2) ... 101s Selecting previously unselected package libnpth0t64:armhf. 101s (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 ... 78644 files and directories currently installed.) 101s Preparing to unpack .../libnpth0t64_1.6-3.1_armhf.deb ... 101s Unpacking libnpth0t64:armhf (1.6-3.1) ... 101s Setting up libnpth0t64:armhf (1.6-3.1) ... 101s (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 ... 78650 files and directories currently installed.) 101s Preparing to unpack .../gpgv_2.4.4-2ubuntu15_armhf.deb ... 101s Unpacking gpgv (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 101s Setting up gpgv (2.4.4-2ubuntu15) ... 102s (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 ... 78650 files and directories currently installed.) 102s Preparing to unpack .../gpg_2.4.4-2ubuntu15_armhf.deb ... 102s Unpacking gpg (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 102s Preparing to unpack .../gpg-wks-client_2.4.4-2ubuntu15_armhf.deb ... 102s Unpacking gpg-wks-client (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 102s Preparing to unpack .../gnupg-utils_2.4.4-2ubuntu15_armhf.deb ... 102s Unpacking gnupg-utils (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 102s Preparing to unpack .../gpg-agent_2.4.4-2ubuntu15_armhf.deb ... 102s Unpacking gpg-agent (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 102s Preparing to unpack .../gpgsm_2.4.4-2ubuntu15_armhf.deb ... 102s Unpacking gpgsm (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 102s dpkg: libreadline8:armhf: dependency problems, but removing anyway as you requested: 102s gpgconf depends on libreadline8 (>= 6.0). 102s gawk depends on libreadline8 (>= 6.0). 102s fdisk depends on libreadline8 (>= 6.0). 102s 102s (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 ... 78650 files and directories currently installed.) 102s Removing libreadline8:armhf (8.2-3) ... 102s Selecting previously unselected package libreadline8t64:armhf. 102s (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 ... 78638 files and directories currently installed.) 102s Preparing to unpack .../libreadline8t64_8.2-3.1build1_armhf.deb ... 102s Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' 102s Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' 102s Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' 102s Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' 102s Unpacking libreadline8t64:armhf (8.2-3.1build1) ... 102s Setting up libreadline8t64:armhf (8.2-3.1build1) ... 102s (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 ... 78658 files and directories currently installed.) 102s Preparing to unpack .../00-gawk_1%3a5.2.1-2build2_armhf.deb ... 102s Unpacking gawk (1:5.2.1-2build2) over (1:5.2.1-2) ... 102s Preparing to unpack .../01-fdisk_2.39.3-9ubuntu2_armhf.deb ... 102s Unpacking fdisk (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 102s Preparing to unpack .../02-gpgconf_2.4.4-2ubuntu15_armhf.deb ... 102s Unpacking gpgconf (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 102s Preparing to unpack .../03-dirmngr_2.4.4-2ubuntu15_armhf.deb ... 102s Unpacking dirmngr (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 102s Preparing to unpack .../04-gnupg_2.4.4-2ubuntu15_all.deb ... 102s Unpacking gnupg (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 102s Preparing to unpack .../05-python3-apt_2.7.6build1_armhf.deb ... 102s Unpacking python3-apt (2.7.6build1) over (2.7.6) ... 102s Preparing to unpack .../06-pinentry-curses_1.2.1-3ubuntu4_armhf.deb ... 102s Unpacking pinentry-curses (1.2.1-3ubuntu4) over (1.2.1-3ubuntu1) ... 102s Preparing to unpack .../07-python3-yaml_6.0.1-2build1_armhf.deb ... 102s Unpacking python3-yaml (6.0.1-2build1) over (6.0.1-2) ... 102s Preparing to unpack .../08-python-apt-common_2.7.6build1_all.deb ... 102s Unpacking python-apt-common (2.7.6build1) over (2.7.6) ... 103s Preparing to unpack .../09-python3-setuptools_68.1.2-2ubuntu1_all.deb ... 103s Unpacking python3-setuptools (68.1.2-2ubuntu1) over (68.1.2-2) ... 103s Preparing to unpack .../10-python3-pkg-resources_68.1.2-2ubuntu1_all.deb ... 103s Unpacking python3-pkg-resources (68.1.2-2ubuntu1) over (68.1.2-2) ... 103s Preparing to unpack .../11-dpkg_1.22.6ubuntu4_armhf.deb ... 103s Unpacking dpkg (1.22.6ubuntu4) over (1.22.4ubuntu5) ... 103s Setting up dpkg (1.22.6ubuntu4) ... 103s Setting up libpython3.12-minimal:armhf (3.12.2-4build3) ... 103s Setting up libexpat1:armhf (2.6.1-2) ... 103s Setting up python3.12-minimal (3.12.2-4build3) ... 105s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78655 files and directories currently installed.) 105s Preparing to unpack .../python3-minimal_3.12.2-0ubuntu1_armhf.deb ... 105s Unpacking python3-minimal (3.12.2-0ubuntu1) over (3.12.1-0ubuntu2) ... 105s Setting up python3-minimal (3.12.2-0ubuntu1) ... 105s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78655 files and directories currently installed.) 105s Preparing to unpack .../python3_3.12.2-0ubuntu1_armhf.deb ... 105s Unpacking python3 (3.12.2-0ubuntu1) over (3.12.1-0ubuntu2) ... 105s Preparing to unpack .../libpython3-stdlib_3.12.2-0ubuntu1_armhf.deb ... 105s Unpacking libpython3-stdlib:armhf (3.12.2-0ubuntu1) over (3.12.1-0ubuntu2) ... 105s Preparing to unpack .../libsmartcols1_2.39.3-9ubuntu2_armhf.deb ... 105s Unpacking libsmartcols1:armhf (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 105s Setting up libsmartcols1:armhf (2.39.3-9ubuntu2) ... 105s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78655 files and directories currently installed.) 105s Preparing to unpack .../0-bsdextrautils_2.39.3-9ubuntu2_armhf.deb ... 105s Unpacking bsdextrautils (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 105s Preparing to unpack .../1-groff-base_1.23.0-3build1_armhf.deb ... 105s Unpacking groff-base (1.23.0-3build1) over (1.23.0-3) ... 105s Preparing to unpack .../2-readline-common_8.2-3.1build1_all.deb ... 105s Unpacking readline-common (8.2-3.1build1) over (8.2-3) ... 105s Selecting previously unselected package libgpgme11t64:armhf. 105s Preparing to unpack .../3-libgpgme11t64_1.18.0-4.1ubuntu3_armhf.deb ... 105s Unpacking libgpgme11t64:armhf (1.18.0-4.1ubuntu3) ... 105s Preparing to unpack .../4-libblockdev-crypto3_3.1.0-1build1_armhf.deb ... 105s Unpacking libblockdev-crypto3:armhf (3.1.0-1build1) over (3.1.0-1) ... 105s Preparing to unpack .../5-e2fsprogs-l10n_1.47.0-2.4~exp1ubuntu2_all.deb ... 105s Unpacking e2fsprogs-l10n (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 105s Preparing to unpack .../6-logsave_1.47.0-2.4~exp1ubuntu2_armhf.deb ... 105s Unpacking logsave (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 105s Preparing to unpack .../7-dhcpcd-base_1%3a10.0.6-1ubuntu2_armhf.deb ... 105s Unpacking dhcpcd-base (1:10.0.6-1ubuntu2) over (1:10.0.6-1ubuntu1) ... 106s Preparing to unpack .../8-libblockdev-fs3_3.1.0-1build1_armhf.deb ... 106s Unpacking libblockdev-fs3:armhf (3.1.0-1build1) over (3.1.0-1) ... 106s dpkg: libreiserfscore0: dependency problems, but removing anyway as you requested: 106s btrfs-progs depends on libreiserfscore0 (>= 1:3.6.27). 106s 106s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78662 files and directories currently installed.) 106s Removing libreiserfscore0 (1:3.6.27-7) ... 106s Selecting previously unselected package libreiserfscore0t64. 106s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78657 files and directories currently installed.) 106s Preparing to unpack .../libreiserfscore0t64_1%3a3.6.27-7.1_armhf.deb ... 106s Unpacking libreiserfscore0t64 (1:3.6.27-7.1) ... 106s Preparing to unpack .../btrfs-progs_6.6.3-1.1build1_armhf.deb ... 106s Unpacking btrfs-progs (6.6.3-1.1build1) over (6.6.3-1.1) ... 106s dpkg: libext2fs2:armhf: dependency problems, but removing anyway as you requested: 106s e2fsprogs depends on libext2fs2 (= 1.47.0-2ubuntu1). 106s 106s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78663 files and directories currently installed.) 106s Removing libext2fs2:armhf (1.47.0-2ubuntu1) ... 106s Selecting previously unselected package libext2fs2t64:armhf. 106s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78656 files and directories currently installed.) 106s Preparing to unpack .../libext2fs2t64_1.47.0-2.4~exp1ubuntu2_armhf.deb ... 106s Adding 'diversion of /lib/arm-linux-gnueabihf/libe2p.so.2 to /lib/arm-linux-gnueabihf/libe2p.so.2.usr-is-merged by libext2fs2t64' 106s Adding 'diversion of /lib/arm-linux-gnueabihf/libe2p.so.2.3 to /lib/arm-linux-gnueabihf/libe2p.so.2.3.usr-is-merged by libext2fs2t64' 106s Adding 'diversion of /lib/arm-linux-gnueabihf/libext2fs.so.2 to /lib/arm-linux-gnueabihf/libext2fs.so.2.usr-is-merged by libext2fs2t64' 106s Adding 'diversion of /lib/arm-linux-gnueabihf/libext2fs.so.2.4 to /lib/arm-linux-gnueabihf/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' 106s Unpacking libext2fs2t64:armhf (1.47.0-2.4~exp1ubuntu2) ... 106s Setting up libcom-err2:armhf (1.47.0-2.4~exp1ubuntu2) ... 106s Setting up libext2fs2t64:armhf (1.47.0-2.4~exp1ubuntu2) ... 106s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78672 files and directories currently installed.) 106s Preparing to unpack .../e2fsprogs_1.47.0-2.4~exp1ubuntu2_armhf.deb ... 106s Unpacking e2fsprogs (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 106s Preparing to unpack .../libblockdev-loop3_3.1.0-1build1_armhf.deb ... 106s Unpacking libblockdev-loop3:armhf (3.1.0-1build1) over (3.1.0-1) ... 106s Preparing to unpack .../libblockdev-mdraid3_3.1.0-1build1_armhf.deb ... 106s Unpacking libblockdev-mdraid3:armhf (3.1.0-1build1) over (3.1.0-1) ... 106s Preparing to unpack .../libblockdev-nvme3_3.1.0-1build1_armhf.deb ... 106s Unpacking libblockdev-nvme3:armhf (3.1.0-1build1) over (3.1.0-1) ... 106s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78672 files and directories currently installed.) 106s Removing libnvme1 (1.8-2) ... 106s Selecting previously unselected package libnvme1t64. 106s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78665 files and directories currently installed.) 106s Preparing to unpack .../0-libnvme1t64_1.8-3_armhf.deb ... 106s Unpacking libnvme1t64 (1.8-3) ... 106s Preparing to unpack .../1-libblockdev-part3_3.1.0-1build1_armhf.deb ... 106s Unpacking libblockdev-part3:armhf (3.1.0-1build1) over (3.1.0-1) ... 106s Preparing to unpack .../2-libblockdev-swap3_3.1.0-1build1_armhf.deb ... 106s Unpacking libblockdev-swap3:armhf (3.1.0-1build1) over (3.1.0-1) ... 106s Preparing to unpack .../3-libblockdev3_3.1.0-1build1_armhf.deb ... 106s Unpacking libblockdev3:armhf (3.1.0-1build1) over (3.1.0-1) ... 106s Preparing to unpack .../4-libgudev-1.0-0_1%3a238-3ubuntu2_armhf.deb ... 106s Unpacking libgudev-1.0-0:armhf (1:238-3ubuntu2) over (1:238-3) ... 106s Preparing to unpack .../5-libxml2_2.9.14+dfsg-1.3ubuntu2_armhf.deb ... 106s Unpacking libxml2:armhf (2.9.14+dfsg-1.3ubuntu2) over (2.9.14+dfsg-1.3ubuntu1) ... 106s Preparing to unpack .../6-libbpf1_1%3a1.3.0-2build1_armhf.deb ... 106s Unpacking libbpf1:armhf (1:1.3.0-2build1) over (1:1.3.0-2) ... 107s Preparing to unpack .../7-iproute2_6.1.0-1ubuntu5_armhf.deb ... 107s Unpacking iproute2 (6.1.0-1ubuntu5) over (6.1.0-1ubuntu2) ... 107s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78673 files and directories currently installed.) 107s Removing libelf1:armhf (0.190-1) ... 107s Selecting previously unselected package libelf1t64:armhf. 107s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78668 files and directories currently installed.) 107s Preparing to unpack .../libelf1t64_0.190-1.1build2_armhf.deb ... 107s Unpacking libelf1t64:armhf (0.190-1.1build2) ... 107s Preparing to unpack .../libtirpc-common_1.3.4+ds-1.1_all.deb ... 107s Unpacking libtirpc-common (1.3.4+ds-1.1) over (1.3.4+ds-1build1) ... 107s Preparing to unpack .../lsof_4.95.0-1build2_armhf.deb ... 107s Unpacking lsof (4.95.0-1build2) over (4.95.0-1build1) ... 107s Preparing to unpack .../libnsl2_1.3.0-3build2_armhf.deb ... 107s Unpacking libnsl2:armhf (1.3.0-3build2) over (1.3.0-3) ... 107s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78673 files and directories currently installed.) 107s Removing libtirpc3:armhf (1.3.4+ds-1build1) ... 107s Selecting previously unselected package libtirpc3t64:armhf. 107s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78667 files and directories currently installed.) 107s Preparing to unpack .../00-libtirpc3t64_1.3.4+ds-1.1_armhf.deb ... 107s Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64' 107s Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' 107s Unpacking libtirpc3t64:armhf (1.3.4+ds-1.1) ... 107s Preparing to unpack .../01-libmbim-proxy_1.31.2-0ubuntu2_armhf.deb ... 107s Unpacking libmbim-proxy (1.31.2-0ubuntu2) over (1.30.0-1) ... 107s Preparing to unpack .../02-libmbim-glib4_1.31.2-0ubuntu2_armhf.deb ... 107s Unpacking libmbim-glib4:armhf (1.31.2-0ubuntu2) over (1.30.0-1) ... 107s Preparing to unpack .../03-libjson-glib-1.0-common_1.8.0-2build1_all.deb ... 107s Unpacking libjson-glib-1.0-common (1.8.0-2build1) over (1.8.0-2) ... 107s Preparing to unpack .../04-libjson-glib-1.0-0_1.8.0-2build1_armhf.deb ... 107s Unpacking libjson-glib-1.0-0:armhf (1.8.0-2build1) over (1.8.0-2) ... 107s Preparing to unpack .../05-libnghttp2-14_1.59.0-1build1_armhf.deb ... 107s Unpacking libnghttp2-14:armhf (1.59.0-1build1) over (1.59.0-1) ... 107s Preparing to unpack .../06-libssh-4_0.10.6-2build1_armhf.deb ... 107s Unpacking libssh-4:armhf (0.10.6-2build1) over (0.10.6-2) ... 107s Preparing to unpack .../07-libusb-1.0-0_2%3a1.0.27-1_armhf.deb ... 107s Unpacking libusb-1.0-0:armhf (2:1.0.27-1) over (2:1.0.26-1) ... 107s Preparing to unpack .../08-libgusb2_0.4.8-1build1_armhf.deb ... 107s Unpacking libgusb2:armhf (0.4.8-1build1) over (0.4.8-1) ... 107s Preparing to unpack .../09-libmm-glib0_1.23.4-0ubuntu1_armhf.deb ... 107s Unpacking libmm-glib0:armhf (1.23.4-0ubuntu1) over (1.22.0-3) ... 107s Preparing to unpack .../10-libprotobuf-c1_1.4.1-1ubuntu3_armhf.deb ... 107s Unpacking libprotobuf-c1:armhf (1.4.1-1ubuntu3) over (1.4.1-1ubuntu2) ... 107s Preparing to unpack .../11-libsasl2-2_2.1.28+dfsg1-5ubuntu1_armhf.deb ... 107s Unpacking libsasl2-2:armhf (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 107s Preparing to unpack .../12-libibverbs1_50.0-2build1_armhf.deb ... 107s Unpacking libibverbs1:armhf (50.0-2build1) over (50.0-2) ... 107s Preparing to unpack .../13-libfido2-1_1.14.0-1build1_armhf.deb ... 107s Unpacking libfido2-1:armhf (1.14.0-1build1) over (1.14.0-1) ... 108s Preparing to unpack .../14-coreutils_9.4-3ubuntu3_armhf.deb ... 108s Unpacking coreutils (9.4-3ubuntu3) over (9.4-2ubuntu4) ... 108s Setting up coreutils (9.4-3ubuntu3) ... 108s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78678 files and directories currently installed.) 108s Preparing to unpack .../util-linux_2.39.3-9ubuntu2_armhf.deb ... 108s Unpacking util-linux (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 108s Setting up util-linux (2.39.3-9ubuntu2) ... 109s fstrim.service is a disabled or a static unit not running, not starting it. 109s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78678 files and directories currently installed.) 109s Preparing to unpack .../libc-bin_2.39-0ubuntu6_armhf.deb ... 109s Unpacking libc-bin (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 109s Setting up libc-bin (2.39-0ubuntu6) ... 109s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78678 files and directories currently installed.) 109s Removing libatm1:armhf (1:2.5.1-5) ... 109s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78673 files and directories currently installed.) 109s Preparing to unpack .../file_1%3a5.45-3_armhf.deb ... 109s Unpacking file (1:5.45-3) over (1:5.45-2) ... 109s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78673 files and directories currently installed.) 109s Removing libmagic1:armhf (1:5.45-2) ... 109s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78663 files and directories currently installed.) 109s Preparing to unpack .../libmagic-mgc_1%3a5.45-3_armhf.deb ... 109s Unpacking libmagic-mgc (1:5.45-3) over (1:5.45-2) ... 109s Selecting previously unselected package libmagic1t64:armhf. 109s Preparing to unpack .../libmagic1t64_1%3a5.45-3_armhf.deb ... 109s Unpacking libmagic1t64:armhf (1:5.45-3) ... 109s Preparing to unpack .../libplymouth5_24.004.60-1ubuntu6_armhf.deb ... 109s Unpacking libplymouth5:armhf (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 109s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78674 files and directories currently installed.) 109s Removing libpng16-16:armhf (1.6.43-1) ... 109s Selecting previously unselected package libpng16-16t64:armhf. 109s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78664 files and directories currently installed.) 109s Preparing to unpack .../libpng16-16t64_1.6.43-3_armhf.deb ... 109s Unpacking libpng16-16t64:armhf (1.6.43-3) ... 109s Preparing to unpack .../bind9-host_1%3a9.18.24-0ubuntu3_armhf.deb ... 109s Unpacking bind9-host (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 109s Preparing to unpack .../bind9-dnsutils_1%3a9.18.24-0ubuntu3_armhf.deb ... 109s Unpacking bind9-dnsutils (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 110s Preparing to unpack .../bind9-libs_1%3a9.18.24-0ubuntu3_armhf.deb ... 110s Unpacking bind9-libs:armhf (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 110s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78675 files and directories currently installed.) 110s Removing libuv1:armhf (1.48.0-1) ... 110s Selecting previously unselected package libuv1t64:armhf. 110s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78670 files and directories currently installed.) 110s Preparing to unpack .../libuv1t64_1.48.0-1.1_armhf.deb ... 110s Unpacking libuv1t64:armhf (1.48.0-1.1) ... 110s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78676 files and directories currently installed.) 110s Removing python3-distutils (3.11.5-1) ... 110s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78621 files and directories currently installed.) 110s Preparing to unpack .../uuid-runtime_2.39.3-9ubuntu2_armhf.deb ... 110s Unpacking uuid-runtime (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 110s Preparing to unpack .../libdebconfclient0_0.271ubuntu2_armhf.deb ... 110s Unpacking libdebconfclient0:armhf (0.271ubuntu2) over (0.271ubuntu1) ... 110s Setting up libdebconfclient0:armhf (0.271ubuntu2) ... 110s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78621 files and directories currently installed.) 110s Preparing to unpack .../libsemanage-common_3.5-1build4_all.deb ... 110s Unpacking libsemanage-common (3.5-1build4) over (3.5-1build2) ... 110s Setting up libsemanage-common (3.5-1build4) ... 110s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78621 files and directories currently installed.) 110s Preparing to unpack .../libsemanage2_3.5-1build4_armhf.deb ... 110s Unpacking libsemanage2:armhf (3.5-1build4) over (3.5-1build2) ... 110s Setting up libsemanage2:armhf (3.5-1build4) ... 110s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78621 files and directories currently installed.) 110s Preparing to unpack .../install-info_7.1-3build1_armhf.deb ... 110s Unpacking install-info (7.1-3build1) over (7.1-3) ... 110s Setting up install-info (7.1-3build1) ... 110s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 78621 files and directories currently installed.) 110s Preparing to unpack .../00-gcc-13-base_13.2.0-19ubuntu1_armhf.deb ... 110s Unpacking gcc-13-base:armhf (13.2.0-19ubuntu1) over (13.2.0-17ubuntu2) ... 110s Preparing to unpack .../01-libss2_1.47.0-2.4~exp1ubuntu2_armhf.deb ... 110s Unpacking libss2:armhf (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 110s Preparing to unpack .../02-dmsetup_2%3a1.02.185-3ubuntu2_armhf.deb ... 110s Unpacking dmsetup (2:1.02.185-3ubuntu2) over (2:1.02.185-3ubuntu1) ... 111s Preparing to unpack .../03-eject_2.39.3-9ubuntu2_armhf.deb ... 111s Unpacking eject (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 111s Preparing to unpack .../04-krb5-locales_1.20.1-5.1ubuntu1_all.deb ... 111s Unpacking krb5-locales (1.20.1-5.1ubuntu1) over (1.20.1-5build1) ... 111s Preparing to unpack .../05-libbsd0_0.12.1-1_armhf.deb ... 111s Unpacking libbsd0:armhf (0.12.1-1) over (0.11.8-1) ... 111s Preparing to unpack .../06-libglib2.0-data_2.79.3-3ubuntu5_all.deb ... 111s Unpacking libglib2.0-data (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 111s Preparing to unpack .../07-libslang2_2.3.3-3build1_armhf.deb ... 111s Unpacking libslang2:armhf (2.3.3-3build1) over (2.3.3-3) ... 111s Preparing to unpack .../08-locales_2.39-0ubuntu6_all.deb ... 111s Unpacking locales (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 111s Preparing to unpack .../09-vim-tiny_2%3a9.1.0016-1ubuntu5_armhf.deb ... 111s Unpacking vim-tiny (2:9.1.0016-1ubuntu5) over (2:9.1.0016-1ubuntu2) ... 111s Preparing to unpack .../10-vim-common_2%3a9.1.0016-1ubuntu5_all.deb ... 111s Unpacking vim-common (2:9.1.0016-1ubuntu5) over (2:9.1.0016-1ubuntu2) ... 111s Selecting previously unselected package xdg-user-dirs. 111s Preparing to unpack .../11-xdg-user-dirs_0.18-1_armhf.deb ... 111s Unpacking xdg-user-dirs (0.18-1) ... 111s Preparing to unpack .../12-xxd_2%3a9.1.0016-1ubuntu5_armhf.deb ... 111s Unpacking xxd (2:9.1.0016-1ubuntu5) over (2:9.1.0016-1ubuntu2) ... 111s Preparing to unpack .../13-apparmor_4.0.0-beta3-0ubuntu2_armhf.deb ... 112s Unpacking apparmor (4.0.0-beta3-0ubuntu2) over (4.0.0~alpha4-0ubuntu1) ... 112s Preparing to unpack .../14-ftp_20230507-2build1_all.deb ... 112s Unpacking ftp (20230507-2build1) over (20230507-2) ... 112s Preparing to unpack .../15-inetutils-telnet_2%3a2.5-3ubuntu3_armhf.deb ... 112s Unpacking inetutils-telnet (2:2.5-3ubuntu3) over (2:2.5-3ubuntu1) ... 112s Preparing to unpack .../16-info_7.1-3build1_armhf.deb ... 112s Unpacking info (7.1-3build1) over (7.1-3) ... 112s Preparing to unpack .../17-libxmuu1_2%3a1.1.3-3build1_armhf.deb ... 112s Unpacking libxmuu1:armhf (2:1.1.3-3build1) over (2:1.1.3-3) ... 112s Preparing to unpack .../18-lshw_02.19.git.2021.06.19.996aaad9c7-2build2_armhf.deb ... 112s Unpacking lshw (02.19.git.2021.06.19.996aaad9c7-2build2) over (02.19.git.2021.06.19.996aaad9c7-2build1) ... 112s Preparing to unpack .../19-mtr-tiny_0.95-1.1build1_armhf.deb ... 112s Unpacking mtr-tiny (0.95-1.1build1) over (0.95-1.1) ... 113s Preparing to unpack .../20-plymouth-theme-ubuntu-text_24.004.60-1ubuntu6_armhf.deb ... 113s Unpacking plymouth-theme-ubuntu-text (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 113s Preparing to unpack .../21-plymouth_24.004.60-1ubuntu6_armhf.deb ... 113s Unpacking plymouth (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 113s Preparing to unpack .../22-psmisc_23.7-1_armhf.deb ... 113s Unpacking psmisc (23.7-1) over (23.6-2) ... 113s Preparing to unpack .../23-telnet_0.17+2.5-3ubuntu3_all.deb ... 113s Unpacking telnet (0.17+2.5-3ubuntu3) over (0.17+2.5-3ubuntu1) ... 113s Preparing to unpack .../24-usb.ids_2024.03.18-1_all.deb ... 113s Unpacking usb.ids (2024.03.18-1) over (2024.01.30-1) ... 113s Preparing to unpack .../25-xz-utils_5.6.0-0.2_armhf.deb ... 113s Unpacking xz-utils (5.6.0-0.2) over (5.4.5-0.3) ... 113s Preparing to unpack .../26-libctf0_2.42-4ubuntu1_armhf.deb ... 113s Unpacking libctf0:armhf (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../27-libctf-nobfd0_2.42-4ubuntu1_armhf.deb ... 113s Unpacking libctf-nobfd0:armhf (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../28-binutils-arm-linux-gnueabihf_2.42-4ubuntu1_armhf.deb ... 113s Unpacking binutils-arm-linux-gnueabihf (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../29-libbinutils_2.42-4ubuntu1_armhf.deb ... 113s Unpacking libbinutils:armhf (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../30-binutils_2.42-4ubuntu1_armhf.deb ... 113s Unpacking binutils (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../31-binutils-common_2.42-4ubuntu1_armhf.deb ... 113s Unpacking binutils-common:armhf (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../32-libsframe1_2.42-4ubuntu1_armhf.deb ... 113s Unpacking libsframe1:armhf (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 113s Preparing to unpack .../33-bolt_0.9.6-2build1_armhf.deb ... 113s Unpacking bolt (0.9.6-2build1) over (0.9.6-2) ... 114s Preparing to unpack .../34-cryptsetup-bin_2%3a2.7.0-1ubuntu2_armhf.deb ... 114s Unpacking cryptsetup-bin (2:2.7.0-1ubuntu2) over (2:2.7.0-1ubuntu1) ... 114s Preparing to unpack .../35-dpkg-dev_1.22.6ubuntu4_all.deb ... 114s Unpacking dpkg-dev (1.22.6ubuntu4) over (1.22.4ubuntu5) ... 114s Preparing to unpack .../36-libdpkg-perl_1.22.6ubuntu4_all.deb ... 114s Unpacking libdpkg-perl (1.22.6ubuntu4) over (1.22.4ubuntu5) ... 114s Preparing to unpack .../37-gnupg-l10n_2.4.4-2ubuntu15_all.deb ... 114s Unpacking gnupg-l10n (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 114s Preparing to unpack .../38-ibverbs-providers_50.0-2build1_armhf.deb ... 114s Unpacking ibverbs-providers:armhf (50.0-2build1) over (50.0-2) ... 114s Preparing to unpack .../39-jq_1.7.1-3_armhf.deb ... 114s Unpacking jq (1.7.1-3) over (1.7.1-2) ... 114s Preparing to unpack .../40-libjq1_1.7.1-3_armhf.deb ... 114s Unpacking libjq1:armhf (1.7.1-3) over (1.7.1-2) ... 114s Selecting previously unselected package libatm1t64:armhf. 114s Preparing to unpack .../41-libatm1t64_1%3a2.5.1-5.1_armhf.deb ... 114s Unpacking libatm1t64:armhf (1:2.5.1-5.1) ... 114s Preparing to unpack .../42-libevent-core-2.1-7_2.1.12-stable-9build1_armhf.deb ... 114s Unpacking libevent-core-2.1-7:armhf (2.1.12-stable-9build1) over (2.1.12-stable-9) ... 114s Preparing to unpack .../43-libftdi1-2_1.5-6build4_armhf.deb ... 114s Unpacking libftdi1-2:armhf (1.5-6build4) over (1.5-6build3) ... 114s Preparing to unpack .../44-libldap-common_2.6.7+dfsg-1~exp1ubuntu6_all.deb ... 114s Unpacking libldap-common (2.6.7+dfsg-1~exp1ubuntu6) over (2.6.7+dfsg-1~exp1ubuntu1) ... 114s Preparing to unpack .../45-libsasl2-modules_2.1.28+dfsg1-5ubuntu1_armhf.deb ... 114s Unpacking libsasl2-modules:armhf (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 114s Preparing to unpack .../46-python3-lib2to3_3.12.2-3ubuntu2_all.deb ... 114s Unpacking python3-lib2to3 (3.12.2-3ubuntu2) over (3.11.5-1) ... 114s Preparing to unpack .../47-python3-pyrsistent_0.20.0-1build1_armhf.deb ... 115s Unpacking python3-pyrsistent:armhf (0.20.0-1build1) over (0.20.0-1) ... 115s Preparing to unpack .../48-python3-typing-extensions_4.10.0-1_all.deb ... 115s Unpacking python3-typing-extensions (4.10.0-1) over (4.9.0-1) ... 115s Preparing to unpack .../49-kpartx_0.9.4-5ubuntu6_armhf.deb ... 115s Unpacking kpartx (0.9.4-5ubuntu6) over (0.9.4-5ubuntu3) ... 115s Setting up pinentry-curses (1.2.1-3ubuntu4) ... 115s Setting up libtext-iconv-perl:armhf (1.7-8build2) ... 115s Setting up libtext-charwidth-perl:armhf (0.04-11build2) ... 115s Setting up libibverbs1:armhf (50.0-2build1) ... 115s Setting up systemd-sysv (255.4-1ubuntu5) ... 115s Setting up libapparmor1:armhf (4.0.0-beta3-0ubuntu2) ... 115s Setting up libatm1t64:armhf (1:2.5.1-5.1) ... 115s Setting up libgdbm6t64:armhf (1.23-5.1) ... 115s Setting up bsdextrautils (2.39.3-9ubuntu2) ... 115s Setting up libgdbm-compat4t64:armhf (1.23-5.1) ... 115s Setting up xdg-user-dirs (0.18-1) ... 115s Setting up ibverbs-providers:armhf (50.0-2build1) ... 115s Setting up linux-headers-6.8.0-20 (6.8.0-20.20) ... 115s Setting up libmagic-mgc (1:5.45-3) ... 115s Setting up gawk (1:5.2.1-2build2) ... 115s Setting up psmisc (23.7-1) ... 115s Setting up libjq1:armhf (1.7.1-3) ... 115s Setting up libtirpc-common (1.3.4+ds-1.1) ... 115s Setting up libbrotli1:armhf (1.1.0-2build1) ... 115s Setting up libsqlite3-0:armhf (3.45.1-1ubuntu1) ... 115s Setting up libsasl2-modules:armhf (2.1.28+dfsg1-5ubuntu1) ... 115s Setting up libuv1t64:armhf (1.48.0-1.1) ... 115s Setting up libmagic1t64:armhf (1:5.45-3) ... 115s Setting up binutils-common:armhf (2.42-4ubuntu1) ... 115s Setting up libpsl5t64:armhf (0.21.2-1.1) ... 115s Setting up libnghttp2-14:armhf (1.59.0-1build1) ... 115s Setting up libreiserfscore0t64 (1:3.6.27-7.1) ... 115s Setting up libctf-nobfd0:armhf (2.42-4ubuntu1) ... 115s Setting up libnss-systemd:armhf (255.4-1ubuntu5) ... 115s Setting up krb5-locales (1.20.1-5.1ubuntu1) ... 115s Setting up file (1:5.45-3) ... 115s Setting up kmod (31+20240202-2ubuntu4) ... 115s Setting up lshw (02.19.git.2021.06.19.996aaad9c7-2build2) ... 115s Setting up locales (2.39-0ubuntu6) ... 116s Generating locales (this might take a while)... 117s en_US.UTF-8... done 117s Generation complete. 117s Setting up libldap-common (2.6.7+dfsg-1~exp1ubuntu6) ... 117s Setting up libprotobuf-c1:armhf (1.4.1-1ubuntu3) ... 117s Setting up xxd (2:9.1.0016-1ubuntu5) ... 117s Setting up libsframe1:armhf (2.42-4ubuntu1) ... 117s Setting up libelf1t64:armhf (0.190-1.1build2) ... 117s Setting up libkrb5support0:armhf (1.20.1-5.1ubuntu1) ... 117s Setting up linux-headers-6.8.0-20-generic (6.8.0-20.20) ... 117s Setting up eject (2.39.3-9ubuntu2) ... 117s Setting up apparmor (4.0.0-beta3-0ubuntu2) ... 117s Installing new version of config file /etc/apparmor.d/abstractions/authentication ... 117s Installing new version of config file /etc/apparmor.d/abstractions/crypto ... 117s Installing new version of config file /etc/apparmor.d/abstractions/kde-open5 ... 117s Installing new version of config file /etc/apparmor.d/abstractions/openssl ... 117s Installing new version of config file /etc/apparmor.d/code ... 117s Installing new version of config file /etc/apparmor.d/firefox ... 118s apparmor_parser: Unable to replace "lsb_release". apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 118s 118s apparmor_parser: Unable to replace "kmod". apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 118s 118s apparmor_parser: Unable to replace "nvidia_modprobe". apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 118s 119s sysctl: cannot stat /proc/sys/kernel/apparmor_restrict_unprivileged_userns: No such file or directory 119s Reloading AppArmor profiles 119s /sbin/apparmor_parser: Unable to replace "1password". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "Discord". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "MongoDB Compass". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "brave". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "buildah". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "busybox". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "ch-checkns". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "QtWebEngineProcess". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "cam". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "crun". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "vscode". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "chrome". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "ch-run". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "element-desktop". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "devhelp". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "epiphany". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "evolution". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "firefox". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "flatpak". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "geary". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "github-desktop". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "goldendict". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "ipa_verify". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "kchmviewer". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "lc-compliance". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "keybase". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "libcamerify". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "linux-sandbox". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "loupe". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "lxc-attach". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "lxc-create". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "lxc-destroy". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "lxc-execute". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "lxc-stop". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "lxc-unshare". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "lxc-usernsexec". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "mmdebstrap". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "msedge". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "nautilus". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "notepadqq". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "opam". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "obsidian". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "pageedit". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "opera". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "podman". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "polypane". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "privacybrowser". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "qcam". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "QtWebEngineProcess". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "plasmashell". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "qutebrowser". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "qmapshack". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "rootlesskit". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "rssguard". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "rpm". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "runc". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-abort". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-checkpackages". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-clean". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-apt". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-createchroot". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-destroychroot". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-hold". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-distupgrade". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-update". /sbin/apparmor_parser: Unable to replace "lsb_release". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-unhold". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-upgrade". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "scide". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "signal-desktop". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "slack". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "slirp4netns". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-shell". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "sbuild-adduser". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "surfshark". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "steam". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "stress-ng". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "kmod". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "nvidia_modprobe". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "toybox". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "trinity". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "tup". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "systemd-coredump". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "tuxedo-control-center". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "userbindmount". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "thunderbird". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "unprivileged_userns". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "uwsgi-core". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "vdens". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "virtiofsd". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "vivaldi-bin". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "wpcom". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "vpnns". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "unix-chkpwd". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "/usr/bin/man". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "ubuntu_pro_apt_news". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "rsyslogd". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s /sbin/apparmor_parser: Unable to replace "tcpdump". /sbin/apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 119s 119s Error: At least one profile failed to load 119s Setting up libglib2.0-0t64:armhf (2.79.3-3ubuntu5) ... 119s No schema files found: doing nothing. 119s Setting up libglib2.0-data (2.79.3-3ubuntu5) ... 119s Setting up vim-common (2:9.1.0016-1ubuntu5) ... 119s Setting up gcc-13-base:armhf (13.2.0-19ubuntu1) ... 119s Setting up libqrtr-glib0:armhf (1.2.2-1ubuntu3) ... 119s Setting up libslang2:armhf (2.3.3-3build1) ... 119s Setting up libnvme1t64 (1.8-3) ... 119s Setting up mtr-tiny (0.95-1.1build1) ... 119s Setting up gnupg-l10n (2.4.4-2ubuntu15) ... 119s Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2build6) ... 119s Setting up libdbus-1-3:armhf (1.14.10-4ubuntu2) ... 119s Setting up xz-utils (5.6.0-0.2) ... 119s Setting up perl-modules-5.38 (5.38.2-3.2) ... 119s Setting up libblockdev-utils3:armhf (3.1.0-1build1) ... 119s Setting up libpng16-16t64:armhf (1.6.43-3) ... 119s Setting up systemd-timesyncd (255.4-1ubuntu5) ... 119s Setting up libevent-core-2.1-7:armhf (2.1.12-stable-9build1) ... 119s Setting up udev (255.4-1ubuntu5) ... 120s Setting up libss2:armhf (1.47.0-2.4~exp1ubuntu2) ... 120s Setting up usb.ids (2024.03.18-1) ... 120s Setting up sudo (1.9.15p5-3ubuntu3) ... 120s Setting up dhcpcd-base (1:10.0.6-1ubuntu2) ... 120s Setting up gir1.2-glib-2.0:armhf (2.79.3-3ubuntu5) ... 120s Setting up libk5crypto3:armhf (1.20.1-5.1ubuntu1) ... 120s Setting up logsave (1.47.0-2.4~exp1ubuntu2) ... 120s Setting up libfdisk1:armhf (2.39.3-9ubuntu2) ... 120s Setting up libdb5.3t64:armhf (5.3.28+dfsg2-6) ... 120s Setting up libblockdev-nvme3:armhf (3.1.0-1build1) ... 120s Setting up libdevmapper1.02.1:armhf (2:1.02.185-3ubuntu2) ... 120s Setting up libblockdev-fs3:armhf (3.1.0-1build1) ... 120s Setting up python-apt-common (2.7.6build1) ... 120s Setting up mount (2.39.3-9ubuntu2) ... 120s Setting up dmsetup (2:1.02.185-3ubuntu2) ... 120s Setting up uuid-runtime (2.39.3-9ubuntu2) ... 121s uuidd.service is a disabled or a static unit not running, not starting it. 121s Setting up libmm-glib0:armhf (1.23.4-0ubuntu1) ... 121s Setting up groff-base (1.23.0-3build1) ... 121s Setting up libplymouth5:armhf (24.004.60-1ubuntu6) ... 121s Setting up dbus-session-bus-common (1.14.10-4ubuntu2) ... 121s Setting up kpartx (0.9.4-5ubuntu6) ... 121s Setting up jq (1.7.1-3) ... 121s Setting up gpgconf (2.4.4-2ubuntu15) ... 121s Setting up libpcap0.8t64:armhf (1.10.4-4.1ubuntu1) ... 121s Setting up libcryptsetup12:armhf (2:2.7.0-1ubuntu2) ... 121s Setting up libgirepository-1.0-1:armhf (1.79.1-1ubuntu6) ... 121s Setting up libjson-glib-1.0-common (1.8.0-2build1) ... 121s Setting up libkrb5-3:armhf (1.20.1-5.1ubuntu1) ... 121s Setting up libpython3.11-minimal:armhf (3.11.8-1build4) ... 121s Setting up libusb-1.0-0:armhf (2:1.0.27-1) ... 121s Setting up libperl5.38t64:armhf (5.38.2-3.2) ... 121s Setting up tnftp (20230507-2build1) ... 121s Setting up libbinutils:armhf (2.42-4ubuntu1) ... 121s Setting up dbus-system-bus-common (1.14.10-4ubuntu2) ... 121s Setting up libfido2-1:armhf (1.14.0-1build1) ... 121s Setting up openssl (3.0.13-0ubuntu2) ... 121s Setting up libbsd0:armhf (0.12.1-1) ... 121s Setting up readline-common (8.2-3.1build1) ... 121s Setting up libxml2:armhf (2.9.14+dfsg-1.3ubuntu2) ... 121s Setting up libxmuu1:armhf (2:1.1.3-3build1) ... 121s Setting up dbus-bin (1.14.10-4ubuntu2) ... 121s Setting up info (7.1-3build1) ... 121s Setting up liblocale-gettext-perl (1.07-6ubuntu4) ... 121s Setting up gpg (2.4.4-2ubuntu15) ... 121s Setting up libgudev-1.0-0:armhf (1:238-3ubuntu2) ... 121s Setting up libpolkit-gobject-1-0:armhf (124-1ubuntu1) ... 121s Setting up libbpf1:armhf (1:1.3.0-2build1) ... 121s Setting up libmbim-glib4:armhf (1.31.2-0ubuntu2) ... 121s Setting up rsync (3.2.7-1build1) ... 122s rsync.service is a disabled or a static unit not running, not starting it. 122s Setting up libudisks2-0:armhf (2.10.1-6) ... 122s Setting up bolt (0.9.6-2build1) ... 122s bolt.service is a disabled or a static unit not running, not starting it. 122s Setting up gnupg-utils (2.4.4-2ubuntu15) ... 122s Setting up initramfs-tools-bin (0.142ubuntu23) ... 122s Setting up libctf0:armhf (2.42-4ubuntu1) ... 122s Setting up cryptsetup-bin (2:2.7.0-1ubuntu2) ... 122s Setting up python3.11-minimal (3.11.8-1build4) ... 123s Setting up tcpdump (4.99.4-3ubuntu2) ... 123s apparmor_parser: Unable to replace "tcpdump". apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 123s 123s Setting up apt-utils (2.7.13ubuntu1) ... 123s Setting up gpg-agent (2.4.4-2ubuntu15) ... 124s Setting up libpython3.12-stdlib:armhf (3.12.2-4build3) ... 124s Setting up libblockdev-mdraid3:armhf (3.1.0-1build1) ... 124s Setting up wget (1.21.4-1ubuntu2) ... 124s Setting up libblockdev-swap3:armhf (3.1.0-1build1) ... 124s Setting up plymouth (24.004.60-1ubuntu6) ... 124s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 125s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 125s Setting up libxmlb2:armhf (0.3.15-1build1) ... 125s Setting up btrfs-progs (6.6.3-1.1build1) ... 125s Setting up libpython3.11-stdlib:armhf (3.11.8-1build4) ... 125s Setting up python3.12 (3.12.2-4build3) ... 126s Setting up libblockdev-loop3:armhf (3.1.0-1build1) ... 126s Setting up gpgsm (2.4.4-2ubuntu15) ... 126s Setting up inetutils-telnet (2:2.5-3ubuntu3) ... 126s Setting up e2fsprogs (1.47.0-2.4~exp1ubuntu2) ... 126s update-initramfs: deferring update (trigger activated) 127s e2scrub_all.service is a disabled or a static unit not running, not starting it. 127s Setting up libparted2t64:armhf (3.6-3.1build2) ... 127s Setting up linux-headers-generic (6.8.0-20.20+1) ... 127s Setting up dbus-daemon (1.14.10-4ubuntu2) ... 127s Setting up libmbim-proxy (1.31.2-0ubuntu2) ... 127s Setting up vim-tiny (2:9.1.0016-1ubuntu5) ... 127s Setting up libnetplan1:armhf (1.0-1) ... 127s Setting up man-db (2.12.0-3build4) ... 127s Updating database of manual pages ... 128s apparmor_parser: Unable to replace "/usr/bin/man". apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 128s 129s man-db.service is a disabled or a static unit not running, not starting it. 129s Setting up libblockdev3:armhf (3.1.0-1build1) ... 129s Setting up fdisk (2.39.3-9ubuntu2) ... 129s Setting up libjson-glib-1.0-0:armhf (1.8.0-2build1) ... 129s Setting up libblockdev-part3:armhf (3.1.0-1build1) ... 129s Setting up libsasl2-modules-db:armhf (2.1.28+dfsg1-5ubuntu1) ... 129s Setting up libftdi1-2:armhf (1.5-6build4) ... 129s Setting up perl (5.38.2-3.2) ... 129s Setting up plymouth-theme-ubuntu-text (24.004.60-1ubuntu6) ... 129s update-initramfs: deferring update (trigger activated) 129s Setting up gir1.2-girepository-2.0:armhf (1.79.1-1ubuntu6) ... 129s Setting up dbus (1.14.10-4ubuntu2) ... 129s A reboot is required to replace the running dbus-daemon. 129s Please reboot the system when convenient. 129s Setting up shared-mime-info (2.4-1build1) ... 130s Setting up libgssapi-krb5-2:armhf (1.20.1-5.1ubuntu1) ... 130s Setting up ftp (20230507-2build1) ... 130s Setting up keyboxd (2.4.4-2ubuntu15) ... 130s Setting up libdpkg-perl (1.22.6ubuntu4) ... 130s Setting up libsasl2-2:armhf (2.1.28+dfsg1-5ubuntu1) ... 130s Setting up libssh-4:armhf (0.10.6-2build1) ... 130s Setting up libpam-systemd:armhf (255.4-1ubuntu5) ... 130s Setting up libpolkit-agent-1-0:armhf (124-1ubuntu1) ... 130s Setting up libgpgme11t64:armhf (1.18.0-4.1ubuntu3) ... 130s Setting up netplan-generator (1.0-1) ... 130s Removing 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 130s Setting up initramfs-tools-core (0.142ubuntu23) ... 130s Setting up binutils-arm-linux-gnueabihf (2.42-4ubuntu1) ... 130s Setting up libarchive13t64:armhf (3.7.2-1.1ubuntu2) ... 130s Setting up libldap2:armhf (2.6.7+dfsg-1~exp1ubuntu6) ... 130s Setting up libpython3-stdlib:armhf (3.12.2-0ubuntu1) ... 130s Setting up systemd-resolved (255.4-1ubuntu5) ... 131s Setting up python3.11 (3.11.8-1build4) ... 132s Setting up telnet (0.17+2.5-3ubuntu3) ... 132s Setting up initramfs-tools (0.142ubuntu23) ... 132s update-initramfs: deferring update (trigger activated) 132s Setting up libcurl4t64:armhf (8.5.0-2ubuntu7) ... 132s Setting up bind9-libs:armhf (1:9.18.24-0ubuntu3) ... 132s Setting up libtirpc3t64:armhf (1.3.4+ds-1.1) ... 132s Setting up e2fsprogs-l10n (1.47.0-2.4~exp1ubuntu2) ... 132s Setting up iproute2 (6.1.0-1ubuntu5) ... 132s Setting up openssh-client (1:9.6p1-3ubuntu11) ... 132s Setting up libgusb2:armhf (0.4.8-1build1) ... 132s Setting up libcurl3t64-gnutls:armhf (8.5.0-2ubuntu7) ... 132s Setting up parted (3.6-3.1build2) ... 132s Setting up libqmi-glib5:armhf (1.35.2-0ubuntu1) ... 132s Setting up python3 (3.12.2-0ubuntu1) ... 132s Setting up binutils (2.42-4ubuntu1) ... 132s Setting up libjcat1:armhf (0.2.0-2build2) ... 132s Setting up dpkg-dev (1.22.6ubuntu4) ... 132s Setting up dirmngr (2.4.4-2ubuntu15) ... 132s Setting up dbus-user-session (1.14.10-4ubuntu2) ... 132s Setting up python3-cryptography (41.0.7-4build2) ... 133s Setting up python3-gi (3.47.0-3build1) ... 133s Setting up python3-typing-extensions (4.10.0-1) ... 133s Setting up lsof (4.95.0-1build2) ... 133s Setting up python3-pyrsistent:armhf (0.20.0-1build1) ... 133s Setting up libnsl2:armhf (1.3.0-3build2) ... 133s Setting up gnupg (2.4.4-2ubuntu15) ... 133s Setting up python3-netplan (1.0-1) ... 133s Setting up curl (8.5.0-2ubuntu7) ... 133s Setting up libvolume-key1:armhf (0.3.12-7build1) ... 133s Setting up bind9-host (1:9.18.24-0ubuntu3) ... 133s Setting up python3-lib2to3 (3.12.2-3ubuntu2) ... 133s Setting up python3-pkg-resources (68.1.2-2ubuntu1) ... 134s Setting up openssh-sftp-server (1:9.6p1-3ubuntu11) ... 134s Setting up python3-dbus (1.3.2-5build2) ... 134s Setting up python3-setuptools (68.1.2-2ubuntu1) ... 134s Setting up gpg-wks-client (2.4.4-2ubuntu15) ... 134s Setting up openssh-server (1:9.6p1-3ubuntu11) ... 134s Replacing config file /etc/ssh/sshd_config with new version 136s Created symlink /etc/systemd/system/ssh.service.requires/ssh.socket → /usr/lib/systemd/system/ssh.socket. 137s Setting up libblockdev-crypto3:armhf (3.1.0-1build1) ... 137s Setting up python3-gdbm:armhf (3.12.2-3ubuntu2) ... 137s Setting up python3-apt (2.7.6build1) ... 137s Setting up libfwupd2:armhf (1.9.15-1) ... 137s Setting up python3-yaml (6.0.1-2build1) ... 137s Setting up libqmi-proxy (1.35.2-0ubuntu1) ... 137s Setting up netplan.io (1.0-1) ... 137s Setting up bind9-dnsutils (1:9.18.24-0ubuntu3) ... 137s Setting up ubuntu-pro-client (31.2.1) ... 137s apparmor_parser: Unable to replace "ubuntu_pro_apt_news". apparmor_parser: Access denied. You need policy admin privileges to manage profiles. 137s 139s Setting up fwupd (1.9.15-1) ... 139s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 139s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 139s fwupd.service is a disabled or a static unit not running, not starting it. 140s Setting up ubuntu-pro-client-l10n (31.2.1) ... 140s Setting up udisks2 (2.10.1-6) ... 140s vda: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/uevent': Permission denied 140s vda1: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda1/uevent': Permission denied 140s vda15: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda15/uevent': Permission denied 140s vda2: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda2/uevent': Permission denied 140s loop0: Failed to write 'change' to '/sys/devices/virtual/block/loop0/uevent': Permission denied 140s loop1: Failed to write 'change' to '/sys/devices/virtual/block/loop1/uevent': Permission denied 140s loop2: Failed to write 'change' to '/sys/devices/virtual/block/loop2/uevent': Permission denied 140s loop3: Failed to write 'change' to '/sys/devices/virtual/block/loop3/uevent': Permission denied 140s loop4: Failed to write 'change' to '/sys/devices/virtual/block/loop4/uevent': Permission denied 140s loop5: Failed to write 'change' to '/sys/devices/virtual/block/loop5/uevent': Permission denied 140s loop6: Failed to write 'change' to '/sys/devices/virtual/block/loop6/uevent': Permission denied 140s loop7: Failed to write 'change' to '/sys/devices/virtual/block/loop7/uevent': Permission denied 140s Processing triggers for ufw (0.36.2-5) ... 140s Processing triggers for systemd (255.4-1ubuntu5) ... 140s Processing triggers for install-info (7.1-3build1) ... 140s Processing triggers for libc-bin (2.39-0ubuntu6) ... 141s Processing triggers for initramfs-tools (0.142ubuntu23) ... 142s Reading package lists... 142s Building dependency tree... 142s Reading state information... 143s The following packages will be REMOVED: 143s linux-headers-6.8.0-11* python3-lib2to3* 144s 0 upgraded, 0 newly installed, 2 to remove and 1 not upgraded. 144s After this operation, 85.8 MB disk space will be freed. 144s (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 ... 78592 files and directories currently installed.) 144s Removing linux-headers-6.8.0-11 (6.8.0-11.11) ... 144s Removing python3-lib2to3 (3.12.2-3ubuntu2) ... 147s autopkgtest [22:33:30]: rebooting testbed after setup commands that affected boot 184s autopkgtest [22:34:07]: testbed running kernel: Linux 5.15.0-101-generic #111-Ubuntu SMP Wed Mar 6 18:01:01 UTC 2024 209s autopkgtest [22:34:32]: @@@@@@@@@@@@@@@@@@@@ apt-source samtools 222s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/universe samtools 1.19.2-1build1 (dsc) [2398 B] 222s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe samtools 1.19.2-1build1 (tar) [5666 kB] 222s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe samtools 1.19.2-1build1 (diff) [21.9 kB] 223s gpgv: Signature made Fri Mar 22 16:54:57 2024 UTC 223s gpgv: using RSA key 4FB588A84C2DDE79A74C77876FA458DD1DB03F71 223s gpgv: issuer "juliank@ubuntu.com" 223s gpgv: Can't check signature: No public key 223s dpkg-source: warning: cannot verify inline signature for ./samtools_1.19.2-1build1.dsc: no acceptable signature found 223s autopkgtest [22:34:46]: testing package samtools version 1.19.2-1build1 225s autopkgtest [22:34:48]: build not needed 227s autopkgtest [22:34:50]: test run-unit-test: preparing testbed 236s Reading package lists... 237s Building dependency tree... 237s Reading state information... 237s Starting pkgProblemResolver with broken count: 0 237s Starting 2 pkgProblemResolver with broken count: 0 237s Done 238s The following additional packages will be installed: 238s libdeflate0 libhts3t64 libhtscodecs2 samtools samtools-test tabix 238s Suggested packages: 238s cwltool 238s Recommended packages: 238s libio-pty-perl 238s The following NEW packages will be installed: 238s autopkgtest-satdep libdeflate0 libhts3t64 libhtscodecs2 samtools 238s samtools-test tabix 238s 0 upgraded, 7 newly installed, 0 to remove and 1 not upgraded. 238s Need to get 3926 kB/3927 kB of archives. 238s After this operation, 21.2 MB of additional disk space will be used. 238s Get:1 /tmp/autopkgtest.cZ6P0Y/1-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [720 B] 238s Get:2 http://ftpmaster.internal/ubuntu noble/main armhf libdeflate0 armhf 1.19-1 [41.3 kB] 238s Get:3 http://ftpmaster.internal/ubuntu noble/universe armhf libhtscodecs2 armhf 1.6.0-1 [65.9 kB] 238s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf libhts3t64 armhf 1.19+ds-1.1build2 [389 kB] 239s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf samtools armhf 1.19.2-1build1 [602 kB] 239s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf samtools-test all 1.19.2-1build1 [2401 kB] 239s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/universe armhf tabix armhf 1.19+ds-1.1build2 [428 kB] 239s Fetched 3926 kB in 1s (5690 kB/s) 239s Selecting previously unselected package libdeflate0:armhf. 239s (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 ... 58435 files and directories currently installed.) 239s Preparing to unpack .../0-libdeflate0_1.19-1_armhf.deb ... 239s Unpacking libdeflate0:armhf (1.19-1) ... 239s Selecting previously unselected package libhtscodecs2:armhf. 239s Preparing to unpack .../1-libhtscodecs2_1.6.0-1_armhf.deb ... 239s Unpacking libhtscodecs2:armhf (1.6.0-1) ... 239s Selecting previously unselected package libhts3t64:armhf. 239s Preparing to unpack .../2-libhts3t64_1.19+ds-1.1build2_armhf.deb ... 239s Unpacking libhts3t64:armhf (1.19+ds-1.1build2) ... 239s Selecting previously unselected package samtools. 239s Preparing to unpack .../3-samtools_1.19.2-1build1_armhf.deb ... 239s Unpacking samtools (1.19.2-1build1) ... 239s Selecting previously unselected package samtools-test. 239s Preparing to unpack .../4-samtools-test_1.19.2-1build1_all.deb ... 239s Unpacking samtools-test (1.19.2-1build1) ... 240s Selecting previously unselected package tabix. 240s Preparing to unpack .../5-tabix_1.19+ds-1.1build2_armhf.deb ... 240s Unpacking tabix (1.19+ds-1.1build2) ... 240s Selecting previously unselected package autopkgtest-satdep. 240s Preparing to unpack .../6-1-autopkgtest-satdep.deb ... 240s Unpacking autopkgtest-satdep (0) ... 240s Setting up libhtscodecs2:armhf (1.6.0-1) ... 240s Setting up libdeflate0:armhf (1.19-1) ... 240s Setting up libhts3t64:armhf (1.19+ds-1.1build2) ... 240s Setting up samtools-test (1.19.2-1build1) ... 240s Setting up tabix (1.19+ds-1.1build2) ... 240s Setting up samtools (1.19.2-1build1) ... 240s Setting up autopkgtest-satdep (0) ... 240s Processing triggers for man-db (2.12.0-3build4) ... 240s Processing triggers for libc-bin (2.39-0ubuntu6) ... 253s (Reading database ... 59276 files and directories currently installed.) 253s Removing autopkgtest-satdep (0) ... 258s autopkgtest [22:35:21]: test run-unit-test: [----------------------- 260s test_reference: 260s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reference test/reference/mpileup.1.tmp.cram 260s .. ok 260s 260s test_reference: 260s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reference -e test/reference/mpileup.1.tmp.cram 260s .. ok 260s 260s test_reference: 260s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reference -r 17:1000-1500 test/reference/mpileup.1.tmp.cram 260s .. ok 260s 260s test_reference: 260s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reference -r 17:1000-1500 -e test/reference/mpileup.1.tmp.cram 260s .. ok 260s 260s test_reference: 260s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reference -@ 2 test/reference/mpileup.1.tmp.cram 260s .. ok 260s 260s test_reference: 260s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reference -@ 2 -e test/reference/mpileup.1.tmp.cram 260s .. ok 260s 260s test_reference: 260s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reference -@ 2 -r 17:1000-1500 test/reference/mpileup.1.tmp.cram 260s .. ok 260s 260s test_reference: 260s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reference -@ 2 -r 17:1000-1500 -e test/reference/mpileup.1.tmp.cram 260s .. ok 260s 260s bgzip -c -b 65272 -s 5 /tmp/jfHE_4WYh9/bgzip.dat.gz 260s .. ok 260s 260s bgzip -c -b 979200 -s 6 /tmp/jfHE_4WYh9/bgzip.dat.gz 260s .. ok 260s 260s bgzip -c -b 652804 -s 6 /tmp/jfHE_4WYh9/bgzip.dat.gz 260s .. ok 260s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools faidx /tmp/jfHE_4WYh9/faidx.fa 3:11-13 | grep -v '^>' 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools faidx /tmp/jfHE_4WYh9/faidx.fa.gz 3:11-13 | grep -v '^>' 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools faidx /tmp/jfHE_4WYh9/faidx.fa 2:998-1003 | grep -v '^>' 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools faidx /tmp/jfHE_4WYh9/faidx.fa.gz 2:998-1003 | grep -v '^>' 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools faidx /tmp/jfHE_4WYh9/faidx.fa 1:100-104 | grep -v '^>' 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools faidx /tmp/jfHE_4WYh9/faidx.fa.gz 1:100-104 | grep -v '^>' 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools faidx /tmp/jfHE_4WYh9/faidx.fa 1:99998-100007 | grep -v '^>' 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools faidx /tmp/jfHE_4WYh9/faidx.fa.gz 1:99998-100007 | grep -v '^>' 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fqidx /tmp/jfHE_4WYh9/fqidx.fq 3:11-13 261s .. ok 261s 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fqidx /tmp/jfHE_4WYh9/fqidx.fq.gz 3:11-13 261s .. ok 261s 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fqidx /tmp/jfHE_4WYh9/fqidx.fq 2:998-1003 261s .. ok 261s 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fqidx /tmp/jfHE_4WYh9/fqidx.fq.gz 2:998-1003 261s .. ok 261s 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fqidx /tmp/jfHE_4WYh9/fqidx.fq 1:100-104 261s .. ok 261s 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fqidx /tmp/jfHE_4WYh9/fqidx.fq.gz 1:100-104 261s .. ok 261s 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fqidx /tmp/jfHE_4WYh9/fqidx.fq 1:99998-100007 261s .. ok 261s 261s .. ok 261s 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fqidx /tmp/jfHE_4WYh9/fqidx.fq.gz 1:99998-100007 261s .. ok 261s 261s .. ok 261s 261s test_dict: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/dict.fa 261s .. ok 261s 261s test_dict: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz /tmp/jfHE_4WYh9/dict.fa.gz 261s .. ok 261s 261s test_dict: 261s cat /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/dict.fa | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools dict -a hf37d5 -s 'Homo floresiensis' -u ftp://example.com/hf37d5.fa.gz 261s .. ok 261s 261s test_dict: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools dict -AH < /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/dict.alias.fa 261s .. ok 261s 261s test_dict: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools dict -H -l /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/dict.alt < /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/dict.alias.fa 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view /tmp/jfHE_4WYh9/large_chrom.bam ref2 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view /tmp/jfHE_4WYh9/large_chrom.bam ref2:1-541556283 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam && cat /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -X /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/jfHE_4WYh9/test_input_1_b.bam.bai ref2 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -X /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/jfHE_4WYh9/test_input_1_b.bam.bai 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -O sam - -X -cp -R ref2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai /tmp/jfHE_4WYh9/test_input_1_b.bam.bai 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -X /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/jfHE_4WYh9/test_input_1_b_opt.bam.bai ref2 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam && cat /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -X /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam.bai ref2 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -c /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam /tmp/jfHE_4WYh9/auto_indexed.csi && cat /tmp/jfHE_4WYh9/auto_indexed.csi 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.cram /tmp/jfHE_4WYh9/auto_indexed.crai && cat /tmp/jfHE_4WYh9/auto_indexed.crai 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -c /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.sam /tmp/jfHE_4WYh9/auto_indexed.csi && cat /tmp/jfHE_4WYh9/auto_indexed.csi 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -@ 2 /tmp/jfHE_4WYh9/large_chrom.bam ref2 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -@ 2 /tmp/jfHE_4WYh9/large_chrom.bam ref2:1-541556283 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -@ 2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam && cat /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -@ 2 -X /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/jfHE_4WYh9/test_input_1_b.bam.bai ref2 261s .. ok 261s 261s test_index: 261s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -@ 2 -X /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/jfHE_4WYh9/test_input_1_b.bam.bai 262s .. ok 262s 262s test_index: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -O sam - -X -cp -R ref2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai /tmp/jfHE_4WYh9/test_input_1_b.bam.bai 262s .. ok 262s 262s test_index: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -@ 2 -X /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/jfHE_4WYh9/test_input_1_b_opt.bam.bai ref2 262s .. ok 262s 262s test_index: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -@ 2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam 262s .. ok 262s 262s test_index: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -@ 2 -M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam && cat /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam.bai 262s .. ok 262s 262s test_index: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -@ 2 -X /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam.bai ref2 262s .. ok 262s 262s test_index: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -@ 2 -c /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam /tmp/jfHE_4WYh9/auto_indexed.csi && cat /tmp/jfHE_4WYh9/auto_indexed.csi 262s .. ok 262s 262s test_index: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -@ 2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.cram /tmp/jfHE_4WYh9/auto_indexed.crai && cat /tmp/jfHE_4WYh9/auto_indexed.crai 262s .. ok 262s 262s test_index: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools index -@ 2 -c /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.sam /tmp/jfHE_4WYh9/auto_indexed.csi && cat /tmp/jfHE_4WYh9/auto_indexed.csi 262s .. ok 262s 262s test_mpileup: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools mpileup -b /tmp/jfHE_4WYh9/mpileup.bam.list -f /tmp/jfHE_4WYh9/mpileup.ref.fa.gz -r17:100-150 262s .. ok 262s 262s test_mpileup: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools mpileup -b /tmp/jfHE_4WYh9/mpileup.cram.list -f /tmp/jfHE_4WYh9/mpileup.ref.fa.gz -r17:100-150 262s .. ok 262s 262s test_mpileup: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools mpileup -b /tmp/jfHE_4WYh9/mpileup.bam.urllist -f /tmp/jfHE_4WYh9/mpileup.ref.fa.gz -r17:100-150 262s .. ok 262s 262s test_mpileup: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools mpileup -b /tmp/jfHE_4WYh9/mpileup.cram.urllist -f /tmp/jfHE_4WYh9/mpileup.ref.fa.gz -r17:100-150 262s .. ok 262s 262s test_mpileup: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools mpileup -B --ff 0x14 -f /tmp/jfHE_4WYh9/mpileup.ref.fa.gz -r17:1050-1060 /tmp/jfHE_4WYh9/mpileup.1.bam | grep -v mpileup 262s .. ok 262s 262s test_mpileup: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools mpileup -B --ff 0x14 -f /tmp/jfHE_4WYh9/mpileup.ref.fa.gz -r17:1050-1060 /tmp/jfHE_4WYh9/mpileup.1.cram | grep -v mpileup 262s .. ok 262s 262s test_mpileup: 262s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools mpileup /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/mpileup/overlap.bam | grep 128814202 262s ./test/test.pl: no IO::Pty module or can't open pty; skipping usage tests 262s .. ok 262s 262s test_usage: 262s samtools 262s test_view: 263s Generating test data file .................. done 263s 1: SAM -> BAM -> SAM .. ok 263s 263s 2: SAM -> uncompressed BAM .. ok 263s 263s 3: uncompressed BAM -> SAM and compare .. ok 263s 263s 4: SAM -> fast compressed BAM .. ok 263s 263s 5: fast compressed BAM -> SAM and compare .. ok 263s 264s 6: SAM -> CRAM -> SAM (UR header tags) .. ok 264s 264s 7: SAM -> CRAM -> SAM (M5 header tags) .. ok 264s 265s 8: BAM -> CRAM with UR -> SAM .. ok 265s 265s 9: SAM -> BAM (M5 header tags) .. ok 265s 265s 10: SAM -> BAM -> CRAM -> SAM (M5 header tags) .. ok 265s 266s 11: CRAM -> BAM with UR .. ok 266s 266s 12: CRAM -> BAM with M5 .. ok 266s 266s 13: SAM -> SAM via stdout .. ok 266s 266s 14: SAM -> BAM via stdout .. ok 266s 267s 15: SAM -> CRAM via stdout .. ok 267s 267s 16: SAM from stdin -> SAM .. ok 267s 267s 17: BAM from stdin -> SAM .. ok 267s 267s 18: CRAM from stdin -> SAM .. ok 267s 267s 19: samtools view -H (SAM input) .. ok 267s 267s 20: samtools view -H (BAM input) .. ok 267s 267s 21: samtools view -H (CRAM input) .. ok 267s 267s 22: No headers (SAM input) .. ok 267s 267s 23: No headers (BAM input) .. ok 267s 268s 24: No headers (CRAM input) .. ok 268s 268s 25: Filter -f 128 (SAM input) .. ok 268s 268s 26: Count -f 128 (SAM input) .. ok 268s 268s 27: Filter -f 128 (BAM input) .. ok 268s 268s 28: Count -f 128 (BAM input) .. ok 268s 268s 29: Filter -f 128 (CRAM input) .. ok 268s 268s 30: Count -f 128 (CRAM input) .. ok 268s 268s 31: Filter -F 128 (SAM input) .. ok 268s 268s 32: Count -F 128 (SAM input) .. ok 268s 268s 33: Filter -F 128 (BAM input) .. ok 268s 268s 34: Count -F 128 (BAM input) .. ok 268s 269s 35: Filter -F 128 (CRAM input) .. ok 269s 269s 36: Count -F 128 (CRAM input) .. ok 269s 269s 37: Filter -F 128 -f 2 (SAM input) .. ok 269s 269s 38: Count -F 128 -f 2 (SAM input) .. ok 269s 269s 39: Filter -F 128 -f 2 (BAM input) .. ok 269s 269s 40: Count -F 128 -f 2 (BAM input) .. ok 269s 269s 41: Filter -F 128 -f 2 (CRAM input) .. ok 269s 269s 42: Count -F 128 -f 2 (CRAM input) .. ok 269s 269s 43: Filter -r grp2 (SAM input) .. ok 269s 269s 44: Count -r grp2 (SAM input) .. ok 269s 269s 45: Filter -r grp2 (BAM input) .. ok 269s 269s 46: Count -r grp2 (BAM input) .. ok 269s 270s 47: Filter -r grp2 (CRAM input) .. ok 270s 270s 48: Count -r grp2 (CRAM input) .. ok 270s 270s 49: Filter -R /tmp/jfHE_4WYh9/view.001.fogn (SAM input) .. ok 270s 270s 50: Count -R /tmp/jfHE_4WYh9/view.001.fogn (SAM input) .. ok 270s 270s 51: Filter -R /tmp/jfHE_4WYh9/view.001.fogn (BAM input) .. ok 270s 270s 52: Count -R /tmp/jfHE_4WYh9/view.001.fogn (BAM input) .. ok 270s 270s 53: Filter -R /tmp/jfHE_4WYh9/view.001.fogn (CRAM input) .. ok 270s 270s 54: Count -R /tmp/jfHE_4WYh9/view.001.fogn (CRAM input) .. ok 270s 270s 55: Filter -R /tmp/jfHE_4WYh9/view.001.fogn -r grp2 (SAM input).. ok 270s 270s 56: Count -R /tmp/jfHE_4WYh9/view.001.fogn -r grp2 (SAM input).. ok 270s 270s 57: Filter -R /tmp/jfHE_4WYh9/view.001.fogn -r grp2 (BAM input).. ok 270s 270s 58: Count -R /tmp/jfHE_4WYh9/view.001.fogn -r grp2 (BAM input).. ok 270s 271s 59: Filter -R /tmp/jfHE_4WYh9/view.001.fogn -r grp2 (CRAM input).. ok 271s 271s 60: Count -R /tmp/jfHE_4WYh9/view.001.fogn -r grp2 (CRAM input).. ok 271s 271s 61: Filter -r grp2 -R /tmp/jfHE_4WYh9/view.001.fogn (SAM input).. ok 271s 271s 62: Count -r grp2 -R /tmp/jfHE_4WYh9/view.001.fogn (SAM input).. ok 271s 271s 63: Filter -r grp2 -R /tmp/jfHE_4WYh9/view.001.fogn (BAM input).. ok 271s 271s 64: Count -r grp2 -R /tmp/jfHE_4WYh9/view.001.fogn (BAM input).. ok 271s 271s 65: Filter -r grp2 -R /tmp/jfHE_4WYh9/view.001.fogn (CRAM input).. ok 271s 271s 66: Count -r grp2 -R /tmp/jfHE_4WYh9/view.001.fogn (CRAM input).. ok 271s 271s 67: Filter -N /tmp/jfHE_4WYh9/view.001.forn (SAM input) .. ok 271s 271s 68: Count -N /tmp/jfHE_4WYh9/view.001.forn (SAM input) .. ok 271s 271s 69: Filter -N /tmp/jfHE_4WYh9/view.001.forn (BAM input) .. ok 271s 271s 70: Count -N /tmp/jfHE_4WYh9/view.001.forn (BAM input) .. ok 271s 272s 71: Filter -N /tmp/jfHE_4WYh9/view.001.forn (CRAM input) .. ok 272s 272s 72: Count -N /tmp/jfHE_4WYh9/view.001.forn (CRAM input) .. ok 272s 272s 73: Filter -d BC (SAM input) .. ok 272s 272s 74: Count -d BC (SAM input) .. ok 272s 272s 75: Filter -d BC (BAM input) .. ok 272s 272s 76: Count -d BC (BAM input) .. ok 272s 272s 77: Filter -d BC (CRAM input) .. ok 272s 272s 78: Count -d BC (CRAM input) .. ok 272s 272s 79: Filter -d BC:TGCA (SAM input) .. ok 272s 272s 80: Count -d BC:TGCA (SAM input) .. ok 272s 272s 81: Filter -d BC:TGCA (BAM input) .. ok 272s 272s 82: Count -d BC:TGCA (BAM input) .. ok 272s 273s 83: Filter -d BC:TGCA (CRAM input) .. ok 273s 273s 84: Count -d BC:TGCA (CRAM input) .. ok 273s 273s 85: Filter -D BC:/tmp/jfHE_4WYh9/view.001.fobc (SAM input) .. ok 273s 273s 86: Count -D BC:/tmp/jfHE_4WYh9/view.001.fobc (SAM input) .. ok 273s 273s 87: Filter -D BC:/tmp/jfHE_4WYh9/view.001.fobc (BAM input) .. ok 273s 273s 88: Count -D BC:/tmp/jfHE_4WYh9/view.001.fobc (BAM input) .. ok 273s 273s 89: Filter -D BC:/tmp/jfHE_4WYh9/view.001.fobc (CRAM input) .. ok 273s 273s 90: Count -D BC:/tmp/jfHE_4WYh9/view.001.fobc (CRAM input) .. ok 273s 273s 91: Filter -D BC:/tmp/jfHE_4WYh9/view.001.fobc -d BC:TGCA (SAM input).. ok 273s 273s 92: Count -D BC:/tmp/jfHE_4WYh9/view.001.fobc -d BC:TGCA (SAM input).. ok 273s 273s 93: Filter -D BC:/tmp/jfHE_4WYh9/view.001.fobc -d BC:TGCA (BAM input).. ok 273s 273s 94: Count -D BC:/tmp/jfHE_4WYh9/view.001.fobc -d BC:TGCA (BAM input).. ok 273s 274s 95: Filter -D BC:/tmp/jfHE_4WYh9/view.001.fobc -d BC:TGCA (CRAM input).. ok 274s 274s 96: Count -D BC:/tmp/jfHE_4WYh9/view.001.fobc -d BC:TGCA (CRAM input).. ok 274s 274s 97: Filter -d BC:TGCA -D BC:/tmp/jfHE_4WYh9/view.001.fobc (SAM input).. ok 274s 274s 98: Count -d BC:TGCA -D BC:/tmp/jfHE_4WYh9/view.001.fobc (SAM input).. ok 274s 274s 99: Filter -d BC:TGCA -D BC:/tmp/jfHE_4WYh9/view.001.fobc (BAM input).. ok 274s 274s 100: Count -d BC:TGCA -D BC:/tmp/jfHE_4WYh9/view.001.fobc (BAM input).. ok 274s 274s 101: Filter -d BC:TGCA -D BC:/tmp/jfHE_4WYh9/view.001.fobc (CRAM input).. ok 274s 274s 102: Count -d BC:TGCA -D BC:/tmp/jfHE_4WYh9/view.001.fobc (CRAM input).. ok 274s 274s 103: Filter -D RG:/tmp/jfHE_4WYh9/view.001.fogn (SAM input) .. ok 274s 274s 104: Count -D RG:/tmp/jfHE_4WYh9/view.001.fogn (SAM input) .. ok 274s 274s 105: Filter -D RG:/tmp/jfHE_4WYh9/view.001.fogn (BAM input) .. ok 274s 275s 106: Count -D RG:/tmp/jfHE_4WYh9/view.001.fogn (BAM input) .. ok 275s 275s 107: Filter -D RG:/tmp/jfHE_4WYh9/view.001.fogn (CRAM input).. ok 275s 275s 108: Count -D RG:/tmp/jfHE_4WYh9/view.001.fogn (CRAM input) .. ok 275s 275s 109: Filter -d NE:TGCA (SAM input) .. ok 275s 275s 110: Count -d NE:TGCA (SAM input) .. ok 275s 275s 111: Filter -d NE:TGCA (BAM input) .. ok 275s 275s 112: Count -d NE:TGCA (BAM input) .. ok 275s 275s 113: Filter -d NE:TGCA (CRAM input) .. ok 275s 275s 114: Count -d NE:TGCA (CRAM input) .. ok 275s 275s 115: Filter -d TGCA (SAM input) samtools view: Invalid "tag:value" option: "TGCA" 275s samtools view: Invalid "tag:value" option: "TGCA" 275s Failed command: 275s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test115.sam -h -d TGCA /tmp/jfHE_4WYh9/view.001.sam --no-PG 275s 275s 275s .. expected failure 275s 275s 116: Count -d TGCA (SAM input) Failed command: 275s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -d TGCA /tmp/jfHE_4WYh9/view.001.sam --no-PG 275s 275s 275s .. expected failure 275s 275s 117: Filter -d TGCA (BAM input) samtools view: Invalid "tag:value" option: "TGCA" 275s Failed command: 275s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test117.sam -h -d TGCA /tmp/jfHE_4WYh9/view.test001.bam --no-PG 275s 275s 275s .. expected failure 275s 275s 118: Count -d TGCA (BAM input) samtools view: Invalid "tag:value" option: "TGCA" 275s Failed command: 275s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -d TGCA /tmp/jfHE_4WYh9/view.test001.bam --no-PG 275s 275s 275s .. expected failure 275s 275s 119: Filter -d TGCA (CRAM input) samtools view: Invalid "tag:value" option: "TGCA" 275s Failed command: 275s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test119.sam -h -d TGCA /tmp/jfHE_4WYh9/view.test006.cram --no-PG 275s 275s 275s .. expected failure 275s 275s 120: Count -d TGCA (CRAM input) samtools view: Invalid "tag:value" option: "TGCA" 275s Failed command: 275s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -d TGCA /tmp/jfHE_4WYh9/view.test006.cram --no-PG 275s 275s 275s .. expected failure 275s 276s 121: Filter -D BClong:/tmp/jfHE_4WYh9/view.001.fobc (SAM input)samtools view: Invalid "tag:file" option: "BClong:/tmp/jfHE_4WYh9/view.001.fobc" Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test121.sam -h -D BClong:/tmp/jfHE_4WYh9/view.001.fobc /tmp/jfHE_4WYh9/view.001.sam --no-PG 276s 276s 276s .. expected failure 276s 276s 122: Count -D BClong:/tmp/jfHE_4WYh9/view.001.fobc (SAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -D BClong:/tmp/jfHE_4WYh9/view.001.fobc /tmp/jfHE_4WYh9/view.001.sam --no-PG 276s 276s 276s .. expected failure 276s 276s 123: Filter -D BClong:/tmp/jfHE_4WYh9/view.001.fobc (BAM input) 276s samtools view: Invalid "tag:file" option: "BClong:/tmp/jfHE_4WYh9/view.001.fobc" 276s samtools view: Invalid "tag:file" option: "BClong:/tmp/jfHE_4WYh9/view.001.fobc" 276s samtools view: Invalid "tag:file" option: "BClong:/tmp/jfHE_4WYh9/view.001.fobc" 276s samtools view: Invalid "tag:file" option: "BClong:/tmp/jfHE_4WYh9/view.001.fobc" 276s samtools view: Invalid "tag:file" option: "BClong:/tmp/jfHE_4WYh9/view.001.fobc" 276s samtools view: Different tag "BC" was specified before: "RG:grp2" 276s samtools view: Different tag "BC" was specified before: "RG:grp2" 276s samtools view: Different tag "BC" was specified before: "RG:grp2" 276s samtools view: Different tag "BC" was specified before: "RG:grp2" 276s samtools view: Different tag "BC" was specified before: "RG:grp2" 276s samtools view: Different tag "BC" was specified before: "RG:grp2" 276s Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test123.sam -h -D BClong:/tmp/jfHE_4WYh9/view.001.fobc /tmp/jfHE_4WYh9/view.test001.bam --no-PG 276s 276s 276s .. expected failure 276s 276s 124: Count -D BClong:/tmp/jfHE_4WYh9/view.001.fobc (BAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -D BClong:/tmp/jfHE_4WYh9/view.001.fobc /tmp/jfHE_4WYh9/view.test001.bam --no-PG 276s 276s 276s .. expected failure 276s 276s 125: Filter -D BClong:/tmp/jfHE_4WYh9/view.001.fobc (CRAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test125.sam -h -D BClong:/tmp/jfHE_4WYh9/view.001.fobc /tmp/jfHE_4WYh9/view.test006.cram --no-PG 276s 276s 276s .. expected failure 276s 276s 126: Count -D BClong:/tmp/jfHE_4WYh9/view.001.fobc (CRAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -D BClong:/tmp/jfHE_4WYh9/view.001.fobc /tmp/jfHE_4WYh9/view.test006.cram --no-PG 276s 276s 276s .. expected failure 276s 276s 127: Filter -d BC:ACGT -d RG:grp2 (SAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test127.sam -h -d BC:ACGT -d RG:grp2 /tmp/jfHE_4WYh9/view.001.sam --no-PG 276s 276s 276s .. expected failure 276s 276s 128: Count -d BC:ACGT -d RG:grp2 (SAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/jfHE_4WYh9/view.001.sam --no-PG 276s 276s 276s .. expected failure 276s 276s 129: Filter -d BC:ACGT -d RG:grp2 (BAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test129.sam -h -d BC:ACGT -d RG:grp2 /tmp/jfHE_4WYh9/view.test001.bam --no-PG 276s 276s 276s .. expected failure 276s 276s 130: Count -d BC:ACGT -d RG:grp2 (BAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/jfHE_4WYh9/view.test001.bam --no-PG 276s 276s 276s .. expected failure 276s 276s 131: Filter -d BC:ACGT -d RG:grp2 (CRAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -o /tmp/jfHE_4WYh9/view.test131.sam -h -d BC:ACGT -d RG:grp2 /tmp/jfHE_4WYh9/view.test006.cram --no-PG 276s 276s 276s .. expected failure 276s 276s 132: Count -d BC:ACGT -d RG:grp2 (CRAM input) Failed command: 276s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -c -d BC:ACGT -d RG:grp2 /tmp/jfHE_4WYh9/view.test006.cram --no-PG 276s 276s 276s .. expected failure 276s 276s 133: Filter -d NM:13 (SAM input) .. ok 276s 276s 134: Count -d NM:13 (SAM input) .. ok 276s 276s 135: Filter -d NM:13 (BAM input) .. ok 276s 276s 136: Count -d NM:13 (BAM input) .. ok 276s 276s 137: Filter -d NM:13 (CRAM input) .. ok 276s 277s 138: Count -d NM:13 (CRAM input) .. ok 277s 277s 139: Filter -d ab:z (SAM input) .. ok 277s 277s 140: Count -d ab:z (SAM input) .. ok 277s 277s 141: Filter -d ab:z (BAM input) .. ok 277s 277s 142: Count -d ab:z (BAM input) .. ok 277s 277s 143: Filter -d ab:z (CRAM input) .. ok 277s 277s 144: Count -d ab:z (CRAM input) .. ok 277s 277s 145: Filter -l Library 2 (SAM input) .. ok 277s 277s 146: Count -l Library 2 (SAM input) .. ok 277s 277s 147: Filter -l Library 2 (BAM input) .. ok 277s 277s 148: Count -l Library 2 (BAM input) .. ok 277s 278s 149: Filter -l Library 2 (CRAM input) .. ok 278s 278s 150: Count -l Library 2 (CRAM input) .. ok 278s 278s 151: Filter -l Library 3 (SAM input) .. ok 278s 278s 152: Count -l Library 3 (SAM input) .. ok 278s 278s 153: Filter -l Library 3 (BAM input) .. ok 278s 278s 154: Count -l Library 3 (BAM input) .. ok 278s 278s 155: Filter -l Library 3 (CRAM input) .. ok 278s 278s 156: Count -l Library 3 (CRAM input) .. ok 278s 278s 157: Filter -q 50 (SAM input) .. ok 278s 278s 158: Count -q 50 (SAM input) .. ok 278s 278s 159: Filter -q 50 (BAM input) .. ok 278s 278s 160: Count -q 50 (BAM input) .. ok 278s 279s 161: Filter -q 50 (CRAM input) .. ok 279s 279s 162: Count -q 50 (CRAM input) .. ok 279s 279s 163: Filter -q 99 (SAM input) .. ok 279s 279s 164: Count -q 99 (SAM input) .. ok 279s 279s 165: Filter -q 99 (BAM input) .. ok 279s 279s 166: Count -q 99 (BAM input) .. ok 279s 279s 167: Filter -q 99 (CRAM input) .. ok 279s 279s 168: Count -q 99 (CRAM input) .. ok 279s 279s 169: Filter -q 100 (SAM input) .. ok 279s 279s 170: Count -q 100 (SAM input) .. ok 279s 279s 171: Filter -q 100 (BAM input) .. ok 279s 279s 172: Count -q 100 (BAM input) .. ok 279s 280s 173: Filter -q 100 (CRAM input) .. ok 280s 280s 174: Count -q 100 (CRAM input) .. ok 280s 280s 175: Filter -x fa (SAM input) .. ok 280s 280s 176: Count -x fa (SAM input) .. ok 280s 280s 177: Filter -x fa (BAM input) .. ok 280s 280s 178: Count -x fa (BAM input) .. ok 280s 281s 179: Filter -x fa (CRAM input) .. ok 281s 281s 180: Count -x fa (CRAM input) .. ok 281s 281s 181: Filter -x fa -x ha (SAM input) .. ok 281s 281s 182: Count -x fa -x ha (SAM input) .. ok 281s 281s 183: Filter -x fa -x ha (BAM input) .. ok 281s 281s 184: Count -x fa -x ha (BAM input) .. ok 281s 281s 185: Filter -x fa -x ha (CRAM input) .. ok 281s 281s 186: Count -x fa -x ha (CRAM input) .. ok 281s 281s 187: Filter -x fa,ha (SAM input) .. ok 281s 281s 188: Count -x fa,ha (SAM input) .. ok 281s 281s 189: Filter -x fa,ha (BAM input) .. ok 281s 281s 190: Count -x fa,ha (BAM input) .. ok 281s 282s 191: Filter -x fa,ha (CRAM input) .. ok 282s 282s 192: Count -x fa,ha (CRAM input) .. ok 282s 282s 193: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 282s 282s 194: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 282s 282s 195: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 282s 282s 196: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 282s 282s 197: Filter -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 282s 282s 198: Count -x ^RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 282s 282s 199: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 282s 282s 200: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (SAM input).. ok 282s 282s 201: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 282s 282s 202: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (BAM input).. ok 282s 283s 203: Filter --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 283s 283s 204: Count --keep-tag RG,BC,NM,MD,H0,aa,ab,za,ba,bb,bc,bd,be,bf,bg,ia (CRAM input).. ok 283s 283s 205: Filter -x fa -r grp2 (SAM input) .. ok 283s 283s 206: Count -x fa -r grp2 (SAM input) .. ok 283s 283s 207: Filter -x fa -r grp2 (BAM input) .. ok 283s 283s 208: Count -x fa -r grp2 (BAM input) .. ok 283s 283s 209: Filter -x fa -r grp2 (CRAM input) .. ok 283s 283s 210: Count -x fa -r grp2 (CRAM input) .. ok 283s 283s 211: Filter -x RG -r grp2 (SAM input) .. ok 283s 283s 212: Count -x RG -r grp2 (SAM input) .. ok 283s 283s 213: Filter -x RG -r grp2 (BAM input) .. ok 283s 283s 214: Count -x RG -r grp2 (BAM input) .. ok 283s 284s 215: Filter -x RG -r grp2 (CRAM input) .. ok 284s 284s 216: Count -x RG -r grp2 (CRAM input) .. ok 284s 284s 217: Filter -m 10 (SAM input) .. ok 284s 284s 218: Count -m 10 (SAM input) .. ok 284s 284s 219: Filter -m 10 (BAM input) .. ok 284s 284s 220: Count -m 10 (BAM input) .. ok 284s 284s 221: Filter -m 10 (CRAM input) .. ok 284s 285s 222: Count -m 10 (CRAM input) .. ok 285s 285s 223: Filter -m 11 (SAM input) .. ok 285s 285s 224: Count -m 11 (SAM input) .. ok 285s 285s 225: Filter -m 11 (BAM input) .. ok 285s 285s 226: Count -m 11 (BAM input) .. ok 285s 285s 227: Filter -m 11 (CRAM input) .. ok 285s 286s 228: Count -m 11 (CRAM input) .. ok 286s 286s 229: Filter -m 15 (SAM input) .. ok 286s 286s 230: Count -m 15 (SAM input) .. ok 286s 286s 231: Filter -m 15 (BAM input) .. ok 286s 286s 232: Count -m 15 (BAM input) .. ok 286s 286s 233: Filter -m 15 (CRAM input) .. ok 286s 287s 234: Count -m 15 (CRAM input) .. ok 287s 287s 235: Filter -m 16 (SAM input) .. ok 287s 287s 236: Count -m 16 (SAM input) .. ok 287s 287s 237: Filter -m 16 (BAM input) .. ok 287s 287s 238: Count -m 16 (BAM input) .. ok 287s 287s 239: Filter -m 16 (CRAM input) .. ok 287s 288s 240: Count -m 16 (CRAM input) .. ok 288s 288s 241: Filter -e !(flag & 128) && (flag & 2) (SAM input) .. ok 288s 288s 242: Count -e !(flag & 128) && (flag & 2) (SAM input) .. ok 288s 288s 243: Filter -e !(flag & 128) && (flag & 2) (BAM input) .. ok 288s 288s 244: Count -e !(flag & 128) && (flag & 2) (BAM input) .. ok 288s 288s 245: Filter -e !(flag & 128) && (flag & 2) (CRAM input) .. ok 288s 289s 246: Count -e !(flag & 128) && (flag & 2) (CRAM input) .. ok 289s 289s 247: Filter -e [BC] (SAM input) .. ok 289s 289s 248: Count -e [BC] (SAM input) .. ok 289s 289s 249: Filter -e [BC] (BAM input) .. ok 289s 289s 250: Count -e [BC] (BAM input) .. ok 289s 289s 251: Filter -e [BC] (CRAM input) .. ok 289s 290s 252: Count -e [BC] (CRAM input) .. ok 290s 290s 253: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (SAM input).. ok 290s 290s 254: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (SAM input).. ok 290s 290s 255: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (BAM input).. ok 290s 290s 256: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (BAM input).. ok 290s 290s 257: Filter -e [BC] == "ACGT" || [BC] == "AATTCCGG" (CRAM input).. ok 290s 291s 258: Count -e [BC] == "ACGT" || [BC] == "AATTCCGG" (CRAM input).. ok 291s 291s 259: Filter -e mapq >= 50 (SAM input) .. ok 291s 291s 260: Count -e mapq >= 50 (SAM input) .. ok 291s 291s 261: Filter -e mapq >= 50 (BAM input) .. ok 291s 291s 262: Count -e mapq >= 50 (BAM input) .. ok 291s 292s 263: Filter -e mapq >= 50 (CRAM input) .. ok 292s 292s 264: Count -e mapq >= 50 (CRAM input) .. ok 292s 292s 265: Filter -e mapq >= 99 (SAM input) .. ok 292s 292s 266: Count -e mapq >= 99 (SAM input) .. ok 292s 292s 267: Filter -e mapq >= 99 (BAM input) .. ok 292s 292s 268: Count -e mapq >= 99 (BAM input) .. ok 292s 293s 269: Filter -e mapq >= 99 (CRAM input) .. ok 293s 294s 270: Count -e mapq >= 99 (CRAM input) .. ok 294s 294s 271: Filter -e mapq >= 100 (SAM input) .. ok 294s 294s 272: Count -e mapq >= 100 (SAM input) .. ok 294s 294s 273: Filter -e mapq >= 100 (BAM input) .. ok 294s 294s 274: Count -e mapq >= 100 (BAM input) .. ok 294s 294s 275: Filter -e mapq >= 100 (CRAM input) .. ok 294s 295s 276: Count -e mapq >= 100 (CRAM input) .. ok 295s 295s 277: 1bp reads file SAM -> BAM -> SAM .. ok 295s 295s 278: 1bp reads file SAM -> CRAM -> SAM .. ok 295s 295s 278: Region Z (BAM input) .. ok 295s 295s 279: Count Z (BAM input) .. ok 295s 296s 280: Region Z (CRAM input) .. ok 296s 296s 281: Count Z (CRAM input) .. ok 296s 296s 282: Region Z:30 (BAM input) .. ok 296s 296s 283: Count Z:30 (BAM input) .. ok 296s 297s 284: Region Z:30 (CRAM input) .. ok 297s 297s 285: Count Z:30 (CRAM input) .. ok 297s 297s 286: Region Z:20-40 (BAM input) .. ok 297s 297s 287: Count Z:20-40 (BAM input) .. ok 297s 297s 288: Region Z:20-40 (CRAM input) .. ok 297s 297s 289: Count Z:20-40 (CRAM input) .. ok 297s 297s 290: Region ref1 (BAM input) .. ok 297s 297s 291: Count ref1 (BAM input) .. ok 297s 298s 292: Region ref1 (CRAM input) .. ok 298s 298s 293: Count ref1 (CRAM input) .. ok 298s 298s 294: Region ref1:15 (BAM input) .. ok 298s 298s 295: Count ref1:15 (BAM input) .. ok 298s 298s 296: Region ref1:15 (CRAM input) .. ok 298s 298s 297: Count ref1:15 (CRAM input) .. ok 298s 298s 298: Region ref1:15-45 (BAM input) .. ok 298s 298s 299: Count ref1:15-45 (BAM input) .. ok 298s 299s 300: Region ref1:15-45 (CRAM input) .. ok 299s 299s 301: Count ref1:15-45 (CRAM input) .. ok 299s 299s 302: Region ref1:15-45 ref2 (BAM input) .. ok 299s 299s 303: Count ref1:15-45 ref2 (BAM input) .. ok 299s 299s 304: Region ref1:15-45 ref2 (CRAM input) .. ok 299s 299s 305: Count ref1:15-45 ref2 (CRAM input) .. ok 299s 299s 306: Region ref1:15-45 ref2:16 (BAM input) .. ok 299s 299s 307: Count ref1:15-45 ref2:16 (BAM input) .. ok 299s 300s 308: Region ref1:15-45 ref2:16 (CRAM input) .. ok 300s 300s 309: Count ref1:15-45 ref2:16 (CRAM input) .. ok 300s 300s 310: Region ref1:15-45 ref2:16-31 (BAM input) .. ok 300s 300s 311: Count ref1:15-45 ref2:16-31 (BAM input) .. ok 300s 300s 312: Region ref1:15-45 ref2:16-31 (CRAM input) .. ok 300s 300s 313: Count ref1:15-45 ref2:16-31 (CRAM input) .. ok 300s 300s 314: Region ref1:15-15 ref1:45-45 (BAM input) .. ok 300s 300s 315: Count ref1:15-15 ref1:45-45 (BAM input) .. ok 300s 301s 316: Region ref1:15-15 ref1:45-45 (CRAM input) .. ok 301s 301s 317: Count ref1:15-15 ref1:45-45 (CRAM input) .. ok 301s 301s 318: Region -f 128 ref1 (BAM input) .. ok 301s 301s 319: Count -f 128 ref1 (BAM input) .. ok 301s 301s 320: Region -f 128 ref1 (CRAM input) .. ok 301s 301s 321: Count -f 128 ref1 (CRAM input) .. ok 301s 301s 322: Region -q 50 ref1:15-45 (BAM input) .. ok 301s 301s 323: Count -q 50 ref1:15-45 (BAM input) .. ok 301s 302s 324: Region -q 50 ref1:15-45 (CRAM input) .. ok 302s 302s 325: Count -q 50 ref1:15-45 (CRAM input) .. ok 302s 302s 326: Region -r grp2 ref1:15-45 (BAM input) .. ok 302s 302s 327: Count -r grp2 ref1:15-45 (BAM input) .. ok 302s 303s 328: Region -r grp2 ref1:15-45 (CRAM input) .. ok 303s 303s 329: Count -r grp2 ref1:15-45 (CRAM input) .. ok 303s 303s 330: Region * (BAM input) .. ok 303s 303s 331: Count * (BAM input) .. ok 303s 303s 332: Region * (CRAM input) .. ok 303s 303s 333: Count * (CRAM input) .. ok 303s 303s 334: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed (BAM input).. ok 303s 303s 335: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed (BAM input).. ok 303s 303s 336: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed (CRAM input).. ok 303s 303s 337: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed (CRAM input).. ok 303s 303s 338: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.02.bed (BAM input).. ok 303s 303s 339: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.02.bed (BAM input).. ok 303s 304s 340: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.02.bed (CRAM input).. ok 304s 304s 341: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.02.bed (CRAM input).. ok 304s 304s 342: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed (BAM input).. ok 304s 304s 343: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed (BAM input).. ok 304s 304s 344: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed (CRAM input).. ok 304s 304s 345: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed (CRAM input).. ok 304s 304s 346: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.02.bed (BAM input).. ok 304s 304s 347: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.02.bed (BAM input).. ok 304s 304s 348: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.02.bed (CRAM input).. ok 304s 304s 349: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.02.bed (CRAM input).. ok 304s 304s 350: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.03.bed (BAM input).. ok 304s 304s 351: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.03.bed (BAM input).. ok 304s 305s 352: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.03.bed (CRAM input).. ok 305s 305s 353: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.03.bed (CRAM input).. ok 305s 305s 354: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z (BAM input).. ok 305s 305s 355: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z (BAM input).. ok 305s 305s 356: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z (CRAM input).. ok 305s 305s 357: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z (CRAM input).. ok 305s 305s 358: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:30 (BAM input).. ok 305s 305s 359: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:30 (BAM input).. ok 305s 306s 360: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:30 (CRAM input).. ok 306s 306s 361: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:30 (CRAM input).. ok 306s 306s 362: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:10-30 (BAM input).. ok 306s 306s 363: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:10-30 (BAM input).. ok 306s 307s 364: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:10-30 (CRAM input).. ok 307s 307s 365: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:10-30 (CRAM input).. ok 307s 307s 366: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:25-35 (BAM input).. ok 307s 307s 367: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:25-35 (BAM input).. ok 307s 307s 368: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:25-35 (CRAM input).. ok 307s 307s 369: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.002.01.bed Z:25-35 (CRAM input).. ok 307s 307s 370: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref1:11-16 (BAM input).. ok 307s 307s 371: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref1:11-16 (BAM input).. ok 307s 308s 372: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref1:11-16 (CRAM input).. ok 308s 308s 373: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref1:11-16 (CRAM input).. ok 308s 308s 374: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref2 (BAM input).. ok 308s 308s 375: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref2 (BAM input).. ok 308s 308s 376: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref2 (CRAM input).. ok 308s 308s 377: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref2 (CRAM input).. ok 308s 308s 378: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (BAM input).. ok 308s 308s 379: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (BAM input).. ok 308s 309s 380: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (CRAM input).. ok 309s 309s 381: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed ref1:1-15 ref1:44-45 (CRAM input).. ok 309s 309s 382: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 (BAM input).. ok 309s 309s 383: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 (BAM input).. ok 309s 309s 384: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 (CRAM input).. ok 309s 309s 385: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 (CRAM input).. ok 309s 309s 386: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -f 128 (BAM input).. ok 309s 309s 387: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -f 128 (BAM input).. ok 309s 310s 388: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -f 128 (CRAM input).. ok 310s 310s 389: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -f 128 (CRAM input).. ok 310s 310s 390: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -q 5 (BAM input).. ok 310s 310s 391: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -q 5 (BAM input).. ok 310s 310s 392: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -q 5 (CRAM input).. ok 310s 310s 393: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -q 5 (CRAM input).. ok 310s 310s 394: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 ref1:11-16 (BAM input).. ok 310s 310s 395: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 ref1:11-16 (BAM input).. ok 310s 311s 396: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 ref1:11-16 (CRAM input).. ok 311s 311s 397: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -r grp1 ref1:11-16 (CRAM input).. ok 311s 311s 398: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap (BAM input).. ok 311s 311s 399: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap (BAM input).. ok 311s 311s 400: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap (CRAM input).. ok 311s 311s 401: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap (CRAM input).. ok 311s 311s 402: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap ref1:11-30 (BAM input).. ok 311s 311s 403: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap ref1:11-30 (BAM input).. ok 311s 312s 404: Region -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap ref1:11-30 (CRAM input).. ok 312s 312s 405: Count -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.01.bed -M --unmap ref1:11-30 (CRAM input).. ok 312s 312s 406: Make BAM with no M5/UR tags .. ok 312s 312s 407: Add @SQ with -t (SAM -> SAM) .. ok 312s 312s 408: Add @SQ with -T (SAM -> SAM) .. ok 312s 312s 409: Add @SQ with -t (BAM -> SAM) .. ok 312s 312s 410: Add @SQ with -T (BAM -> SAM) .. ok 312s 312s 411: Add @SQ with -t (SAM -> BAM) .. ok 312s 312s 412: Add @SQ with -T (SAM -> BAM) .. ok 312s 312s 413: Add @SQ with -t (BAM -> BAM) .. ok 312s 312s 414: Add @SQ with -T (BAM -> BAM) .. ok 312s 312s 415: Add @SQ with -t (SAM -> CRAM) .. ok 312s 313s 416: Add @SQ with -T (SAM -> CRAM) .. ok 313s 313s 417: Add @SQ with -t (BAM -> CRAM) .. ok 313s 314s 418: Add @SQ with -T (BAM -> CRAM) .. ok 314s 314s 419: Make CRAM with no UR field .. ok 314s 314s 420: Decoding CRAM with no UR field via -T .. ok 314s 314s 421: CIGAR B-operator removal .. ok 314s 314s 422: Big SAM -> BAM .. ok 314s 315s 423: Big SAM -> BAM (2 threads) .. ok 315s 315s 424: Big SAM -> BAM (4 threads) .. ok 315s 317s 425: Big SAM -> CRAM .. ok 317s 318s 426: Big SAM -> CRAM (2 threads) .. ok 318s 320s 427: Big SAM -> CRAM (4 threads) .. ok 320s 321s 428: Subsample 0.2 (SAM input) ............ ok 321s 322s 429: Subsample 0.5 (SAM input) ............ ok 322s 324s 430: Subsample 0.8 (SAM input) ............ ok 324s 324s 431: Subsample 0.2 (BAM input) ............ ok 324s 325s 432: Subsample 0.5 (BAM input) ............ ok 325s 326s 433: Subsample 0.8 (BAM input) ............ ok 326s 333s 434: Subsample 0.2 (CRAM input) ............ ok 333s 339s 435: Subsample 0.5 (CRAM input) ............ ok 339s 346s 436: Subsample 0.8 (CRAM input) ............ ok 346s 346s 437: SAM add PG .. ok 346s 346s 438: Unset dup flag, remove dt and do tags .. ok 346s 346s 439: Unmap dup flagged reads. .. ok 346s 346s 440: Unmap dup flagged reads. .. ok 346s 346s 441: fetch pairs .. ok 346s 346s 442: fetch pairs .. ok 346s 346s 443: fetch pairs .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -h 0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -h 1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -h 5 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -h 29 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -h 30 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -n 0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -n 1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -n 5 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_head: 346s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools head -h 5 -n 5 < /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.sam 346s .. ok 346s 346s test_cat: 346s Generating test data file .................. done 346s Generate BAM file #1 .. ok 346s 347s Generate CRAM file #1 .. ok 347s 347s Generating test data file .................. done 347s Generate BAM file #2 .. ok 347s 347s Generate CRAM file #2 .. ok 347s 347s Generating test data file .................. done 347s Generate BAM file #3 .. ok 347s 348s Generate CRAM file #3 .. ok 348s 348s Generating test data file .................. done 348s Generate BAM file #4 .. ok 348s 348s Generate CRAM file #4 .. ok 348s 348s 1: cat BAM files .. ok 348s 349s 2: cat recompressed BAM files .. ok 349s 349s 3: cat CRAM files .. ok 349s 349s 4: cat BAM files to stdout .. ok 349s 349s 5: cat recompressed BAM files to stdout .. ok 349s 350s 6: cat CRAM files to stdout .. ok 350s 350s 7: cat BAM files with new header .. ok 350s 350s 8: cat recompressed BAM files with new header .. ok 350s 350s 9: cat CRAM files with new header .. ok 350s 350s test_import: 350s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import -0 test/bam2fq/1.1.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/0.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import -s test/bam2fq/1.1.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/0.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import -s test/bam2fq/5.s.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/bam2fq/5.1.fq.expected test/bam2fq/5.2.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import -i -1 test/bam2fq/12.1.fq.expected -2 test/bam2fq/12.2.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -i --index-format 'i*i*' -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import --barcode-tag OX -i -1 test/bam2fq/12.1.fq.expected -2 test/bam2fq/12.2.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq --barcode-tag OX -i --index-format 'i*i*' -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import -T "" -1 test/bam2fq/6.1.fq.expected -2 test/bam2fq/6.2.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -T RG,BC,QT -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import -T "*" -1 test/bam2fq/7.1.fq.expected -2 test/bam2fq/7.2.fq.expected | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -T RG,BC,QT,MD,ia -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -R rgid 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -r ID:rgid 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/bam2fq/1.1.fq.expected test/bam2fq/1.2.fq.expected -r '@RG ID:rgid' 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/import/2.interleaved.fq -T "" 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/import/3.interleaved.fq -i 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/import/4.aux.fq -T "*" 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/import/4.aux.fq -T "" 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools import test/import/4.aux.fq -T XZ,XA,AA 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/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 351s .. ok 351s 351s test_import: 351s /tmp/autopkgtest.cZ6P0Y/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 351s .. ok 351s 351s test_bam2fq: 351s Generate BAM file .. ok 351s 351s Generate CRAM file .. ok 351s 351s 1: fastq (SAM input) .. ok 351s 351s 2: fastq -n (SAM input) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 3: fastq (BAM input) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 4: fastq -n (BAM input) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 5: fastq (CRAM input) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 6: fastq -n (CRAM input) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.002.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.003.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq --barcode-tag BC --index-format 'n2i2' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.004.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq --barcode-tag BC -O --index-format 'n2i2' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.004.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq --barcode-tag BC -O --index-format 'n2i2' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.010.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq --barcode-tag BC -N --index-format 'n*i*' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bc_split.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -t -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -t -T MD,ia -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq --barcode-tag BC -i --index-format 'n2i2' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/i.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.004.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq --barcode-tag BC -i --index-format 'i*i*' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/i.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -i --index-format 'i*i*' -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.703.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fasta -N -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fa -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -s /tmp/jfHE_4WYh9/bam2fq.discard.s.fq -0 /tmp/jfHE_4WYh9/bam2fq.discard.0.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -T ba,bb,bc,bd,be,bf,bg /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.013.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq --index-format 'i8n1i8' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/i1.fq --i2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/i2.fq -0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/0.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.014.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -T '' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -t -T '*' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -T '*' -d MD:10 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -T '*' -d NM:0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -N -T '*' -d ia /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s Generate BAM file (2 threads) .. ok 351s 351s Generate CRAM file (2 threads) .. ok 351s 351s 1: fastq (SAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 2: fastq -n (SAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 3: fastq (BAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 4: fastq -n (BAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 5: fastq (CRAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s 6: fastq -n (CRAM input) (2 threads) [M::bam2fq_mainloop] discarded 0 singletons 351s [M::bam2fq_mainloop] processed 36 reads 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.002.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.003.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC --index-format 'n2i2' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.004.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -O --index-format 'n2i2' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.004.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -O --index-format 'n2i2' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bc.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.010.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -N --index-format 'n*i*' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bc_split.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -t -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -t -T MD,ia -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -i --index-format 'n2i2' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/i.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.004.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 --barcode-tag BC -i --index-format 'i*i*' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/i.fq -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -i --index-format 'i*i*' -s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/s.fq -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.005.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/1.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/2.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.703.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fq -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fasta -@ 2 -N -1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fa -2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/o.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -s /tmp/jfHE_4WYh9/bam2fq.discard.s.fq -0 /tmp/jfHE_4WYh9/bam2fq.discard.0.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -T ba,bb,bc,bd,be,bf,bg /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.013.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 --index-format 'i8n1i8' --i1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/i1.fq --i2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/i2.fq -0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/0.fq /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.014.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -T '' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -t -T '*' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -T '*' -d MD:10 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -T '*' -d NM:0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_bam2fq: 351s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fastq -@ 2 -N -T '*' -d ia /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/bam2fq.001.sam 351s .. ok 351s 351s test_depad: 351s Generate BAM file .. ok 351s 351s depad (SAM input) .. ok 351s 351s depad -s (SAM input) .. ok 351s 351s depad -u (SAM input) .. ok 351s 352s depad -1 (SAM input) .. ok 352s 352s depad (BAM input) .. ok 352s 352s depad -s (BAM input) .. ok 352s 352s depad -u (BAM input) .. ok 352s 352s depad -1 (BAM input) .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/1_map_cigar.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/1_map_cigar_large.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/2_equal_cigar_full_seq.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/2_equal_cigar_full_seq_large.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/3_map_cigar_equal_seq.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/3_map_cigar_equal_seq_large.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/4_X_cigar_full_seq.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/4_X_cigar_full_seq_large.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/5_insert_cigar.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/5_insert_cigar_large.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa -i 0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/5_insert_cigar.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/7_supp.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/7_supp_large.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/8_secondary.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/8_secondary_large.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -S RG -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/1_map_cigar.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -S RG -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/test.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/10_map_cigar.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -t /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11.stats.targets /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11_target.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11_target.bam ref1:10-24 ref1:30-46 ref1:39-56 | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -g 4 -t /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11.stats.targets /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11_target.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -g 4 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11_target.bam ref1:10-24 ref1:30-46 ref1:39-56 | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/12_overlaps.bam -t /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/12_3reads.bed | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/12_overlaps.bam -p -t /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/12_3reads.bed | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/12_overlaps.bam -t /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/12_2reads.bed | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/12_overlaps.bam -p -t /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/12_2reads.bed | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/13_barcodes_ok.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/13_barcodes_ok_ox_bz.sam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/13_barcodes_fail_bc_length.sam | tail -n+4 352s 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/13.barcodes.fail.expected: No such file or directory 352s .. expected failure 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/13_barcodes_fail_hyphen.sam | tail -n+4 352s 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/13.barcodes.fail.expected: No such file or directory 352s .. expected failure 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/13_barcodes_fail_qt_length.sam | tail -n+4 352s 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/13.barcodes.fail.expected: No such file or directory 352s .. expected failure 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -I s1 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11_target.bam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -I grp2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11_target.bam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -I grp3 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11_target.bam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -I Sample /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/11_target.bam | tail -n+4 352s .. ok 352s 352s test_stats: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools stats -r /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/mpileup/ce.fa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/stat/15.big_del.sam | tail -n+4 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_c.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_c.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -s 1 -O sam -b /tmp/UZhCa6a5i5 - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -r -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_c.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -cp -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a_regex.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b_regex.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -o - -s 1 -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_c.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -s 1 -p -c -t PG -O SAM - /tmp/jfHE_4WYh9/merge.tag.1.bam /tmp/jfHE_4WYh9/merge.tag.2.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -s 1 -p -c -n -t PG -O SAM - /tmp/jfHE_4WYh9/merge.tag.3.bam /tmp/jfHE_4WYh9/merge.tag.4.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge --no-PG -O SAM - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/merge/test_no_pg_rg_co.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge --no-PG -O SAM -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/merge/merge.bed - /tmp/jfHE_4WYh9/merge.bed.1.bam /tmp/jfHE_4WYh9/merge.bed.2.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge --no-PG -r -O SAM - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/merge/test_no_pg_rg_co.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_c.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_c.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam -b /tmp/sbIj27AbNL - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -r -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_c.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -cp -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -s 1 -O sam - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a_regex.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b_regex.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -o - -s 1 -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_c.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -s 1 -p -c -t PG -O SAM - /tmp/jfHE_4WYh9/merge.tag.1.bam /tmp/jfHE_4WYh9/merge.tag.2.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 -s 1 -p -c -n -t PG -O SAM - /tmp/jfHE_4WYh9/merge.tag.3.bam /tmp/jfHE_4WYh9/merge.tag.4.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 --no-PG -O SAM - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/merge/test_no_pg_rg_co.sam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 --no-PG -O SAM -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/merge/merge.bed - /tmp/jfHE_4WYh9/merge.bed.1.bam /tmp/jfHE_4WYh9/merge.bed.2.bam 352s .. ok 352s 352s test_merge: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -@ 2 --no-PG -r -O SAM - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/merge/test_no_pg_rg_co.sam 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/jfHE_4WYh9/sortout 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/jfHE_4WYh9/sortout.bam 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/jfHE_4WYh9/sorttmp 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -n -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -N -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -t RG -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -n -t RG -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -t AS -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -t FI -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort --template-coordinate -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/sort/template-coordinate.sort.sam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -M -K10 -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -M -K10 -I /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.ref.fa -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -MH -K10 -I /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.ref.fa -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/jfHE_4WYh9/sortout 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/jfHE_4WYh9/sortout.bam 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam /tmp/jfHE_4WYh9/sorttmp 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -n -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -N -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_b.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -t RG -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -n -t RG -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -t AS -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -t FI -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 --template-coordinate -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/sort/template-coordinate.sort.sam -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -M -K10 -O SAM -o - 352s .. ok 352s 352s test_sort: 352s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -M -K10 -I /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.ref.fa -O SAM -o - 353s .. ok 353s 353s test_sort: 353s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/auto_indexed.tmp.bam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -@ 2 -MH -K10 -I /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.ref.fa -O SAM -o - 353s .. ok 353s 353s test_collate: 353s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate --output-fmt=sam -O /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam 353s .. ok 353s 353s test_collate: 353s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/collate1.tmp.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam 353s .. ok 353s 353s test_collate: 353s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/collate2.tmp.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/collate2.tmp 353s .. ok 353s 353s test_collate: 353s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate --output-fmt=sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/collate3.tmp 353s .. ok 353s 353s test_collate: 353s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate --output-fmt=sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/fast_collate.sam -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/1_fast_collate.sam 353s .. ok 353s 353s test_collate: 353s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate --output-fmt=sam -f -r 4 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/fast_collate.sam -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/2_fast_collate_with_tmp.sam 353s .. ok 353s 353s test_collate: 353s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate -@ 2 --output-fmt=sam -O /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam 354s .. ok 354s 354s test_collate: 354s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate -@ 2 -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/collate1.tmp.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam 355s .. ok 355s 355s test_collate: 355s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate -@ 2 -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/collate2.tmp.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/collate2.tmp 356s .. ok 356s 356s test_collate: 356s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate -@ 2 --output-fmt=sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_d.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/collate3.tmp 357s .. ok 357s 357s test_collate: 357s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate -@ 2 --output-fmt=sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/fast_collate.sam -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/1_fast_collate.sam 358s .. ok 358s 358s test_collate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools collate -@ 2 --output-fmt=sam -f -r 4 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/fast_collate.sam -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/collate/2_fast_collate_with_tmp.sam 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/1_coord_sort.sam - 358s 358s ERR: [bam_mating_core] ERROR: Coordinate sorted, require grouped/sorted by queryname. 358s 358s .. expected failure 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -z off -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/2_isize_overflow.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/3_reverse_read_pp_lt.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/4_reverse_read_pp_equal.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -cO sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/5_ct.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -cO sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/6_ct_replace.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -z off -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/7_two_read_mapped.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -z off -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/8_isize_overflow_64bit.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/sanitize.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/1_coord_sort.sam - 358s 358s ERR: [bam_mating_core] ERROR: Coordinate sorted, require grouped/sorted by queryname. 358s 358s .. expected failure 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -z off -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/2_isize_overflow.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/3_reverse_read_pp_lt.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/4_reverse_read_pp_equal.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -cO sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/5_ct.sam - 358s .. ok 358s 358s test_fixmate: 358s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -cO sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/6_ct_replace.sam - 359s .. ok 359s 359s test_fixmate: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -z off -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/7_two_read_mapped.sam - 359s .. ok 359s 359s test_fixmate: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -z off -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/8_isize_overflow_64bit.sam - 359s .. ok 359s 359s test_fixmate: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -@ 2 -O sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/fixmate/sanitize.sam - 359s .. ok 359s 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools calmd -uAr /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.ref.fa 359s .. ok 359s 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools calmd -@ 2 -uAr /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.ref.fa 359s .. ok 359s 359s test_idxstat: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools idxstats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam 359s .. ok 359s 359s test_idxstat: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools idxstats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.cram 359s .. ok 359s 359s test_idxstat: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools idxstats /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.sam 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/1.quickcheck.badeof.bam 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/2.quickcheck.badheader.bam 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/3.quickcheck.ok.bam 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/4.quickcheck.ok.bam 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/5.quickcheck.scramble30.truncated.cram 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/6.quickcheck.cram21.ok.cram 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/7.quickcheck.cram30.ok.cram 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/8.quickcheck.cram21.truncated.cram 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/9.quickcheck.cram30.truncated.cram 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/10.quickcheck.notargets.bam 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck -v /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/1.quickcheck.badeof.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/2.quickcheck.badheader.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/3.quickcheck.ok.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/4.quickcheck.ok.bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/5.quickcheck.scramble30.truncated.cram /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/6.quickcheck.cram21.ok.cram /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/7.quickcheck.cram30.ok.cram /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/8.quickcheck.cram21.truncated.cram /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/9.quickcheck.cram30.truncated.cram /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/10.quickcheck.notargets.bam | sed 's,.*/quickcheck/,,' 359s .. ok 359s 359s test_quickcheck: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools quickcheck -uv /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/quickcheck/10.quickcheck.notargets.bam | sed 's,.*/quickcheck/,,' 359s .. ok 359s 359s test_reheader: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reheader /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.bam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 359s .. ok 359s 359s test_reheader: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reheader /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.v21.cram | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 359s .. ok 359s 359s test_reheader: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reheader /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.v30.cram | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 359s .. ok 359s 359s test_reheader: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reheader --in-place /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.v21.cram && /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.v21.cram | perl -pe 's/ VN:.*//' 359s .. ok 359s 359s test_reheader: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reheader --in-place /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reheader/hdr.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.v30.cram && /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.v30.cram | perl -pe 's/ VN:.*//' 359s .. ok 359s 359s test_reheader: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reheader -c "sed 's/2014 Genome/2019 Genome/g'" /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.bam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 359s .. ok 359s 359s test_reheader: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reheader -c "sed 's/2014 Genome/2019 Genome/g'" /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/view.001.tmp.v30.cram | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG | perl -pe 's/ VN:.*//' 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -O sam -m overwrite_all /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/1_fixup.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -O sam -m orphan_only /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/2_fixup_orphan.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -O sam -R '1#9' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/1_fixup.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -O sam -r '@RG\tID:1#8\tCN:SC' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/4_fixup_norg.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -O sam -m overwrite_all -R '1#8' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/1_fixup.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -O sam -r 'ID:1#8' -r 'CN:SC' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/4_fixup_norg.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -O sam -w -r '@RG\tID:1#8\tCN:Sanger\tDS:Testing the editing code.' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/1_fixup.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -m overwrite_all /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/1_fixup.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -m orphan_only /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/2_fixup_orphan.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -R '1#9' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/1_fixup.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -r '@RG\tID:1#8\tCN:SC' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/4_fixup_norg.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -m overwrite_all -R '1#8' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/1_fixup.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -r 'ID:1#8' -r 'CN:SC' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/4_fixup_norg.sam 359s .. ok 359s 359s test_addrprg: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools addreplacerg -@ 2 -O sam -w -r '@RG\tID:1#8\tCN:Sanger\tDS:Testing the editing code.' /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/addrprg/1_fixup.sam 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/1_name_sort.sam - 359s 359s ERR: samtools markdup: error, queryname sorted, must be sorted by coordinate. 359s 359s 359s .. expected failure 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/2_bad_order.sam - 359s 359s ERR: samtools markdup: error, not in coordinate sorted order. 359s 359s 359s .. expected failure 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/3_missing_mc.sam - 359s 359s ERR: samtools markdup: error, no MC tag. Please run samtools fixmate on file first. 359s 359s samtools markdup: error, unable to assign pair hash key. 359s 359s 359s .. expected failure 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/4_missing_ms.sam - 359s 359s ERR: samtools markdup: error, no ms score tag. Please run samtools fixmate on file first. 359s 359s samtools markdup: error, no ms score tag. Please run samtools fixmate on file first. 359s 359s 359s .. expected failure 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/5_markdup.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -O sam -r --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/6_remove_dups.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/7_mark_supp_dup.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/8_optical_dup.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 2500 --mode s -t --include-fails -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/9_optical_dup_qcfail.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 2500 --mode s -t -O sam --no-PG -S /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/10_optical_chain.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+):([[:digit:]]+)$' --no-PG -S /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/10_optical_chain.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+):([[:print:]]+)' --coords-order xyt --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/11_optical_dup_regex.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+)' --coords-order xy --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/11_optical_dup_regex.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+)$' --coords-order xy --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/12_optical_chain_regex.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t --barcode-tag BX -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/13_optical_barcode_tag.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -S -d 100 --mode s -t --barcode-name -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/14_optical_barcode_name.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/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.cZ6P0Y/autopkgtest_tmp/test/markdup/15_optical_barcode_rgx_name.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/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.cZ6P0Y/autopkgtest_tmp/test/markdup/16_optical_barcode_rgx_name_test_2.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -d 100 --mode s -t --use-read-groups -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/17_read_group.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup --mode t -t -O sam --no-PG --duplicate-count --barcode-tag BC -S /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/18_primary_duplicate_count.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/1_name_sort.sam - 359s 359s ERR: samtools markdup: error, queryname sorted, must be sorted by coordinate. 359s 359s 359s .. expected failure 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/2_bad_order.sam - 359s 359s ERR: samtools markdup: error, not in coordinate sorted order. 359s 359s 359s .. expected failure 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/3_missing_mc.sam - 359s 359s ERR: samtools markdup: error, no MC tag. Please run samtools fixmate on file first. 359s 359s samtools markdup: error, unable to assign pair hash key. 359s 359s 359s .. expected failure 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/4_missing_ms.sam - 359s 359s ERR: samtools markdup: error, no ms score tag. Please run samtools fixmate on file first. 359s 359s samtools markdup: error, no ms score tag. Please run samtools fixmate on file first. 359s 359s 359s .. expected failure 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/5_markdup.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -O sam -r --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/6_remove_dups.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/7_mark_supp_dup.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/8_optical_dup.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 2500 --mode s -t --include-fails -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/9_optical_dup_qcfail.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --no-PG -S /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/10_optical_chain.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+):([[:digit:]]+)$' --no-PG -S /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/10_optical_chain.sam - 359s .. ok 359s 359s test_markdup: 359s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+):([[:print:]]+)' --coords-order xyt --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/11_optical_dup_regex.sam - 360s .. ok 360s 360s test_markdup: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t -O sam --read-coords '^([0-9]+):([0-9]+)' --coords-order xy --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/11_optical_dup_regex.sam - 360s .. ok 360s 360s test_markdup: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 2500 --mode s -t -O sam --read-coords '([[:digit:]]+):([[:digit:]]+)$' --coords-order xy --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/12_optical_chain_regex.sam - 360s .. ok 360s 360s test_markdup: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t --barcode-tag BX -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/13_optical_barcode_tag.sam - 360s .. ok 360s 360s test_markdup: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -S -d 100 --mode s -t --barcode-name -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/14_optical_barcode_name.sam - 360s .. ok 360s 360s test_markdup: 360s /tmp/autopkgtest.cZ6P0Y/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.cZ6P0Y/autopkgtest_tmp/test/markdup/15_optical_barcode_rgx_name.sam - 360s .. ok 360s 360s test_markdup: 360s /tmp/autopkgtest.cZ6P0Y/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.cZ6P0Y/autopkgtest_tmp/test/markdup/16_optical_barcode_rgx_name_test_2.sam - 360s .. ok 360s 360s test_markdup: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 -d 100 --mode s -t --use-read-groups -O sam --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/17_read_group.sam - 360s .. ok 360s 360s test_markdup: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools markdup -@ 2 --mode t -t -O sam --no-PG --duplicate-count --barcode-tag BC -S /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/markdup/18_primary_duplicate_count.sam - 360s .. ok 360s 360s test_bedcov: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools bedcov /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bedcov/bedcov.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bedcov/bedcov.bam 360s .. ok 360s 360s test_bedcov: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools bedcov -j /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bedcov/bedcov.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bedcov/bedcov.bam 360s .. ok 360s 360s test_bedcov: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools bedcov -g512 -G2048 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bedcov/bedcov_gG.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bedcov/bedcov.bam 360s .. ok 360s 360s test_bedcov: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools bedcov -c /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bedcov/bedcov_gG.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/bedcov/bedcov.bam 360s .. ok 360s 360s test_split: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools split --output-fmt sam -u /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.sam 360s .. ok 360s 360s test_split: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools split --output-fmt sam -d RG -u /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.sam 360s .. ok 360s 360s test_split: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools split --output-fmt sam -d an -u /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.sam 360s .. ok 360s 360s test_split: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools split --output-fmt sam -d an -M 3 -u /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.sam 360s .. ok 360s 360s test_split: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools split -@ 2 --output-fmt sam -u /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.sam 360s .. ok 360s 360s test_split: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools split -@ 2 --output-fmt sam -d RG -u /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.sam 360s .. ok 360s 360s test_split: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools split -@ 2 --output-fmt sam -d an -u /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.sam 360s .. ok 360s 360s test_split: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools split -@ 2 --output-fmt sam -d an -M 3 -u /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.unk.sam -f /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.tmp.%!.%. /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/split/split.sam 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG /tmp/jfHE_4WYh9/longref.sam.gz 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG /tmp/jfHE_4WYh9/longref.sam.gz CHROMOSOME_I:10000000114-10000000168 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view -h --no-PG -L /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/large_pos/test.bed /tmp/jfHE_4WYh9/longref.sam.gz 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -O sam --no-PG -m 10M /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/large_pos/longref_name.sam 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools merge -O sam --no-PG - /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/large_pos/longref.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/large_pos/longref2.sam 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools depth /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/large_pos/longref.sam 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools depth -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/large_pos/test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/large_pos/longref.sam 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools tview -d T -p CHROMOSOME_I:10000000000 /tmp/jfHE_4WYh9/longref.sam.gz 360s .. ok 360s 360s test_large_positions: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -O sam --no-PG -n -m 10M test/large_pos/longref3.sam | 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools fixmate -O sam --no-PG - - | 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools sort -O sam --no-PG -m 10M 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --hard-clip -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --filter-len 185 -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --fail-len 185 -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --original -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --output-fmt=sam -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --keep-tag --output-fmt=sam --strand --both-ends -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/2_both_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip --no-PG --output-fmt=sam --hard-clip -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test2.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/4_total_hc_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --hard-clip -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 360s .. ok 360s 360s test_ampliconclip: 360s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --filter-len 185 -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 361s .. ok 361s 361s test_ampliconclip: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --fail-len 185 -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 361s .. ok 361s 361s test_ampliconclip: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --original -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 361s .. ok 361s 361s test_ampliconclip: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --output-fmt=sam -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_test_data.sam 361s .. ok 361s 361s test_ampliconclip: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --keep-tag --output-fmt=sam --strand --both-ends -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/2_both_test_data.sam 361s .. ok 361s 361s test_ampliconclip: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconclip -@ 2 --no-PG --output-fmt=sam --hard-clip -b /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test2.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/4_total_hc_data.sam 361s .. ok 361s 361s test_ampliconstats: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconstats -@ 2 -S -t 50 -d 1,20,100 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_hard_clipped.expected.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_soft_clipped.expected.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/1_soft_clipped_strand.expected.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/2_both_clipped.expected.sam | grep -E -v 'Samtools version|Command line' 361s .. ok 361s 361s test_ampliconstats: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconstats -@ 2 -c 0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/multi_ref.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconstats/mixed_clipped.sam | grep -E -v 'Samtools version|Command line' 361s .. ok 361s 361s test_ampliconstats: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools ampliconstats -@ 2 -c 0 /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconclip/ac_test.bed /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/ampliconstats/mixed_clipped.sam | grep -E -v 'Samtools version|Command line' 361s .. ok 361s 361s test_reset: 361s cat /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset < /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools view 361s .. ok 361s 361s test_reset: 361s cat /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam | /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.bam 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/test_input_1_a.cram 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa_index /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam; grep /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam -e"@PG ID:samtools PN:samtools" | wc -l | sed 's/ //g' 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG sam_to_fixed_bam /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam; grep /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam -e"@PG ID:" | wc -l | sed 's/ //g' 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa_index --no-PG /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam; grep /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output.tmp.sam -e"@PG" 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --keep-tag RG -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --keep-tag X0,MD -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --remove-tag X0,X1,MD --keep-tag X0,MD -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --remove-tag X0,X1,MD -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG -x X0,X1,MD -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset --reject-PG bwa /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/dat/mpileup.1.sam --no-RG --remove-tag ^X0,MD --keep-tag X1 -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output 361s .. ok 361s 361s test_reset: 361s /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/samtools reset /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/seq.sam -o /tmp/autopkgtest.cZ6P0Y/autopkgtest_tmp/test/reset/output 361s .. ok 361s 361s 361s Number of tests: 361s total .. 894 361s passed .. 863 361s failed .. 0 361s expected failure .. 31 361s unexpected pass .. 0 361s 362s autopkgtest [22:37:05]: test run-unit-test: -----------------------] 365s autopkgtest [22:37:08]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 365s run-unit-test PASS 369s autopkgtest [22:37:12]: @@@@@@@@@@@@@@@@@@@@ summary 369s run-unit-test PASS