0s autopkgtest [14:30:08]: starting date and time: 2024-03-27 14:30:08+0000 0s autopkgtest [14:30:08]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [14:30:08]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.lo1ry4qm/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed --apt-upgrade htslib --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=htslib/1.19+ds-1.1build2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-s390x-16.secgroup --name adt-noble-s390x-htslib-20240327-143008-juju-7f2275-prod-proposed-migration-environment-2-b069cec5-5f23-4721-9601-0ad611c1b82d --image adt/ubuntu-noble-s390x-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 115s autopkgtest [14:32:03]: testbed dpkg architecture: s390x 115s autopkgtest [14:32:03]: testbed apt version: 2.7.12 115s autopkgtest [14:32:03]: @@@@@@@@@@@@@@@@@@@@ test bed setup 116s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 117s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.5 kB] 117s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3998 kB] 119s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [493 kB] 120s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [8504 B] 120s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [685 kB] 120s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 120s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 120s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 120s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4116 kB] 122s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 122s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [48.3 kB] 122s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 124s Fetched 9534 kB in 7s (1423 kB/s) 124s Reading package lists... 126s Reading package lists... 126s Building dependency tree... 126s Reading state information... 127s Calculating upgrade... 127s The following packages will be upgraded: 127s binutils binutils-common binutils-s390x-linux-gnu libbinutils libctf-nobfd0 127s libctf0 libexpat1 libsframe1 127s 8 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 127s Need to get 3274 kB of archives. 127s After this operation, 2048 B disk space will be freed. 127s Get:1 http://ftpmaster.internal/ubuntu noble/main s390x libexpat1 s390x 2.6.1-2 [94.8 kB] 127s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x libctf0 s390x 2.42-4ubuntu1 [98.4 kB] 127s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x libctf-nobfd0 s390x 2.42-4ubuntu1 [100 kB] 127s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x binutils-s390x-linux-gnu s390x 2.42-4ubuntu1 [2270 kB] 128s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libbinutils s390x 2.42-4ubuntu1 [477 kB] 128s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x binutils s390x 2.42-4ubuntu1 [3056 B] 128s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x binutils-common s390x 2.42-4ubuntu1 [217 kB] 128s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x libsframe1 s390x 2.42-4ubuntu1 [14.2 kB] 128s Fetched 3274 kB in 1s (2596 kB/s) 129s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 129s Preparing to unpack .../0-libexpat1_2.6.1-2_s390x.deb ... 129s Unpacking libexpat1:s390x (2.6.1-2) over (2.6.0-1) ... 129s Preparing to unpack .../1-libctf0_2.42-4ubuntu1_s390x.deb ... 129s Unpacking libctf0:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 129s Preparing to unpack .../2-libctf-nobfd0_2.42-4ubuntu1_s390x.deb ... 129s Unpacking libctf-nobfd0:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 129s Preparing to unpack .../3-binutils-s390x-linux-gnu_2.42-4ubuntu1_s390x.deb ... 129s Unpacking binutils-s390x-linux-gnu (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 129s Preparing to unpack .../4-libbinutils_2.42-4ubuntu1_s390x.deb ... 129s Unpacking libbinutils:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 129s Preparing to unpack .../5-binutils_2.42-4ubuntu1_s390x.deb ... 129s Unpacking binutils (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 129s Preparing to unpack .../6-binutils-common_2.42-4ubuntu1_s390x.deb ... 129s Unpacking binutils-common:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 129s Preparing to unpack .../7-libsframe1_2.42-4ubuntu1_s390x.deb ... 129s Unpacking libsframe1:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 129s Setting up libexpat1:s390x (2.6.1-2) ... 129s Setting up binutils-common:s390x (2.42-4ubuntu1) ... 129s Setting up libctf-nobfd0:s390x (2.42-4ubuntu1) ... 129s Setting up libsframe1:s390x (2.42-4ubuntu1) ... 129s Setting up libbinutils:s390x (2.42-4ubuntu1) ... 129s Setting up libctf0:s390x (2.42-4ubuntu1) ... 129s Setting up binutils-s390x-linux-gnu (2.42-4ubuntu1) ... 129s Setting up binutils (2.42-4ubuntu1) ... 129s Processing triggers for libc-bin (2.39-0ubuntu6) ... 129s Processing triggers for man-db (2.12.0-3) ... 130s Reading package lists... 130s Building dependency tree... 130s Reading state information... 130s 0 upgraded, 0 newly installed, 0 to remove and 236 not upgraded. 131s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 131s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 131s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 131s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 133s Reading package lists... 133s Reading package lists... 133s Building dependency tree... 133s Reading state information... 134s Calculating upgrade... 134s The following packages were automatically installed and are no longer required: 134s libaio1 libnetplan0 python3-distutils python3-lib2to3 134s Use 'sudo apt autoremove' to remove them. 134s The following packages will be REMOVED: 134s libapt-pkg6.0 libarchive13 libatm1 libcurl3-gnutls libcurl4 libdb5.3 libelf1 134s libext2fs2 libgdbm-compat4 libgdbm6 libglib2.0-0 libgnutls30 libgpgme11 134s libhogweed6 libmagic1 libnettle8 libnpth0 libnvme1 libparted2 libperl5.38 134s libpng16-16 libpsl5 libreadline8 libreiserfscore0 libssl3 libtirpc3 liburcu8 134s libuv1 134s The following NEW packages will be installed: 134s bpfcc-tools bpftrace fontconfig-config fonts-dejavu-core fonts-dejavu-mono 134s hwdata ieee-data libaio1t64 libapt-pkg6.0t64 libarchive13t64 libatm1t64 134s libbpfcc libc-dev-bin libc-devtools libc6-dev libclang-cpp18 libclang1-18 134s libcrypt-dev libcurl3t64-gnutls libcurl4t64 libdb5.3t64 libdeflate0 134s libdw1t64 libelf1t64 libext2fs2t64 libfontconfig1 libfreetype6 libgd3 134s libgdbm-compat4t64 libgdbm6t64 libglib2.0-0t64 libgnutls30t64 libgpgme11t64 134s libhogweed6t64 libjbig0 libjpeg-turbo8 libjpeg8 libllvm18 libmagic1t64 134s libnetplan1 libnettle8t64 libnpth0t64 libnvme1t64 libparted2t64 134s libperl5.38t64 libpng16-16t64 libpsl5t64 libreadline8t64 libreiserfscore0t64 134s libsharpyuv0 libssl3t64 libtiff6 libtirpc3t64 liburcu8t64 libuv1t64 libwebp7 134s libxpm4 linux-headers-6.8.0-20 linux-headers-6.8.0-20-generic 134s linux-image-6.8.0-20-generic linux-libc-dev linux-modules-6.8.0-20-generic 134s linux-modules-extra-6.8.0-20-generic linux-tools-6.8.0-20 134s linux-tools-6.8.0-20-generic linux-tools-common manpages manpages-dev 134s python3-bpfcc python3-netaddr rpcsvc-proto ubuntu-kernel-accessories 134s xdg-user-dirs 134s The following packages have been kept back: 134s s390-tools 134s The following packages will be upgraded: 134s apparmor apt apt-utils base-files bash bind9-dnsutils bind9-host bind9-libs 134s bolt bsdextrautils bsdutils btrfs-progs coreutils cryptsetup-bin curl dbus 134s dbus-bin dbus-daemon dbus-session-bus-common dbus-system-bus-common 134s dbus-user-session dhcpcd-base dirmngr dmsetup dpkg dpkg-dev e2fsprogs 134s e2fsprogs-l10n eject fdisk file ftp fwupd gawk gcc-13-base gcc-14-base 134s gir1.2-girepository-2.0 gir1.2-glib-2.0 gnupg gnupg-l10n gnupg-utils gpg 134s gpg-agent gpg-wks-client gpgconf gpgsm gpgv groff-base ibverbs-providers 134s inetutils-telnet info initramfs-tools initramfs-tools-bin 134s initramfs-tools-core install-info iproute2 jq keyboxd kmod kpartx 134s krb5-locales libapparmor1 libaudit-common libaudit1 libblkid1 134s libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 libblockdev-mdraid3 134s libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 libblockdev-utils3 134s libblockdev3 libbpf1 libbrotli1 libcap-ng0 libcom-err2 libcryptsetup12 134s libdbus-1-3 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl 134s libevent-core-2.1-7 libfdisk1 libfido2-1 libftdi1-2 libfwupd2 libgcc-s1 134s libgirepository-1.0-1 libglib2.0-data libgssapi-krb5-2 libgudev-1.0-0 134s libgusb2 libibverbs1 libjcat1 libjq1 libjson-glib-1.0-0 134s libjson-glib-1.0-common libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 134s libldap-common libldap2 liblocale-gettext-perl liblzma5 libmagic-mgc 134s libmbim-glib4 libmbim-proxy libmm-glib0 libmount1 libnghttp2-14 libnsl2 134s libnss-systemd libpam-modules libpam-modules-bin libpam-runtime 134s libpam-systemd libpam0g libplymouth5 libpolkit-agent-1-0 134s libpolkit-gobject-1-0 libproc2-0 libprotobuf-c1 libpython3-stdlib 134s libpython3.11-minimal libpython3.11-stdlib libpython3.12-minimal 134s libpython3.12-stdlib libqmi-glib5 libqmi-proxy libqrtr-glib0 librtmp1 134s libsasl2-2 libsasl2-modules libsasl2-modules-db libseccomp2 libselinux1 134s libsemanage-common libsemanage2 libslang2 libsmartcols1 libsqlite3-0 libss2 134s libssh-4 libstdc++6 libsystemd-shared libsystemd0 libtext-charwidth-perl 134s libtext-iconv-perl libtirpc-common libudev1 libudisks2-0 libusb-1.0-0 134s libuuid1 libvolume-key1 libxml2 libxmlb2 libxmuu1 linux-generic 134s linux-headers-generic linux-headers-virtual linux-image-generic 134s linux-image-virtual linux-virtual logsave lshw lsof man-db motd-news-config 134s mount mtr-tiny multipath-tools netplan-generator netplan.io openssh-client 134s openssh-server openssh-sftp-server openssl parted perl perl-base 134s perl-modules-5.38 pinentry-curses plymouth plymouth-theme-ubuntu-text procps 134s python-apt-common python3 python3-apt python3-cryptography python3-dbus 134s python3-distutils python3-gdbm python3-gi python3-lib2to3 python3-minimal 134s python3-netplan python3-pkg-resources python3-pyrsistent python3-setuptools 134s python3-typing-extensions python3-yaml python3.11 python3.11-minimal 134s python3.12 python3.12-minimal readline-common rsync rsyslog s390-tools-data 134s shared-mime-info sudo systemd systemd-dev systemd-resolved systemd-sysv 134s systemd-timesyncd tcpdump telnet tnftp ubuntu-pro-client 134s ubuntu-pro-client-l10n udev udisks2 usb.ids util-linux uuid-runtime 134s vim-common vim-tiny wget xxd xz-utils zlib1g 134s 235 upgraded, 73 newly installed, 28 to remove and 1 not upgraded. 134s Need to get 225 MB of archives. 134s After this operation, 524 MB of additional disk space will be used. 134s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main s390x motd-news-config all 13ubuntu8 [5098 B] 134s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x base-files s390x 13ubuntu8 [74.2 kB] 135s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bash s390x 5.2.21-2ubuntu3 [845 kB] 135s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bsdutils s390x 1:2.39.3-9ubuntu2 [96.1 kB] 135s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libbrotli1 s390x 1.1.0-2build1 [375 kB] 135s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgssapi-krb5-2 s390x 1.20.1-6ubuntu1 [149 kB] 135s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkrb5-3 s390x 1.20.1-6ubuntu1 [360 kB] 135s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkrb5support0 s390x 1.20.1-6ubuntu1 [34.6 kB] 135s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libk5crypto3 s390x 1.20.1-6ubuntu1 [90.3 kB] 135s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcom-err2 s390x 1.47.0-2.4~exp1ubuntu2 [22.9 kB] 135s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main s390x zlib1g s390x 1:1.3.dfsg-3.1ubuntu1 [75.7 kB] 135s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main s390x librtmp1 s390x 2.4+20151223.gitfa8646d.1-2build6 [58.4 kB] 135s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main s390x udisks2 s390x 2.10.1-6 [298 kB] 135s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libudisks2-0 s390x 2.10.1-6 [179 kB] 135s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblkid1 s390x 2.39.3-9ubuntu2 [128 kB] 135s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main s390x liblzma5 s390x 5.6.0-0.2 [137 kB] 135s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main s390x kmod s390x 31+20240202-2ubuntu4 [107 kB] 135s Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkmod2 s390x 31+20240202-2ubuntu4 [56.3 kB] 135s Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-dev all 255.4-1ubuntu5 [103 kB] 135s Get:20 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-timesyncd s390x 255.4-1ubuntu5 [35.3 kB] 135s Get:21 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-session-bus-common all 1.14.10-4ubuntu2 [80.3 kB] 135s Get:22 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libaudit-common all 1:3.1.2-2.1 [5674 B] 135s Get:23 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcap-ng0 s390x 0.8.4-2build1 [15.7 kB] 135s Get:24 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libaudit1 s390x 1:3.1.2-2.1 [48.9 kB] 135s Get:25 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam0g s390x 1.5.3-5ubuntu3 [69.8 kB] 135s Get:26 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libselinux1 s390x 3.5-2ubuntu1 [84.7 kB] 135s Get:27 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl4t64 s390x 8.5.0-2ubuntu8 [363 kB] 136s Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main s390x curl s390x 8.5.0-2ubuntu8 [227 kB] 136s Get:29 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpsl5t64 s390x 0.21.2-1.1 [57.6 kB] 136s Get:30 http://ftpmaster.internal/ubuntu noble-proposed/main s390x wget s390x 1.21.4-1ubuntu2 [351 kB] 136s Get:31 http://ftpmaster.internal/ubuntu noble-proposed/main s390x tnftp s390x 20230507-2build1 [107 kB] 136s Get:32 http://ftpmaster.internal/ubuntu noble-proposed/main s390x tcpdump s390x 4.99.4-3ubuntu2 [490 kB] 136s Get:33 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsystemd-shared s390x 255.4-1ubuntu5 [2131 kB] 136s Get:34 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-resolved s390x 255.4-1ubuntu5 [304 kB] 136s Get:35 http://ftpmaster.internal/ubuntu noble-proposed/main s390x sudo s390x 1.9.15p5-3ubuntu3 [968 kB] 136s Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main s390x rsync s390x 3.2.7-1build1 [446 kB] 136s Get:37 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-cryptography s390x 41.0.7-4build2 [918 kB] 136s Get:38 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssl s390x 3.0.13-0ubuntu2 [1010 kB] 136s Get:39 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-sftp-server s390x 1:9.6p1-3ubuntu11 [39.0 kB] 136s Get:40 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-client s390x 1:9.6p1-3ubuntu11 [935 kB] 137s Get:41 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-server s390x 1:9.6p1-3ubuntu11 [529 kB] 137s Get:42 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssh-4 s390x 0.10.6-2build1 [189 kB] 137s Get:43 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-modules s390x 2.1.28+dfsg1-5ubuntu1 [76.6 kB] 137s Get:44 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.12 s390x 3.12.2-4build3 [645 kB] 137s Get:45 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.12-minimal s390x 3.12.2-4build3 [2419 kB] 137s Get:46 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.12-minimal s390x 3.12.2-4build3 [829 kB] 137s Get:47 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libparted2t64 s390x 3.6-3.1build2 [172 kB] 137s Get:48 http://ftpmaster.internal/ubuntu noble-proposed/main s390x parted s390x 3.6-3.1build2 [44.6 kB] 137s Get:49 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.11 s390x 3.11.8-1build4 [589 kB] 137s Get:50 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.11-minimal s390x 3.11.8-1build4 [2280 kB] 137s Get:51 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.11-minimal s390x 3.11.8-1build4 [838 kB] 137s Get:52 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.11-stdlib s390x 3.11.8-1build4 [1944 kB] 137s Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main s390x shared-mime-info s390x 2.4-1build1 [474 kB] 137s Get:54 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gir1.2-girepository-2.0 s390x 1.79.1-1ubuntu6 [24.5 kB] 137s Get:55 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gir1.2-glib-2.0 s390x 2.79.3-3ubuntu5 [180 kB] 137s Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgirepository-1.0-1 s390x 1.79.1-1ubuntu6 [84.0 kB] 137s Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-gi s390x 3.47.0-3build1 [236 kB] 137s Get:58 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-dbus s390x 1.3.2-5build2 [100 kB] 137s Get:59 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnetplan1 s390x 1.0-1 [123 kB] 137s Get:60 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-netplan s390x 1.0-1 [23.0 kB] 137s Get:61 http://ftpmaster.internal/ubuntu noble-proposed/main s390x netplan-generator s390x 1.0-1 [59.1 kB] 137s Get:62 http://ftpmaster.internal/ubuntu noble-proposed/main s390x initramfs-tools-bin s390x 0.142ubuntu23 [20.5 kB] 138s Get:63 http://ftpmaster.internal/ubuntu noble-proposed/main s390x initramfs-tools-core all 0.142ubuntu23 [50.1 kB] 138s Get:64 http://ftpmaster.internal/ubuntu noble-proposed/main s390x initramfs-tools all 0.142ubuntu23 [9058 B] 138s Get:65 http://ftpmaster.internal/ubuntu noble-proposed/main s390x netplan.io s390x 1.0-1 [65.4 kB] 138s Get:66 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxmlb2 s390x 0.3.15-1build1 [70.6 kB] 138s Get:67 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgpgme11t64 s390x 1.18.0-4.1ubuntu3 [150 kB] 138s Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libvolume-key1 s390x 0.3.12-7build1 [40.8 kB] 138s Get:69 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqrtr-glib0 s390x 1.2.2-1ubuntu3 [17.5 kB] 138s Get:70 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqmi-glib5 s390x 1.35.2-0ubuntu1 [918 kB] 138s Get:71 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqmi-proxy s390x 1.35.2-0ubuntu1 [6122 B] 138s Get:72 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpolkit-agent-1-0 s390x 124-1ubuntu1 [17.8 kB] 138s Get:73 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpolkit-gobject-1-0 s390x 124-1ubuntu1 [48.3 kB] 138s Get:74 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmm-glib0 s390x 1.23.4-0ubuntu1 [251 kB] 138s Get:75 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmbim-glib4 s390x 1.31.2-0ubuntu2 [238 kB] 138s Get:76 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmbim-proxy s390x 1.31.2-0ubuntu2 [6154 B] 138s Get:77 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjson-glib-1.0-common all 1.8.0-2build1 [4210 B] 138s Get:78 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjson-glib-1.0-0 s390x 1.8.0-2build1 [68.4 kB] 138s Get:79 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgusb2 s390x 0.4.8-1build1 [39.0 kB] 138s Get:80 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgudev-1.0-0 s390x 1:238-3ubuntu2 [15.7 kB] 138s Get:81 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libarchive13t64 s390x 3.7.2-1.1ubuntu2 [419 kB] 138s Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main s390x fwupd s390x 1.9.15-2 [4435 kB] 138s Get:83 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl3t64-gnutls s390x 8.5.0-2ubuntu8 [356 kB] 138s Get:84 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfwupd2 s390x 1.9.15-2 [136 kB] 138s Get:85 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev3 s390x 3.1.0-1build1 [52.3 kB] 138s Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-utils3 s390x 3.1.0-1build1 [19.2 kB] 138s Get:87 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-swap3 s390x 3.1.0-1build1 [7778 B] 138s Get:88 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-part3 s390x 3.1.0-1build1 [15.4 kB] 138s Get:89 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnvme1t64 s390x 1.8-3 [78.7 kB] 138s Get:90 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-nvme3 s390x 3.1.0-1build1 [18.3 kB] 138s Get:91 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-mdraid3 s390x 3.1.0-1build1 [13.2 kB] 138s Get:92 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-loop3 s390x 3.1.0-1build1 [7138 B] 138s Get:93 http://ftpmaster.internal/ubuntu noble-proposed/main s390x e2fsprogs-l10n all 1.47.0-2.4~exp1ubuntu2 [5996 B] 138s Get:94 http://ftpmaster.internal/ubuntu noble-proposed/main s390x logsave s390x 1.47.0-2.4~exp1ubuntu2 [22.5 kB] 138s Get:95 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libext2fs2t64 s390x 1.47.0-2.4~exp1ubuntu2 [235 kB] 138s Get:96 http://ftpmaster.internal/ubuntu noble-proposed/main s390x e2fsprogs s390x 1.47.0-2.4~exp1ubuntu2 [615 kB] 138s Get:97 http://ftpmaster.internal/ubuntu noble/main s390x libreiserfscore0t64 s390x 1:3.6.27-7.1 [85.5 kB] 138s Get:98 http://ftpmaster.internal/ubuntu noble-proposed/main s390x btrfs-progs s390x 6.6.3-1.1build1 [959 kB] 138s Get:99 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-fs3 s390x 3.1.0-1build1 [36.5 kB] 138s Get:100 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-crypto3 s390x 3.1.0-1build1 [21.6 kB] 138s Get:101 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bolt s390x 0.9.6-2build1 [142 kB] 139s Get:102 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libglib2.0-0t64 s390x 2.79.3-3ubuntu5 [1566 kB] 139s Get:103 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjcat1 s390x 0.2.0-2build2 [34.4 kB] 139s Get:104 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libldap2 s390x 2.6.7+dfsg-1~exp1ubuntu6 [202 kB] 139s Get:105 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ubuntu-pro-client-l10n s390x 31.2.2 [19.4 kB] 139s Get:106 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ubuntu-pro-client s390x 31.2.2 [214 kB] 139s Get:107 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg-utils s390x 2.4.4-2ubuntu15 [116 kB] 139s Get:108 http://ftpmaster.internal/ubuntu noble-proposed/main s390x keyboxd s390x 2.4.4-2ubuntu15 [83.1 kB] 139s Get:109 http://ftpmaster.internal/ubuntu noble/main s390x libnpth0t64 s390x 1.6-3.1 [8148 B] 139s Get:110 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgv s390x 2.4.4-2ubuntu15 [165 kB] 139s Get:111 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg-wks-client s390x 2.4.4-2ubuntu15 [76.8 kB] 139s Get:112 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg-agent s390x 2.4.4-2ubuntu15 [240 kB] 139s Get:113 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg s390x 2.4.4-2ubuntu15 [589 kB] 139s Get:114 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dirmngr s390x 2.4.4-2ubuntu15 [340 kB] 140s Get:115 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg all 2.4.4-2ubuntu15 [359 kB] 140s Get:116 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-apt s390x 2.7.7 [171 kB] 140s Get:117 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apt-utils s390x 2.7.14 [214 kB] 140s Get:118 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libapt-pkg6.0t64 s390x 2.7.14 [1014 kB] 140s Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnettle8t64 s390x 3.9.1-2.2 [210 kB] 140s Get:120 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libhogweed6t64 s390x 3.9.1-2.2 [204 kB] 140s Get:121 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgnutls30t64 s390x 3.8.3-1.1ubuntu2 [1044 kB] 140s Get:122 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apt s390x 2.7.14 [1390 kB] 140s Get:123 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgconf s390x 2.4.4-2ubuntu15 [111 kB] 140s Get:124 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgsm s390x 2.4.4-2ubuntu15 [244 kB] 140s Get:125 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libreadline8t64 s390x 8.2-4 [170 kB] 140s Get:126 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gawk s390x 1:5.2.1-2build2 [496 kB] 140s Get:127 http://ftpmaster.internal/ubuntu noble-proposed/main s390x fdisk s390x 2.39.3-9ubuntu2 [124 kB] 140s Get:128 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.12-stdlib s390x 3.12.2-4build3 [2046 kB] 140s Get:129 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl-base s390x 5.38.2-3.2 [1961 kB] 141s Get:130 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl-modules-5.38 all 5.38.2-3.2 [3110 kB] 141s Get:131 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-gdbm s390x 3.12.2-3ubuntu1.1 [19.0 kB] 141s Get:132 http://ftpmaster.internal/ubuntu noble-proposed/main s390x man-db s390x 2.12.0-3build4 [1246 kB] 141s Get:133 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgdbm6t64 s390x 1.23-5.1 [36.4 kB] 141s Get:134 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgdbm-compat4t64 s390x 1.23-5.1 [6880 B] 141s Get:135 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libperl5.38t64 s390x 5.38.2-3.2 [5007 kB] 141s Get:136 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl s390x 5.38.2-3.2 [231 kB] 141s Get:137 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdb5.3t64 s390x 5.3.28+dfsg2-6 [763 kB] 141s Get:138 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-modules-db s390x 2.1.28+dfsg1-5ubuntu1 [21.1 kB] 141s Get:139 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-2 s390x 2.1.28+dfsg1-5ubuntu1 [57.8 kB] 141s Get:140 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfido2-1 s390x 1.14.0-1build1 [81.0 kB] 141s Get:141 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcryptsetup12 s390x 2:2.7.0-1ubuntu2 [264 kB] 141s Get:142 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dhcpcd-base s390x 1:10.0.6-1ubuntu2 [217 kB] 141s Get:143 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libuv1t64 s390x 1.48.0-1.1 [101 kB] 141s Get:144 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-host s390x 1:9.18.24-0ubuntu3 [50.5 kB] 141s Get:145 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-dnsutils s390x 1:9.18.24-0ubuntu3 [162 kB] 141s Get:146 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-libs s390x 1:9.18.24-0ubuntu3 [1243 kB] 141s Get:147 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl3t64 s390x 3.0.13-0ubuntu2 [1675 kB] 141s Get:148 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnss-systemd s390x 255.4-1ubuntu5 [166 kB] 141s Get:149 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libudev1 s390x 255.4-1ubuntu5 [178 kB] 141s Get:150 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd s390x 255.4-1ubuntu5 [3533 kB] 142s Get:151 http://ftpmaster.internal/ubuntu noble-proposed/main s390x udev s390x 255.4-1ubuntu5 [1887 kB] 142s Get:152 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-sysv s390x 255.4-1ubuntu5 [11.9 kB] 142s Get:153 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-systemd s390x 255.4-1ubuntu5 [242 kB] 142s Get:154 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsystemd0 s390x 255.4-1ubuntu5 [443 kB] 142s Get:155 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-modules-bin s390x 1.5.3-5ubuntu3 [57.4 kB] 142s Get:156 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-modules s390x 1.5.3-5ubuntu3 [289 kB] 142s Get:157 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-runtime all 1.5.3-5ubuntu3 [40.8 kB] 142s Get:158 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-user-session s390x 1.14.10-4ubuntu2 [9960 B] 142s Get:159 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libapparmor1 s390x 4.0.0-beta3-0ubuntu2 [50.8 kB] 142s Get:160 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-system-bus-common all 1.14.10-4ubuntu2 [81.5 kB] 142s Get:161 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-bin s390x 1.14.10-4ubuntu2 [41.4 kB] 142s Get:162 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus s390x 1.14.10-4ubuntu2 [24.3 kB] 142s Get:163 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-daemon s390x 1.14.10-4ubuntu2 [118 kB] 142s Get:164 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdbus-1-3 s390x 1.14.10-4ubuntu2 [213 kB] 142s Get:165 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmount1 s390x 2.39.3-9ubuntu2 [138 kB] 142s Get:166 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libseccomp2 s390x 2.5.5-1ubuntu2 [53.4 kB] 142s Get:167 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdevmapper1.02.1 s390x 2:1.02.185-3ubuntu2 [142 kB] 142s Get:168 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libuuid1 s390x 2.39.3-9ubuntu2 [35.6 kB] 142s Get:169 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfdisk1 s390x 2.39.3-9ubuntu2 [151 kB] 142s Get:170 http://ftpmaster.internal/ubuntu noble-proposed/main s390x mount s390x 2.39.3-9ubuntu2 [119 kB] 142s Get:171 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsqlite3-0 s390x 3.45.1-1ubuntu1 [747 kB] 142s Get:172 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gcc-14-base s390x 14-20240315-1ubuntu1 [47.0 kB] 142s Get:173 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgcc-s1 s390x 14-20240315-1ubuntu1 [35.9 kB] 142s Get:174 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libstdc++6 s390x 14-20240315-1ubuntu1 [908 kB] 142s Get:175 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dpkg s390x 1.22.6ubuntu5 [1278 kB] 142s Get:176 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-minimal s390x 3.12.2-0ubuntu1 [27.1 kB] 142s Get:177 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3 s390x 3.12.2-0ubuntu1 [24.1 kB] 142s Get:178 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3-stdlib s390x 3.12.2-0ubuntu1 [9804 B] 142s Get:179 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsmartcols1 s390x 2.39.3-9ubuntu2 [67.9 kB] 142s Get:180 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bsdextrautils s390x 2.39.3-9ubuntu2 [76.3 kB] 142s Get:181 http://ftpmaster.internal/ubuntu noble-proposed/main s390x groff-base s390x 1.23.0-3build1 [1049 kB] 142s Get:182 http://ftpmaster.internal/ubuntu noble-proposed/main s390x pinentry-curses s390x 1.2.1-3ubuntu4 [37.6 kB] 142s Get:183 http://ftpmaster.internal/ubuntu noble-proposed/main s390x readline-common all 8.2-4 [56.4 kB] 142s Get:184 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxml2 s390x 2.9.14+dfsg-1.3ubuntu2 [818 kB] 142s Get:185 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libbpf1 s390x 1:1.3.0-2build1 [176 kB] 142s Get:186 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libelf1t64 s390x 0.190-1.1build2 [69.7 kB] 142s Get:187 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtirpc-common all 1.3.4+ds-1.1 [8018 B] 142s Get:188 http://ftpmaster.internal/ubuntu noble-proposed/main s390x lsof s390x 4.95.0-1build2 [248 kB] 142s Get:189 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnsl2 s390x 1.3.0-3build2 [44.1 kB] 142s Get:190 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtirpc3t64 s390x 1.3.4+ds-1.1 [85.8 kB] 142s Get:191 http://ftpmaster.internal/ubuntu noble-proposed/main s390x iproute2 s390x 6.1.0-1ubuntu5 [1156 kB] 142s Get:192 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-yaml s390x 6.0.1-2build1 [121 kB] 142s Get:193 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libusb-1.0-0 s390x 2:1.0.27-1 [54.8 kB] 142s Get:194 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libprotobuf-c1 s390x 1.4.1-1ubuntu3 [23.4 kB] 142s Get:195 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnghttp2-14 s390x 1.59.0-1build1 [77.8 kB] 142s Get:196 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libproc2-0 s390x 2:4.0.4-4ubuntu2 [60.1 kB] 142s Get:197 http://ftpmaster.internal/ubuntu noble-proposed/main s390x procps s390x 2:4.0.4-4ubuntu2 [724 kB] 142s Get:198 http://ftpmaster.internal/ubuntu noble-proposed/main s390x coreutils s390x 9.4-3ubuntu3 [1482 kB] 142s Get:199 http://ftpmaster.internal/ubuntu noble-proposed/main s390x util-linux s390x 2.39.3-9ubuntu2 [1143 kB] 142s Get:200 http://ftpmaster.internal/ubuntu noble-proposed/main s390x file s390x 1:5.45-3 [22.2 kB] 142s Get:201 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmagic-mgc s390x 1:5.45-3 [305 kB] 142s Get:202 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmagic1t64 s390x 1:5.45-3 [93.1 kB] 143s Get:203 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libplymouth5 s390x 24.004.60-1ubuntu6 [151 kB] 143s Get:204 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpng16-16t64 s390x 1.6.43-3 [200 kB] 143s Get:205 http://ftpmaster.internal/ubuntu noble-proposed/main s390x multipath-tools s390x 0.9.4-5ubuntu6 [318 kB] 143s Get:206 http://ftpmaster.internal/ubuntu noble/main s390x liburcu8t64 s390x 0.14.0-3.1 [67.3 kB] 143s Get:207 http://ftpmaster.internal/ubuntu noble-proposed/main s390x liblocale-gettext-perl s390x 1.07-6ubuntu4 [15.8 kB] 143s Get:208 http://ftpmaster.internal/ubuntu noble-proposed/main s390x uuid-runtime s390x 2.39.3-9ubuntu2 [33.4 kB] 143s Get:209 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdebconfclient0 s390x 0.271ubuntu2 [11.4 kB] 143s Get:210 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsemanage-common all 3.5-1build4 [10.1 kB] 143s Get:211 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsemanage2 s390x 3.5-1build4 [96.7 kB] 143s Get:212 http://ftpmaster.internal/ubuntu noble-proposed/main s390x install-info s390x 7.1-3build1 [64.5 kB] 143s Get:213 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gcc-13-base s390x 13.2.0-21ubuntu1 [48.3 kB] 143s Get:214 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libss2 s390x 1.47.0-2.4~exp1ubuntu2 [17.2 kB] 143s Get:215 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dmsetup s390x 2:1.02.185-3ubuntu2 [80.4 kB] 143s Get:216 http://ftpmaster.internal/ubuntu noble-proposed/main s390x eject s390x 2.39.3-9ubuntu2 [26.2 kB] 143s Get:217 http://ftpmaster.internal/ubuntu noble-proposed/main s390x krb5-locales all 1.20.1-6ubuntu1 [13.8 kB] 143s Get:218 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libglib2.0-data all 2.79.3-3ubuntu5 [46.6 kB] 143s Get:219 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libslang2 s390x 2.3.3-3build1 [501 kB] 143s Get:220 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtext-charwidth-perl s390x 0.04-11build2 [9484 B] 143s Get:221 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtext-iconv-perl s390x 1.7-8build2 [13.8 kB] 143s Get:222 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python-apt-common all 2.7.7 [19.8 kB] 143s Get:223 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-setuptools all 68.1.2-2ubuntu1 [396 kB] 143s Get:224 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-pkg-resources all 68.1.2-2ubuntu1 [168 kB] 143s Get:225 http://ftpmaster.internal/ubuntu noble-proposed/main s390x rsyslog s390x 8.2312.0-3ubuntu7 [536 kB] 143s Get:226 http://ftpmaster.internal/ubuntu noble-proposed/main s390x vim-tiny s390x 2:9.1.0016-1ubuntu6 [879 kB] 143s Get:227 http://ftpmaster.internal/ubuntu noble-proposed/main s390x vim-common all 2:9.1.0016-1ubuntu6 [385 kB] 143s Get:228 http://ftpmaster.internal/ubuntu noble/main s390x xdg-user-dirs s390x 0.18-1 [18.5 kB] 143s Get:229 http://ftpmaster.internal/ubuntu noble-proposed/main s390x xxd s390x 2:9.1.0016-1ubuntu6 [63.5 kB] 143s Get:230 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apparmor s390x 4.0.0-beta3-0ubuntu2 [710 kB] 143s Get:231 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ftp all 20230507-2build1 [4724 B] 143s Get:232 http://ftpmaster.internal/ubuntu noble-proposed/main s390x inetutils-telnet s390x 2:2.5-3ubuntu3 [105 kB] 143s Get:233 http://ftpmaster.internal/ubuntu noble-proposed/main s390x info s390x 7.1-3build1 [152 kB] 143s Get:234 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxmuu1 s390x 2:1.1.3-3build1 [8860 B] 143s Get:235 http://ftpmaster.internal/ubuntu noble-proposed/main s390x lshw s390x 02.19.git.2021.06.19.996aaad9c7-2build2 [346 kB] 144s Get:236 http://ftpmaster.internal/ubuntu noble/main s390x manpages all 6.05.01-1 [1340 kB] 144s Get:237 http://ftpmaster.internal/ubuntu noble-proposed/main s390x mtr-tiny s390x 0.95-1.1build1 [57.0 kB] 144s Get:238 http://ftpmaster.internal/ubuntu noble-proposed/main s390x plymouth-theme-ubuntu-text s390x 24.004.60-1ubuntu6 [10.2 kB] 144s Get:239 http://ftpmaster.internal/ubuntu noble-proposed/main s390x plymouth s390x 24.004.60-1ubuntu6 [147 kB] 144s Get:240 http://ftpmaster.internal/ubuntu noble-proposed/main s390x telnet all 0.17+2.5-3ubuntu3 [3682 B] 144s Get:241 http://ftpmaster.internal/ubuntu noble-proposed/main s390x usb.ids all 2024.03.18-1 [223 kB] 144s Get:242 http://ftpmaster.internal/ubuntu noble-proposed/main s390x xz-utils s390x 5.6.0-0.2 [274 kB] 144s Get:243 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libllvm18 s390x 1:18.1.2-1ubuntu2 [33.4 MB] 146s Get:244 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libclang-cpp18 s390x 1:18.1.2-1ubuntu2 [16.1 MB] 147s Get:245 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libbpfcc s390x 0.29.1+ds-1ubuntu4 [697 kB] 147s Get:246 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x python3-bpfcc all 0.29.1+ds-1ubuntu4 [40.2 kB] 147s Get:247 http://ftpmaster.internal/ubuntu noble/main s390x ieee-data all 20220827.1 [2113 kB] 148s Get:248 http://ftpmaster.internal/ubuntu noble/main s390x python3-netaddr all 0.8.0-2ubuntu1 [319 kB] 148s Get:249 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x bpfcc-tools all 0.29.1+ds-1ubuntu4 [687 kB] 148s Get:250 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libclang1-18 s390x 1:18.1.2-1ubuntu2 [9349 kB] 149s Get:251 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdw1t64 s390x 0.190-1.1build2 [286 kB] 149s Get:252 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x bpftrace s390x 0.20.2-1ubuntu1 [1139 kB] 149s Get:253 http://ftpmaster.internal/ubuntu noble-proposed/main s390x cryptsetup-bin s390x 2:2.7.0-1ubuntu2 [211 kB] 149s Get:254 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dpkg-dev all 1.22.6ubuntu5 [1074 kB] 149s Get:255 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdpkg-perl all 1.22.6ubuntu5 [269 kB] 149s Get:256 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 149s Get:257 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 149s Get:258 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu1 [37.4 kB] 149s Get:259 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg-l10n all 2.4.4-2ubuntu15 [65.8 kB] 149s Get:260 http://ftpmaster.internal/ubuntu noble/main s390x hwdata all 0.379-1 [29.1 kB] 149s Get:261 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libibverbs1 s390x 50.0-2build1 [70.0 kB] 149s Get:262 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ibverbs-providers s390x 50.0-2build1 [408 kB] 149s Get:263 http://ftpmaster.internal/ubuntu noble-proposed/main s390x jq s390x 1.7.1-3 [66.5 kB] 149s Get:264 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjq1 s390x 1.7.1-3 [168 kB] 149s Get:265 http://ftpmaster.internal/ubuntu noble/main s390x libaio1t64 s390x 0.3.113-6 [7290 B] 149s Get:266 http://ftpmaster.internal/ubuntu noble/main s390x libatm1t64 s390x 1:2.5.1-5.1 [24.5 kB] 149s Get:267 http://ftpmaster.internal/ubuntu noble/main s390x libc-dev-bin s390x 2.39-0ubuntu6 [20.2 kB] 149s Get:268 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfreetype6 s390x 2.13.2+dfsg-1build2 [437 kB] 149s Get:269 http://ftpmaster.internal/ubuntu noble/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu1 [150 kB] 149s Get:270 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB] 149s Get:271 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 149s Get:272 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB] 149s Get:273 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB] 149s Get:274 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsharpyuv0 s390x 1.3.2-0.4build2 [14.9 kB] 149s Get:275 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libwebp7 s390x 1.3.2-0.4build2 [207 kB] 149s Get:276 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu1 [218 kB] 149s Get:277 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxpm4 s390x 1:3.5.17-1build1 [41.4 kB] 149s Get:278 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgd3 s390x 2.3.3-9ubuntu3 [141 kB] 149s Get:279 http://ftpmaster.internal/ubuntu noble/main s390x libc-devtools s390x 2.39-0ubuntu6 [30.6 kB] 149s Get:280 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-libc-dev s390x 6.8.0-20.20 [1592 kB] 150s Get:281 http://ftpmaster.internal/ubuntu noble/main s390x libcrypt-dev s390x 1:4.4.36-4 [135 kB] 150s Get:282 http://ftpmaster.internal/ubuntu noble/main s390x rpcsvc-proto s390x 1.4.2-0ubuntu6 [64.7 kB] 150s Get:283 http://ftpmaster.internal/ubuntu noble/main s390x libc6-dev s390x 2.39-0ubuntu6 [1629 kB] 150s Get:284 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libevent-core-2.1-7 s390x 2.1.12-stable-9build1 [94.3 kB] 150s Get:285 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libftdi1-2 s390x 1.5-6build4 [29.3 kB] 150s Get:286 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libldap-common all 2.6.7+dfsg-1~exp1ubuntu6 [31.3 kB] 150s Get:287 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-modules-6.8.0-20-generic s390x 6.8.0-20.20 [21.0 MB] 152s Get:288 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-6.8.0-20-generic s390x 6.8.0-20.20 [9872 kB] 153s Get:289 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-modules-extra-6.8.0-20-generic s390x 6.8.0-20.20 [11.7 MB] 155s Get:290 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-generic s390x 6.8.0-20.20+1 [1734 B] 155s Get:291 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-generic s390x 6.8.0-20.20+1 [9688 B] 155s Get:292 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-virtual s390x 6.8.0-20.20+1 [1682 B] 155s Get:293 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-virtual s390x 6.8.0-20.20+1 [9700 B] 155s Get:294 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-virtual s390x 6.8.0-20.20+1 [1642 B] 155s Get:295 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-6.8.0-20 all 6.8.0-20.20 [13.6 MB] 156s Get:296 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-6.8.0-20-generic s390x 6.8.0-20.20 [2579 kB] 156s Get:297 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-generic s390x 6.8.0-20.20+1 [9608 B] 156s Get:298 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-common all 6.8.0-20.20 [437 kB] 156s Get:299 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-6.8.0-20 s390x 6.8.0-20.20 [2674 kB] 156s Get:300 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-6.8.0-20-generic s390x 6.8.0-20.20 [1724 B] 156s Get:301 http://ftpmaster.internal/ubuntu noble/main s390x manpages-dev all 6.05.01-1 [2018 kB] 157s Get:302 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-distutils all 3.12.2-3ubuntu1.1 [133 kB] 157s Get:303 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-lib2to3 all 3.12.2-3ubuntu1.1 [79.1 kB] 157s Get:304 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-pyrsistent s390x 0.20.0-1build1 [55.8 kB] 157s Get:305 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-typing-extensions all 4.10.0-1 [60.7 kB] 157s Get:306 http://ftpmaster.internal/ubuntu noble-proposed/main s390x s390-tools-data all 2.31.0-0ubuntu3 [17.8 kB] 157s Get:307 http://ftpmaster.internal/ubuntu noble/main s390x ubuntu-kernel-accessories s390x 1.536build1 [10.5 kB] 157s Get:308 http://ftpmaster.internal/ubuntu noble-proposed/main s390x kpartx s390x 0.9.4-5ubuntu6 [32.8 kB] 158s Preconfiguring packages ... 159s Fetched 225 MB in 23s (9756 kB/s) 159s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 159s Preparing to unpack .../motd-news-config_13ubuntu8_all.deb ... 159s Unpacking motd-news-config (13ubuntu8) over (13ubuntu7) ... 159s Preparing to unpack .../base-files_13ubuntu8_s390x.deb ... 159s Unpacking base-files (13ubuntu8) over (13ubuntu7) ... 159s Setting up base-files (13ubuntu8) ... 160s motd-news.service is a disabled or a static unit not running, not starting it. 160s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 160s Preparing to unpack .../bash_5.2.21-2ubuntu3_s390x.deb ... 160s Unpacking bash (5.2.21-2ubuntu3) over (5.2.21-2ubuntu2) ... 160s Setting up bash (5.2.21-2ubuntu3) ... 160s update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode 160s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 160s Preparing to unpack .../bsdutils_1%3a2.39.3-9ubuntu2_s390x.deb ... 160s Unpacking bsdutils (1:2.39.3-9ubuntu2) over (1:2.39.3-6ubuntu2) ... 160s Setting up bsdutils (1:2.39.3-9ubuntu2) ... 160s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 160s Preparing to unpack .../0-libbrotli1_1.1.0-2build1_s390x.deb ... 160s Unpacking libbrotli1:s390x (1.1.0-2build1) over (1.1.0-2) ... 160s Preparing to unpack .../1-libgssapi-krb5-2_1.20.1-6ubuntu1_s390x.deb ... 160s Unpacking libgssapi-krb5-2:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 160s Preparing to unpack .../2-libkrb5-3_1.20.1-6ubuntu1_s390x.deb ... 160s Unpacking libkrb5-3:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 160s Preparing to unpack .../3-libkrb5support0_1.20.1-6ubuntu1_s390x.deb ... 160s Unpacking libkrb5support0:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 160s Preparing to unpack .../4-libk5crypto3_1.20.1-6ubuntu1_s390x.deb ... 160s Unpacking libk5crypto3:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 160s Preparing to unpack .../5-libcom-err2_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 160s Unpacking libcom-err2:s390x (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 160s Preparing to unpack .../6-zlib1g_1%3a1.3.dfsg-3.1ubuntu1_s390x.deb ... 160s Unpacking zlib1g:s390x (1:1.3.dfsg-3.1ubuntu1) over (1:1.3.dfsg-3ubuntu1) ... 160s Setting up zlib1g:s390x (1:1.3.dfsg-3.1ubuntu1) ... 160s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 160s Preparing to unpack .../librtmp1_2.4+20151223.gitfa8646d.1-2build6_s390x.deb ... 160s Unpacking librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build6) over (2.4+20151223.gitfa8646d.1-2build4) ... 160s Preparing to unpack .../udisks2_2.10.1-6_s390x.deb ... 160s Unpacking udisks2 (2.10.1-6) over (2.10.1-1ubuntu2) ... 160s Preparing to unpack .../libudisks2-0_2.10.1-6_s390x.deb ... 160s Unpacking libudisks2-0:s390x (2.10.1-6) over (2.10.1-1ubuntu2) ... 160s Preparing to unpack .../libblkid1_2.39.3-9ubuntu2_s390x.deb ... 160s Unpacking libblkid1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 160s Setting up libblkid1:s390x (2.39.3-9ubuntu2) ... 160s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 160s Preparing to unpack .../liblzma5_5.6.0-0.2_s390x.deb ... 160s Unpacking liblzma5:s390x (5.6.0-0.2) over (5.4.5-0.3) ... 160s Setting up liblzma5:s390x (5.6.0-0.2) ... 160s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 160s Preparing to unpack .../0-kmod_31+20240202-2ubuntu4_s390x.deb ... 160s Unpacking kmod (31+20240202-2ubuntu4) over (30+20230601-2ubuntu1) ... 160s Preparing to unpack .../1-libkmod2_31+20240202-2ubuntu4_s390x.deb ... 160s Unpacking libkmod2:s390x (31+20240202-2ubuntu4) over (30+20230601-2ubuntu1) ... 160s Preparing to unpack .../2-systemd-dev_255.4-1ubuntu5_all.deb ... 160s Unpacking systemd-dev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 160s Preparing to unpack .../3-systemd-timesyncd_255.4-1ubuntu5_s390x.deb ... 160s Unpacking systemd-timesyncd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 160s Preparing to unpack .../4-dbus-session-bus-common_1.14.10-4ubuntu2_all.deb ... 160s Unpacking dbus-session-bus-common (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 160s Preparing to unpack .../5-libaudit-common_1%3a3.1.2-2.1_all.deb ... 160s Unpacking libaudit-common (1:3.1.2-2.1) over (1:3.1.2-2) ... 160s Setting up libaudit-common (1:3.1.2-2.1) ... 161s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 161s Preparing to unpack .../libcap-ng0_0.8.4-2build1_s390x.deb ... 161s Unpacking libcap-ng0:s390x (0.8.4-2build1) over (0.8.4-2) ... 161s Setting up libcap-ng0:s390x (0.8.4-2build1) ... 161s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 161s Preparing to unpack .../libaudit1_1%3a3.1.2-2.1_s390x.deb ... 161s Unpacking libaudit1:s390x (1:3.1.2-2.1) over (1:3.1.2-2) ... 161s Setting up libaudit1:s390x (1:3.1.2-2.1) ... 161s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 161s Preparing to unpack .../libpam0g_1.5.3-5ubuntu3_s390x.deb ... 161s Unpacking libpam0g:s390x (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 161s Setting up libpam0g:s390x (1.5.3-5ubuntu3) ... 161s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 161s Preparing to unpack .../libselinux1_3.5-2ubuntu1_s390x.deb ... 161s Unpacking libselinux1:s390x (3.5-2ubuntu1) over (3.5-2build1) ... 161s Setting up libselinux1:s390x (3.5-2ubuntu1) ... 161s dpkg: libcurl4:s390x: dependency problems, but removing anyway as you requested: 161s s390-tools depends on libcurl4 (>= 7.16.2). 161s curl depends on libcurl4 (= 8.5.0-2ubuntu2). 161s 161s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 161s Removing libcurl4:s390x (8.5.0-2ubuntu2) ... 161s Selecting previously unselected package libcurl4t64:s390x. 161s (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 ... 52162 files and directories currently installed.) 161s Preparing to unpack .../libcurl4t64_8.5.0-2ubuntu8_s390x.deb ... 161s Unpacking libcurl4t64:s390x (8.5.0-2ubuntu8) ... 161s Preparing to unpack .../curl_8.5.0-2ubuntu8_s390x.deb ... 161s Unpacking curl (8.5.0-2ubuntu8) over (8.5.0-2ubuntu2) ... 161s dpkg: libpsl5:s390x: dependency problems, but removing anyway as you requested: 161s wget depends on libpsl5 (>= 0.16.0). 161s libcurl3-gnutls:s390x depends on libpsl5 (>= 0.16.0). 161s 161s (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 ... 52168 files and directories currently installed.) 161s Removing libpsl5:s390x (0.21.2-1build1) ... 161s Selecting previously unselected package libpsl5t64:s390x. 161s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52163 files and directories currently installed.) 161s Preparing to unpack .../00-libpsl5t64_0.21.2-1.1_s390x.deb ... 161s Unpacking libpsl5t64:s390x (0.21.2-1.1) ... 161s Preparing to unpack .../01-wget_1.21.4-1ubuntu2_s390x.deb ... 161s Unpacking wget (1.21.4-1ubuntu2) over (1.21.4-1ubuntu1) ... 161s Preparing to unpack .../02-tnftp_20230507-2build1_s390x.deb ... 161s Unpacking tnftp (20230507-2build1) over (20230507-2) ... 161s Preparing to unpack .../03-tcpdump_4.99.4-3ubuntu2_s390x.deb ... 161s Unpacking tcpdump (4.99.4-3ubuntu2) over (4.99.4-3ubuntu1) ... 161s Preparing to unpack .../04-libsystemd-shared_255.4-1ubuntu5_s390x.deb ... 161s Unpacking libsystemd-shared:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 161s Preparing to unpack .../05-systemd-resolved_255.4-1ubuntu5_s390x.deb ... 161s Unpacking systemd-resolved (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 161s Preparing to unpack .../06-sudo_1.9.15p5-3ubuntu3_s390x.deb ... 161s Unpacking sudo (1.9.15p5-3ubuntu3) over (1.9.15p5-3ubuntu1) ... 161s Preparing to unpack .../07-rsync_3.2.7-1build1_s390x.deb ... 161s Unpacking rsync (3.2.7-1build1) over (3.2.7-1) ... 161s Preparing to unpack .../08-python3-cryptography_41.0.7-4build2_s390x.deb ... 161s Unpacking python3-cryptography (41.0.7-4build2) over (41.0.7-3) ... 162s Preparing to unpack .../09-openssl_3.0.13-0ubuntu2_s390x.deb ... 162s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 162s Preparing to unpack .../10-openssh-sftp-server_1%3a9.6p1-3ubuntu11_s390x.deb ... 162s Unpacking openssh-sftp-server (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 162s Preparing to unpack .../11-openssh-client_1%3a9.6p1-3ubuntu11_s390x.deb ... 162s Unpacking openssh-client (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 162s Preparing to unpack .../12-openssh-server_1%3a9.6p1-3ubuntu11_s390x.deb ... 162s Unpacking openssh-server (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 162s Preparing to unpack .../13-libssh-4_0.10.6-2build1_s390x.deb ... 162s Unpacking libssh-4:s390x (0.10.6-2build1) over (0.10.6-2) ... 162s Preparing to unpack .../14-libsasl2-modules_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 162s Unpacking libsasl2-modules:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 162s Preparing to unpack .../15-python3.12_3.12.2-4build3_s390x.deb ... 162s Unpacking python3.12 (3.12.2-4build3) over (3.12.2-1) ... 162s Preparing to unpack .../16-python3.12-minimal_3.12.2-4build3_s390x.deb ... 162s Unpacking python3.12-minimal (3.12.2-4build3) over (3.12.2-1) ... 162s Preparing to unpack .../17-libpython3.12-minimal_3.12.2-4build3_s390x.deb ... 162s Unpacking libpython3.12-minimal:s390x (3.12.2-4build3) over (3.12.2-1) ... 162s dpkg: libparted2:s390x: dependency problems, but removing anyway as you requested: 162s parted depends on libparted2 (= 3.6-3). 162s 162s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52169 files and directories currently installed.) 162s Removing libparted2:s390x (3.6-3) ... 162s Selecting previously unselected package libparted2t64:s390x. 163s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52163 files and directories currently installed.) 163s Preparing to unpack .../00-libparted2t64_3.6-3.1build2_s390x.deb ... 163s Unpacking libparted2t64:s390x (3.6-3.1build2) ... 163s Preparing to unpack .../01-parted_3.6-3.1build2_s390x.deb ... 163s Unpacking parted (3.6-3.1build2) over (3.6-3) ... 163s Preparing to unpack .../02-python3.11_3.11.8-1build4_s390x.deb ... 163s Unpacking python3.11 (3.11.8-1build4) over (3.11.8-1) ... 163s Preparing to unpack .../03-python3.11-minimal_3.11.8-1build4_s390x.deb ... 163s Unpacking python3.11-minimal (3.11.8-1build4) over (3.11.8-1) ... 163s Preparing to unpack .../04-libpython3.11-minimal_3.11.8-1build4_s390x.deb ... 163s Unpacking libpython3.11-minimal:s390x (3.11.8-1build4) over (3.11.8-1) ... 163s Preparing to unpack .../05-libpython3.11-stdlib_3.11.8-1build4_s390x.deb ... 163s Unpacking libpython3.11-stdlib:s390x (3.11.8-1build4) over (3.11.8-1) ... 163s Preparing to unpack .../06-shared-mime-info_2.4-1build1_s390x.deb ... 163s Unpacking shared-mime-info (2.4-1build1) over (2.4-1) ... 163s Preparing to unpack .../07-gir1.2-girepository-2.0_1.79.1-1ubuntu6_s390x.deb ... 163s Unpacking gir1.2-girepository-2.0:s390x (1.79.1-1ubuntu6) over (1.79.1-1) ... 163s Preparing to unpack .../08-gir1.2-glib-2.0_2.79.3-3ubuntu5_s390x.deb ... 163s Unpacking gir1.2-glib-2.0:s390x (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 163s Preparing to unpack .../09-libgirepository-1.0-1_1.79.1-1ubuntu6_s390x.deb ... 163s Unpacking libgirepository-1.0-1:s390x (1.79.1-1ubuntu6) over (1.79.1-1) ... 163s Preparing to unpack .../10-python3-gi_3.47.0-3build1_s390x.deb ... 164s Unpacking python3-gi (3.47.0-3build1) over (3.47.0-3) ... 164s Preparing to unpack .../11-python3-dbus_1.3.2-5build2_s390x.deb ... 164s Unpacking python3-dbus (1.3.2-5build2) over (1.3.2-5build1) ... 164s Selecting previously unselected package libnetplan1:s390x. 164s Preparing to unpack .../12-libnetplan1_1.0-1_s390x.deb ... 164s Unpacking libnetplan1:s390x (1.0-1) ... 164s Preparing to unpack .../13-python3-netplan_1.0-1_s390x.deb ... 164s Unpacking python3-netplan (1.0-1) over (0.107.1-3) ... 164s Preparing to unpack .../14-netplan-generator_1.0-1_s390x.deb ... 164s Adding 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 164s Unpacking netplan-generator (1.0-1) over (0.107.1-3) ... 164s Preparing to unpack .../15-initramfs-tools-bin_0.142ubuntu23_s390x.deb ... 164s Unpacking initramfs-tools-bin (0.142ubuntu23) over (0.142ubuntu20) ... 164s Preparing to unpack .../16-initramfs-tools-core_0.142ubuntu23_all.deb ... 164s Unpacking initramfs-tools-core (0.142ubuntu23) over (0.142ubuntu20) ... 164s Preparing to unpack .../17-initramfs-tools_0.142ubuntu23_all.deb ... 164s Unpacking initramfs-tools (0.142ubuntu23) over (0.142ubuntu20) ... 164s Preparing to unpack .../18-netplan.io_1.0-1_s390x.deb ... 164s Unpacking netplan.io (1.0-1) over (0.107.1-3) ... 164s Preparing to unpack .../19-libxmlb2_0.3.15-1build1_s390x.deb ... 164s Unpacking libxmlb2:s390x (0.3.15-1build1) over (0.3.15-1) ... 164s dpkg: libgpgme11:s390x: dependency problems, but removing anyway as you requested: 164s libvolume-key1:s390x depends on libgpgme11 (>= 1.4.1). 164s libjcat1:s390x depends on libgpgme11 (>= 1.2.0). 164s 164s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52172 files and directories currently installed.) 164s Removing libgpgme11:s390x (1.18.0-4ubuntu1) ... 164s Selecting previously unselected package libgpgme11t64:s390x. 164s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52166 files and directories currently installed.) 164s Preparing to unpack .../00-libgpgme11t64_1.18.0-4.1ubuntu3_s390x.deb ... 164s Unpacking libgpgme11t64:s390x (1.18.0-4.1ubuntu3) ... 164s Preparing to unpack .../01-libvolume-key1_0.3.12-7build1_s390x.deb ... 164s Unpacking libvolume-key1:s390x (0.3.12-7build1) over (0.3.12-5build2) ... 164s Preparing to unpack .../02-libqrtr-glib0_1.2.2-1ubuntu3_s390x.deb ... 164s Unpacking libqrtr-glib0:s390x (1.2.2-1ubuntu3) over (1.2.2-1ubuntu2) ... 164s Preparing to unpack .../03-libqmi-glib5_1.35.2-0ubuntu1_s390x.deb ... 164s Unpacking libqmi-glib5:s390x (1.35.2-0ubuntu1) over (1.34.0-2) ... 164s Preparing to unpack .../04-libqmi-proxy_1.35.2-0ubuntu1_s390x.deb ... 164s Unpacking libqmi-proxy (1.35.2-0ubuntu1) over (1.34.0-2) ... 164s Preparing to unpack .../05-libpolkit-agent-1-0_124-1ubuntu1_s390x.deb ... 164s Unpacking libpolkit-agent-1-0:s390x (124-1ubuntu1) over (124-1) ... 164s Preparing to unpack .../06-libpolkit-gobject-1-0_124-1ubuntu1_s390x.deb ... 164s Unpacking libpolkit-gobject-1-0:s390x (124-1ubuntu1) over (124-1) ... 164s Preparing to unpack .../07-libmm-glib0_1.23.4-0ubuntu1_s390x.deb ... 164s Unpacking libmm-glib0:s390x (1.23.4-0ubuntu1) over (1.22.0-3) ... 164s Preparing to unpack .../08-libmbim-glib4_1.31.2-0ubuntu2_s390x.deb ... 164s Unpacking libmbim-glib4:s390x (1.31.2-0ubuntu2) over (1.30.0-1) ... 164s Preparing to unpack .../09-libmbim-proxy_1.31.2-0ubuntu2_s390x.deb ... 164s Unpacking libmbim-proxy (1.31.2-0ubuntu2) over (1.30.0-1) ... 164s Preparing to unpack .../10-libjson-glib-1.0-common_1.8.0-2build1_all.deb ... 164s Unpacking libjson-glib-1.0-common (1.8.0-2build1) over (1.8.0-2) ... 164s Preparing to unpack .../11-libjson-glib-1.0-0_1.8.0-2build1_s390x.deb ... 164s Unpacking libjson-glib-1.0-0:s390x (1.8.0-2build1) over (1.8.0-2) ... 164s Preparing to unpack .../12-libgusb2_0.4.8-1build1_s390x.deb ... 164s Unpacking libgusb2:s390x (0.4.8-1build1) over (0.4.8-1) ... 164s Preparing to unpack .../13-libgudev-1.0-0_1%3a238-3ubuntu2_s390x.deb ... 164s Unpacking libgudev-1.0-0:s390x (1:238-3ubuntu2) over (1:238-3) ... 164s dpkg: libarchive13:s390x: dependency problems, but removing anyway as you requested: 164s fwupd depends on libarchive13 (>= 3.2.1). 164s 164s (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 ... 52173 files and directories currently installed.) 164s Removing libarchive13:s390x (3.7.2-1ubuntu2) ... 164s Selecting previously unselected package libarchive13t64:s390x. 164s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 164s Preparing to unpack .../libarchive13t64_3.7.2-1.1ubuntu2_s390x.deb ... 164s Unpacking libarchive13t64:s390x (3.7.2-1.1ubuntu2) ... 165s Preparing to unpack .../fwupd_1.9.15-2_s390x.deb ... 165s Unpacking fwupd (1.9.15-2) over (1.9.14-1) ... 165s dpkg: libcurl3-gnutls:s390x: dependency problems, but removing anyway as you requested: 165s libfwupd2:s390x depends on libcurl3-gnutls (>= 7.63.0). 165s 165s (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 ... 52174 files and directories currently installed.) 165s Removing libcurl3-gnutls:s390x (8.5.0-2ubuntu2) ... 165s Selecting previously unselected package libcurl3t64-gnutls:s390x. 165s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 165s Preparing to unpack .../0-libcurl3t64-gnutls_8.5.0-2ubuntu8_s390x.deb ... 165s Unpacking libcurl3t64-gnutls:s390x (8.5.0-2ubuntu8) ... 165s Preparing to unpack .../1-libfwupd2_1.9.15-2_s390x.deb ... 165s Unpacking libfwupd2:s390x (1.9.15-2) over (1.9.14-1) ... 165s Preparing to unpack .../2-libblockdev3_3.1.0-1build1_s390x.deb ... 165s Unpacking libblockdev3:s390x (3.1.0-1build1) over (3.1.0-1) ... 165s Preparing to unpack .../3-libblockdev-utils3_3.1.0-1build1_s390x.deb ... 165s Unpacking libblockdev-utils3:s390x (3.1.0-1build1) over (3.1.0-1) ... 165s Preparing to unpack .../4-libblockdev-swap3_3.1.0-1build1_s390x.deb ... 165s Unpacking libblockdev-swap3:s390x (3.1.0-1build1) over (3.1.0-1) ... 165s Preparing to unpack .../5-libblockdev-part3_3.1.0-1build1_s390x.deb ... 165s Unpacking libblockdev-part3:s390x (3.1.0-1build1) over (3.1.0-1) ... 165s dpkg: libnvme1: dependency problems, but removing anyway as you requested: 165s libblockdev-nvme3:s390x depends on libnvme1 (>= 1.7.1). 165s 165s (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 ... 52174 files and directories currently installed.) 165s Removing libnvme1 (1.8-2) ... 165s Selecting previously unselected package libnvme1t64. 165s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52167 files and directories currently installed.) 165s Preparing to unpack .../0-libnvme1t64_1.8-3_s390x.deb ... 165s Unpacking libnvme1t64 (1.8-3) ... 165s Preparing to unpack .../1-libblockdev-nvme3_3.1.0-1build1_s390x.deb ... 165s Unpacking libblockdev-nvme3:s390x (3.1.0-1build1) over (3.1.0-1) ... 165s Preparing to unpack .../2-libblockdev-mdraid3_3.1.0-1build1_s390x.deb ... 165s Unpacking libblockdev-mdraid3:s390x (3.1.0-1build1) over (3.1.0-1) ... 165s Preparing to unpack .../3-libblockdev-loop3_3.1.0-1build1_s390x.deb ... 165s Unpacking libblockdev-loop3:s390x (3.1.0-1build1) over (3.1.0-1) ... 165s Preparing to unpack .../4-e2fsprogs-l10n_1.47.0-2.4~exp1ubuntu2_all.deb ... 165s Unpacking e2fsprogs-l10n (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 165s Preparing to unpack .../5-logsave_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 165s Unpacking logsave (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 165s dpkg: libext2fs2:s390x: dependency problems, but removing anyway as you requested: 165s libblockdev-fs3:s390x depends on libext2fs2 (>= 1.42.11). 165s e2fsprogs depends on libext2fs2 (= 1.47.0-2ubuntu1). 165s btrfs-progs depends on libext2fs2 (>= 1.42). 165s 165s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52175 files and directories currently installed.) 165s Removing libext2fs2:s390x (1.47.0-2ubuntu1) ... 165s Selecting previously unselected package libext2fs2t64:s390x. 165s (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 ... 52168 files and directories currently installed.) 165s Preparing to unpack .../libext2fs2t64_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 165s Adding 'diversion of /lib/s390x-linux-gnu/libe2p.so.2 to /lib/s390x-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' 165s Adding 'diversion of /lib/s390x-linux-gnu/libe2p.so.2.3 to /lib/s390x-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64' 165s Adding 'diversion of /lib/s390x-linux-gnu/libext2fs.so.2 to /lib/s390x-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' 165s Adding 'diversion of /lib/s390x-linux-gnu/libext2fs.so.2.4 to /lib/s390x-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' 165s Unpacking libext2fs2t64:s390x (1.47.0-2.4~exp1ubuntu2) ... 165s Setting up libcom-err2:s390x (1.47.0-2.4~exp1ubuntu2) ... 165s Setting up libext2fs2t64:s390x (1.47.0-2.4~exp1ubuntu2) ... 165s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52184 files and directories currently installed.) 165s Preparing to unpack .../e2fsprogs_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 165s Unpacking e2fsprogs (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 166s dpkg: libreiserfscore0: dependency problems, but removing anyway as you requested: 166s btrfs-progs depends on libreiserfscore0 (>= 1:3.6.27). 166s 166s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52184 files and directories currently installed.) 166s Removing libreiserfscore0 (1:3.6.27-7) ... 166s Selecting previously unselected package libreiserfscore0t64. 166s (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 ... 52179 files and directories currently installed.) 166s Preparing to unpack .../libreiserfscore0t64_1%3a3.6.27-7.1_s390x.deb ... 166s Unpacking libreiserfscore0t64 (1:3.6.27-7.1) ... 166s Preparing to unpack .../btrfs-progs_6.6.3-1.1build1_s390x.deb ... 166s Unpacking btrfs-progs (6.6.3-1.1build1) over (6.6.3-1.1) ... 166s Preparing to unpack .../libblockdev-fs3_3.1.0-1build1_s390x.deb ... 166s Unpacking libblockdev-fs3:s390x (3.1.0-1build1) over (3.1.0-1) ... 166s Preparing to unpack .../libblockdev-crypto3_3.1.0-1build1_s390x.deb ... 166s Unpacking libblockdev-crypto3:s390x (3.1.0-1build1) over (3.1.0-1) ... 166s Preparing to unpack .../bolt_0.9.6-2build1_s390x.deb ... 166s Unpacking bolt (0.9.6-2build1) over (0.9.6-2) ... 166s dpkg: libglib2.0-0:s390x: dependency problems, but removing anyway as you requested: 166s s390-tools depends on libglib2.0-0 (>= 2.77.0). 166s libnetplan0:s390x depends on libglib2.0-0 (>= 2.75.3). 166s libjcat1:s390x depends on libglib2.0-0 (>= 2.75.3). 166s 166s (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 ... 52185 files and directories currently installed.) 166s Removing libglib2.0-0:s390x (2.79.2-1~ubuntu1) ... 166s Selecting previously unselected package libglib2.0-0t64:s390x. 166s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52160 files and directories currently installed.) 166s Preparing to unpack .../0-libglib2.0-0t64_2.79.3-3ubuntu5_s390x.deb ... 166s libglib2.0-0t64.preinst: Removing /var/lib/dpkg/info/libglib2.0-0:s390x.postrm to avoid loss of /usr/share/glib-2.0/schemas/gschemas.compiled... 166s removed '/var/lib/dpkg/info/libglib2.0-0:s390x.postrm' 166s Unpacking libglib2.0-0t64:s390x (2.79.3-3ubuntu5) ... 166s Preparing to unpack .../1-libjcat1_0.2.0-2build2_s390x.deb ... 166s Unpacking libjcat1:s390x (0.2.0-2build2) over (0.2.0-2) ... 166s Preparing to unpack .../2-libldap2_2.6.7+dfsg-1~exp1ubuntu6_s390x.deb ... 166s Unpacking libldap2:s390x (2.6.7+dfsg-1~exp1ubuntu6) over (2.6.7+dfsg-1~exp1ubuntu1) ... 166s Preparing to unpack .../3-ubuntu-pro-client-l10n_31.2.2_s390x.deb ... 166s Unpacking ubuntu-pro-client-l10n (31.2.2) over (31.1) ... 166s Preparing to unpack .../4-ubuntu-pro-client_31.2.2_s390x.deb ... 166s Unpacking ubuntu-pro-client (31.2.2) over (31.1) ... 166s Preparing to unpack .../5-gnupg-utils_2.4.4-2ubuntu15_s390x.deb ... 166s Unpacking gnupg-utils (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 166s Preparing to unpack .../6-keyboxd_2.4.4-2ubuntu15_s390x.deb ... 166s Unpacking keyboxd (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 166s dpkg: libnpth0:s390x: dependency problems, but removing anyway as you requested: 166s gpgv depends on libnpth0 (>= 0.90). 166s gpgsm depends on libnpth0 (>= 0.90). 166s gpg-agent depends on libnpth0 (>= 0.90). 166s gpg depends on libnpth0 (>= 0.90). 166s dirmngr depends on libnpth0 (>= 0.90). 166s 166s (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 ... 52185 files and directories currently installed.) 166s Removing libnpth0:s390x (1.6-3build2) ... 166s Selecting previously unselected package libnpth0t64:s390x. 166s (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 ... 52180 files and directories currently installed.) 166s Preparing to unpack .../libnpth0t64_1.6-3.1_s390x.deb ... 166s Unpacking libnpth0t64:s390x (1.6-3.1) ... 166s Setting up libnpth0t64:s390x (1.6-3.1) ... 166s (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 ... 52186 files and directories currently installed.) 166s Preparing to unpack .../gpgv_2.4.4-2ubuntu15_s390x.deb ... 166s Unpacking gpgv (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 166s Setting up gpgv (2.4.4-2ubuntu15) ... 167s (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 ... 52186 files and directories currently installed.) 167s Preparing to unpack .../0-gpg-wks-client_2.4.4-2ubuntu15_s390x.deb ... 167s Unpacking gpg-wks-client (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 167s Preparing to unpack .../1-gpg-agent_2.4.4-2ubuntu15_s390x.deb ... 167s Unpacking gpg-agent (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 167s Preparing to unpack .../2-gpg_2.4.4-2ubuntu15_s390x.deb ... 167s Unpacking gpg (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 167s Preparing to unpack .../3-dirmngr_2.4.4-2ubuntu15_s390x.deb ... 167s Unpacking dirmngr (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 167s Preparing to unpack .../4-gnupg_2.4.4-2ubuntu15_all.deb ... 167s Unpacking gnupg (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 167s Preparing to unpack .../5-python3-apt_2.7.7_s390x.deb ... 167s Unpacking python3-apt (2.7.7) over (2.7.6) ... 167s Preparing to unpack .../6-apt-utils_2.7.14_s390x.deb ... 167s Unpacking apt-utils (2.7.14) over (2.7.12) ... 167s dpkg: libapt-pkg6.0:s390x: dependency problems, but removing anyway as you requested: 167s apt depends on libapt-pkg6.0 (>= 2.7.12). 167s 167s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52184 files and directories currently installed.) 167s Removing libapt-pkg6.0:s390x (2.7.12) ... 167s dpkg: libnettle8:s390x: dependency problems, but removing anyway as you requested: 167s libhogweed6:s390x depends on libnettle8. 167s libgnutls30:s390x depends on libnettle8 (>= 3.9~). 167s 167s Removing libnettle8:s390x (3.9.1-2) ... 167s Selecting previously unselected package libapt-pkg6.0t64:s390x. 167s (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 ... 52128 files and directories currently installed.) 167s Preparing to unpack .../libapt-pkg6.0t64_2.7.14_s390x.deb ... 167s Unpacking libapt-pkg6.0t64:s390x (2.7.14) ... 167s Setting up libapt-pkg6.0t64:s390x (2.7.14) ... 167s Selecting previously unselected package libnettle8t64:s390x. 167s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52178 files and directories currently installed.) 167s Preparing to unpack .../libnettle8t64_3.9.1-2.2_s390x.deb ... 167s Unpacking libnettle8t64:s390x (3.9.1-2.2) ... 167s Setting up libnettle8t64:s390x (3.9.1-2.2) ... 167s dpkg: libhogweed6:s390x: dependency problems, but removing anyway as you requested: 167s libgnutls30:s390x depends on libhogweed6 (>= 3.6). 167s 167s (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 ... 52186 files and directories currently installed.) 167s Removing libhogweed6:s390x (3.9.1-2) ... 167s Selecting previously unselected package libhogweed6t64:s390x. 167s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52181 files and directories currently installed.) 167s Preparing to unpack .../libhogweed6t64_3.9.1-2.2_s390x.deb ... 167s Unpacking libhogweed6t64:s390x (3.9.1-2.2) ... 167s Setting up libhogweed6t64:s390x (3.9.1-2.2) ... 167s dpkg: libgnutls30:s390x: dependency problems, but removing anyway as you requested: 167s apt depends on libgnutls30 (>= 3.8.1). 167s 167s (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 ... 52187 files and directories currently installed.) 167s Removing libgnutls30:s390x (3.8.3-1ubuntu1) ... 167s Selecting previously unselected package libgnutls30t64:s390x. 167s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52178 files and directories currently installed.) 167s Preparing to unpack .../libgnutls30t64_3.8.3-1.1ubuntu2_s390x.deb ... 167s Unpacking libgnutls30t64:s390x (3.8.3-1.1ubuntu2) ... 167s Setting up libgnutls30t64:s390x (3.8.3-1.1ubuntu2) ... 167s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52206 files and directories currently installed.) 167s Preparing to unpack .../archives/apt_2.7.14_s390x.deb ... 168s Unpacking apt (2.7.14) over (2.7.12) ... 168s Setting up apt (2.7.14) ... 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52206 files and directories currently installed.) 170s Preparing to unpack .../gpgconf_2.4.4-2ubuntu15_s390x.deb ... 170s Unpacking gpgconf (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 170s Preparing to unpack .../gpgsm_2.4.4-2ubuntu15_s390x.deb ... 170s Unpacking gpgsm (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 170s dpkg: libreadline8:s390x: dependency problems, but removing anyway as you requested: 170s libpython3.12-stdlib:s390x depends on libreadline8 (>= 7.0~beta). 170s gawk depends on libreadline8 (>= 6.0). 170s fdisk depends on libreadline8 (>= 6.0). 170s 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52206 files and directories currently installed.) 170s Removing libreadline8:s390x (8.2-3) ... 170s Selecting previously unselected package libreadline8t64:s390x. 170s (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 ... 52194 files and directories currently installed.) 170s Preparing to unpack .../libreadline8t64_8.2-4_s390x.deb ... 170s Adding 'diversion of /lib/s390x-linux-gnu/libhistory.so.8 to /lib/s390x-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' 170s Adding 'diversion of /lib/s390x-linux-gnu/libhistory.so.8.2 to /lib/s390x-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' 170s Adding 'diversion of /lib/s390x-linux-gnu/libreadline.so.8 to /lib/s390x-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' 170s Adding 'diversion of /lib/s390x-linux-gnu/libreadline.so.8.2 to /lib/s390x-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' 170s Unpacking libreadline8t64:s390x (8.2-4) ... 170s Setting up libreadline8t64:s390x (8.2-4) ... 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52214 files and directories currently installed.) 170s Preparing to unpack .../gawk_1%3a5.2.1-2build2_s390x.deb ... 170s Unpacking gawk (1:5.2.1-2build2) over (1:5.2.1-2) ... 170s Preparing to unpack .../fdisk_2.39.3-9ubuntu2_s390x.deb ... 170s Unpacking fdisk (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 170s Preparing to unpack .../libpython3.12-stdlib_3.12.2-4build3_s390x.deb ... 170s Unpacking libpython3.12-stdlib:s390x (3.12.2-4build3) over (3.12.2-1) ... 170s Preparing to unpack .../perl-base_5.38.2-3.2_s390x.deb ... 170s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ... 170s Setting up perl-base (5.38.2-3.2) ... 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52212 files and directories currently installed.) 170s Preparing to unpack .../perl-modules-5.38_5.38.2-3.2_all.deb ... 170s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ... 170s Preparing to unpack .../python3-gdbm_3.12.2-3ubuntu1.1_s390x.deb ... 170s Unpacking python3-gdbm:s390x (3.12.2-3ubuntu1.1) over (3.11.5-1) ... 170s Preparing to unpack .../man-db_2.12.0-3build4_s390x.deb ... 170s Unpacking man-db (2.12.0-3build4) over (2.12.0-3) ... 170s dpkg: libgdbm-compat4:s390x: dependency problems, but removing anyway as you requested: 170s libperl5.38:s390x depends on libgdbm-compat4 (>= 1.18-3). 170s 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52212 files and directories currently installed.) 170s Removing libgdbm-compat4:s390x (1.23-5) ... 170s dpkg: libgdbm6:s390x: dependency problems, but removing anyway as you requested: 170s libperl5.38:s390x depends on libgdbm6 (>= 1.21). 170s 170s Removing libgdbm6:s390x (1.23-5) ... 170s Selecting previously unselected package libgdbm6t64:s390x. 170s (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 ... 52202 files and directories currently installed.) 170s Preparing to unpack .../libgdbm6t64_1.23-5.1_s390x.deb ... 170s Unpacking libgdbm6t64:s390x (1.23-5.1) ... 170s Selecting previously unselected package libgdbm-compat4t64:s390x. 170s Preparing to unpack .../libgdbm-compat4t64_1.23-5.1_s390x.deb ... 170s Unpacking libgdbm-compat4t64:s390x (1.23-5.1) ... 170s dpkg: libperl5.38:s390x: dependency problems, but removing anyway as you requested: 170s perl depends on libperl5.38 (= 5.38.2-3). 170s 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52214 files and directories currently installed.) 170s Removing libperl5.38:s390x (5.38.2-3) ... 170s Selecting previously unselected package libperl5.38t64:s390x. 170s (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 ... 51692 files and directories currently installed.) 170s Preparing to unpack .../libperl5.38t64_5.38.2-3.2_s390x.deb ... 170s Unpacking libperl5.38t64:s390x (5.38.2-3.2) ... 170s Preparing to unpack .../perl_5.38.2-3.2_s390x.deb ... 170s Unpacking perl (5.38.2-3.2) over (5.38.2-3) ... 170s dpkg: libdb5.3:s390x: dependency problems, but removing anyway as you requested: 170s libsasl2-modules-db:s390x depends on libdb5.3. 170s libpam-modules:s390x depends on libdb5.3. 170s iproute2 depends on libdb5.3. 170s 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52214 files and directories currently installed.) 170s Removing libdb5.3:s390x (5.3.28+dfsg2-4) ... 170s Selecting previously unselected package libdb5.3t64:s390x. 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52208 files and directories currently installed.) 170s Preparing to unpack .../0-libdb5.3t64_5.3.28+dfsg2-6_s390x.deb ... 170s Unpacking libdb5.3t64:s390x (5.3.28+dfsg2-6) ... 170s Preparing to unpack .../1-libsasl2-modules-db_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 170s Unpacking libsasl2-modules-db:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 170s Preparing to unpack .../2-libsasl2-2_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 170s Unpacking libsasl2-2:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 170s Preparing to unpack .../3-libfido2-1_1.14.0-1build1_s390x.deb ... 170s Unpacking libfido2-1:s390x (1.14.0-1build1) over (1.14.0-1) ... 170s Preparing to unpack .../4-libcryptsetup12_2%3a2.7.0-1ubuntu2_s390x.deb ... 170s Unpacking libcryptsetup12:s390x (2:2.7.0-1ubuntu2) over (2:2.7.0-1ubuntu1) ... 170s Preparing to unpack .../5-dhcpcd-base_1%3a10.0.6-1ubuntu2_s390x.deb ... 170s Unpacking dhcpcd-base (1:10.0.6-1ubuntu2) over (1:10.0.6-1ubuntu1) ... 170s dpkg: libuv1:s390x: dependency problems, but removing anyway as you requested: 170s bind9-libs:s390x depends on libuv1 (>= 1.40.0). 170s 171s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52214 files and directories currently installed.) 171s Removing libuv1:s390x (1.48.0-1) ... 171s Selecting previously unselected package libuv1t64:s390x. 171s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52209 files and directories currently installed.) 171s Preparing to unpack .../libuv1t64_1.48.0-1.1_s390x.deb ... 171s Unpacking libuv1t64:s390x (1.48.0-1.1) ... 171s Preparing to unpack .../bind9-host_1%3a9.18.24-0ubuntu3_s390x.deb ... 171s Unpacking bind9-host (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 171s Preparing to unpack .../bind9-dnsutils_1%3a9.18.24-0ubuntu3_s390x.deb ... 171s Unpacking bind9-dnsutils (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 171s Preparing to unpack .../bind9-libs_1%3a9.18.24-0ubuntu3_s390x.deb ... 171s Unpacking bind9-libs:s390x (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 171s dpkg: libssl3:s390x: dependency problems, but removing anyway as you requested: 171s systemd depends on libssl3 (>= 3.0.0). 171s s390-tools depends on libssl3 (>= 3.0.0). 171s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 171s 171s (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 ... 52215 files and directories currently installed.) 171s Removing libssl3:s390x (3.0.10-1ubuntu4) ... 171s Selecting previously unselected package libssl3t64:s390x. 171s (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 ... 52204 files and directories currently installed.) 171s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_s390x.deb ... 171s Unpacking libssl3t64:s390x (3.0.13-0ubuntu2) ... 171s Setting up libssl3t64:s390x (3.0.13-0ubuntu2) ... 171s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52217 files and directories currently installed.) 171s Preparing to unpack .../libnss-systemd_255.4-1ubuntu5_s390x.deb ... 171s Unpacking libnss-systemd:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 171s Preparing to unpack .../libudev1_255.4-1ubuntu5_s390x.deb ... 171s Unpacking libudev1:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 171s Setting up libudev1:s390x (255.4-1ubuntu5) ... 171s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52217 files and directories currently installed.) 171s Preparing to unpack .../systemd_255.4-1ubuntu5_s390x.deb ... 171s Unpacking systemd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 171s Preparing to unpack .../udev_255.4-1ubuntu5_s390x.deb ... 171s Unpacking udev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 172s Preparing to unpack .../libsystemd0_255.4-1ubuntu5_s390x.deb ... 172s Unpacking libsystemd0:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 172s Setting up libsystemd0:s390x (255.4-1ubuntu5) ... 172s Setting up libcryptsetup12:s390x (2:2.7.0-1ubuntu2) ... 172s Setting up libkmod2:s390x (31+20240202-2ubuntu4) ... 172s Setting up libsystemd-shared:s390x (255.4-1ubuntu5) ... 172s Setting up systemd-dev (255.4-1ubuntu5) ... 172s Setting up systemd (255.4-1ubuntu5) ... 172s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52217 files and directories currently installed.) 172s Preparing to unpack .../systemd-sysv_255.4-1ubuntu5_s390x.deb ... 172s Unpacking systemd-sysv (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 172s Preparing to unpack .../libpam-systemd_255.4-1ubuntu5_s390x.deb ... 172s Unpacking libpam-systemd:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 172s Preparing to unpack .../libpam-modules-bin_1.5.3-5ubuntu3_s390x.deb ... 172s Unpacking libpam-modules-bin (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 172s Setting up libpam-modules-bin (1.5.3-5ubuntu3) ... 173s pam_namespace.service is a disabled or a static unit not running, not starting it. 173s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52217 files and directories currently installed.) 173s Preparing to unpack .../libpam-modules_1.5.3-5ubuntu3_s390x.deb ... 173s Unpacking libpam-modules:s390x (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 173s Setting up libpam-modules:s390x (1.5.3-5ubuntu3) ... 173s Installing new version of config file /etc/security/namespace.init ... 173s (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 ... 52215 files and directories currently installed.) 173s Preparing to unpack .../libpam-runtime_1.5.3-5ubuntu3_all.deb ... 173s Unpacking libpam-runtime (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 173s Setting up libpam-runtime (1.5.3-5ubuntu3) ... 173s (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 ... 52215 files and directories currently installed.) 173s Preparing to unpack .../0-dbus-user-session_1.14.10-4ubuntu2_s390x.deb ... 173s Unpacking dbus-user-session (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 173s Preparing to unpack .../1-libapparmor1_4.0.0-beta3-0ubuntu2_s390x.deb ... 173s Unpacking libapparmor1:s390x (4.0.0-beta3-0ubuntu2) over (4.0.0~alpha4-0ubuntu1) ... 173s Preparing to unpack .../2-dbus-system-bus-common_1.14.10-4ubuntu2_all.deb ... 173s Unpacking dbus-system-bus-common (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 173s Preparing to unpack .../3-dbus-bin_1.14.10-4ubuntu2_s390x.deb ... 173s Unpacking dbus-bin (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 173s Preparing to unpack .../4-dbus_1.14.10-4ubuntu2_s390x.deb ... 173s Unpacking dbus (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 173s Preparing to unpack .../5-dbus-daemon_1.14.10-4ubuntu2_s390x.deb ... 173s Unpacking dbus-daemon (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 173s Preparing to unpack .../6-libdbus-1-3_1.14.10-4ubuntu2_s390x.deb ... 173s Unpacking libdbus-1-3:s390x (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 174s Preparing to unpack .../7-libmount1_2.39.3-9ubuntu2_s390x.deb ... 174s Unpacking libmount1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 174s Setting up libmount1:s390x (2.39.3-9ubuntu2) ... 174s (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 ... 52215 files and directories currently installed.) 174s Preparing to unpack .../libseccomp2_2.5.5-1ubuntu2_s390x.deb ... 174s Unpacking libseccomp2:s390x (2.5.5-1ubuntu2) over (2.5.5-1ubuntu1) ... 174s Setting up libseccomp2:s390x (2.5.5-1ubuntu2) ... 174s (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 ... 52215 files and directories currently installed.) 174s Preparing to unpack .../libdevmapper1.02.1_2%3a1.02.185-3ubuntu2_s390x.deb ... 174s Unpacking libdevmapper1.02.1:s390x (2:1.02.185-3ubuntu2) over (2:1.02.185-3ubuntu1) ... 174s Preparing to unpack .../libuuid1_2.39.3-9ubuntu2_s390x.deb ... 174s Unpacking libuuid1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 174s Setting up libuuid1:s390x (2.39.3-9ubuntu2) ... 174s (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 ... 52215 files and directories currently installed.) 174s Preparing to unpack .../libfdisk1_2.39.3-9ubuntu2_s390x.deb ... 174s Unpacking libfdisk1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 174s Preparing to unpack .../mount_2.39.3-9ubuntu2_s390x.deb ... 174s Unpacking mount (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 174s Preparing to unpack .../libsqlite3-0_3.45.1-1ubuntu1_s390x.deb ... 174s Unpacking libsqlite3-0:s390x (3.45.1-1ubuntu1) over (3.45.1-1) ... 174s Preparing to unpack .../gcc-14-base_14-20240315-1ubuntu1_s390x.deb ... 174s Unpacking gcc-14-base:s390x (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 174s Setting up gcc-14-base:s390x (14-20240315-1ubuntu1) ... 174s (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 ... 52215 files and directories currently installed.) 174s Preparing to unpack .../libgcc-s1_14-20240315-1ubuntu1_s390x.deb ... 174s Unpacking libgcc-s1:s390x (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 174s Setting up libgcc-s1:s390x (14-20240315-1ubuntu1) ... 174s (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 ... 52209 files and directories currently installed.) 177s Preparing to unpack .../0-libtirpc3t64_1.3.4+ds-1.1_s390x.deb ... 177s Adding 'diversion of /lib/s390x-linux-gnu/libtirpc.so.3 to /lib/s390x-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' 177s Adding 'diversion of /lib/s390x-linux-gnu/libtirpc.so.3.0.0 to /lib/s390x-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' 177s Unpacking libtirpc3t64:s390x (1.3.4+ds-1.1) ... 177s Preparing to unpack .../1-iproute2_6.1.0-1ubuntu5_s390x.deb ... 177s Unpacking iproute2 (6.1.0-1ubuntu5) over (6.1.0-1ubuntu2) ... 177s Preparing to unpack .../2-python3-yaml_6.0.1-2build1_s390x.deb ... 178s Unpacking python3-yaml (6.0.1-2build1) over (6.0.1-2) ... 178s Preparing to unpack .../3-libusb-1.0-0_2%3a1.0.27-1_s390x.deb ... 178s Unpacking libusb-1.0-0:s390x (2:1.0.27-1) over (2:1.0.26-1) ... 178s Preparing to unpack .../4-libprotobuf-c1_1.4.1-1ubuntu3_s390x.deb ... 178s Unpacking libprotobuf-c1:s390x (1.4.1-1ubuntu3) over (1.4.1-1ubuntu2) ... 178s Preparing to unpack .../5-libnghttp2-14_1.59.0-1build1_s390x.deb ... 178s Unpacking libnghttp2-14:s390x (1.59.0-1build1) over (1.59.0-1) ... 178s Preparing to unpack .../6-libproc2-0_2%3a4.0.4-4ubuntu2_s390x.deb ... 178s Unpacking libproc2-0:s390x (2:4.0.4-4ubuntu2) over (2:4.0.4-4ubuntu1) ... 178s Preparing to unpack .../7-procps_2%3a4.0.4-4ubuntu2_s390x.deb ... 178s Unpacking procps (2:4.0.4-4ubuntu2) over (2:4.0.4-4ubuntu1) ... 178s Preparing to unpack .../8-coreutils_9.4-3ubuntu3_s390x.deb ... 178s Unpacking coreutils (9.4-3ubuntu3) over (9.4-2ubuntu4) ... 178s Setting up coreutils (9.4-3ubuntu3) ... 178s (Reading database ... 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dmsetup (2:1.02.185-3ubuntu2) over (2:1.02.185-3ubuntu1) ... 180s Preparing to unpack .../03-eject_2.39.3-9ubuntu2_s390x.deb ... 180s Unpacking eject (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 180s Preparing to unpack .../04-krb5-locales_1.20.1-6ubuntu1_all.deb ... 180s Unpacking krb5-locales (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 180s Preparing to unpack .../05-libglib2.0-data_2.79.3-3ubuntu5_all.deb ... 180s Unpacking libglib2.0-data (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 180s Preparing to unpack .../06-libslang2_2.3.3-3build1_s390x.deb ... 180s Unpacking libslang2:s390x (2.3.3-3build1) over (2.3.3-3) ... 180s Preparing to unpack .../07-libtext-charwidth-perl_0.04-11build2_s390x.deb ... 180s Unpacking libtext-charwidth-perl:s390x (0.04-11build2) over (0.04-11build1) ... 180s Preparing to unpack .../08-libtext-iconv-perl_1.7-8build2_s390x.deb ... 180s Unpacking libtext-iconv-perl:s390x (1.7-8build2) over (1.7-8build1) ... 180s Preparing to unpack .../09-python-apt-common_2.7.7_all.deb ... 180s Unpacking python-apt-common (2.7.7) over (2.7.6) ... 180s Preparing to unpack .../10-python3-setuptools_68.1.2-2ubuntu1_all.deb ... 180s Unpacking python3-setuptools (68.1.2-2ubuntu1) over (68.1.2-2) ... 180s Preparing to unpack .../11-python3-pkg-resources_68.1.2-2ubuntu1_all.deb ... 180s Unpacking python3-pkg-resources (68.1.2-2ubuntu1) over (68.1.2-2) ... 180s Preparing to unpack .../12-rsyslog_8.2312.0-3ubuntu7_s390x.deb ... 180s Unpacking rsyslog (8.2312.0-3ubuntu7) over (8.2312.0-3ubuntu3) ... 180s Preparing to unpack .../13-vim-tiny_2%3a9.1.0016-1ubuntu6_s390x.deb ... 180s Unpacking vim-tiny (2:9.1.0016-1ubuntu6) over (2:9.1.0016-1ubuntu2) ... 180s Preparing to unpack .../14-vim-common_2%3a9.1.0016-1ubuntu6_all.deb ... 180s Unpacking vim-common (2:9.1.0016-1ubuntu6) over (2:9.1.0016-1ubuntu2) ... 181s Selecting previously unselected package xdg-user-dirs. 181s Preparing to unpack .../15-xdg-user-dirs_0.18-1_s390x.deb ... 181s 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(02.19.git.2021.06.19.996aaad9c7-2build2) over (02.19.git.2021.06.19.996aaad9c7-2build1) ... 181s Selecting previously unselected package manpages. 181s Preparing to unpack .../23-manpages_6.05.01-1_all.deb ... 181s Unpacking manpages (6.05.01-1) ... 181s Preparing to unpack .../24-mtr-tiny_0.95-1.1build1_s390x.deb ... 181s Unpacking mtr-tiny (0.95-1.1build1) over (0.95-1.1) ... 182s Preparing to unpack .../25-plymouth-theme-ubuntu-text_24.004.60-1ubuntu6_s390x.deb ... 182s Unpacking plymouth-theme-ubuntu-text (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 182s Preparing to unpack .../26-plymouth_24.004.60-1ubuntu6_s390x.deb ... 182s Unpacking plymouth (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 182s Preparing to unpack .../27-telnet_0.17+2.5-3ubuntu3_all.deb ... 182s Unpacking telnet (0.17+2.5-3ubuntu3) over (0.17+2.5-3ubuntu1) ... 182s Preparing to unpack .../28-usb.ids_2024.03.18-1_all.deb ... 182s Unpacking usb.ids (2024.03.18-1) over (2024.01.30-1) ... 182s Preparing to unpack .../29-xz-utils_5.6.0-0.2_s390x.deb ... 182s Unpacking xz-utils (5.6.0-0.2) over (5.4.5-0.3) ... 182s Selecting previously unselected package libllvm18:s390x. 182s Preparing to unpack .../30-libllvm18_1%3a18.1.2-1ubuntu2_s390x.deb ... 182s Unpacking libllvm18:s390x (1:18.1.2-1ubuntu2) ... 183s Selecting previously unselected package libclang-cpp18. 183s Preparing to unpack .../31-libclang-cpp18_1%3a18.1.2-1ubuntu2_s390x.deb ... 183s Unpacking libclang-cpp18 (1:18.1.2-1ubuntu2) ... 184s Selecting previously unselected package libbpfcc:s390x. 184s Preparing to unpack .../32-libbpfcc_0.29.1+ds-1ubuntu4_s390x.deb ... 184s Unpacking libbpfcc:s390x (0.29.1+ds-1ubuntu4) ... 184s Selecting previously unselected package python3-bpfcc. 184s Preparing to unpack .../33-python3-bpfcc_0.29.1+ds-1ubuntu4_all.deb ... 184s Unpacking python3-bpfcc (0.29.1+ds-1ubuntu4) ... 184s Selecting previously unselected package ieee-data. 184s Preparing to unpack .../34-ieee-data_20220827.1_all.deb ... 184s Unpacking ieee-data (20220827.1) ... 184s Selecting previously unselected package python3-netaddr. 184s Preparing to unpack .../35-python3-netaddr_0.8.0-2ubuntu1_all.deb ... 184s Unpacking python3-netaddr (0.8.0-2ubuntu1) ... 184s Selecting previously unselected package bpfcc-tools. 184s Preparing to unpack .../36-bpfcc-tools_0.29.1+ds-1ubuntu4_all.deb ... 184s Unpacking bpfcc-tools (0.29.1+ds-1ubuntu4) ... 184s Selecting previously unselected package libclang1-18. 184s Preparing to unpack .../37-libclang1-18_1%3a18.1.2-1ubuntu2_s390x.deb ... 184s Unpacking libclang1-18 (1:18.1.2-1ubuntu2) ... 185s Selecting previously unselected package libdw1t64:s390x. 185s Preparing to unpack .../38-libdw1t64_0.190-1.1build2_s390x.deb ... 185s Unpacking libdw1t64:s390x (0.190-1.1build2) ... 185s Selecting previously unselected package bpftrace. 185s Preparing to unpack .../39-bpftrace_0.20.2-1ubuntu1_s390x.deb ... 185s Unpacking bpftrace (0.20.2-1ubuntu1) ... 185s Preparing to unpack .../40-cryptsetup-bin_2%3a2.7.0-1ubuntu2_s390x.deb ... 185s Unpacking cryptsetup-bin (2:2.7.0-1ubuntu2) over (2:2.7.0-1ubuntu1) ... 185s Preparing to unpack .../41-dpkg-dev_1.22.6ubuntu5_all.deb ... 185s Unpacking dpkg-dev (1.22.6ubuntu5) over (1.22.4ubuntu5) ... 185s Preparing to unpack .../42-libdpkg-perl_1.22.6ubuntu5_all.deb ... 185s Unpacking libdpkg-perl (1.22.6ubuntu5) over (1.22.4ubuntu5) ... 185s Selecting previously unselected package fonts-dejavu-mono. 185s Preparing to unpack .../43-fonts-dejavu-mono_2.37-8_all.deb ... 185s Unpacking fonts-dejavu-mono (2.37-8) ... 185s Selecting previously unselected package fonts-dejavu-core. 185s Preparing to unpack .../44-fonts-dejavu-core_2.37-8_all.deb ... 185s Unpacking fonts-dejavu-core (2.37-8) ... 185s Selecting previously unselected package fontconfig-config. 185s Preparing to unpack .../45-fontconfig-config_2.15.0-1.1ubuntu1_s390x.deb ... 185s Unpacking fontconfig-config (2.15.0-1.1ubuntu1) ... 185s Preparing to unpack .../46-gnupg-l10n_2.4.4-2ubuntu15_all.deb ... 185s Unpacking gnupg-l10n (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 186s Selecting previously unselected package hwdata. 186s Preparing to unpack .../47-hwdata_0.379-1_all.deb ... 186s Unpacking hwdata (0.379-1) ... 186s Preparing to unpack .../48-libibverbs1_50.0-2build1_s390x.deb ... 186s Unpacking libibverbs1:s390x (50.0-2build1) over (50.0-2) ... 186s Preparing to unpack .../49-ibverbs-providers_50.0-2build1_s390x.deb ... 186s Unpacking ibverbs-providers:s390x (50.0-2build1) over (50.0-2) ... 186s Preparing to unpack .../50-jq_1.7.1-3_s390x.deb ... 186s Unpacking jq (1.7.1-3) over (1.7.1-2) ... 186s Preparing to unpack .../51-libjq1_1.7.1-3_s390x.deb ... 186s Unpacking libjq1:s390x (1.7.1-3) over (1.7.1-2) ... 186s Selecting previously unselected package libaio1t64:s390x. 186s Preparing to unpack .../52-libaio1t64_0.3.113-6_s390x.deb ... 186s Unpacking libaio1t64:s390x (0.3.113-6) ... 186s Selecting previously unselected package libatm1t64:s390x. 186s Preparing to unpack .../53-libatm1t64_1%3a2.5.1-5.1_s390x.deb ... 186s Unpacking libatm1t64:s390x (1:2.5.1-5.1) ... 186s Selecting previously unselected package libc-dev-bin. 186s Preparing to unpack .../54-libc-dev-bin_2.39-0ubuntu6_s390x.deb ... 186s Unpacking libc-dev-bin (2.39-0ubuntu6) ... 186s Selecting previously unselected package libfreetype6:s390x. 186s Preparing to unpack .../55-libfreetype6_2.13.2+dfsg-1build2_s390x.deb ... 186s Unpacking libfreetype6:s390x (2.13.2+dfsg-1build2) ... 186s Selecting previously unselected package libfontconfig1:s390x. 186s Preparing to unpack .../56-libfontconfig1_2.15.0-1.1ubuntu1_s390x.deb ... 186s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu1) ... 186s Selecting previously unselected package libjpeg-turbo8:s390x. 186s Preparing to unpack .../57-libjpeg-turbo8_2.1.5-2ubuntu1_s390x.deb ... 186s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 186s Selecting previously unselected package libjpeg8:s390x. 186s Preparing to unpack .../58-libjpeg8_8c-2ubuntu11_s390x.deb ... 186s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 186s Selecting previously unselected package libdeflate0:s390x. 186s Preparing to unpack .../59-libdeflate0_1.19-1_s390x.deb ... 186s Unpacking libdeflate0:s390x (1.19-1) ... 186s Selecting previously unselected package libjbig0:s390x. 186s Preparing to unpack .../60-libjbig0_2.1-6.1ubuntu1_s390x.deb ... 186s Unpacking libjbig0:s390x (2.1-6.1ubuntu1) ... 186s Selecting previously unselected package libsharpyuv0:s390x. 186s Preparing to unpack .../61-libsharpyuv0_1.3.2-0.4build2_s390x.deb ... 186s Unpacking libsharpyuv0:s390x (1.3.2-0.4build2) ... 186s Selecting previously unselected package libwebp7:s390x. 186s Preparing to unpack .../62-libwebp7_1.3.2-0.4build2_s390x.deb ... 186s Unpacking libwebp7:s390x (1.3.2-0.4build2) ... 186s Selecting previously unselected package libtiff6:s390x. 186s Preparing to unpack .../63-libtiff6_4.5.1+git230720-4ubuntu1_s390x.deb ... 186s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu1) ... 186s Selecting previously unselected package libxpm4:s390x. 186s Preparing to unpack .../64-libxpm4_1%3a3.5.17-1build1_s390x.deb ... 186s Unpacking libxpm4:s390x (1:3.5.17-1build1) ... 186s Selecting previously unselected package libgd3:s390x. 186s Preparing to unpack .../65-libgd3_2.3.3-9ubuntu3_s390x.deb ... 186s Unpacking libgd3:s390x (2.3.3-9ubuntu3) ... 186s Selecting previously unselected package libc-devtools. 186s Preparing to unpack .../66-libc-devtools_2.39-0ubuntu6_s390x.deb ... 186s Unpacking libc-devtools (2.39-0ubuntu6) ... 186s Selecting previously unselected package linux-libc-dev:s390x. 186s Preparing to unpack .../67-linux-libc-dev_6.8.0-20.20_s390x.deb ... 186s Unpacking linux-libc-dev:s390x (6.8.0-20.20) ... 186s Selecting previously unselected package libcrypt-dev:s390x. 186s Preparing to unpack .../68-libcrypt-dev_1%3a4.4.36-4_s390x.deb ... 186s Unpacking libcrypt-dev:s390x (1:4.4.36-4) ... 186s Selecting previously unselected package rpcsvc-proto. 186s Preparing to unpack .../69-rpcsvc-proto_1.4.2-0ubuntu6_s390x.deb ... 186s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... 186s Selecting previously unselected package libc6-dev:s390x. 186s Preparing to unpack .../70-libc6-dev_2.39-0ubuntu6_s390x.deb ... 186s Unpacking libc6-dev:s390x (2.39-0ubuntu6) ... 187s Preparing to unpack .../71-libevent-core-2.1-7_2.1.12-stable-9build1_s390x.deb ... 187s Unpacking libevent-core-2.1-7:s390x (2.1.12-stable-9build1) over (2.1.12-stable-9) ... 187s Preparing to unpack .../72-libftdi1-2_1.5-6build4_s390x.deb ... 187s Unpacking libftdi1-2:s390x (1.5-6build4) over (1.5-6build3) ... 187s Preparing to unpack .../73-libldap-common_2.6.7+dfsg-1~exp1ubuntu6_all.deb ... 187s Unpacking libldap-common (2.6.7+dfsg-1~exp1ubuntu6) over (2.6.7+dfsg-1~exp1ubuntu1) ... 188s Selecting previously unselected package linux-modules-6.8.0-20-generic. 188s Preparing to unpack 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motd-news-config (13ubuntu8) ... 192s Setting up libtext-iconv-perl:s390x (1.7-8build2) ... 192s Setting up libtext-charwidth-perl:s390x (0.04-11build2) ... 192s Setting up libsharpyuv0:s390x (1.3.2-0.4build2) ... 192s Setting up liburcu8t64:s390x (0.14.0-3.1) ... 192s Setting up tcpdump (4.99.4-3ubuntu2) ... 192s Setting up libibverbs1:s390x (50.0-2build1) ... 192s Setting up systemd-sysv (255.4-1ubuntu5) ... 192s Setting up ubuntu-kernel-accessories (1.536build1) ... 192s Setting up libapparmor1:s390x (4.0.0-beta3-0ubuntu2) ... 192s Setting up libatm1t64:s390x (1:2.5.1-5.1) ... 192s Setting up libgdbm6t64:s390x (1.23-5.1) ... 192s Setting up bsdextrautils (2.39.3-9ubuntu2) ... 192s Setting up libxpm4:s390x (1:3.5.17-1build1) ... 192s Setting up libgdbm-compat4t64:s390x (1.23-5.1) ... 192s Setting up xdg-user-dirs (0.18-1) ... 192s Setting up ibverbs-providers:s390x (50.0-2build1) ... 192s Setting up linux-headers-6.8.0-20 (6.8.0-20.20) ... 192s Setting up libmagic-mgc (1:5.45-3) ... 192s Setting up gawk (1:5.2.1-2build2) ... 192s Setting up libjq1:s390x (1.7.1-3) ... 192s Setting up manpages (6.05.01-1) ... 192s Setting up libtirpc-common (1.3.4+ds-1.1) ... 192s Setting up libbrotli1:s390x (1.1.0-2build1) ... 192s Setting up libsqlite3-0:s390x (3.45.1-1ubuntu1) ... 192s Setting up libsasl2-modules:s390x (2.1.28+dfsg1-5ubuntu1) ... 192s Setting up libuv1t64:s390x (1.48.0-1.1) ... 192s Setting up libmagic1t64:s390x (1:5.45-3) ... 192s Setting up rsyslog (8.2312.0-3ubuntu7) ... 192s info: The user `syslog' is already a member of `adm'. 193s Setting up libpsl5t64:s390x (0.21.2-1.1) ... 193s Setting up libnghttp2-14:s390x (1.59.0-1build1) ... 193s Setting up libdeflate0:s390x (1.19-1) ... 193s Setting up linux-libc-dev:s390x (6.8.0-20.20) ... 193s Setting up libreiserfscore0t64 (1:3.6.27-7.1) ... 193s Setting up libnss-systemd:s390x (255.4-1ubuntu5) ... 193s Setting up krb5-locales (1.20.1-6ubuntu1) ... 193s Setting up file (1:5.45-3) ... 193s Setting up kmod (31+20240202-2ubuntu4) ... 194s Setting up lshw (02.19.git.2021.06.19.996aaad9c7-2build2) ... 194s Setting up libldap-common (2.6.7+dfsg-1~exp1ubuntu6) ... 194s Setting up libprotobuf-c1:s390x (1.4.1-1ubuntu3) ... 194s Setting up libjbig0:s390x (2.1-6.1ubuntu1) ... 194s Setting up xxd (2:9.1.0016-1ubuntu6) ... 194s Setting up libelf1t64:s390x (0.190-1.1build2) ... 194s Setting up libkrb5support0:s390x (1.20.1-6ubuntu1) ... 194s Setting up libdw1t64:s390x (0.190-1.1build2) ... 194s Setting up linux-headers-6.8.0-20-generic (6.8.0-20.20) ... 194s Setting up eject (2.39.3-9ubuntu2) ... 194s Setting up apparmor (4.0.0-beta3-0ubuntu2) ... 194s Installing new version of config file /etc/apparmor.d/abstractions/authentication ... 194s Installing new version of config file /etc/apparmor.d/abstractions/crypto ... 194s Installing new version of config file /etc/apparmor.d/abstractions/kde-open5 ... 194s Installing new version of config file /etc/apparmor.d/abstractions/openssl ... 194s Installing new version of config file /etc/apparmor.d/code ... 194s Installing new version of config file /etc/apparmor.d/firefox ... 195s Reloading AppArmor profiles 195s Setting up libglib2.0-0t64:s390x (2.79.3-3ubuntu5) ... 195s No schema files found: doing nothing. 195s Setting up libglib2.0-data (2.79.3-3ubuntu5) ... 195s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... 195s Setting up vim-common (2:9.1.0016-1ubuntu6) ... 195s Setting up gcc-13-base:s390x (13.2.0-21ubuntu1) ... 195s Setting up libqrtr-glib0:s390x (1.2.2-1ubuntu3) ... 195s Setting up libslang2:s390x (2.3.3-3build1) ... 195s Setting up libnvme1t64 (1.8-3) ... 195s Setting up mtr-tiny (0.95-1.1build1) ... 195s Setting up gnupg-l10n (2.4.4-2ubuntu15) ... 195s Setting up librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build6) ... 195s Setting up libdbus-1-3:s390x (1.14.10-4ubuntu2) ... 195s Setting up xz-utils (5.6.0-0.2) ... 195s Setting up perl-modules-5.38 (5.38.2-3.2) ... 195s Setting up libproc2-0:s390x (2:4.0.4-4ubuntu2) ... 195s Setting up libblockdev-utils3:s390x (3.1.0-1build1) ... 195s Setting up fonts-dejavu-mono (2.37-8) ... 195s Setting up libpng16-16t64:s390x (1.6.43-3) ... 195s Setting up systemd-timesyncd (255.4-1ubuntu5) ... 196s Setting up libevent-core-2.1-7:s390x (2.1.12-stable-9build1) ... 196s Setting up udev (255.4-1ubuntu5) ... 197s Setting up libss2:s390x (1.47.0-2.4~exp1ubuntu2) ... 197s Setting up usb.ids (2024.03.18-1) ... 197s Setting up sudo (1.9.15p5-3ubuntu3) ... 197s Setting up fonts-dejavu-core (2.37-8) ... 197s Setting up dhcpcd-base (1:10.0.6-1ubuntu2) ... 197s Setting up gir1.2-glib-2.0:s390x (2.79.3-3ubuntu5) ... 197s Setting up libk5crypto3:s390x (1.20.1-6ubuntu1) ... 197s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 197s Setting up logsave (1.47.0-2.4~exp1ubuntu2) ... 197s Setting up libwebp7:s390x (1.3.2-0.4build2) ... 197s Setting up libfdisk1:s390x (2.39.3-9ubuntu2) ... 197s Setting up libdb5.3t64:s390x (5.3.28+dfsg2-6) ... 197s Setting up libblockdev-nvme3:s390x (3.1.0-1build1) ... 197s Setting up libdevmapper1.02.1:s390x (2:1.02.185-3ubuntu2) ... 197s Setting up libblockdev-fs3:s390x (3.1.0-1build1) ... 197s Setting up libaio1t64:s390x (0.3.113-6) ... 197s Setting up python-apt-common (2.7.7) ... 197s Setting up mount (2.39.3-9ubuntu2) ... 197s Setting up dmsetup (2:1.02.185-3ubuntu2) ... 197s Setting up uuid-runtime (2.39.3-9ubuntu2) ... 198s uuidd.service is a disabled or a static unit not running, not starting it. 198s Setting up libmm-glib0:s390x (1.23.4-0ubuntu1) ... 198s Setting up groff-base (1.23.0-3build1) ... 198s Setting up libcrypt-dev:s390x (1:4.4.36-4) ... 198s Setting up libplymouth5:s390x (24.004.60-1ubuntu6) ... 198s Setting up dbus-session-bus-common (1.14.10-4ubuntu2) ... 198s Setting up kpartx (0.9.4-5ubuntu6) ... 198s Setting up jq (1.7.1-3) ... 198s Setting up procps (2:4.0.4-4ubuntu2) ... 199s Setting up gpgconf (2.4.4-2ubuntu15) ... 199s Setting up libgirepository-1.0-1:s390x (1.79.1-1ubuntu6) ... 199s Setting up libjson-glib-1.0-common (1.8.0-2build1) ... 199s Setting up libkrb5-3:s390x (1.20.1-6ubuntu1) ... 199s Setting up libpython3.11-minimal:s390x (3.11.8-1build4) ... 199s Setting up libusb-1.0-0:s390x (2:1.0.27-1) ... 199s Setting up libperl5.38t64:s390x (5.38.2-3.2) ... 199s Setting up tnftp (20230507-2build1) ... 199s Setting up dbus-system-bus-common (1.14.10-4ubuntu2) ... 199s Setting up libfido2-1:s390x (1.14.0-1build1) ... 199s Setting up libc-dev-bin (2.39-0ubuntu6) ... 199s Setting up openssl (3.0.13-0ubuntu2) ... 199s Setting up linux-modules-6.8.0-20-generic (6.8.0-20.20) ... 199s Setting up readline-common (8.2-4) ... 199s Setting up libxml2:s390x (2.9.14+dfsg-1.3ubuntu2) ... 199s Setting up libxmuu1:s390x (2:1.1.3-3build1) ... 199s Setting up dbus-bin (1.14.10-4ubuntu2) ... 199s Setting up info (7.1-3build1) ... 199s Setting up liblocale-gettext-perl (1.07-6ubuntu4) ... 199s Setting up gpg (2.4.4-2ubuntu15) ... 199s Setting up libgudev-1.0-0:s390x (1:238-3ubuntu2) ... 199s Setting up libpolkit-gobject-1-0:s390x (124-1ubuntu1) ... 199s Setting up libbpf1:s390x (1:1.3.0-2build1) ... 199s Setting up libmbim-glib4:s390x (1.31.2-0ubuntu2) ... 199s Setting up rsync (3.2.7-1build1) ... 200s rsync.service is a disabled or a static unit not running, not starting it. 200s Setting up libudisks2-0:s390x (2.10.1-6) ... 200s Setting up bolt (0.9.6-2build1) ... 200s bolt.service is a disabled or a static unit not running, not starting it. 200s Setting up s390-tools-data (2.31.0-0ubuntu3) ... 200s Setting up libllvm18:s390x (1:18.1.2-1ubuntu2) ... 200s Setting up gnupg-utils (2.4.4-2ubuntu15) ... 200s Setting up initramfs-tools-bin (0.142ubuntu23) ... 200s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 200s Setting up python3.11-minimal (3.11.8-1build4) ... 202s Setting up libclang1-18 (1:18.1.2-1ubuntu2) ... 202s Setting up manpages-dev (6.05.01-1) ... 202s Setting up linux-modules-extra-6.8.0-20-generic (6.8.0-20.20) ... 203s Setting up apt-utils (2.7.14) ... 203s Setting up gpg-agent (2.4.4-2ubuntu15) ... 203s Setting up libpython3.12-stdlib:s390x (3.12.2-4build3) ... 203s Setting up libblockdev-mdraid3:s390x (3.1.0-1build1) ... 203s Setting up wget (1.21.4-1ubuntu2) ... 203s Setting up linux-image-6.8.0-20-generic (6.8.0-20.20) ... 204s I: /boot/vmlinuz is now a symlink to vmlinuz-6.8.0-20-generic 204s I: /boot/initrd.img is now a symlink to initrd.img-6.8.0-20-generic 204s Setting up libblockdev-swap3:s390x (3.1.0-1build1) ... 204s Setting up plymouth (24.004.60-1ubuntu6) ... 204s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 204s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 208s Not invoking zipl: initrd doesn't exist yet 208s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 209s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 209s Setting up fontconfig-config (2.15.0-1.1ubuntu1) ... 209s Setting up libxmlb2:s390x (0.3.15-1build1) ... 209s Setting up btrfs-progs (6.6.3-1.1build1) ... 209s Setting up libpython3.11-stdlib:s390x (3.11.8-1build4) ... 209s Setting up python3.12 (3.12.2-4build3) ... 210s Setting up libblockdev-loop3:s390x (3.1.0-1build1) ... 210s Setting up gpgsm (2.4.4-2ubuntu15) ... 210s Setting up inetutils-telnet (2:2.5-3ubuntu3) ... 210s Setting up e2fsprogs (1.47.0-2.4~exp1ubuntu2) ... 210s update-initramfs: deferring update (trigger activated) 211s e2scrub_all.service is a disabled or a static unit not running, not starting it. 211s Setting up libparted2t64:s390x (3.6-3.1build2) ... 211s Setting up linux-headers-generic (6.8.0-20.20+1) ... 211s Setting up dbus-daemon (1.14.10-4ubuntu2) ... 211s Setting up libmbim-proxy (1.31.2-0ubuntu2) ... 211s Setting up vim-tiny (2:9.1.0016-1ubuntu6) ... 211s Setting up libnetplan1:s390x (1.0-1) ... 211s Setting up man-db (2.12.0-3build4) ... 211s Updating database of manual pages ... 213s man-db.service is a disabled or a static unit not running, not starting it. 213s Setting up libblockdev3:s390x (3.1.0-1build1) ... 213s Setting up fdisk (2.39.3-9ubuntu2) ... 213s Setting up multipath-tools (0.9.4-5ubuntu6) ... 214s Setting up libjson-glib-1.0-0:s390x (1.8.0-2build1) ... 214s Setting up libblockdev-part3:s390x (3.1.0-1build1) ... 214s Setting up libsasl2-modules-db:s390x (2.1.28+dfsg1-5ubuntu1) ... 214s Setting up hwdata (0.379-1) ... 214s Setting up libftdi1-2:s390x (1.5-6build4) ... 214s Setting up perl (5.38.2-3.2) ... 214s Setting up plymouth-theme-ubuntu-text (24.004.60-1ubuntu6) ... 214s update-initramfs: deferring update (trigger activated) 214s Setting up libfreetype6:s390x (2.13.2+dfsg-1build2) ... 214s Setting up gir1.2-girepository-2.0:s390x (1.79.1-1ubuntu6) ... 214s Setting up dbus (1.14.10-4ubuntu2) ... 214s A reboot is required to replace the running dbus-daemon. 214s Please reboot the system when convenient. 214s Setting up shared-mime-info (2.4-1build1) ... 215s Setting up libgssapi-krb5-2:s390x (1.20.1-6ubuntu1) ... 215s Setting up ftp (20230507-2build1) ... 215s Setting up keyboxd (2.4.4-2ubuntu15) ... 215s Setting up libdpkg-perl (1.22.6ubuntu5) ... 215s Setting up libsasl2-2:s390x (2.1.28+dfsg1-5ubuntu1) ... 215s Setting up libssh-4:s390x (0.10.6-2build1) ... 215s Setting up ieee-data (20220827.1) ... 215s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu1) ... 215s Setting up libpam-systemd:s390x (255.4-1ubuntu5) ... 215s Setting up libpolkit-agent-1-0:s390x (124-1ubuntu1) ... 215s Setting up libc6-dev:s390x (2.39-0ubuntu6) ... 215s Setting up libgpgme11t64:s390x (1.18.0-4.1ubuntu3) ... 215s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu1) ... 215s Setting up linux-image-virtual (6.8.0-20.20+1) ... 215s Setting up netplan-generator (1.0-1) ... 215s Removing 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 215s Setting up initramfs-tools-core (0.142ubuntu23) ... 215s Setting up libclang-cpp18 (1:18.1.2-1ubuntu2) ... 215s Setting up libbpfcc:s390x (0.29.1+ds-1ubuntu4) ... 215s Setting up linux-tools-common (6.8.0-20.20) ... 215s Setting up libarchive13t64:s390x (3.7.2-1.1ubuntu2) ... 215s Setting up libldap2:s390x (2.6.7+dfsg-1~exp1ubuntu6) ... 215s Setting up libpython3-stdlib:s390x (3.12.2-0ubuntu1) ... 215s Setting up systemd-resolved (255.4-1ubuntu5) ... 216s Setting up python3.11 (3.11.8-1build4) ... 218s Setting up linux-image-generic (6.8.0-20.20+1) ... 218s Setting up telnet (0.17+2.5-3ubuntu3) ... 218s Setting up initramfs-tools (0.142ubuntu23) ... 218s update-initramfs: deferring update (trigger activated) 218s Setting up linux-headers-virtual (6.8.0-20.20+1) ... 218s Setting up linux-generic (6.8.0-20.20+1) ... 218s Setting up libcurl4t64:s390x (8.5.0-2ubuntu8) ... 218s Setting up bpftrace (0.20.2-1ubuntu1) ... 218s Setting up bind9-libs:s390x (1:9.18.24-0ubuntu3) ... 218s Setting up libtirpc3t64:s390x (1.3.4+ds-1.1) ... 218s Setting up e2fsprogs-l10n (1.47.0-2.4~exp1ubuntu2) ... 218s Setting up iproute2 (6.1.0-1ubuntu5) ... 218s Setting up openssh-client (1:9.6p1-3ubuntu11) ... 218s Setting up libgusb2:s390x (0.4.8-1build1) ... 218s Setting up libcurl3t64-gnutls:s390x (8.5.0-2ubuntu8) ... 218s Setting up parted (3.6-3.1build2) ... 218s Setting up libqmi-glib5:s390x (1.35.2-0ubuntu1) ... 218s Setting up linux-tools-6.8.0-20 (6.8.0-20.20) ... 218s Setting up python3 (3.12.2-0ubuntu1) ... 218s Setting up libjcat1:s390x (0.2.0-2build2) ... 218s Setting up dpkg-dev (1.22.6ubuntu5) ... 218s Setting up linux-virtual (6.8.0-20.20+1) ... 218s Setting up dirmngr (2.4.4-2ubuntu15) ... 219s Setting up dbus-user-session (1.14.10-4ubuntu2) ... 219s Setting up linux-tools-6.8.0-20-generic (6.8.0-20.20) ... 219s Setting up python3-cryptography (41.0.7-4build2) ... 219s Setting up python3-gi (3.47.0-3build1) ... 219s Setting up libgd3:s390x (2.3.3-9ubuntu3) ... 219s Setting up python3-typing-extensions (4.10.0-1) ... 220s Setting up lsof (4.95.0-1build2) ... 220s Setting up python3-pyrsistent:s390x (0.20.0-1build1) ... 220s Setting up python3-netaddr (0.8.0-2ubuntu1) ... 220s Setting up libnsl2:s390x (1.3.0-3build2) ... 220s Setting up gnupg (2.4.4-2ubuntu15) ... 220s Setting up python3-netplan (1.0-1) ... 220s Setting up curl (8.5.0-2ubuntu8) ... 220s Setting up libvolume-key1:s390x (0.3.12-7build1) ... 220s Setting up bind9-host (1:9.18.24-0ubuntu3) ... 220s Setting up python3-lib2to3 (3.12.2-3ubuntu1.1) ... 221s Setting up python3-bpfcc (0.29.1+ds-1ubuntu4) ... 221s Setting up libc-devtools (2.39-0ubuntu6) ... 221s Setting up python3-pkg-resources (68.1.2-2ubuntu1) ... 221s Setting up python3-distutils (3.12.2-3ubuntu1.1) ... 221s python3.12: can't get files for byte-compilation 221s Setting up openssh-sftp-server (1:9.6p1-3ubuntu11) ... 221s Setting up python3-dbus (1.3.2-5build2) ... 221s Setting up python3-setuptools (68.1.2-2ubuntu1) ... 222s Setting up gpg-wks-client (2.4.4-2ubuntu15) ... 222s Setting up openssh-server (1:9.6p1-3ubuntu11) ... 222s Replacing config file /etc/ssh/sshd_config with new version 224s Created symlink /etc/systemd/system/ssh.service.requires/ssh.socket → /usr/lib/systemd/system/ssh.socket. 225s Setting up libblockdev-crypto3:s390x (3.1.0-1build1) ... 225s Setting up python3-gdbm:s390x (3.12.2-3ubuntu1.1) ... 225s Setting up python3-apt (2.7.7) ... 226s Setting up libfwupd2:s390x (1.9.15-2) ... 226s Setting up python3-yaml (6.0.1-2build1) ... 226s Setting up libqmi-proxy (1.35.2-0ubuntu1) ... 226s Setting up netplan.io (1.0-1) ... 226s Setting up bpfcc-tools (0.29.1+ds-1ubuntu4) ... 226s Setting up bind9-dnsutils (1:9.18.24-0ubuntu3) ... 226s Setting up ubuntu-pro-client (31.2.2) ... 227s Setting up fwupd (1.9.15-2) ... 228s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 228s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 228s fwupd.service is a disabled or a static unit not running, not starting it. 228s Setting up ubuntu-pro-client-l10n (31.2.2) ... 228s Setting up udisks2 (2.10.1-6) ... 229s Processing triggers for ufw (0.36.2-5) ... 229s Processing triggers for debianutils (5.17) ... 229s Processing triggers for install-info (7.1-3build1) ... 229s Processing triggers for libc-bin (2.39-0ubuntu6) ... 229s Processing triggers for linux-image-6.8.0-20-generic (6.8.0-20.20) ... 229s /etc/kernel/postinst.d/initramfs-tools: 229s update-initramfs: Generating /boot/initrd.img-6.8.0-20-generic 229s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 233s Using config file '/etc/zipl.conf' 233s Building bootmap in '/boot' 233s Adding IPL section 'ubuntu' (default) 233s Preparing boot device for LD-IPL: vda (0000). 233s Done. 233s /etc/kernel/postinst.d/zz-zipl: 233s Using config file '/etc/zipl.conf' 233s Building bootmap in '/boot' 233s Adding IPL section 'ubuntu' (default) 233s Preparing boot device for LD-IPL: vda (0000). 233s Done. 233s Processing triggers for initramfs-tools (0.142ubuntu23) ... 233s update-initramfs: Generating /boot/initrd.img-6.8.0-20-generic 233s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 238s Using config file '/etc/zipl.conf' 238s Building bootmap in '/boot' 238s Adding IPL section 'ubuntu' (default) 238s Preparing boot device for LD-IPL: vda (0000). 238s Done. 239s Reading package lists... 240s Building dependency tree... 240s Reading state information... 240s The following packages will be REMOVED: 240s libaio1* libnetplan0* python3-distutils* python3-lib2to3* 241s 0 upgraded, 0 newly installed, 4 to remove and 1 not upgraded. 241s After this operation, 1445 kB disk space will be freed. 241s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81786 files and directories currently installed.) 241s Removing libaio1:s390x (0.3.113-5) ... 241s Removing libnetplan0:s390x (0.107.1-3) ... 241s Removing python3-distutils (3.12.2-3ubuntu1.1) ... 241s Removing python3-lib2to3 (3.12.2-3ubuntu1.1) ... 241s Processing triggers for libc-bin (2.39-0ubuntu6) ... 241s autopkgtest [14:34:09]: rebooting testbed after setup commands that affected boot 271s autopkgtest [14:34:39]: testbed running kernel: Linux 6.8.0-20-generic #20-Ubuntu SMP Mon Mar 18 10:49:25 UTC 2024 274s autopkgtest [14:34:42]: @@@@@@@@@@@@@@@@@@@@ apt-source htslib 279s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/universe htslib 1.19+ds-1.1build2 (dsc) [2584 B] 279s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe htslib 1.19+ds-1.1build2 (tar) [1522 kB] 279s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe htslib 1.19+ds-1.1build2 (diff) [21.4 kB] 279s gpgv: Signature made Sat Mar 16 06:59:33 2024 UTC 279s gpgv: using RSA key AC483F68DE728F43F2202FCA568D30F321B2133D 279s gpgv: issuer "steve.langasek@ubuntu.com" 279s gpgv: Can't check signature: No public key 279s dpkg-source: warning: cannot verify inline signature for ./htslib_1.19+ds-1.1build2.dsc: no acceptable signature found 279s autopkgtest [14:34:47]: testing package htslib version 1.19+ds-1.1build2 280s autopkgtest [14:34:48]: build not needed 284s autopkgtest [14:34:52]: test run-unit-test: preparing testbed 287s Reading package lists... 287s Building dependency tree... 287s Reading state information... 287s Starting pkgProblemResolver with broken count: 0 287s Starting 2 pkgProblemResolver with broken count: 0 287s Done 288s The following additional packages will be installed: 288s autoconf automake autopoint autotools-dev build-essential cpp cpp-13 288s cpp-13-s390x-linux-gnu cpp-s390x-linux-gnu debhelper debugedit dh-autoreconf 288s dh-strip-nondeterminism dwz g++ g++-13 g++-13-s390x-linux-gnu 288s g++-s390x-linux-gnu gcc gcc-13 gcc-13-s390x-linux-gnu gcc-s390x-linux-gnu 288s gettext htslib-test intltool-debian libarchive-zip-perl libasan8 libatomic1 288s libbz2-dev libcc1-0 libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev 288s libfile-stripnondeterminism-perl libgcc-13-dev libgomp1 libhts-dev 288s libhts3t64 libhtscodecs-dev libhtscodecs2 libisl23 libitm1 liblzma-dev 288s libmpc3 libssl-dev libstdc++-13-dev libsub-override-perl libtool libubsan1 288s m4 po-debconf tabix zlib1g-dev 288s Suggested packages: 288s autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-13-locales 288s cpp-13-doc dh-make g++-multilib g++-13-multilib gcc-13-doc gcc-multilib flex 288s bison gdb gcc-doc gcc-13-multilib gdb-s390x-linux-gnu gettext-doc 288s libasprintf-dev libgettextpo-dev libcurl4-doc libgnutls28-dev libidn-dev 288s libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkg-config liblzma-doc 288s libssl-doc libstdc++-13-doc libtool-doc gfortran | fortran95-compiler 288s gcj-jdk m4-doc libmail-box-perl 288s Recommended packages: 288s bzip2-doc libarchive-cpio-perl libltdl-dev libmail-sendmail-perl 288s The following NEW packages will be installed: 288s autoconf automake autopkgtest-satdep autopoint autotools-dev build-essential 288s cpp cpp-13 cpp-13-s390x-linux-gnu cpp-s390x-linux-gnu debhelper debugedit 288s dh-autoreconf dh-strip-nondeterminism dwz g++ g++-13 g++-13-s390x-linux-gnu 288s g++-s390x-linux-gnu gcc gcc-13 gcc-13-s390x-linux-gnu gcc-s390x-linux-gnu 288s gettext htslib-test intltool-debian libarchive-zip-perl libasan8 libatomic1 288s libbz2-dev libcc1-0 libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev 288s libfile-stripnondeterminism-perl libgcc-13-dev libgomp1 libhts-dev 288s libhts3t64 libhtscodecs-dev libhtscodecs2 libisl23 libitm1 liblzma-dev 288s libmpc3 libssl-dev libstdc++-13-dev libsub-override-perl libtool libubsan1 288s m4 po-debconf tabix zlib1g-dev 288s 0 upgraded, 54 newly installed, 0 to remove and 1 not upgraded. 288s Need to get 68.7 MB/68.7 MB of archives. 288s After this operation, 219 MB of additional disk space will be used. 288s Get:1 /tmp/autopkgtest.kDs0D2/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [828 B] 288s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x m4 s390x 1.4.19-4 [255 kB] 288s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x autoconf all 2.71-3 [339 kB] 289s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x autotools-dev all 20220109.1 [44.9 kB] 289s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x automake all 1:1.16.5-1.3ubuntu1 [558 kB] 289s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x autopoint all 0.21-14ubuntu1 [422 kB] 290s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x libisl23 s390x 0.26-3 [722 kB] 290s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x libmpc3 s390x 1.3.1-1 [54.9 kB] 290s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main s390x cpp-13-s390x-linux-gnu s390x 13.2.0-21ubuntu1 [9935 kB] 298s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main s390x cpp-13 s390x 13.2.0-21ubuntu1 [1026 B] 298s Get:11 http://ftpmaster.internal/ubuntu noble/main s390x cpp-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [5308 B] 298s Get:12 http://ftpmaster.internal/ubuntu noble/main s390x cpp s390x 4:13.2.0-7ubuntu1 [22.4 kB] 298s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcc1-0 s390x 14-20240315-1ubuntu1 [50.0 kB] 298s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgomp1 s390x 14-20240315-1ubuntu1 [151 kB] 299s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libitm1 s390x 14-20240315-1ubuntu1 [31.1 kB] 299s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libatomic1 s390x 14-20240315-1ubuntu1 [9396 B] 299s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libasan8 s390x 14-20240315-1ubuntu1 [2997 kB] 300s Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libubsan1 s390x 14-20240315-1ubuntu1 [1186 kB] 301s Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgcc-13-dev s390x 13.2.0-21ubuntu1 [1003 kB] 302s Get:20 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gcc-13-s390x-linux-gnu s390x 13.2.0-21ubuntu1 [19.1 MB] 310s Get:21 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gcc-13 s390x 13.2.0-21ubuntu1 [469 kB] 310s Get:22 http://ftpmaster.internal/ubuntu noble/main s390x gcc-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [1208 B] 310s Get:23 http://ftpmaster.internal/ubuntu noble/main s390x gcc s390x 4:13.2.0-7ubuntu1 [5014 B] 310s Get:24 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libstdc++-13-dev s390x 13.2.0-21ubuntu1 [2494 kB] 311s Get:25 http://ftpmaster.internal/ubuntu noble-proposed/main s390x g++-13-s390x-linux-gnu s390x 13.2.0-21ubuntu1 [11.3 MB] 315s Get:26 http://ftpmaster.internal/ubuntu noble-proposed/main s390x g++-13 s390x 13.2.0-21ubuntu1 [14.4 kB] 315s Get:27 http://ftpmaster.internal/ubuntu noble/main s390x g++-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [956 B] 315s Get:28 http://ftpmaster.internal/ubuntu noble/main s390x g++ s390x 4:13.2.0-7ubuntu1 [1096 B] 315s Get:29 http://ftpmaster.internal/ubuntu noble/main s390x build-essential s390x 12.10ubuntu1 [4930 B] 315s Get:30 http://ftpmaster.internal/ubuntu noble/main s390x libdebhelper-perl all 13.14.1ubuntu5 [89.8 kB] 315s Get:31 http://ftpmaster.internal/ubuntu noble/main s390x libtool all 2.4.7-7 [166 kB] 315s Get:32 http://ftpmaster.internal/ubuntu noble/main s390x dh-autoreconf all 20 [16.1 kB] 315s Get:33 http://ftpmaster.internal/ubuntu noble/main s390x libarchive-zip-perl all 1.68-1 [90.2 kB] 315s Get:34 http://ftpmaster.internal/ubuntu noble/main s390x libsub-override-perl all 0.10-1 [10.0 kB] 315s Get:35 http://ftpmaster.internal/ubuntu noble/main s390x libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] 315s Get:36 http://ftpmaster.internal/ubuntu noble/main s390x dh-strip-nondeterminism all 1.13.1-1 [5362 B] 315s Get:37 http://ftpmaster.internal/ubuntu noble-proposed/main s390x debugedit s390x 1:5.0-5build1 [50.5 kB] 315s Get:38 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dwz s390x 0.15-1build5 [122 kB] 315s Get:39 http://ftpmaster.internal/ubuntu noble/main s390x gettext s390x 0.21-14ubuntu1 [917 kB] 315s Get:40 http://ftpmaster.internal/ubuntu noble/main s390x intltool-debian all 0.35.0+20060710.6 [23.2 kB] 315s Get:41 http://ftpmaster.internal/ubuntu noble/main s390x po-debconf all 1.0.21+nmu1 [233 kB] 315s Get:42 http://ftpmaster.internal/ubuntu noble/main s390x debhelper all 13.14.1ubuntu5 [869 kB] 316s Get:43 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x htslib-test all 1.19+ds-1.1build2 [1141 kB] 316s Get:44 http://ftpmaster.internal/ubuntu noble/main s390x libbz2-dev s390x 1.0.8-5ubuntu1 [39.4 kB] 316s Get:45 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl4-gnutls-dev s390x 8.5.0-2ubuntu8 [466 kB] 316s Get:46 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate-dev s390x 1.19-1 [52.4 kB] 316s Get:47 http://ftpmaster.internal/ubuntu noble/universe s390x libhtscodecs2 s390x 1.6.0-1 [87.2 kB] 316s Get:48 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libhts3t64 s390x 1.19+ds-1.1build2 [474 kB] 316s Get:49 http://ftpmaster.internal/ubuntu noble-proposed/main s390x liblzma-dev s390x 5.6.0-0.2 [185 kB] 317s Get:50 http://ftpmaster.internal/ubuntu noble-proposed/main s390x zlib1g-dev s390x 1:1.3.dfsg-3.1ubuntu1 [904 kB] 317s Get:51 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libhts-dev s390x 1.19+ds-1.1build2 [5961 kB] 320s Get:52 http://ftpmaster.internal/ubuntu noble/universe s390x libhtscodecs-dev s390x 1.6.0-1 [2981 kB] 322s Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl-dev s390x 3.0.13-0ubuntu2 [2131 kB] 323s Get:54 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x tabix s390x 1.19+ds-1.1build2 [543 kB] 324s Fetched 68.7 MB in 36s (1924 kB/s) 324s Selecting previously unselected package m4. 324s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81562 files and directories currently installed.) 324s Preparing to unpack .../00-m4_1.4.19-4_s390x.deb ... 324s Unpacking m4 (1.4.19-4) ... 324s Selecting previously unselected package autoconf. 324s Preparing to unpack .../01-autoconf_2.71-3_all.deb ... 324s Unpacking autoconf (2.71-3) ... 324s Selecting previously unselected package autotools-dev. 324s Preparing to unpack .../02-autotools-dev_20220109.1_all.deb ... 324s Unpacking autotools-dev (20220109.1) ... 324s Selecting previously unselected package automake. 324s Preparing to unpack .../03-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 324s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 324s Selecting previously unselected package autopoint. 324s Preparing to unpack .../04-autopoint_0.21-14ubuntu1_all.deb ... 324s Unpacking autopoint (0.21-14ubuntu1) ... 324s Selecting previously unselected package libisl23:s390x. 324s Preparing to unpack .../05-libisl23_0.26-3_s390x.deb ... 324s Unpacking libisl23:s390x (0.26-3) ... 324s Selecting previously unselected package libmpc3:s390x. 324s Preparing to unpack .../06-libmpc3_1.3.1-1_s390x.deb ... 324s Unpacking libmpc3:s390x (1.3.1-1) ... 324s Selecting previously unselected package cpp-13-s390x-linux-gnu. 324s Preparing to unpack .../07-cpp-13-s390x-linux-gnu_13.2.0-21ubuntu1_s390x.deb ... 324s Unpacking cpp-13-s390x-linux-gnu (13.2.0-21ubuntu1) ... 325s Selecting previously unselected package cpp-13. 325s Preparing to unpack .../08-cpp-13_13.2.0-21ubuntu1_s390x.deb ... 325s Unpacking cpp-13 (13.2.0-21ubuntu1) ... 325s Selecting previously unselected package cpp-s390x-linux-gnu. 325s Preparing to unpack .../09-cpp-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ... 325s Unpacking cpp-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 325s Selecting previously unselected package cpp. 325s Preparing to unpack .../10-cpp_4%3a13.2.0-7ubuntu1_s390x.deb ... 325s Unpacking cpp (4:13.2.0-7ubuntu1) ... 325s Selecting previously unselected package libcc1-0:s390x. 325s Preparing to unpack .../11-libcc1-0_14-20240315-1ubuntu1_s390x.deb ... 325s Unpacking libcc1-0:s390x (14-20240315-1ubuntu1) ... 325s Selecting previously unselected package libgomp1:s390x. 325s Preparing to unpack .../12-libgomp1_14-20240315-1ubuntu1_s390x.deb ... 325s Unpacking libgomp1:s390x (14-20240315-1ubuntu1) ... 325s Selecting previously unselected package libitm1:s390x. 325s Preparing to unpack .../13-libitm1_14-20240315-1ubuntu1_s390x.deb ... 325s Unpacking libitm1:s390x (14-20240315-1ubuntu1) ... 325s Selecting previously unselected package libatomic1:s390x. 325s Preparing to unpack .../14-libatomic1_14-20240315-1ubuntu1_s390x.deb ... 325s Unpacking libatomic1:s390x (14-20240315-1ubuntu1) ... 325s Selecting previously unselected package libasan8:s390x. 325s Preparing to unpack .../15-libasan8_14-20240315-1ubuntu1_s390x.deb ... 325s Unpacking libasan8:s390x (14-20240315-1ubuntu1) ... 325s Selecting previously unselected package libubsan1:s390x. 325s Preparing to unpack .../16-libubsan1_14-20240315-1ubuntu1_s390x.deb ... 325s Unpacking libubsan1:s390x (14-20240315-1ubuntu1) ... 325s Selecting previously unselected package libgcc-13-dev:s390x. 325s Preparing to unpack .../17-libgcc-13-dev_13.2.0-21ubuntu1_s390x.deb ... 325s Unpacking libgcc-13-dev:s390x (13.2.0-21ubuntu1) ... 325s Selecting previously unselected package gcc-13-s390x-linux-gnu. 325s Preparing to unpack .../18-gcc-13-s390x-linux-gnu_13.2.0-21ubuntu1_s390x.deb ... 325s Unpacking gcc-13-s390x-linux-gnu (13.2.0-21ubuntu1) ... 326s Selecting previously unselected package gcc-13. 326s Preparing to unpack .../19-gcc-13_13.2.0-21ubuntu1_s390x.deb ... 326s Unpacking gcc-13 (13.2.0-21ubuntu1) ... 326s Selecting previously unselected package gcc-s390x-linux-gnu. 326s Preparing to unpack .../20-gcc-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ... 326s Unpacking gcc-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 326s Selecting previously unselected package gcc. 326s Preparing to unpack .../21-gcc_4%3a13.2.0-7ubuntu1_s390x.deb ... 326s Unpacking gcc (4:13.2.0-7ubuntu1) ... 326s Selecting previously unselected package libstdc++-13-dev:s390x. 326s Preparing to unpack .../22-libstdc++-13-dev_13.2.0-21ubuntu1_s390x.deb ... 326s Unpacking libstdc++-13-dev:s390x (13.2.0-21ubuntu1) ... 326s Selecting previously unselected package g++-13-s390x-linux-gnu. 326s Preparing to unpack .../23-g++-13-s390x-linux-gnu_13.2.0-21ubuntu1_s390x.deb ... 326s Unpacking g++-13-s390x-linux-gnu (13.2.0-21ubuntu1) ... 326s Selecting previously unselected package g++-13. 326s Preparing to unpack .../24-g++-13_13.2.0-21ubuntu1_s390x.deb ... 326s Unpacking g++-13 (13.2.0-21ubuntu1) ... 326s Selecting previously unselected package g++-s390x-linux-gnu. 326s Preparing to unpack .../25-g++-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ... 326s Unpacking g++-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 326s Selecting previously unselected package g++. 326s Preparing to unpack .../26-g++_4%3a13.2.0-7ubuntu1_s390x.deb ... 326s Unpacking g++ (4:13.2.0-7ubuntu1) ... 326s Selecting previously unselected package build-essential. 326s Preparing to unpack .../27-build-essential_12.10ubuntu1_s390x.deb ... 326s Unpacking build-essential (12.10ubuntu1) ... 326s Selecting previously unselected package libdebhelper-perl. 326s Preparing to unpack .../28-libdebhelper-perl_13.14.1ubuntu5_all.deb ... 326s Unpacking libdebhelper-perl (13.14.1ubuntu5) ... 326s Selecting previously unselected package libtool. 326s Preparing to unpack .../29-libtool_2.4.7-7_all.deb ... 326s Unpacking libtool (2.4.7-7) ... 326s Selecting previously unselected package dh-autoreconf. 326s Preparing to unpack .../30-dh-autoreconf_20_all.deb ... 326s Unpacking dh-autoreconf (20) ... 326s Selecting previously unselected package libarchive-zip-perl. 326s Preparing to unpack .../31-libarchive-zip-perl_1.68-1_all.deb ... 326s Unpacking libarchive-zip-perl (1.68-1) ... 326s Selecting previously unselected package libsub-override-perl. 326s Preparing to unpack .../32-libsub-override-perl_0.10-1_all.deb ... 326s Unpacking libsub-override-perl (0.10-1) ... 326s Selecting previously unselected package libfile-stripnondeterminism-perl. 326s Preparing to unpack .../33-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... 326s Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... 326s Selecting previously unselected package dh-strip-nondeterminism. 326s Preparing to unpack .../34-dh-strip-nondeterminism_1.13.1-1_all.deb ... 326s Unpacking dh-strip-nondeterminism (1.13.1-1) ... 326s Selecting previously unselected package debugedit. 326s Preparing to unpack .../35-debugedit_1%3a5.0-5build1_s390x.deb ... 326s Unpacking debugedit (1:5.0-5build1) ... 326s Selecting previously unselected package dwz. 326s Preparing to unpack .../36-dwz_0.15-1build5_s390x.deb ... 326s Unpacking dwz (0.15-1build5) ... 326s Selecting previously unselected package gettext. 326s Preparing to unpack .../37-gettext_0.21-14ubuntu1_s390x.deb ... 326s Unpacking gettext (0.21-14ubuntu1) ... 327s Selecting previously unselected package intltool-debian. 327s Preparing to unpack .../38-intltool-debian_0.35.0+20060710.6_all.deb ... 327s Unpacking intltool-debian (0.35.0+20060710.6) ... 327s Selecting previously unselected package po-debconf. 327s Preparing to unpack .../39-po-debconf_1.0.21+nmu1_all.deb ... 327s Unpacking po-debconf (1.0.21+nmu1) ... 327s Selecting previously unselected package debhelper. 327s Preparing to unpack .../40-debhelper_13.14.1ubuntu5_all.deb ... 327s Unpacking debhelper (13.14.1ubuntu5) ... 327s Selecting previously unselected package htslib-test. 327s Preparing to unpack .../41-htslib-test_1.19+ds-1.1build2_all.deb ... 327s Unpacking htslib-test (1.19+ds-1.1build2) ... 327s Selecting previously unselected package libbz2-dev:s390x. 327s Preparing to unpack .../42-libbz2-dev_1.0.8-5ubuntu1_s390x.deb ... 327s Unpacking libbz2-dev:s390x (1.0.8-5ubuntu1) ... 327s Selecting previously unselected package libcurl4-gnutls-dev:s390x. 327s Preparing to unpack .../43-libcurl4-gnutls-dev_8.5.0-2ubuntu8_s390x.deb ... 327s Unpacking libcurl4-gnutls-dev:s390x (8.5.0-2ubuntu8) ... 327s Selecting previously unselected package libdeflate-dev:s390x. 327s Preparing to unpack .../44-libdeflate-dev_1.19-1_s390x.deb ... 327s Unpacking libdeflate-dev:s390x (1.19-1) ... 327s Selecting previously unselected package libhtscodecs2:s390x. 327s Preparing to unpack .../45-libhtscodecs2_1.6.0-1_s390x.deb ... 327s Unpacking libhtscodecs2:s390x (1.6.0-1) ... 327s Selecting previously unselected package libhts3t64:s390x. 327s Preparing to unpack .../46-libhts3t64_1.19+ds-1.1build2_s390x.deb ... 327s Unpacking libhts3t64:s390x (1.19+ds-1.1build2) ... 327s Selecting previously unselected package liblzma-dev:s390x. 327s Preparing to unpack .../47-liblzma-dev_5.6.0-0.2_s390x.deb ... 327s Unpacking liblzma-dev:s390x (5.6.0-0.2) ... 327s Selecting previously unselected package zlib1g-dev:s390x. 327s Preparing to unpack .../48-zlib1g-dev_1%3a1.3.dfsg-3.1ubuntu1_s390x.deb ... 327s Unpacking zlib1g-dev:s390x (1:1.3.dfsg-3.1ubuntu1) ... 327s Selecting previously unselected package libhts-dev:s390x. 327s Preparing to unpack .../49-libhts-dev_1.19+ds-1.1build2_s390x.deb ... 327s Unpacking libhts-dev:s390x (1.19+ds-1.1build2) ... 327s Selecting previously unselected package libhtscodecs-dev:s390x. 327s Preparing to unpack .../50-libhtscodecs-dev_1.6.0-1_s390x.deb ... 327s Unpacking libhtscodecs-dev:s390x (1.6.0-1) ... 327s Selecting previously unselected package libssl-dev:s390x. 327s Preparing to unpack .../51-libssl-dev_3.0.13-0ubuntu2_s390x.deb ... 327s Unpacking libssl-dev:s390x (3.0.13-0ubuntu2) ... 328s Selecting previously unselected package tabix. 328s Preparing to unpack .../52-tabix_1.19+ds-1.1build2_s390x.deb ... 328s Unpacking tabix (1.19+ds-1.1build2) ... 328s Selecting previously unselected package autopkgtest-satdep. 328s Preparing to unpack .../53-1-autopkgtest-satdep.deb ... 328s Unpacking autopkgtest-satdep (0) ... 328s Setting up libhtscodecs2:s390x (1.6.0-1) ... 328s Setting up libarchive-zip-perl (1.68-1) ... 328s Setting up htslib-test (1.19+ds-1.1build2) ... 328s Setting up libdebhelper-perl (13.14.1ubuntu5) ... 328s Setting up m4 (1.4.19-4) ... 328s Setting up libgomp1:s390x (14-20240315-1ubuntu1) ... 328s Setting up libcurl4-gnutls-dev:s390x (8.5.0-2ubuntu8) ... 328s Setting up libhtscodecs-dev:s390x (1.6.0-1) ... 328s Setting up autotools-dev (20220109.1) ... 328s Setting up libssl-dev:s390x (3.0.13-0ubuntu2) ... 328s Setting up libmpc3:s390x (1.3.1-1) ... 328s Setting up libatomic1:s390x (14-20240315-1ubuntu1) ... 328s Setting up autopoint (0.21-14ubuntu1) ... 328s Setting up autoconf (2.71-3) ... 328s Setting up liblzma-dev:s390x (5.6.0-0.2) ... 328s Setting up libubsan1:s390x (14-20240315-1ubuntu1) ... 328s Setting up zlib1g-dev:s390x (1:1.3.dfsg-3.1ubuntu1) ... 328s Setting up dwz (0.15-1build5) ... 328s Setting up libasan8:s390x (14-20240315-1ubuntu1) ... 328s Setting up debugedit (1:5.0-5build1) ... 328s Setting up libhts3t64:s390x (1.19+ds-1.1build2) ... 328s Setting up libsub-override-perl (0.10-1) ... 328s Setting up libisl23:s390x (0.26-3) ... 328s Setting up libdeflate-dev:s390x (1.19-1) ... 328s Setting up tabix (1.19+ds-1.1build2) ... 328s Setting up libcc1-0:s390x (14-20240315-1ubuntu1) ... 328s Setting up libitm1:s390x (14-20240315-1ubuntu1) ... 328s Setting up libbz2-dev:s390x (1.0.8-5ubuntu1) ... 328s Setting up automake (1:1.16.5-1.3ubuntu1) ... 328s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 328s Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... 328s Setting up gettext (0.21-14ubuntu1) ... 328s Setting up libhts-dev:s390x (1.19+ds-1.1build2) ... 328s Setting up intltool-debian (0.35.0+20060710.6) ... 328s Setting up cpp-13-s390x-linux-gnu (13.2.0-21ubuntu1) ... 328s Setting up dh-strip-nondeterminism (1.13.1-1) ... 328s Setting up libgcc-13-dev:s390x (13.2.0-21ubuntu1) ... 328s Setting up libstdc++-13-dev:s390x (13.2.0-21ubuntu1) ... 328s Setting up cpp-13 (13.2.0-21ubuntu1) ... 328s Setting up cpp-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 328s Setting up po-debconf (1.0.21+nmu1) ... 328s Setting up gcc-13-s390x-linux-gnu (13.2.0-21ubuntu1) ... 328s Setting up gcc-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 328s Setting up g++-13-s390x-linux-gnu (13.2.0-21ubuntu1) ... 328s Setting up gcc-13 (13.2.0-21ubuntu1) ... 328s Setting up cpp (4:13.2.0-7ubuntu1) ... 328s Setting up g++-13 (13.2.0-21ubuntu1) ... 328s Setting up libtool (2.4.7-7) ... 328s Setting up g++-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 328s Setting up gcc (4:13.2.0-7ubuntu1) ... 328s Setting up dh-autoreconf (20) ... 328s Setting up g++ (4:13.2.0-7ubuntu1) ... 328s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 328s Setting up build-essential (12.10ubuntu1) ... 328s Setting up debhelper (13.14.1ubuntu5) ... 328s Setting up autopkgtest-satdep (0) ... 328s Processing triggers for man-db (2.12.0-3build4) ... 329s Processing triggers for install-info (7.1-3build1) ... 329s Processing triggers for libc-bin (2.39-0ubuntu6) ... 334s (Reading database ... 84812 files and directories currently installed.) 334s Removing autopkgtest-satdep (0) ... 335s autopkgtest [14:35:43]: test run-unit-test: [----------------------- 335s + pkg=htslib 335s + '[' /tmp/autopkgtest.kDs0D2/autopkgtest_tmp = '' ']' 335s + cp -aL /usr/share/htslib-test/Makefile /usr/share/htslib-test/annot-tsv.c /usr/share/htslib-test/bcf_sr_sort.c /usr/share/htslib-test/bcf_sr_sort.h /usr/share/htslib-test/bgzf.c /usr/share/htslib-test/bgzip.c /usr/share/htslib-test/config.h /usr/share/htslib-test/config.mk /usr/share/htslib-test/config_vars.h /usr/share/htslib-test/cram /usr/share/htslib-test/errmod.c /usr/share/htslib-test/faidx.c /usr/share/htslib-test/fuzz_settings.h /usr/share/htslib-test/header.c /usr/share/htslib-test/header.h /usr/share/htslib-test/hfile.c /usr/share/htslib-test/hfile_gcs.c /usr/share/htslib-test/hfile_internal.h /usr/share/htslib-test/hfile_libcurl.c /usr/share/htslib-test/hfile_s3.c /usr/share/htslib-test/hfile_s3_write.c /usr/share/htslib-test/hts.c /usr/share/htslib-test/hts_expr.c /usr/share/htslib-test/hts_internal.h /usr/share/htslib-test/hts_os.c /usr/share/htslib-test/hts_time_funcs.h /usr/share/htslib-test/htscodecs.mk /usr/share/htslib-test/htscodecs_bundled.mk /usr/share/htslib-test/htscodecs_external.mk /usr/share/htslib-test/htsfile.c /usr/share/htslib-test/htslib.mk /usr/share/htslib-test/htslib_static.mk /usr/share/htslib-test/htslib_vars.mk /usr/share/htslib-test/kfunc.c /usr/share/htslib-test/kstring.c /usr/share/htslib-test/md5.c /usr/share/htslib-test/multipart.c /usr/share/htslib-test/os /usr/share/htslib-test/plugin.c /usr/share/htslib-test/probaln.c /usr/share/htslib-test/realn.c /usr/share/htslib-test/regidx.c /usr/share/htslib-test/region.c /usr/share/htslib-test/sam.c /usr/share/htslib-test/sam_internal.h /usr/share/htslib-test/sam_mods.c /usr/share/htslib-test/synced_bcf_reader.c /usr/share/htslib-test/tabix.c /usr/share/htslib-test/tbx.c /usr/share/htslib-test/test /usr/share/htslib-test/textutils.c /usr/share/htslib-test/textutils_internal.h /usr/share/htslib-test/thread_pool.c /usr/share/htslib-test/thread_pool_internal.h /usr/share/htslib-test/vcf.c /usr/share/htslib-test/vcf_sweep.c /usr/share/htslib-test/vcfutils.c /usr/share/htslib-test/version.h /usr/share/htslib-test/version.sh /tmp/autopkgtest.kDs0D2/autopkgtest_tmp 335s + cp -aL htslib.pc.in /tmp/autopkgtest.kDs0D2/autopkgtest_tmp 335s + cp -aL htslib.map /tmp/autopkgtest.kDs0D2/autopkgtest_tmp 335s + cd /tmp/autopkgtest.kDs0D2/autopkgtest_tmp 335s + sed -i 's#\$(HTSPREFIX)#/usr/include/#g' htslib_vars.mk 335s + sed -i 's#\$(HTSLIB)#/usr/include/#g' htslib.mk 335s + CFLAGS='-O2 -fno-strict-aliasing -fno-code-hoisting' 335s + grep sse /proc/cpuinfo 335s + export CFLAGS 335s + make -e check 335s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o kfunc.o kfunc.c 335s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o kstring.o kstring.c 336s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o bcf_sr_sort.o bcf_sr_sort.c 337s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o bgzf.o bgzf.c 338s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o errmod.o errmod.c 339s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o faidx.o faidx.c 340s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o header.o header.c 342s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o hfile.o hfile.c 342s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o hts.o hts.c 346s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o hts_expr.o hts_expr.c 347s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o hts_os.o hts_os.c 347s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o md5.o md5.c 347s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o multipart.o multipart.c 347s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o probaln.o probaln.c 347s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o realn.o realn.c 348s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o regidx.o regidx.c 348s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o region.o region.c 349s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o sam.o sam.c 354s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o sam_mods.o sam_mods.c 354s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o synced_bcf_reader.o synced_bcf_reader.c 355s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o vcf_sweep.o vcf_sweep.c 355s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o tbx.o tbx.c 355s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o textutils.o textutils.c 356s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o thread_pool.o thread_pool.c 356s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o vcf.o vcf.c 362s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o vcfutils.o vcfutils.c 364s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/cram_codecs.o cram/cram_codecs.c 366s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/cram_decode.o cram/cram_decode.c 369s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/cram_encode.o cram/cram_encode.c 372s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/cram_external.o cram/cram_external.c 373s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/cram_index.o cram/cram_index.c 373s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/cram_io.o cram/cram_io.c 376s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/cram_stats.o cram/cram_stats.c 376s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/mFILE.o cram/mFILE.c 377s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/open_trace_file.o cram/open_trace_file.c 377s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/pooled_alloc.o cram/pooled_alloc.c 377s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o cram/string_alloc.o cram/string_alloc.c 377s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -DPLUGINPATH=\"/usr/local/lib/htslib:/usr/local/libexec/htslib:/usr/lib/x86_64-linux-gnu/htslib\" -c -o plugin.o plugin.c 377s ar -rc libhts.a kfunc.o kstring.o bcf_sr_sort.o bgzf.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o md5.o multipart.o probaln.o realn.o regidx.o region.o sam.o sam_mods.o synced_bcf_reader.o vcf_sweep.o tbx.o textutils.o thread_pool.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_stats.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/string_alloc.o plugin.o 377s ranlib libhts.a 377s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o kfunc.pico kfunc.c 377s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o kstring.pico kstring.c 378s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o bcf_sr_sort.pico bcf_sr_sort.c 379s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o bgzf.pico bgzf.c 380s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o errmod.pico errmod.c 380s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o faidx.pico faidx.c 381s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o header.pico header.c 383s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o hfile.pico hfile.c 383s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o hts.pico hts.c 387s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o hts_expr.pico hts_expr.c 388s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o hts_os.pico hts_os.c 388s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o md5.pico md5.c 388s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o multipart.pico multipart.c 388s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o probaln.pico probaln.c 389s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o realn.pico realn.c 389s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o regidx.pico regidx.c 390s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o region.pico region.c 390s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o sam.pico sam.c 395s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o sam_mods.pico sam_mods.c 395s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o synced_bcf_reader.pico synced_bcf_reader.c 396s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o vcf_sweep.pico vcf_sweep.c 396s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o tbx.pico tbx.c 396s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o textutils.pico textutils.c 397s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o thread_pool.pico thread_pool.c 397s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o vcf.pico vcf.c 404s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o vcfutils.pico vcfutils.c 405s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/cram_codecs.pico cram/cram_codecs.c 407s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/cram_decode.pico cram/cram_decode.c 410s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/cram_encode.pico cram/cram_encode.c 413s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/cram_external.pico cram/cram_external.c 413s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/cram_index.pico cram/cram_index.c 414s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/cram_io.pico cram/cram_io.c 417s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/cram_stats.pico cram/cram_stats.c 418s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/mFILE.pico cram/mFILE.c 418s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/open_trace_file.pico cram/open_trace_file.c 418s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/pooled_alloc.pico cram/pooled_alloc.c 418s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o cram/string_alloc.pico cram/string_alloc.c 418s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -DPLUGINPATH=\"/usr/local/lib/htslib:/usr/local/libexec/htslib:/usr/lib/x86_64-linux-gnu/htslib\" -fPIC -c -o plugin.pico plugin.c 418s gcc -shared -Wl,-soname,libhts.so.3 -Wl,-version-script,htslib.map -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o libhts.so kfunc.pico kstring.pico bcf_sr_sort.pico bgzf.pico errmod.pico faidx.pico header.pico hfile.pico hts.pico hts_expr.pico hts_os.pico md5.pico multipart.pico probaln.pico realn.pico regidx.pico region.pico sam.pico sam_mods.pico synced_bcf_reader.pico vcf_sweep.pico tbx.pico textutils.pico thread_pool.pico vcf.pico vcfutils.pico cram/cram_codecs.pico cram/cram_decode.pico cram/cram_encode.pico cram/cram_external.pico cram/cram_index.pico cram/cram_io.pico cram/cram_stats.pico cram/mFILE.pico cram/open_trace_file.pico cram/pooled_alloc.pico cram/string_alloc.pico plugin.pico -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 418s ln -sf libhts.so libhts.so.3 419s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o annot-tsv.o annot-tsv.c 419s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o annot-tsv annot-tsv.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 419s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o bgzip.o bgzip.c 420s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o bgzip bgzip.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread 420s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o htsfile.o htsfile.c 420s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o htsfile htsfile.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread 420s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o tabix.o tabix.c 420s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o tabix tabix.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm libhts.a -lpthread 420s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o hfile_libcurl.pico hfile_libcurl.c 422s gcc -shared -Wl,-E -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o hfile_libcurl.so hfile_libcurl.pico libhts.so -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lcurl -lpthread 422s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o hfile_gcs.pico hfile_gcs.c 422s gcc -shared -Wl,-E -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o hfile_gcs.so hfile_gcs.pico libhts.so -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 422s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o hfile_s3.pico hfile_s3.c 423s gcc -shared -Wl,-E -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o hfile_s3.so hfile_s3.pico libhts.so -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lcrypto -lpthread 423s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -fPIC -c -o hfile_s3_write.pico hfile_s3_write.c 423s gcc -shared -Wl,-E -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o hfile_s3_write.so hfile_s3_write.pico libhts.so -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lcrypto -lcurl -lpthread 423s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/hts_endian.o test/hts_endian.c 424s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/hts_endian test/hts_endian.o -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm 424s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/fieldarith.o test/fieldarith.c 424s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/fieldarith test/fieldarith.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 424s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/hfile.o test/hfile.c 424s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/hfile test/hfile.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 424s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/pileup.o test/pileup.c 424s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/pileup test/pileup.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 424s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/pileup_mod.o test/pileup_mod.c 425s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/pileup_mod test/pileup_mod.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 425s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/plugins-dlhts.o test/plugins-dlhts.c 425s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/plugins-dlhts test/plugins-dlhts.o -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm 425s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/sam.o test/sam.c 426s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/sam test/sam.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 426s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_bgzf.o test/test_bgzf.c 427s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_bgzf test/test_bgzf.o libhts.a -lz -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 427s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_expr.o test/test_expr.c 427s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_expr test/test_expr.o libhts.a -lz -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 429s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_faidx.o test/test_faidx.c 429s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_faidx test/test_faidx.o libhts.a -lz -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 429s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_kfunc.o test/test_kfunc.c 429s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_kfunc test/test_kfunc.o libhts.a -lz -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 429s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_kstring.o test/test_kstring.c 429s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_kstring test/test_kstring.o libhts.a -lz -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 429s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_mod.o test/test_mod.c 429s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_mod test/test_mod.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 429s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_realn.o test/test_realn.c 429s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_realn test/test_realn.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 429s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test-regidx.o test/test-regidx.c 429s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-regidx test/test-regidx.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 429s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_str2int.o test/test_str2int.c 430s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_str2int test/test_str2int.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 430s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_time_funcs.o test/test_time_funcs.c 430s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_time_funcs test/test_time_funcs.o 430s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_view.o test/test_view.c 430s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_view test/test_view.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 430s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_index.o test/test_index.c 430s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_index test/test_index.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 430s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test-vcf-api.o test/test-vcf-api.c 431s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-vcf-api test/test-vcf-api.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 431s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test-vcf-sweep.o test/test-vcf-sweep.c 431s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-vcf-sweep test/test-vcf-sweep.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 431s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test-bcf-sr.o test/test-bcf-sr.c 432s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-bcf-sr test/test-bcf-sr.o libhts.a -lz -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 432s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/fuzz/hts_open_fuzzer.o test/fuzz/hts_open_fuzzer.c 432s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test-bcf-translate.o test/test-bcf-translate.c 432s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-bcf-translate test/test-bcf-translate.o libhts.a -lz -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 432s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test-parse-reg.o test/test-parse-reg.c 432s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-parse-reg test/test-parse-reg.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 432s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test_introspection.o test/test_introspection.c 432s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test_introspection test/test_introspection.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 432s gcc -O2 -fno-strict-aliasing -fno-code-hoisting -I. -Wdate-time -D_FORTIFY_SOURCE=3 -c -o test/test-bcf_set_variant_type.o test/test-bcf_set_variant_type.c 439s gcc -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,-flto -fvisibility=hidden -ffat-lto-objects -fvisibility=hidden -rdynamic -o test/test-bcf_set_variant_type test/test-bcf_set_variant_type.o libhts.a -ldeflate -lhtscodecs -llzma -lbz2 -lz -lm -lpthread 439s sed -e '/^static_libs=/s/@static_LIBS@/-lz -lm -lbz2 -llzma -lcurl/;s#@[^-][^@]*@##g' htslib.pc.in > htslib.pc.tmp 439s sed -n '/^static_libs=/s/[^=]*=/HTSLIB_static_LIBS = /p;/^static_ldflags=/s/[^=]*=/HTSLIB_static_LDFLAGS = /p' htslib.pc.tmp > htslib_static.mk 439s sed -e 's#@-includedir@#'`pwd`'#g;s#@-libdir@#'`pwd`'#g' htslib.pc.tmp > htslib-uninstalled.pc 439s test/hts_endian 439s test/test_expr 439s test/test_kfunc 439s test/test_kstring 439s test/test_str2int 439s test/test_time_funcs 440s test/fieldarith test/fieldarith.sam 440s test/hfile 440s if test "xhfile_libcurl.so hfile_gcs.so hfile_s3.so hfile_s3_write.so" != "x"; then \ 440s HTS_PATH=. test/with-shlib.sh test/plugins-dlhts -g ./libhts.so; \ 440s fi 440s if test "xhfile_libcurl.so hfile_gcs.so hfile_s3.so hfile_s3_write.so" != "x"; then \ 440s HTS_PATH=. test/with-shlib.sh test/plugins-dlhts -l ./libhts.so; \ 440s fi 440s test/test_bgzf test/bgziptest.txt 441s test/test-parse-reg -t test/colons.bam 441s cd test/faidx && ./test-faidx.sh faidx.tst 441s Testing faidx... 441s Expected error: [E::hts_parse_region] Range is ambiguous. Use {chr1:100-200} or {chr1}:100-200 instead 441s Expected error: [E::hts_parse_region] Range is ambiguous. Use {chr1:100-200,chr3} or {chr1}:100-200,chr3 instead 441s Expected error: [E::hts_parse_region] Mismatching braces in "{chr1" 441s Expected error: [E::hts_parse_region] Unexpected string "x" after region 441s Expected error: [E::hts_parse_region] Unexpected string "y" after region 441s Expected error: [E::hts_parse_region] Unexpected string "chr3" after region 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -e faidx.fa.expected.fai 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t fai_line_length -e 24 trailingblank2 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t faidx_has_seq -e 1 foo 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t faidx_has_seq -e 0 absent 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t faidx_iseq -e trailingblank3 3 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t faidx_seq_len -e 33 trailingblank1 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t faidx_seq_len64 -e 72 trailingblank2 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -e fastqs.fq.expected.fai 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -Q -t fai_line_length -e 63 FAKE0005_3 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -Q -t fai_line_length -e 144 SRR014849.203935_3 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -t faidx_has_seq -e 1 SRR014849.203935_3 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -t faidx_has_seq -e 0 absent 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -t faidx_iseq -e FAKE0005_1 0 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -t faidx_seq_len -e 453 FSRRS4401CM938_1 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -t faidx_seq_len64 -e 309 FSRRS4401AOV6A_4 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai trailingblank2:28-33 trailingblank3:4-5 bar:4-5 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t fai_fetch trailingblank2:28-33 trailingblank3:4-5 bar:4-5 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t faidx_fetch_seq64 trailingblank2:28-33 trailingblank3:4-5 bar:4-5 441s PASS : $test_faidx -i faidx.fa -f faidx.fa.tmp.fai -t fai_adjust_region trailingblank2:28-33 trailingblank3:4-5 bar:4-5 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -Q FAKE0006_1:4-12 FSRRS4401BE7HA_1:81-120 FAKE0010_2 SRR014849.50939_3:71-90 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -Q -t fai_fetch FAKE0006_1:4-12 FSRRS4401BE7HA_1:81-120 FAKE0010_2 SRR014849.50939_3:71-90 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai -Q -t faidx_fetch_seq64 FAKE0006_1:4-12 FSRRS4401BE7HA_1:81-120 FAKE0010_2 SRR014849.50939_3:71-90 441s PASS : $test_faidx -i fastqs.fq -f fastqs.fq.tmp.fai FAKE0006_1:4-12 FSRRS4401BE7HA_1:81-120 FAKE0010_2 SRR014849.50939_3:71-90 441s PASS : $test_faidx -i ce.fa.tmp.gz -f ce.fa.tmp.gz.fai -g ce.fa.tmp.gz.gzi -e ../ce.fa.fai 441s PASS : $test_faidx -i ce.fa.tmp.gz -f ce.fa.tmp.gz.fai -g ce.fa.tmp.gz.gzi CHROMOSOME_I:5001-5125 CHROMOSOME_X:101-225 441s 441s Expected passes: 25 441s Unexpected passes: 0 441s Expected failures: 0 441s Unexpected failures: 0 441s cd test/sam_filter && ./filter.sh filter.tst 441s Testing sam_filter... 441s PASS : $tv -i 'filter=qname =~ "\.1" && cigar =~ "D"' ../ce#1000.sam 441s PASS : $tv -i 'filter=rname=="CHROMOSOME_II"' ../ce#5b.sam 441s PASS : $tv -i 'filter=rname=~"CHROMOSOME_II"' ../ce#5b.sam 441s PASS : $tv -i 'filter=cigar=~"D"' ../ce#1000.sam 441s PASS : $tv -i 'filter=seq =~ "(AT){2}"' ../ce#1000.sam 442s PASS : $tv -i 'filter=library=="x"' ../xx#rg.sam 442s PASS : $tv -i 'filter=library!="x"' ../xx#rg.sam 442s PASS : $tv -i 'filter=pos % 23 == 11' ../ce#1000.sam | grep -E -cv '^@' 442s PASS : $tv -i 'filter=qlen/(flag*mapq+pos)>5' ../ce#1000.sam | grep -E -cv '^@' 442s PASS : $tv -i 'filter=[NM]>=10 || [MD]=~"A.*A.*A"' -t4 ../ce#1000.sam | grep -E -cv '^@' 442s PASS : $tv -i 'filter=length(seq) != qlen' ../ce#5b.sam | grep -E -cv '^@' 442s PASS : $tv -i 'filter=min(qual) >= 20' ../ce#1000.sam | grep -E -cv '^@' 442s PASS : $tv -i 'filter=max(qual) <= 20' ../ce#1000.sam | grep -E -cv '^@' 442s PASS : $tv -i 'filter=avg(qual) >= 20 && avg(qual) <= 30' ../ce#1000.sam | grep -E -cv '^@' 442s PASS : $tv -i 'filter=sclen>=20' ../realn02.sam | grep -E -v '^@' 442s PASS : $tv -i 'filter=rlen<50' ../realn02.sam | grep -E -v '^@' 442s PASS : $tv -i 'filter=qlen>100' ../realn02.sam | grep -E -v '^@' 442s PASS : $tv -i 'filter=hclen>=4' ../c1#clip.sam | grep -E -v '^@' 442s 442s Expected passes: 18 442s Unexpected passes: 0 442s Expected failures: 0 442s Unexpected failures: 0 442s cd test/tabix && ./test-tabix.sh tabix.tst 442s Testing tabix... 442s PASS : $tabix -f -p vcf vcf_file.tbi.tmp.vcf.gz 442s PASS : $tabix vcf_file.tbi.tmp.vcf.gz 1:3000151-3000151 442s PASS : $tabix vcf_file.tbi.tmp.vcf.gz 2:3199812-3199812 442s PASS : $tabix -f -C -p vcf vcf_file.csi.tmp.vcf.gz 442s PASS : $tabix vcf_file.csi.tmp.vcf.gz 1:3000151-3000151 442s PASS : $tabix vcf_file.csi.tmp.vcf.gz 2:3199812-3199812 442s PASS : $tabix -f -p vcf large_chr.tmp.vcf.gz (must exit non-zero) 442s PASS : $tabix -f -C -p vcf large_chr.tmp.vcf.gz 442s PASS : $tabix large_chr.tmp.vcf.gz chr20:1-2147483647 442s PASS : $tabix -f -p bed bed_file.tbi.tmp.bed.gz 442s PASS : $tabix bed_file.tbi.tmp.bed.gz Y:100200-100200 442s PASS : $tabix -f -p gff gff_file.tbi.tmp.gff.gz 442s PASS : $tabix gff_file.tbi.tmp.gff.gz X:2934832-2935190 442s PASS : $tabix --separate-regions bed_file.tbi.tmp.bed.gz X:1100-1400 Y:100000-100550 Z:100000-100005 442s 442s Expected passes: 14 442s Unexpected passes: 0 442s Expected failures: 0 442s Unexpected failures: 0 442s cd test/mpileup && ./test-pileup.sh mpileup.tst 442s Testing (m)pileup... 442s PASS : $pileup mp_D.sam 442s PASS : $pileup -m mp_D.sam 442s PASS : $pileup mp_DI.sam 442s PASS : $pileup -m mp_DI.sam 442s PASS : $pileup mp_I.sam 442s PASS : $pileup -m mp_I.sam 442s PASS : $pileup mp_P.sam 442s PASS : $pileup -m mp_P.sam 442s PASS : $pileup mp_ID.sam 442s PASS : $pileup -m mp_ID.sam 442s PASS : $pileup mp_N.sam 442s PASS : $pileup -m mp_N.sam 442s PASS : $pileup mp_N2.sam 442s PASS : $pileup -m mp_N2.sam 442s PASS : $pileup c1#pad1.sam 442s PASS : $pileup -m c1#pad1.sam 442s PASS : $pileup c1#pad2.sam 442s PASS : $pileup -m c1#pad2.sam 442s PASS : $pileup c1#pad3.sam 442s PASS : $pileup -m c1#pad3.sam 442s PASS : $pileup -m small.bam 442s 442s Expected passes: 21 442s Unexpected passes: 0 442s Expected failures: 0 442s Unexpected failures: 0 442s cd test/fastq && ./test-fastq.sh 442s Testing fastq support 442s PASS : $tview minimal.fq 442s PASS : $tview minimal.fa 442s PASS : $tview multiline.fq 442s PASS : $tview multiline.fa 442s PASS : $tview -i fastq_aux longline.fq 442s PASS : $tview single.fq 442s PASS : $tview single.fa 442s PASS : $tview -i fastq_aux single.fq 442s PASS : $tview -i fastq_aux single.fa 442s PASS : $tview interleaved.fq 442s PASS : $tview interleaved.fa 442s PASS : $tview -i fastq_aux interleaved.fq 442s PASS : $tview -i fastq_aux interleaved.fa 442s PASS : $tview -i fastq_casava interleaved_casava.fq 442s PASS : $tview -i fastq_barcode=OX -i fastq_casava interleaved_casava.fq 442s PASS : $tview -i fastq_casava interleaved_casava.fa 442s PASS : $tview -i fastq_barcode=OX -i fastq_casava interleaved_casava.fa 442s PASS : $tview -i fastq_casava filter_casava.fq 442s PASS : $tview -i fastq_casava filter_casava.fa 442s PASS : $tview -i fastq_aux r1.fq 442s PASS : $tview -i fastq_aux r2.fq 442s PASS : $tview -i fastq_aux r1.fa 442s PASS : $tview -i fastq_aux r2.fa 442s PASS : $tview -i fastq_name2 name2.fq 442s PASS : $tview -i fastq_name2 name2.fa 442s PASS : $tview -f minimal.sam 442s PASS : $tview -F minimal.sam 442s PASS : $tview -f -o fastq_aux single_aux.sam 442s PASS : $tview -F -o fastq_aux single_aux.sam 442s PASS : $tview -f -o fastq_aux -o fastq_rnum inter_aux.sam 442s PASS : $tview -F -o fastq_aux -o fastq_rnum inter_aux.sam 442s PASS : $tview -f -o fastq_casava inter_casava.sam 442s PASS : $tview -f -o fastq_barcode=OX -o fastq_casava inter_casavaOX.sam 442s PASS : $tview -F -o fastq_casava inter_casava.sam 442s PASS : $tview -F -o fastq_barcode=OX -o fastq_casava inter_casavaOX.sam 442s PASS : $tview -f -o fastq_casava filter_casava.sam 442s PASS : $tview -F -o fastq_casava filter_casava.sam 442s PASS : $tview -f -o fastq_aux -o fastq_rnum r1.sam 442s PASS : $tview -f -o fastq_aux -o fastq_rnum r2.sam 442s PASS : $tview -F -o fastq_aux -o fastq_rnum r1.sam 442s PASS : $tview -F -o fastq_aux -o fastq_rnum r2.sam 442s 442s Expected passes: 41 442s Unexpected passes: 0 442s Expected failures: 0 442s Unexpected failures: 0 442s cd test/base_mods && ./base-mods.sh base-mods.tst 442s Testing base-modifications... 442s PASS : $test_mod MM-chebi.sam 442s PASS : $test_mod MM-double.sam 442s PASS : $test_mod MM-multi.sam 442s PASS : $test_mod MM-explicit.sam 442s PASS : $test_mod -x MM-explicit.sam 442s PASS : $test_mod -f 1 MM-explicit.sam 442s PASS : $test_mod MM-not-all-modded.sam 442s PASS : $pileup_mod < MM-pileup.sam 442s PASS : $pileup_mod < MM-pileup2.sam 442s PASS : $pileup_mod < MM-MNp.sam 442s PASS : $pileup_mod < MM-MNf1.sam (must exit non-zero) 442s PASS : $pileup_mod < MM-MNf2.sam (must exit non-zero) 442s 442s Expected passes: 12 442s Unexpected passes: 0 442s Expected failures: 0 442s Unexpected failures: 0 442s REF_PATH=: test/sam test/ce.fa test/faidx/faidx.fa test/faidx/fastqs.fq 442s (Expect trailing 'x' message for " -1,001x") 442s [W::hts_parse_decimal] Ignoring unknown characters after -1,001[x] 442s (Expect trailing 'k' message for "1.5e+3k") 442s [W::hts_parse_decimal] Ignoring unknown characters after 1.5e+3[k] 442s (Expect dropped fraction message for "12.3456k") 442s [W::hts_parse_decimal] Discarding fractional part of 12.3456k 442s [W::hts_parse_decimal] Discarding fractional part of 12.3456k 442s (Expect invalid numeric message for "A") 442s [W::hts_parse_decimal] Invalid numeric value A[truncated] 442s (Expect invalid numeric message for "G") 442s [W::hts_parse_decimal] Invalid numeric value G[truncated] 442s (Expect invalid numeric message for " +/-") 442s [W::hts_parse_decimal] Invalid numeric value +/-[truncated] 442s (Expect invalid numeric message for " -.e+9999") 442s [W::hts_parse_decimal] Invalid numeric value -.e+9999[truncated] 442s test/test-regidx 442s cd test && REF_PATH=: ./test.pl ${TEST_OPTS:-} 443s bgzip round-trip no threads: .. ok 443s 443s bgzip text mode round-trip no threads: .. ok 443s 443s bgzip -b no threads: .. ok 443s 443s bgzip -b -I no threads: .. ok 443s 444s bgzip multifile no threads: .. ok 444s 444s bgzip round-trip 4 threads: .. ok 444s 445s bgzip text mode round-trip 4 threads: .. ok 445s 445s bgzip -b 4 threads: .. ok 445s 445s bgzip -b -I 4 threads: .. ok 445s 446s bgzip multifile 4 threads: .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -b -m 14 -x /tmp/BVyXYmgknn/index.bam.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.bam 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.bam 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -b -m 0 -x /tmp/BVyXYmgknn/index.bam.bai /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.bam 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -b /tmp/BVyXYmgknn/index.bam 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -z -m 14 -x /tmp/BVyXYmgknn/index.sam.gz.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -z -m 0 -x /tmp/BVyXYmgknn/index.sam.gz.bai /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -b /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -z -m 14 -x /tmp/BVyXYmgknn/index.sam.gz.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index_dos.sam > /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -z -m 0 -x /tmp/BVyXYmgknn/index.sam.gz.bai /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index_dos.sam > /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -b /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -C -x /tmp/BVyXYmgknn/index.cram.crai /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.cram 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index /tmp/BVyXYmgknn/index.cram 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -b -m 14 -x /tmp/BVyXYmgknn/index.bcf.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.vcf > /tmp/BVyXYmgknn/index.bcf 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.bcf 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -z -m 14 -x /tmp/BVyXYmgknn/index.vcf.gz.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.vcf > /tmp/BVyXYmgknn/index.vcf.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.vcf.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -l 0 -z -m 0 -x /tmp/BVyXYmgknn/index.vcf.gz.tbi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.vcf > /tmp/BVyXYmgknn/index.vcf.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -t /tmp/BVyXYmgknn/index.vcf.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/tabix /tmp/BVyXYmgknn/index.vcf.gz##idx##/tmp/BVyXYmgknn/index.vcf.gz.tbi 1:10000060-10000060 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/BVyXYmgknn/index2.bam 1:1000000-1000000 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/BVyXYmgknn/index2.bam 1:2000000-2000000 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/BVyXYmgknn/index2.bam 2:1000000-1000000 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/BVyXYmgknn/index2.bam 2:2000000-2000000 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -b -m 14 -x /tmp/BVyXYmgknn/index.bam.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.bam 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.bam 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -b -m 0 -x /tmp/BVyXYmgknn/index.bam.bai /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.bam 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -b /tmp/BVyXYmgknn/index.bam 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -z -m 14 -x /tmp/BVyXYmgknn/index.sam.gz.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -z -m 0 -x /tmp/BVyXYmgknn/index.sam.gz.bai /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -b /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -z -m 14 -x /tmp/BVyXYmgknn/index.sam.gz.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index_dos.sam > /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -z -m 0 -x /tmp/BVyXYmgknn/index.sam.gz.bai /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index_dos.sam > /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -b /tmp/BVyXYmgknn/index.sam.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -C -x /tmp/BVyXYmgknn/index.cram.crai /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.sam > /tmp/BVyXYmgknn/index.cram 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index /tmp/BVyXYmgknn/index.cram 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -b -m 14 -x /tmp/BVyXYmgknn/index.bcf.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.vcf > /tmp/BVyXYmgknn/index.bcf 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.bcf 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -z -m 14 -x /tmp/BVyXYmgknn/index.vcf.gz.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.vcf > /tmp/BVyXYmgknn/index.vcf.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c /tmp/BVyXYmgknn/index.vcf.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -@4 -l 0 -z -m 0 -x /tmp/BVyXYmgknn/index.vcf.gz.tbi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/index.vcf > /tmp/BVyXYmgknn/index.vcf.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -t /tmp/BVyXYmgknn/index.vcf.gz 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/tabix /tmp/BVyXYmgknn/index.vcf.gz##idx##/tmp/BVyXYmgknn/index.vcf.gz.tbi 1:10000060-10000060 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/BVyXYmgknn/index2.bam 1:1000000-1000000 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/BVyXYmgknn/index2.bam 1:2000000-2000000 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/BVyXYmgknn/index2.bam 2:1000000-1000000 446s .. ok 446s 446s test_index: 446s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/BVyXYmgknn/index2.bam 2:2000000-2000000 446s .. ok 446s 446s test_view testing multi-ref CRAM modes: 446s ./test_view -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=-1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram 446s ./test_view multi_ref.tmp.cram > multi_ref.tmp.sam_ 446s ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ 446s ./test_view -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=0 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram 446s ./test_view multi_ref.tmp.cram > multi_ref.tmp.sam_ 447s ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ 447s ./test_view -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram 447s ./test_view multi_ref.tmp.cram > multi_ref.tmp.sam_ 447s ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ 447s .. ok 447s 447s test_view testing multi-ref CRAM modes: 447s ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=-1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram 447s ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_ 447s ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ 447s ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=0 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram 447s ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_ 447s ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ 447s ./test_view -@4 -o seqs_per_slice=100 -o no_ref=1 -o multi_seq_per_slice=1 -S -C multi_ref.tmp.sam > multi_ref.tmp.cram 447s ./test_view -@4 multi_ref.tmp.cram > multi_ref.tmp.sam_ 447s ./compare_sam.pl multi_ref.tmp.sam multi_ref.tmp.sam_ 447s .. ok 447s 447s test_view testing auxf#values.sam, ref auxf.fa: 447s ./test_view -S -l0 -b auxf#values.sam > auxf#values.tmp.bam 447s ./test_view auxf#values.tmp.bam > auxf#values.tmp.bam.sam_ 447s ./compare_sam.pl auxf#values.sam auxf#values.tmp.bam.sam_ 447s ./test_view -t auxf.fa -S -C -o VERSION=2.1 auxf#values.sam > auxf#values.tmp.cram 447s ./test_view -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_ 447s ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_ 447s ./test_view -t auxf.fa -C -o VERSION=3.0 auxf#values.tmp.bam > auxf#values.tmp.bam.cram 447s ./test_view auxf#values.tmp.bam.cram > auxf#values.tmp.bam.cram.bam.sam_ 447s ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.bam.cram.bam.sam_ 447s ./test_view -i reference=auxf.fa auxf#values_java.cram > auxf#values_java.tmp.sam_ 447s ./compare_sam.pl -Baux -nomd auxf#values.sam auxf#values_java.tmp.sam_ 447s .. ok 447s 447s test_view testing c1#bounds.sam, ref c1.fa: 447s ./test_view -S -l0 -b c1#bounds.sam > c1#bounds.tmp.bam 447s ./test_view c1#bounds.tmp.bam > c1#bounds.tmp.bam.sam_ 447s ./compare_sam.pl c1#bounds.sam c1#bounds.tmp.bam.sam_ 447s ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#bounds.sam > c1#bounds.tmp.cram 447s ./test_view -D c1#bounds.tmp.cram > c1#bounds.tmp.cram.sam_ 447s ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.cram.sam_ 447s ./test_view -t c1.fa -C -o VERSION=3.0 c1#bounds.tmp.bam > c1#bounds.tmp.bam.cram 447s ./test_view c1#bounds.tmp.bam.cram > c1#bounds.tmp.bam.cram.bam.sam_ 447s ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.bam.cram.bam.sam_ 447s .. ok 447s 447s test_view testing c1#clip.sam, ref c1.fa: 447s ./test_view -S -l0 -b c1#clip.sam > c1#clip.tmp.bam 447s ./test_view c1#clip.tmp.bam > c1#clip.tmp.bam.sam_ 447s ./compare_sam.pl c1#clip.sam c1#clip.tmp.bam.sam_ 447s ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#clip.sam > c1#clip.tmp.cram 447s ./test_view -D c1#clip.tmp.cram > c1#clip.tmp.cram.sam_ 447s ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.cram.sam_ 447s ./test_view -t c1.fa -C -o VERSION=3.0 c1#clip.tmp.bam > c1#clip.tmp.bam.cram 447s ./test_view c1#clip.tmp.bam.cram > c1#clip.tmp.bam.cram.bam.sam_ 447s ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.bam.cram.bam.sam_ 447s .. ok 447s 447s test_view testing c1#noseq.sam, ref c1.fa: 447s ./test_view -S -l0 -b c1#noseq.sam > c1#noseq.tmp.bam 447s ./test_view c1#noseq.tmp.bam > c1#noseq.tmp.bam.sam_ 447s ./compare_sam.pl c1#noseq.sam c1#noseq.tmp.bam.sam_ 447s ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#noseq.sam > c1#noseq.tmp.cram 447s ./test_view -D c1#noseq.tmp.cram > c1#noseq.tmp.cram.sam_ 447s ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.cram.sam_ 447s ./test_view -t c1.fa -C -o VERSION=3.0 c1#noseq.tmp.bam > c1#noseq.tmp.bam.cram 447s ./test_view c1#noseq.tmp.bam.cram > c1#noseq.tmp.bam.cram.bam.sam_ 447s ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.bam.cram.bam.sam_ 447s .. ok 447s 447s test_view testing c1#pad1.sam, ref c1.fa: 447s ./test_view -S -l0 -b c1#pad1.sam > c1#pad1.tmp.bam 447s ./test_view c1#pad1.tmp.bam > c1#pad1.tmp.bam.sam_ 447s ./compare_sam.pl c1#pad1.sam c1#pad1.tmp.bam.sam_ 447s ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#pad1.sam > c1#pad1.tmp.cram 447s ./test_view -D c1#pad1.tmp.cram > c1#pad1.tmp.cram.sam_ 447s ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.cram.sam_ 447s ./test_view -t c1.fa -C -o VERSION=3.0 c1#pad1.tmp.bam > c1#pad1.tmp.bam.cram 447s ./test_view c1#pad1.tmp.bam.cram > c1#pad1.tmp.bam.cram.bam.sam_ 447s ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing c1#pad2.sam, ref c1.fa: 448s ./test_view -S -l0 -b c1#pad2.sam > c1#pad2.tmp.bam 448s ./test_view c1#pad2.tmp.bam > c1#pad2.tmp.bam.sam_ 448s ./compare_sam.pl c1#pad2.sam c1#pad2.tmp.bam.sam_ 448s ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#pad2.sam > c1#pad2.tmp.cram 448s ./test_view -D c1#pad2.tmp.cram > c1#pad2.tmp.cram.sam_ 448s ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.cram.sam_ 448s ./test_view -t c1.fa -C -o VERSION=3.0 c1#pad2.tmp.bam > c1#pad2.tmp.bam.cram 448s ./test_view c1#pad2.tmp.bam.cram > c1#pad2.tmp.bam.cram.bam.sam_ 448s ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing c1#pad3.sam, ref c1.fa: 448s ./test_view -S -l0 -b c1#pad3.sam > c1#pad3.tmp.bam 448s ./test_view c1#pad3.tmp.bam > c1#pad3.tmp.bam.sam_ 448s ./compare_sam.pl c1#pad3.sam c1#pad3.tmp.bam.sam_ 448s ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#pad3.sam > c1#pad3.tmp.cram 448s ./test_view -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_ 448s ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_ 448s ./test_view -t c1.fa -C -o VERSION=3.0 c1#pad3.tmp.bam > c1#pad3.tmp.bam.cram 448s ./test_view c1#pad3.tmp.bam.cram > c1#pad3.tmp.bam.cram.bam.sam_ 448s ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing c1#unknown.sam, ref c1.fa: 448s ./test_view -S -l0 -b c1#unknown.sam > c1#unknown.tmp.bam 448s ./test_view c1#unknown.tmp.bam > c1#unknown.tmp.bam.sam_ 448s ./compare_sam.pl c1#unknown.sam c1#unknown.tmp.bam.sam_ 448s ./test_view -t c1.fa -S -C -o VERSION=2.1 c1#unknown.sam > c1#unknown.tmp.cram 448s ./test_view -D c1#unknown.tmp.cram > c1#unknown.tmp.cram.sam_ 448s ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.cram.sam_ 448s ./test_view -t c1.fa -C -o VERSION=3.0 c1#unknown.tmp.bam > c1#unknown.tmp.bam.cram 448s ./test_view c1#unknown.tmp.bam.cram > c1#unknown.tmp.bam.cram.bam.sam_ 448s ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing c2#pad.sam, ref c2.fa: 448s ./test_view -S -l0 -b c2#pad.sam > c2#pad.tmp.bam 448s ./test_view c2#pad.tmp.bam > c2#pad.tmp.bam.sam_ 448s ./compare_sam.pl c2#pad.sam c2#pad.tmp.bam.sam_ 448s ./test_view -t c2.fa -S -C -o VERSION=2.1 c2#pad.sam > c2#pad.tmp.cram 448s ./test_view -D c2#pad.tmp.cram > c2#pad.tmp.cram.sam_ 448s ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.cram.sam_ 448s ./test_view -t c2.fa -C -o VERSION=3.0 c2#pad.tmp.bam > c2#pad.tmp.bam.cram 448s ./test_view c2#pad.tmp.bam.cram > c2#pad.tmp.bam.cram.bam.sam_ 448s ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing ce#1.sam, ref ce.fa: 448s ./test_view -S -l0 -b ce#1.sam > ce#1.tmp.bam 448s ./test_view ce#1.tmp.bam > ce#1.tmp.bam.sam_ 448s ./compare_sam.pl ce#1.sam ce#1.tmp.bam.sam_ 448s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#1.sam > ce#1.tmp.cram 448s ./test_view -D ce#1.tmp.cram > ce#1.tmp.cram.sam_ 448s ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.cram.sam_ 448s ./test_view -t ce.fa -C -o VERSION=3.0 ce#1.tmp.bam > ce#1.tmp.bam.cram 448s ./test_view ce#1.tmp.bam.cram > ce#1.tmp.bam.cram.bam.sam_ 448s ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing ce#1000.sam, ref ce.fa: 448s ./test_view -S -b ce#1000.sam > ce#1000.tmp.bam 448s ./test_view ce#1000.tmp.bam > ce#1000.tmp.bam.sam_ 448s ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_ 448s ./test_view -S -l0 -b ce#1000.sam > ce#1000.tmp.bam 448s ./test_view ce#1000.tmp.bam > ce#1000.tmp.bam.sam_ 448s ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_ 448s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#1000.sam > ce#1000.tmp.cram 448s ./test_view -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 448s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 448s ./test_view -t ce.fa -S -l0 -C -o VERSION=3.0 ce#1000.sam > ce#1000.tmp.cram 448s ./test_view -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 448s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 448s ./test_view -t ce.fa -C -o VERSION=3.0 ce#1000.tmp.bam > ce#1000.tmp.bam.cram 448s ./test_view ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.bam.sam_ 448s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing ce#2.sam, ref ce.fa: 448s ./test_view -S -l0 -b ce#2.sam > ce#2.tmp.bam 448s ./test_view ce#2.tmp.bam > ce#2.tmp.bam.sam_ 448s ./compare_sam.pl ce#2.sam ce#2.tmp.bam.sam_ 448s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#2.sam > ce#2.tmp.cram 448s ./test_view -D ce#2.tmp.cram > ce#2.tmp.cram.sam_ 448s ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.cram.sam_ 448s ./test_view -t ce.fa -C -o VERSION=3.0 ce#2.tmp.bam > ce#2.tmp.bam.cram 448s ./test_view ce#2.tmp.bam.cram > ce#2.tmp.bam.cram.bam.sam_ 448s ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing ce#5.sam, ref ce.fa: 448s ./test_view -S -l0 -b ce#5.sam > ce#5.tmp.bam 448s ./test_view ce#5.tmp.bam > ce#5.tmp.bam.sam_ 448s ./compare_sam.pl ce#5.sam ce#5.tmp.bam.sam_ 448s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#5.sam > ce#5.tmp.cram 448s ./test_view -D ce#5.tmp.cram > ce#5.tmp.cram.sam_ 448s ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_ 448s ./test_view -t ce.fa -C -o VERSION=3.0 ce#5.tmp.bam > ce#5.tmp.bam.cram 448s ./test_view ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.bam.sam_ 448s ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.bam.sam_ 448s .. ok 448s 448s test_view testing ce#5b.sam, ref ce.fa: 448s ./test_view -S -l0 -b ce#5b.sam > ce#5b.tmp.bam 448s ./test_view ce#5b.tmp.bam > ce#5b.tmp.bam.sam_ 449s ./compare_sam.pl ce#5b.sam ce#5b.tmp.bam.sam_ 449s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#5b.sam > ce#5b.tmp.cram 449s ./test_view -D ce#5b.tmp.cram > ce#5b.tmp.cram.sam_ 449s ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.cram.sam_ 449s ./test_view -t ce.fa -C -o VERSION=3.0 ce#5b.tmp.bam > ce#5b.tmp.bam.cram 449s ./test_view ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.bam.sam_ 449s ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.bam.sam_ 449s ./test_view -i reference=ce.fa ce#5b_java.cram > ce#5b_java.tmp.sam_ 449s ./compare_sam.pl -Baux -nomd ce#5b.sam ce#5b_java.tmp.sam_ 449s .. ok 449s 449s test_view testing ce#large_seq.sam, ref ce.fa: 449s ./test_view -S -l0 -b ce#large_seq.sam > ce#large_seq.tmp.bam 449s ./test_view ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.sam_ 449s ./compare_sam.pl ce#large_seq.sam ce#large_seq.tmp.bam.sam_ 449s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#large_seq.sam > ce#large_seq.tmp.cram 449s ./test_view -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ 449s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ 449s ./test_view -t ce.fa -C -o VERSION=3.0 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.cram 449s ./test_view ce#large_seq.tmp.bam.cram > ce#large_seq.tmp.bam.cram.bam.sam_ 449s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.bam.cram.bam.sam_ 449s .. ok 449s 449s test_view testing ce#supp.sam, ref ce.fa: 449s ./test_view -S -l0 -b ce#supp.sam > ce#supp.tmp.bam 449s ./test_view ce#supp.tmp.bam > ce#supp.tmp.bam.sam_ 449s ./compare_sam.pl ce#supp.sam ce#supp.tmp.bam.sam_ 449s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#supp.sam > ce#supp.tmp.cram 449s ./test_view -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_ 449s ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_ 449s ./test_view -t ce.fa -C -o VERSION=3.0 ce#supp.tmp.bam > ce#supp.tmp.bam.cram 449s ./test_view ce#supp.tmp.bam.cram > ce#supp.tmp.bam.cram.bam.sam_ 449s ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.bam.cram.bam.sam_ 449s .. ok 449s 449s test_view testing ce#tag_depadded.sam, ref ce.fa: 449s ./test_view -S -l0 -b ce#tag_depadded.sam > ce#tag_depadded.tmp.bam 449s ./test_view ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.sam_ 449s ./compare_sam.pl ce#tag_depadded.sam ce#tag_depadded.tmp.bam.sam_ 449s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#tag_depadded.sam > ce#tag_depadded.tmp.cram 449s ./test_view -D ce#tag_depadded.tmp.cram > ce#tag_depadded.tmp.cram.sam_ 449s ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.cram.sam_ 449s ./test_view -t ce.fa -C -o VERSION=3.0 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.cram 449s ./test_view ce#tag_depadded.tmp.bam.cram > ce#tag_depadded.tmp.bam.cram.bam.sam_ 449s ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.bam.cram.bam.sam_ 449s .. ok 449s 449s test_view testing ce#tag_padded.sam, ref ce.fa: 449s ./test_view -S -l0 -b ce#tag_padded.sam > ce#tag_padded.tmp.bam 449s ./test_view ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.sam_ 449s ./compare_sam.pl ce#tag_padded.sam ce#tag_padded.tmp.bam.sam_ 449s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#tag_padded.sam > ce#tag_padded.tmp.cram 449s ./test_view -D ce#tag_padded.tmp.cram > ce#tag_padded.tmp.cram.sam_ 449s ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.cram.sam_ 449s ./test_view -t ce.fa -C -o VERSION=3.0 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.cram 449s ./test_view ce#tag_padded.tmp.bam.cram > ce#tag_padded.tmp.bam.cram.bam.sam_ 449s ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing ce#unmap.sam, ref ce.fa: 450s ./test_view -S -l0 -b ce#unmap.sam > ce#unmap.tmp.bam 450s ./test_view ce#unmap.tmp.bam > ce#unmap.tmp.bam.sam_ 450s ./compare_sam.pl ce#unmap.sam ce#unmap.tmp.bam.sam_ 450s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#unmap.sam > ce#unmap.tmp.cram 450s ./test_view -D ce#unmap.tmp.cram > ce#unmap.tmp.cram.sam_ 450s ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.cram.sam_ 450s ./test_view -t ce.fa -C -o VERSION=3.0 ce#unmap.tmp.bam > ce#unmap.tmp.bam.cram 450s ./test_view ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing ce#unmap1.sam, ref ce.fa: 450s ./test_view -S -l0 -b ce#unmap1.sam > ce#unmap1.tmp.bam 450s ./test_view ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.sam_ 450s ./compare_sam.pl ce#unmap1.sam ce#unmap1.tmp.bam.sam_ 450s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#unmap1.sam > ce#unmap1.tmp.cram 450s ./test_view -D ce#unmap1.tmp.cram > ce#unmap1.tmp.cram.sam_ 450s ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.cram.sam_ 450s ./test_view -t ce.fa -C -o VERSION=3.0 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.cram 450s ./test_view ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing ce#unmap2.sam, ref ce.fa: 450s ./test_view -S -l0 -b ce#unmap2.sam > ce#unmap2.tmp.bam 450s ./test_view ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.sam_ 450s ./compare_sam.pl ce#unmap2.sam ce#unmap2.tmp.bam.sam_ 450s ./test_view -t ce.fa -S -C -o VERSION=2.1 ce#unmap2.sam > ce#unmap2.tmp.cram 450s ./test_view -D ce#unmap2.tmp.cram > ce#unmap2.tmp.cram.sam_ 450s ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.cram.sam_ 450s ./test_view -t ce.fa -C -o VERSION=3.0 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.cram 450s ./test_view ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing md#1.sam, ref md.fa: 450s ./test_view -S -l0 -b md#1.sam > md#1.tmp.bam 450s ./test_view md#1.tmp.bam > md#1.tmp.bam.sam_ 450s ./compare_sam.pl md#1.sam md#1.tmp.bam.sam_ 450s ./test_view -t md.fa -S -C -o VERSION=2.1 md#1.sam > md#1.tmp.cram 450s ./test_view -D md#1.tmp.cram > md#1.tmp.cram.sam_ 450s ./compare_sam.pl md#1.sam md#1.tmp.cram.sam_ 450s ./test_view -t md.fa -C -o VERSION=3.0 md#1.tmp.bam > md#1.tmp.bam.cram 450s ./test_view md#1.tmp.bam.cram > md#1.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl md#1.sam md#1.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing xx#blank.sam, ref xx.fa: 450s ./test_view -S -l0 -b xx#blank.sam > xx#blank.tmp.bam 450s ./test_view xx#blank.tmp.bam > xx#blank.tmp.bam.sam_ 450s ./compare_sam.pl xx#blank.sam xx#blank.tmp.bam.sam_ 450s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#blank.sam > xx#blank.tmp.cram 450s ./test_view -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_ 450s ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_ 450s ./test_view -t xx.fa -C -o VERSION=3.0 xx#blank.tmp.bam > xx#blank.tmp.bam.cram 450s ./test_view xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing xx#large_aux.sam, ref xx.fa: 450s ./test_view -S -l0 -b xx#large_aux.sam > xx#large_aux.tmp.bam 450s ./test_view xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.sam_ 450s ./compare_sam.pl xx#large_aux.sam xx#large_aux.tmp.bam.sam_ 450s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#large_aux.sam > xx#large_aux.tmp.cram 450s ./test_view -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ 450s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ 450s ./test_view -t xx.fa -C -o VERSION=3.0 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.cram 450s ./test_view xx#large_aux.tmp.bam.cram > xx#large_aux.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.bam.cram.bam.sam_ 450s ./test_view -i reference=xx.fa xx#large_aux_java.cram > xx#large_aux_java.tmp.sam_ 450s [W::sanitise_SQ_lines] Header @SQ length mismatch for ref xx, 30 vs 20 450s ./compare_sam.pl -Baux -nomd xx#large_aux.sam xx#large_aux_java.tmp.sam_ 450s .. ok 450s 450s test_view testing xx#large_aux2.sam, ref xx.fa: 450s ./test_view -S -l0 -b xx#large_aux2.sam > xx#large_aux2.tmp.bam 450s ./test_view xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.sam_ 450s ./compare_sam.pl xx#large_aux2.sam xx#large_aux2.tmp.bam.sam_ 450s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#large_aux2.sam > xx#large_aux2.tmp.cram 450s ./test_view -D xx#large_aux2.tmp.cram > xx#large_aux2.tmp.cram.sam_ 450s ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.cram.sam_ 450s ./test_view -t xx.fa -C -o VERSION=3.0 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.cram 450s ./test_view xx#large_aux2.tmp.bam.cram > xx#large_aux2.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing xx#MD.sam, ref xx.fa: 450s ./test_view -S -l0 -b xx#MD.sam > xx#MD.tmp.bam 450s ./test_view xx#MD.tmp.bam > xx#MD.tmp.bam.sam_ 450s ./compare_sam.pl xx#MD.sam xx#MD.tmp.bam.sam_ 450s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#MD.sam > xx#MD.tmp.cram 450s ./test_view -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ 450s ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_ 450s ./test_view -t xx.fa -C -o VERSION=3.0 xx#MD.tmp.bam > xx#MD.tmp.bam.cram 450s ./test_view xx#MD.tmp.bam.cram > xx#MD.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing xx#MD2.sam, ref xx.fa: 450s ./test_view -S -l0 -b xx#MD2.sam > xx#MD2.tmp.bam 450s ./test_view xx#MD2.tmp.bam > xx#MD2.tmp.bam.sam_ 450s ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.bam.sam_ 450s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#MD2.sam > xx#MD2.tmp.cram 450s ./test_view -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ 450s ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.cram.sam_ 450s ./test_view -t xx.fa -C -o VERSION=3.0 xx#MD2.tmp.bam > xx#MD2.tmp.bam.cram 450s ./test_view xx#MD2.tmp.bam.cram > xx#MD2.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.bam.cram.bam.sam_ 450s .. ok 450s 450s test_view testing xx#minimal.sam, ref xx.fa: 450s ./test_view -S -l0 -b xx#minimal.sam > xx#minimal.tmp.bam 450s ./test_view xx#minimal.tmp.bam > xx#minimal.tmp.bam.sam_ 450s ./compare_sam.pl xx#minimal.sam xx#minimal.tmp.bam.sam_ 450s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#minimal.sam > xx#minimal.tmp.cram 450s ./test_view -D xx#minimal.tmp.cram > xx#minimal.tmp.cram.sam_ 450s ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.cram.sam_ 450s ./test_view -t xx.fa -C -o VERSION=3.0 xx#minimal.tmp.bam > xx#minimal.tmp.bam.cram 450s ./test_view xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.bam.sam_ 450s ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.bam.sam_ 451s .. ok 451s 451s test_view testing xx#pair.sam, ref xx.fa: 451s ./test_view -S -l0 -b xx#pair.sam > xx#pair.tmp.bam 451s ./test_view xx#pair.tmp.bam > xx#pair.tmp.bam.sam_ 451s ./compare_sam.pl xx#pair.sam xx#pair.tmp.bam.sam_ 451s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#pair.sam > xx#pair.tmp.cram 451s ./test_view -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_ 451s ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_ 451s ./test_view -t xx.fa -C -o VERSION=3.0 xx#pair.tmp.bam > xx#pair.tmp.bam.cram 451s ./test_view xx#pair.tmp.bam.cram > xx#pair.tmp.bam.cram.bam.sam_ 451s ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.bam.cram.bam.sam_ 451s .. ok 451s 451s test_view testing xx#repeated.sam, ref xx.fa: 451s ./test_view -S -l0 -b xx#repeated.sam > xx#repeated.tmp.bam 451s ./test_view xx#repeated.tmp.bam > xx#repeated.tmp.bam.sam_ 451s ./compare_sam.pl xx#repeated.sam xx#repeated.tmp.bam.sam_ 451s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#repeated.sam > xx#repeated.tmp.cram 451s ./test_view -D xx#repeated.tmp.cram > xx#repeated.tmp.cram.sam_ 451s ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.cram.sam_ 451s ./test_view -t xx.fa -C -o VERSION=3.0 xx#repeated.tmp.bam > xx#repeated.tmp.bam.cram 451s ./test_view xx#repeated.tmp.bam.cram > xx#repeated.tmp.bam.cram.bam.sam_ 451s ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.bam.cram.bam.sam_ 451s .. ok 451s 451s test_view testing xx#rg.sam, ref xx.fa: 451s ./test_view -S -l0 -b xx#rg.sam > xx#rg.tmp.bam 451s ./test_view xx#rg.tmp.bam > xx#rg.tmp.bam.sam_ 451s ./compare_sam.pl xx#rg.sam xx#rg.tmp.bam.sam_ 451s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#rg.sam > xx#rg.tmp.cram 451s ./test_view -D xx#rg.tmp.cram > xx#rg.tmp.cram.sam_ 451s ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.cram.sam_ 451s ./test_view -t xx.fa -C -o VERSION=3.0 xx#rg.tmp.bam > xx#rg.tmp.bam.cram 451s ./test_view xx#rg.tmp.bam.cram > xx#rg.tmp.bam.cram.bam.sam_ 451s ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.bam.cram.bam.sam_ 451s .. ok 451s 451s test_view testing xx#tlen.sam, ref xx.fa: 451s ./test_view -S -l0 -b xx#tlen.sam > xx#tlen.tmp.bam 451s ./test_view xx#tlen.tmp.bam > xx#tlen.tmp.bam.sam_ 451s ./compare_sam.pl xx#tlen.sam xx#tlen.tmp.bam.sam_ 451s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#tlen.sam > xx#tlen.tmp.cram 451s ./test_view -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_ 451s ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_ 451s ./test_view -t xx.fa -C -o VERSION=3.0 xx#tlen.tmp.bam > xx#tlen.tmp.bam.cram 451s ./test_view xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.bam.sam_ 451s ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.bam.sam_ 451s .. ok 451s 451s test_view testing xx#tlen2.sam, ref xx.fa: 451s ./test_view -S -l0 -b xx#tlen2.sam > xx#tlen2.tmp.bam 451s ./test_view xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.sam_ 451s ./compare_sam.pl xx#tlen2.sam xx#tlen2.tmp.bam.sam_ 451s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#tlen2.sam > xx#tlen2.tmp.cram 451s ./test_view -D xx#tlen2.tmp.cram > xx#tlen2.tmp.cram.sam_ 451s ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.cram.sam_ 451s ./test_view -t xx.fa -C -o VERSION=3.0 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.cram 451s ./test_view xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.bam.sam_ 451s ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.bam.sam_ 451s .. ok 451s 451s test_view testing xx#triplet.sam, ref xx.fa: 451s ./test_view -S -l0 -b xx#triplet.sam > xx#triplet.tmp.bam 451s ./test_view xx#triplet.tmp.bam > xx#triplet.tmp.bam.sam_ 451s ./compare_sam.pl xx#triplet.sam xx#triplet.tmp.bam.sam_ 451s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#triplet.sam > xx#triplet.tmp.cram 451s ./test_view -D xx#triplet.tmp.cram > xx#triplet.tmp.cram.sam_ 451s ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.cram.sam_ 451s ./test_view -t xx.fa -C -o VERSION=3.0 xx#triplet.tmp.bam > xx#triplet.tmp.bam.cram 451s ./test_view xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.bam.sam_ 451s ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.bam.sam_ 451s .. ok 451s 451s test_view testing xx#unsorted.sam, ref xx.fa: 451s ./test_view -S -l0 -b xx#unsorted.sam > xx#unsorted.tmp.bam 451s ./test_view xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.sam_ 451s ./compare_sam.pl xx#unsorted.sam xx#unsorted.tmp.bam.sam_ 451s ./test_view -t xx.fa -S -C -o VERSION=2.1 xx#unsorted.sam > xx#unsorted.tmp.cram 451s ./test_view -D xx#unsorted.tmp.cram > xx#unsorted.tmp.cram.sam_ 451s ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.cram.sam_ 451s ./test_view -t xx.fa -C -o VERSION=3.0 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.cram 451s ./test_view xx#unsorted.tmp.bam.cram > xx#unsorted.tmp.bam.cram.bam.sam_ 451s ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.bam.cram.bam.sam_ 451s .. ok 451s 451s test_view testing embed_ref=2: 451s ./test_view -C -p ce#1000_er.tmp.cram ce#1000.sam 451s [W::cram_get_ref] Failed to populate reference for id 0 451s [W::cram_write_SAM_hdr] No M5 tags present and could not find reference 451s [W::cram_write_SAM_hdr] Enabling embed_ref=2 option 451s [W::cram_write_SAM_hdr] NOTE: the CRAM file will be bigger than using an external reference 451s ./test_view -p ce#1000_er.tmp.cram.sam ce#1000_er.tmp.cram 451s ./compare_sam.pl ce#1000.sam ce#1000_er.tmp.cram.sam 451s .. ok 451s 451s test_view testing region queries: 451s ./test_view -i reference=ce.fa range.cram CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp 451s ./compare_sam.pl range.tmp range.out 451s ./test_view range.bam CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp 451s ./compare_sam.pl range.tmp range.out 451s .. ok 451s 451s test_view testing BAM files with absent @SQ lines: 451s ./test_view -p no_hdr_sq_1.tmp.sam no_hdr_sq_1.bam 451s ./compare_sam.pl no_hdr_sq_1.tmp.sam no_hdr_sq_1.expected.sam 451s ./test_view -p no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.bam CHROMOSOME_I 451s ./compare_sam.pl no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.expected.sam 451s .. ok 451s 451s test_view testing large (> 2Gbases) positions: 451s ./test_view -z -p longrefs/longref.tmp.sam.gz -x longrefs/longref.tmp.sam.gz.csi.otf -m 14 longrefs/longref.sam 451s ./test_view -p longrefs/longref.tmp.sam_ longrefs/longref.tmp.sam.gz 451s ./compare_sam.pl longrefs/longref.sam longrefs/longref.tmp.sam_ 451s test_view: 451s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c longrefs/longref.tmp.sam.gz 451s .. ok 451s 451s ./test_view -p longrefs/longref_itr.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 451s ./compare_sam.pl longrefs/longref_itr.expected.sam longrefs/longref_itr.tmp.sam 451s ./test_view -M -p longrefs/longref_multi.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 CHROMOSOME_I:10000000100-10000000110 451s ./compare_sam.pl longrefs/longref_multi.expected.sam longrefs/longref_multi.tmp.sam 451s .. ok 451s 451s test_view testing auxf#values.sam, ref auxf.fa: 451s ./test_view -@4 -S -l0 -b auxf#values.sam > auxf#values.tmp.bam 452s ./test_view -@4 auxf#values.tmp.bam > auxf#values.tmp.bam.sam_ 452s ./compare_sam.pl auxf#values.sam auxf#values.tmp.bam.sam_ 452s ./test_view -@4 -t auxf.fa -S -C -o VERSION=2.1 auxf#values.sam > auxf#values.tmp.cram 452s ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_ 452s ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_ 452s ./test_view -@4 -t auxf.fa -C -o VERSION=3.0 auxf#values.tmp.bam > auxf#values.tmp.bam.cram 452s ./test_view -@4 auxf#values.tmp.bam.cram > auxf#values.tmp.bam.cram.bam.sam_ 452s ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.bam.cram.bam.sam_ 452s ./test_view -@4 -t auxf.fa -S -l7 -C -o VERSION=3.1 -o archive auxf#values.sam > auxf#values.tmp.cram 452s ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_ 452s ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_ 452s ./test_view -@4 -t auxf.fa -S -l7 -C -o VERSION=4.0 -o archive auxf#values.sam > auxf#values.tmp.cram 452s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 452s This is a technology demonstration that should not be used for archival data. 452s ./test_view -@4 -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_ 452s ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_ 452s ./test_view -@4 -i reference=auxf.fa auxf#values_java.cram > auxf#values_java.tmp.sam_ 452s ./compare_sam.pl -Baux -nomd auxf#values.sam auxf#values_java.tmp.sam_ 452s .. ok 452s 452s test_view testing c1#bounds.sam, ref c1.fa: 452s ./test_view -@4 -S -l0 -b c1#bounds.sam > c1#bounds.tmp.bam 452s ./test_view -@4 c1#bounds.tmp.bam > c1#bounds.tmp.bam.sam_ 452s ./compare_sam.pl c1#bounds.sam c1#bounds.tmp.bam.sam_ 452s ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#bounds.sam > c1#bounds.tmp.cram 452s ./test_view -@4 -D c1#bounds.tmp.cram > c1#bounds.tmp.cram.sam_ 453s ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.cram.sam_ 453s ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#bounds.tmp.bam > c1#bounds.tmp.bam.cram 453s ./test_view -@4 c1#bounds.tmp.bam.cram > c1#bounds.tmp.bam.cram.bam.sam_ 453s ./compare_sam.pl -nomd c1#bounds.sam c1#bounds.tmp.bam.cram.bam.sam_ 453s .. ok 453s 453s test_view testing c1#clip.sam, ref c1.fa: 453s ./test_view -@4 -S -l0 -b c1#clip.sam > c1#clip.tmp.bam 453s ./test_view -@4 c1#clip.tmp.bam > c1#clip.tmp.bam.sam_ 453s ./compare_sam.pl c1#clip.sam c1#clip.tmp.bam.sam_ 453s ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#clip.sam > c1#clip.tmp.cram 453s ./test_view -@4 -D c1#clip.tmp.cram > c1#clip.tmp.cram.sam_ 453s ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.cram.sam_ 453s ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#clip.tmp.bam > c1#clip.tmp.bam.cram 453s ./test_view -@4 c1#clip.tmp.bam.cram > c1#clip.tmp.bam.cram.bam.sam_ 453s ./compare_sam.pl -nomd c1#clip.sam c1#clip.tmp.bam.cram.bam.sam_ 453s .. ok 453s 453s test_view testing c1#noseq.sam, ref c1.fa: 453s ./test_view -@4 -S -l0 -b c1#noseq.sam > c1#noseq.tmp.bam 453s ./test_view -@4 c1#noseq.tmp.bam > c1#noseq.tmp.bam.sam_ 453s ./compare_sam.pl c1#noseq.sam c1#noseq.tmp.bam.sam_ 453s ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#noseq.sam > c1#noseq.tmp.cram 453s ./test_view -@4 -D c1#noseq.tmp.cram > c1#noseq.tmp.cram.sam_ 453s ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.cram.sam_ 453s ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#noseq.tmp.bam > c1#noseq.tmp.bam.cram 453s ./test_view -@4 c1#noseq.tmp.bam.cram > c1#noseq.tmp.bam.cram.bam.sam_ 453s ./compare_sam.pl -nomd c1#noseq.sam c1#noseq.tmp.bam.cram.bam.sam_ 453s .. ok 453s 453s test_view testing c1#pad1.sam, ref c1.fa: 453s ./test_view -@4 -S -l0 -b c1#pad1.sam > c1#pad1.tmp.bam 453s ./test_view -@4 c1#pad1.tmp.bam > c1#pad1.tmp.bam.sam_ 453s ./compare_sam.pl c1#pad1.sam c1#pad1.tmp.bam.sam_ 453s ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad1.sam > c1#pad1.tmp.cram 453s ./test_view -@4 -D c1#pad1.tmp.cram > c1#pad1.tmp.cram.sam_ 453s ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.cram.sam_ 453s ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad1.tmp.bam > c1#pad1.tmp.bam.cram 453s ./test_view -@4 c1#pad1.tmp.bam.cram > c1#pad1.tmp.bam.cram.bam.sam_ 453s ./compare_sam.pl -nomd c1#pad1.sam c1#pad1.tmp.bam.cram.bam.sam_ 453s .. ok 453s 453s test_view testing c1#pad2.sam, ref c1.fa: 453s ./test_view -@4 -S -l0 -b c1#pad2.sam > c1#pad2.tmp.bam 453s ./test_view -@4 c1#pad2.tmp.bam > c1#pad2.tmp.bam.sam_ 453s ./compare_sam.pl c1#pad2.sam c1#pad2.tmp.bam.sam_ 453s ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad2.sam > c1#pad2.tmp.cram 453s ./test_view -@4 -D c1#pad2.tmp.cram > c1#pad2.tmp.cram.sam_ 453s ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.cram.sam_ 453s ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad2.tmp.bam > c1#pad2.tmp.bam.cram 453s ./test_view -@4 c1#pad2.tmp.bam.cram > c1#pad2.tmp.bam.cram.bam.sam_ 453s ./compare_sam.pl -nomd c1#pad2.sam c1#pad2.tmp.bam.cram.bam.sam_ 453s .. ok 453s 453s test_view testing c1#pad3.sam, ref c1.fa: 453s ./test_view -@4 -S -l0 -b c1#pad3.sam > c1#pad3.tmp.bam 453s ./test_view -@4 c1#pad3.tmp.bam > c1#pad3.tmp.bam.sam_ 453s ./compare_sam.pl c1#pad3.sam c1#pad3.tmp.bam.sam_ 453s ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#pad3.sam > c1#pad3.tmp.cram 453s ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_ 453s ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_ 453s ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#pad3.tmp.bam > c1#pad3.tmp.bam.cram 453s ./test_view -@4 c1#pad3.tmp.bam.cram > c1#pad3.tmp.bam.cram.bam.sam_ 453s ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.bam.cram.bam.sam_ 453s ./test_view -@4 -t c1.fa -S -l7 -C -o VERSION=3.1 -o archive c1#pad3.sam > c1#pad3.tmp.cram 454s ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_ 454s ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_ 454s ./test_view -@4 -t c1.fa -S -l7 -C -o VERSION=4.0 -o archive c1#pad3.sam > c1#pad3.tmp.cram 454s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 454s This is a technology demonstration that should not be used for archival data. 454s ./test_view -@4 -D c1#pad3.tmp.cram > c1#pad3.tmp.cram.sam_ 454s ./compare_sam.pl -nomd c1#pad3.sam c1#pad3.tmp.cram.sam_ 454s .. ok 454s 454s test_view testing c1#unknown.sam, ref c1.fa: 454s ./test_view -@4 -S -l0 -b c1#unknown.sam > c1#unknown.tmp.bam 454s ./test_view -@4 c1#unknown.tmp.bam > c1#unknown.tmp.bam.sam_ 454s ./compare_sam.pl c1#unknown.sam c1#unknown.tmp.bam.sam_ 454s ./test_view -@4 -t c1.fa -S -C -o VERSION=2.1 c1#unknown.sam > c1#unknown.tmp.cram 454s ./test_view -@4 -D c1#unknown.tmp.cram > c1#unknown.tmp.cram.sam_ 454s ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.cram.sam_ 454s ./test_view -@4 -t c1.fa -C -o VERSION=3.0 c1#unknown.tmp.bam > c1#unknown.tmp.bam.cram 454s ./test_view -@4 c1#unknown.tmp.bam.cram > c1#unknown.tmp.bam.cram.bam.sam_ 454s ./compare_sam.pl -nomd c1#unknown.sam c1#unknown.tmp.bam.cram.bam.sam_ 454s .. ok 454s 454s test_view testing c2#pad.sam, ref c2.fa: 454s ./test_view -@4 -S -l0 -b c2#pad.sam > c2#pad.tmp.bam 454s ./test_view -@4 c2#pad.tmp.bam > c2#pad.tmp.bam.sam_ 454s ./compare_sam.pl c2#pad.sam c2#pad.tmp.bam.sam_ 454s ./test_view -@4 -t c2.fa -S -C -o VERSION=2.1 c2#pad.sam > c2#pad.tmp.cram 454s ./test_view -@4 -D c2#pad.tmp.cram > c2#pad.tmp.cram.sam_ 454s ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.cram.sam_ 454s ./test_view -@4 -t c2.fa -C -o VERSION=3.0 c2#pad.tmp.bam > c2#pad.tmp.bam.cram 454s ./test_view -@4 c2#pad.tmp.bam.cram > c2#pad.tmp.bam.cram.bam.sam_ 454s ./compare_sam.pl -nomd c2#pad.sam c2#pad.tmp.bam.cram.bam.sam_ 454s .. ok 454s 454s test_view testing ce#1.sam, ref ce.fa: 454s ./test_view -@4 -S -l0 -b ce#1.sam > ce#1.tmp.bam 454s ./test_view -@4 ce#1.tmp.bam > ce#1.tmp.bam.sam_ 454s ./compare_sam.pl ce#1.sam ce#1.tmp.bam.sam_ 454s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#1.sam > ce#1.tmp.cram 454s ./test_view -@4 -D ce#1.tmp.cram > ce#1.tmp.cram.sam_ 454s ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.cram.sam_ 454s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#1.tmp.bam > ce#1.tmp.bam.cram 454s ./test_view -@4 ce#1.tmp.bam.cram > ce#1.tmp.bam.cram.bam.sam_ 454s ./compare_sam.pl -nomd ce#1.sam ce#1.tmp.bam.cram.bam.sam_ 454s .. ok 454s 454s test_view testing ce#1000.sam, ref ce.fa: 454s ./test_view -@4 -S -b ce#1000.sam > ce#1000.tmp.bam 454s ./test_view -@4 ce#1000.tmp.bam > ce#1000.tmp.bam.sam_ 454s ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_ 455s ./test_view -@4 -S -l0 -b ce#1000.sam > ce#1000.tmp.bam 455s ./test_view -@4 ce#1000.tmp.bam > ce#1000.tmp.bam.sam_ 455s ./compare_sam.pl ce#1000.sam ce#1000.tmp.bam.sam_ 455s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#1000.sam > ce#1000.tmp.cram 455s ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 455s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 455s ./test_view -@4 -t ce.fa -S -l0 -C -o VERSION=3.0 ce#1000.sam > ce#1000.tmp.cram 455s ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 455s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 455s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#1000.tmp.bam > ce#1000.tmp.bam.cram 455s ./test_view -@4 ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.bam.sam_ 455s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.bam.sam_ 455s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#1000.tmp.bam.cram > ce#1000.tmp.bam.cram.ms 455s ./test_view -@4 ce#1000.tmp.bam.cram.ms > ce#1000.tmp.bam.cram.sam_ 455s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.bam.cram.sam_ 455s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o fast ce#1000.sam > ce#1000.tmp.cram 455s ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 455s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 455s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o normal ce#1000.sam > ce#1000.tmp.cram 455s ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 455s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 455s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o small ce#1000.sam > ce#1000.tmp.cram 456s ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 456s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 456s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#1000.sam > ce#1000.tmp.cram 456s ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 456s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 457s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#1000.sam > ce#1000.tmp.cram 457s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 457s This is a technology demonstration that should not be used for archival data. 457s ./test_view -@4 -D ce#1000.tmp.cram > ce#1000.tmp.cram.sam_ 457s ./compare_sam.pl -nomd ce#1000.sam ce#1000.tmp.cram.sam_ 457s .. ok 457s 457s test_view testing ce#1000_er.tmp.cram.sam, ref ce.fa: 457s ./test_view -@4 -S -l0 -b ce#1000_er.tmp.cram.sam > ce#1000_er.tmp.cram.tmp.bam 457s ./test_view -@4 ce#1000_er.tmp.cram.tmp.bam > ce#1000_er.tmp.cram.tmp.bam.sam_ 457s ./compare_sam.pl ce#1000_er.tmp.cram.sam ce#1000_er.tmp.cram.tmp.bam.sam_ 457s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#1000_er.tmp.cram.sam > ce#1000_er.tmp.cram.tmp.cram 457s ./test_view -@4 -D ce#1000_er.tmp.cram.tmp.cram > ce#1000_er.tmp.cram.tmp.cram.sam_ 457s ./compare_sam.pl -nomd ce#1000_er.tmp.cram.sam ce#1000_er.tmp.cram.tmp.cram.sam_ 457s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#1000_er.tmp.cram.tmp.bam > ce#1000_er.tmp.cram.tmp.bam.cram 457s ./test_view -@4 ce#1000_er.tmp.cram.tmp.bam.cram > ce#1000_er.tmp.cram.tmp.bam.cram.bam.sam_ 457s ./compare_sam.pl -nomd ce#1000_er.tmp.cram.sam ce#1000_er.tmp.cram.tmp.bam.cram.bam.sam_ 457s .. ok 457s 457s test_view testing ce#2.sam, ref ce.fa: 457s ./test_view -@4 -S -l0 -b ce#2.sam > ce#2.tmp.bam 457s ./test_view -@4 ce#2.tmp.bam > ce#2.tmp.bam.sam_ 458s ./compare_sam.pl ce#2.sam ce#2.tmp.bam.sam_ 458s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#2.sam > ce#2.tmp.cram 458s ./test_view -@4 -D ce#2.tmp.cram > ce#2.tmp.cram.sam_ 458s ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.cram.sam_ 458s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#2.tmp.bam > ce#2.tmp.bam.cram 458s ./test_view -@4 ce#2.tmp.bam.cram > ce#2.tmp.bam.cram.bam.sam_ 458s ./compare_sam.pl -nomd ce#2.sam ce#2.tmp.bam.cram.bam.sam_ 458s .. ok 458s 458s test_view testing ce#5.sam, ref ce.fa: 458s ./test_view -@4 -S -l0 -b ce#5.sam > ce#5.tmp.bam 458s ./test_view -@4 ce#5.tmp.bam > ce#5.tmp.bam.sam_ 458s ./compare_sam.pl ce#5.sam ce#5.tmp.bam.sam_ 458s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#5.sam > ce#5.tmp.cram 458s ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_ 458s ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_ 458s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#5.tmp.bam > ce#5.tmp.bam.cram 458s ./test_view -@4 ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.bam.sam_ 458s ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.bam.sam_ 458s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#5.tmp.bam.cram > ce#5.tmp.bam.cram.ms 458s ./test_view -@4 ce#5.tmp.bam.cram.ms > ce#5.tmp.bam.cram.sam_ 458s ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.bam.cram.sam_ 458s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#5.sam > ce#5.tmp.cram 458s ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_ 458s ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_ 458s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#5.sam > ce#5.tmp.cram 458s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 458s This is a technology demonstration that should not be used for archival data. 459s ./test_view -@4 -D ce#5.tmp.cram > ce#5.tmp.cram.sam_ 459s ./compare_sam.pl -nomd ce#5.sam ce#5.tmp.cram.sam_ 459s .. ok 459s 459s test_view testing ce#5b.sam, ref ce.fa: 459s ./test_view -@4 -S -l0 -b ce#5b.sam > ce#5b.tmp.bam 459s ./test_view -@4 ce#5b.tmp.bam > ce#5b.tmp.bam.sam_ 459s ./compare_sam.pl ce#5b.sam ce#5b.tmp.bam.sam_ 459s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#5b.sam > ce#5b.tmp.cram 459s ./test_view -@4 -D ce#5b.tmp.cram > ce#5b.tmp.cram.sam_ 459s ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.cram.sam_ 459s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#5b.tmp.bam > ce#5b.tmp.bam.cram 459s ./test_view -@4 ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.bam.sam_ 459s ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.bam.sam_ 459s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#5b.tmp.bam.cram > ce#5b.tmp.bam.cram.ms 459s ./test_view -@4 ce#5b.tmp.bam.cram.ms > ce#5b.tmp.bam.cram.sam_ 459s ./compare_sam.pl -nomd ce#5b.sam ce#5b.tmp.bam.cram.sam_ 459s ./test_view -@4 -i reference=ce.fa ce#5b_java.cram > ce#5b_java.tmp.sam_ 459s ./compare_sam.pl -Baux -nomd ce#5b.sam ce#5b_java.tmp.sam_ 459s .. ok 459s 459s test_view testing ce#large_seq.sam, ref ce.fa: 459s ./test_view -@4 -S -l0 -b ce#large_seq.sam > ce#large_seq.tmp.bam 459s ./test_view -@4 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.sam_ 459s ./compare_sam.pl ce#large_seq.sam ce#large_seq.tmp.bam.sam_ 459s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#large_seq.sam > ce#large_seq.tmp.cram 459s ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ 459s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ 459s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#large_seq.tmp.bam > ce#large_seq.tmp.bam.cram 459s ./test_view -@4 ce#large_seq.tmp.bam.cram > ce#large_seq.tmp.bam.cram.bam.sam_ 459s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.bam.cram.bam.sam_ 460s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#large_seq.sam > ce#large_seq.tmp.cram 460s ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ 460s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ 461s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o fast ce#large_seq.sam > ce#large_seq.tmp.cram 461s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 461s This is a technology demonstration that should not be used for archival data. 461s ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ 461s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ 461s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o normal ce#large_seq.sam > ce#large_seq.tmp.cram 461s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 461s This is a technology demonstration that should not be used for archival data. 461s ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ 461s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ 461s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o small ce#large_seq.sam > ce#large_seq.tmp.cram 461s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 461s This is a technology demonstration that should not be used for archival data. 462s ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ 462s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ 462s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#large_seq.sam > ce#large_seq.tmp.cram 462s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 462s This is a technology demonstration that should not be used for archival data. 463s ./test_view -@4 -D ce#large_seq.tmp.cram > ce#large_seq.tmp.cram.sam_ 463s ./compare_sam.pl -nomd ce#large_seq.sam ce#large_seq.tmp.cram.sam_ 463s .. ok 463s 463s test_view testing ce#supp.sam, ref ce.fa: 463s ./test_view -@4 -S -l0 -b ce#supp.sam > ce#supp.tmp.bam 463s ./test_view -@4 ce#supp.tmp.bam > ce#supp.tmp.bam.sam_ 463s ./compare_sam.pl ce#supp.sam ce#supp.tmp.bam.sam_ 463s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#supp.sam > ce#supp.tmp.cram 463s ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_ 463s ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_ 463s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#supp.tmp.bam > ce#supp.tmp.bam.cram 463s ./test_view -@4 ce#supp.tmp.bam.cram > ce#supp.tmp.bam.cram.bam.sam_ 463s ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.bam.cram.bam.sam_ 463s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=3.1 -o archive ce#supp.sam > ce#supp.tmp.cram 463s ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_ 463s ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_ 463s ./test_view -@4 -t ce.fa -S -l7 -C -o VERSION=4.0 -o archive ce#supp.sam > ce#supp.tmp.cram 463s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 463s This is a technology demonstration that should not be used for archival data. 464s ./test_view -@4 -D ce#supp.tmp.cram > ce#supp.tmp.cram.sam_ 464s ./compare_sam.pl -nomd ce#supp.sam ce#supp.tmp.cram.sam_ 464s .. ok 464s 464s test_view testing ce#tag_depadded.sam, ref ce.fa: 464s ./test_view -@4 -S -l0 -b ce#tag_depadded.sam > ce#tag_depadded.tmp.bam 464s ./test_view -@4 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.sam_ 464s ./compare_sam.pl ce#tag_depadded.sam ce#tag_depadded.tmp.bam.sam_ 464s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#tag_depadded.sam > ce#tag_depadded.tmp.cram 464s ./test_view -@4 -D ce#tag_depadded.tmp.cram > ce#tag_depadded.tmp.cram.sam_ 464s ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.cram.sam_ 464s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#tag_depadded.tmp.bam > ce#tag_depadded.tmp.bam.cram 464s ./test_view -@4 ce#tag_depadded.tmp.bam.cram > ce#tag_depadded.tmp.bam.cram.bam.sam_ 464s ./compare_sam.pl -nomd ce#tag_depadded.sam ce#tag_depadded.tmp.bam.cram.bam.sam_ 464s .. ok 464s 464s test_view testing ce#tag_padded.sam, ref ce.fa: 464s ./test_view -@4 -S -l0 -b ce#tag_padded.sam > ce#tag_padded.tmp.bam 464s ./test_view -@4 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.sam_ 464s ./compare_sam.pl ce#tag_padded.sam ce#tag_padded.tmp.bam.sam_ 464s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#tag_padded.sam > ce#tag_padded.tmp.cram 464s ./test_view -@4 -D ce#tag_padded.tmp.cram > ce#tag_padded.tmp.cram.sam_ 464s ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.cram.sam_ 464s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#tag_padded.tmp.bam > ce#tag_padded.tmp.bam.cram 464s ./test_view -@4 ce#tag_padded.tmp.bam.cram > ce#tag_padded.tmp.bam.cram.bam.sam_ 464s ./compare_sam.pl -nomd ce#tag_padded.sam ce#tag_padded.tmp.bam.cram.bam.sam_ 464s .. ok 464s 464s test_view testing ce#unmap.sam, ref ce.fa: 464s ./test_view -@4 -S -l0 -b ce#unmap.sam > ce#unmap.tmp.bam 464s ./test_view -@4 ce#unmap.tmp.bam > ce#unmap.tmp.bam.sam_ 464s ./compare_sam.pl ce#unmap.sam ce#unmap.tmp.bam.sam_ 464s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap.sam > ce#unmap.tmp.cram 464s ./test_view -@4 -D ce#unmap.tmp.cram > ce#unmap.tmp.cram.sam_ 464s ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.cram.sam_ 464s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap.tmp.bam > ce#unmap.tmp.bam.cram 464s ./test_view -@4 ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.bam.sam_ 464s ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.bam.sam_ 464s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap.tmp.bam.cram > ce#unmap.tmp.bam.cram.ms 464s ./test_view -@4 ce#unmap.tmp.bam.cram.ms > ce#unmap.tmp.bam.cram.sam_ 464s ./compare_sam.pl -nomd ce#unmap.sam ce#unmap.tmp.bam.cram.sam_ 464s .. ok 464s 464s test_view testing ce#unmap1.sam, ref ce.fa: 464s ./test_view -@4 -S -l0 -b ce#unmap1.sam > ce#unmap1.tmp.bam 464s ./test_view -@4 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.sam_ 464s ./compare_sam.pl ce#unmap1.sam ce#unmap1.tmp.bam.sam_ 464s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap1.sam > ce#unmap1.tmp.cram 464s ./test_view -@4 -D ce#unmap1.tmp.cram > ce#unmap1.tmp.cram.sam_ 464s ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.cram.sam_ 464s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap1.tmp.bam > ce#unmap1.tmp.bam.cram 464s ./test_view -@4 ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.bam.sam_ 464s ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.bam.sam_ 464s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap1.tmp.bam.cram > ce#unmap1.tmp.bam.cram.ms 464s ./test_view -@4 ce#unmap1.tmp.bam.cram.ms > ce#unmap1.tmp.bam.cram.sam_ 464s ./compare_sam.pl -nomd ce#unmap1.sam ce#unmap1.tmp.bam.cram.sam_ 464s .. ok 464s 464s test_view testing ce#unmap2.sam, ref ce.fa: 464s ./test_view -@4 -S -l0 -b ce#unmap2.sam > ce#unmap2.tmp.bam 464s ./test_view -@4 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.sam_ 464s ./compare_sam.pl ce#unmap2.sam ce#unmap2.tmp.bam.sam_ 464s ./test_view -@4 -t ce.fa -S -C -o VERSION=2.1 ce#unmap2.sam > ce#unmap2.tmp.cram 464s ./test_view -@4 -D ce#unmap2.tmp.cram > ce#unmap2.tmp.cram.sam_ 464s ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.cram.sam_ 464s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 ce#unmap2.tmp.bam > ce#unmap2.tmp.bam.cram 464s ./test_view -@4 ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.bam.sam_ 465s ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.bam.sam_ 465s ./test_view -@4 -t ce.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 ce#unmap2.tmp.bam.cram > ce#unmap2.tmp.bam.cram.ms 465s ./test_view -@4 ce#unmap2.tmp.bam.cram.ms > ce#unmap2.tmp.bam.cram.sam_ 465s ./compare_sam.pl -nomd ce#unmap2.sam ce#unmap2.tmp.bam.cram.sam_ 465s .. ok 465s 465s test_view testing md#1.sam, ref md.fa: 465s ./test_view -@4 -S -l0 -b md#1.sam > md#1.tmp.bam 465s ./test_view -@4 md#1.tmp.bam > md#1.tmp.bam.sam_ 465s ./compare_sam.pl md#1.sam md#1.tmp.bam.sam_ 465s ./test_view -@4 -t md.fa -S -C -o VERSION=2.1 md#1.sam > md#1.tmp.cram 465s ./test_view -@4 -D md#1.tmp.cram > md#1.tmp.cram.sam_ 465s ./compare_sam.pl md#1.sam md#1.tmp.cram.sam_ 465s ./test_view -@4 -t md.fa -C -o VERSION=3.0 md#1.tmp.bam > md#1.tmp.bam.cram 465s ./test_view -@4 md#1.tmp.bam.cram > md#1.tmp.bam.cram.bam.sam_ 465s ./compare_sam.pl md#1.sam md#1.tmp.bam.cram.bam.sam_ 465s .. ok 465s 465s test_view testing xx#blank.sam, ref xx.fa: 465s ./test_view -@4 -S -l0 -b xx#blank.sam > xx#blank.tmp.bam 465s ./test_view -@4 xx#blank.tmp.bam > xx#blank.tmp.bam.sam_ 465s ./compare_sam.pl xx#blank.sam xx#blank.tmp.bam.sam_ 465s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#blank.sam > xx#blank.tmp.cram 465s ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_ 465s ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_ 465s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#blank.tmp.bam > xx#blank.tmp.bam.cram 465s ./test_view -@4 xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.bam.sam_ 465s ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.bam.sam_ 465s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#blank.tmp.bam.cram > xx#blank.tmp.bam.cram.ms 465s ./test_view -@4 xx#blank.tmp.bam.cram.ms > xx#blank.tmp.bam.cram.sam_ 465s ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.bam.cram.sam_ 465s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#blank.sam > xx#blank.tmp.cram 465s ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_ 465s ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_ 465s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#blank.sam > xx#blank.tmp.cram 465s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 465s This is a technology demonstration that should not be used for archival data. 465s ./test_view -@4 -D xx#blank.tmp.cram > xx#blank.tmp.cram.sam_ 465s ./compare_sam.pl -nomd xx#blank.sam xx#blank.tmp.cram.sam_ 465s .. ok 465s 465s test_view testing xx#large_aux.sam, ref xx.fa: 465s ./test_view -@4 -S -l0 -b xx#large_aux.sam > xx#large_aux.tmp.bam 465s ./test_view -@4 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.sam_ 465s ./compare_sam.pl xx#large_aux.sam xx#large_aux.tmp.bam.sam_ 465s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#large_aux.sam > xx#large_aux.tmp.cram 465s ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ 465s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ 465s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#large_aux.tmp.bam > xx#large_aux.tmp.bam.cram 465s ./test_view -@4 xx#large_aux.tmp.bam.cram > xx#large_aux.tmp.bam.cram.bam.sam_ 465s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.bam.cram.bam.sam_ 465s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#large_aux.sam > xx#large_aux.tmp.cram 465s ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ 466s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ 466s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o fast xx#large_aux.sam > xx#large_aux.tmp.cram 466s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 466s This is a technology demonstration that should not be used for archival data. 466s ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ 466s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ 466s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o normal xx#large_aux.sam > xx#large_aux.tmp.cram 466s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 466s This is a technology demonstration that should not be used for archival data. 466s ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ 466s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ 466s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o small xx#large_aux.sam > xx#large_aux.tmp.cram 466s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 466s This is a technology demonstration that should not be used for archival data. 466s ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ 466s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ 466s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#large_aux.sam > xx#large_aux.tmp.cram 466s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 466s This is a technology demonstration that should not be used for archival data. 466s ./test_view -@4 -D xx#large_aux.tmp.cram > xx#large_aux.tmp.cram.sam_ 466s ./compare_sam.pl -nomd xx#large_aux.sam xx#large_aux.tmp.cram.sam_ 466s ./test_view -@4 -i reference=xx.fa xx#large_aux_java.cram > xx#large_aux_java.tmp.sam_ 466s [W::sanitise_SQ_lines] Header @SQ length mismatch for ref xx, 30 vs 20 467s ./compare_sam.pl -Baux -nomd xx#large_aux.sam xx#large_aux_java.tmp.sam_ 467s .. ok 467s 467s test_view testing xx#large_aux2.sam, ref xx.fa: 467s ./test_view -@4 -S -l0 -b xx#large_aux2.sam > xx#large_aux2.tmp.bam 467s ./test_view -@4 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.sam_ 467s ./compare_sam.pl xx#large_aux2.sam xx#large_aux2.tmp.bam.sam_ 467s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#large_aux2.sam > xx#large_aux2.tmp.cram 467s ./test_view -@4 -D xx#large_aux2.tmp.cram > xx#large_aux2.tmp.cram.sam_ 467s ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.cram.sam_ 467s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#large_aux2.tmp.bam > xx#large_aux2.tmp.bam.cram 467s ./test_view -@4 xx#large_aux2.tmp.bam.cram > xx#large_aux2.tmp.bam.cram.bam.sam_ 467s ./compare_sam.pl -nomd xx#large_aux2.sam xx#large_aux2.tmp.bam.cram.bam.sam_ 467s .. ok 467s 467s test_view testing xx#MD.sam, ref xx.fa: 467s ./test_view -@4 -S -l0 -b xx#MD.sam > xx#MD.tmp.bam 467s ./test_view -@4 xx#MD.tmp.bam > xx#MD.tmp.bam.sam_ 467s ./compare_sam.pl xx#MD.sam xx#MD.tmp.bam.sam_ 467s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#MD.sam > xx#MD.tmp.cram 467s ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ 467s ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_ 467s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#MD.tmp.bam > xx#MD.tmp.bam.cram 467s ./test_view -@4 xx#MD.tmp.bam.cram > xx#MD.tmp.bam.cram.bam.sam_ 467s ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.bam.cram.bam.sam_ 467s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#MD.sam > xx#MD.tmp.cram 467s ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ 467s ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_ 467s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#MD.sam > xx#MD.tmp.cram 467s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 467s This is a technology demonstration that should not be used for archival data. 468s ./test_view -@4 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ 468s ./compare_sam.pl -nomd xx#MD.sam xx#MD.tmp.cram.sam_ 468s .. ok 468s 468s test_view testing xx#MD2.sam, ref xx.fa: 468s ./test_view -@4 -S -l0 -b xx#MD2.sam > xx#MD2.tmp.bam 468s ./test_view -@4 xx#MD2.tmp.bam > xx#MD2.tmp.bam.sam_ 468s ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.bam.sam_ 468s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#MD2.sam > xx#MD2.tmp.cram 468s ./test_view -@4 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ 468s ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.cram.sam_ 468s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#MD2.tmp.bam > xx#MD2.tmp.bam.cram 468s ./test_view -@4 xx#MD2.tmp.bam.cram > xx#MD2.tmp.bam.cram.bam.sam_ 468s ./compare_sam.pl -nomd xx#MD2.sam xx#MD2.tmp.bam.cram.bam.sam_ 468s .. ok 468s 468s test_view testing xx#minimal.sam, ref xx.fa: 468s ./test_view -@4 -S -l0 -b xx#minimal.sam > xx#minimal.tmp.bam 468s ./test_view -@4 xx#minimal.tmp.bam > xx#minimal.tmp.bam.sam_ 468s ./compare_sam.pl xx#minimal.sam xx#minimal.tmp.bam.sam_ 468s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#minimal.sam > xx#minimal.tmp.cram 468s ./test_view -@4 -D xx#minimal.tmp.cram > xx#minimal.tmp.cram.sam_ 468s ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.cram.sam_ 468s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#minimal.tmp.bam > xx#minimal.tmp.bam.cram 468s ./test_view -@4 xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.bam.sam_ 468s ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.bam.sam_ 468s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#minimal.tmp.bam.cram > xx#minimal.tmp.bam.cram.ms 468s ./test_view -@4 xx#minimal.tmp.bam.cram.ms > xx#minimal.tmp.bam.cram.sam_ 468s ./compare_sam.pl -nomd xx#minimal.sam xx#minimal.tmp.bam.cram.sam_ 468s .. ok 468s 468s test_view testing xx#pair.sam, ref xx.fa: 468s ./test_view -@4 -S -l0 -b xx#pair.sam > xx#pair.tmp.bam 468s ./test_view -@4 xx#pair.tmp.bam > xx#pair.tmp.bam.sam_ 468s ./compare_sam.pl xx#pair.sam xx#pair.tmp.bam.sam_ 468s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#pair.sam > xx#pair.tmp.cram 468s ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_ 468s ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_ 468s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#pair.tmp.bam > xx#pair.tmp.bam.cram 468s ./test_view -@4 xx#pair.tmp.bam.cram > xx#pair.tmp.bam.cram.bam.sam_ 468s ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.bam.cram.bam.sam_ 468s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#pair.sam > xx#pair.tmp.cram 468s ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_ 468s ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_ 468s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#pair.sam > xx#pair.tmp.cram 468s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 468s This is a technology demonstration that should not be used for archival data. 469s ./test_view -@4 -D xx#pair.tmp.cram > xx#pair.tmp.cram.sam_ 469s ./compare_sam.pl -nomd xx#pair.sam xx#pair.tmp.cram.sam_ 469s .. ok 469s 469s test_view testing xx#repeated.sam, ref xx.fa: 469s ./test_view -@4 -S -l0 -b xx#repeated.sam > xx#repeated.tmp.bam 469s ./test_view -@4 xx#repeated.tmp.bam > xx#repeated.tmp.bam.sam_ 469s ./compare_sam.pl xx#repeated.sam xx#repeated.tmp.bam.sam_ 469s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#repeated.sam > xx#repeated.tmp.cram 469s ./test_view -@4 -D xx#repeated.tmp.cram > xx#repeated.tmp.cram.sam_ 469s ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.cram.sam_ 469s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#repeated.tmp.bam > xx#repeated.tmp.bam.cram 469s ./test_view -@4 xx#repeated.tmp.bam.cram > xx#repeated.tmp.bam.cram.bam.sam_ 469s ./compare_sam.pl -nomd xx#repeated.sam xx#repeated.tmp.bam.cram.bam.sam_ 469s .. ok 469s 469s test_view testing xx#rg.sam, ref xx.fa: 469s ./test_view -@4 -S -l0 -b xx#rg.sam > xx#rg.tmp.bam 469s ./test_view -@4 xx#rg.tmp.bam > xx#rg.tmp.bam.sam_ 469s ./compare_sam.pl xx#rg.sam xx#rg.tmp.bam.sam_ 469s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#rg.sam > xx#rg.tmp.cram 469s ./test_view -@4 -D xx#rg.tmp.cram > xx#rg.tmp.cram.sam_ 469s ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.cram.sam_ 469s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#rg.tmp.bam > xx#rg.tmp.bam.cram 469s ./test_view -@4 xx#rg.tmp.bam.cram > xx#rg.tmp.bam.cram.bam.sam_ 469s ./compare_sam.pl -nomd xx#rg.sam xx#rg.tmp.bam.cram.bam.sam_ 469s .. ok 469s 469s test_view testing xx#tlen.sam, ref xx.fa: 469s ./test_view -@4 -S -l0 -b xx#tlen.sam > xx#tlen.tmp.bam 469s ./test_view -@4 xx#tlen.tmp.bam > xx#tlen.tmp.bam.sam_ 469s ./compare_sam.pl xx#tlen.sam xx#tlen.tmp.bam.sam_ 469s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#tlen.sam > xx#tlen.tmp.cram 469s ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_ 469s ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_ 469s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#tlen.tmp.bam > xx#tlen.tmp.bam.cram 469s ./test_view -@4 xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.bam.sam_ 469s ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.bam.sam_ 469s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#tlen.tmp.bam.cram > xx#tlen.tmp.bam.cram.ms 469s ./test_view -@4 xx#tlen.tmp.bam.cram.ms > xx#tlen.tmp.bam.cram.sam_ 469s ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.bam.cram.sam_ 469s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=3.1 -o archive xx#tlen.sam > xx#tlen.tmp.cram 470s ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_ 470s ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_ 470s ./test_view -@4 -t xx.fa -S -l7 -C -o VERSION=4.0 -o archive xx#tlen.sam > xx#tlen.tmp.cram 470s [W::cram_set_voption] CRAM version 4.0 is still a draft and subject to change. 470s This is a technology demonstration that should not be used for archival data. 471s ./test_view -@4 -D xx#tlen.tmp.cram > xx#tlen.tmp.cram.sam_ 471s ./compare_sam.pl -nomd xx#tlen.sam xx#tlen.tmp.cram.sam_ 471s .. ok 471s 471s test_view testing xx#tlen2.sam, ref xx.fa: 471s ./test_view -@4 -S -l0 -b xx#tlen2.sam > xx#tlen2.tmp.bam 471s ./test_view -@4 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.sam_ 471s ./compare_sam.pl xx#tlen2.sam xx#tlen2.tmp.bam.sam_ 471s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#tlen2.sam > xx#tlen2.tmp.cram 471s ./test_view -@4 -D xx#tlen2.tmp.cram > xx#tlen2.tmp.cram.sam_ 471s ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.cram.sam_ 471s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#tlen2.tmp.bam > xx#tlen2.tmp.bam.cram 471s ./test_view -@4 xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.bam.sam_ 471s ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.bam.sam_ 471s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#tlen2.tmp.bam.cram > xx#tlen2.tmp.bam.cram.ms 471s ./test_view -@4 xx#tlen2.tmp.bam.cram.ms > xx#tlen2.tmp.bam.cram.sam_ 471s ./compare_sam.pl -nomd xx#tlen2.sam xx#tlen2.tmp.bam.cram.sam_ 471s .. ok 471s 471s test_view testing xx#triplet.sam, ref xx.fa: 471s ./test_view -@4 -S -l0 -b xx#triplet.sam > xx#triplet.tmp.bam 471s ./test_view -@4 xx#triplet.tmp.bam > xx#triplet.tmp.bam.sam_ 471s ./compare_sam.pl xx#triplet.sam xx#triplet.tmp.bam.sam_ 471s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#triplet.sam > xx#triplet.tmp.cram 471s ./test_view -@4 -D xx#triplet.tmp.cram > xx#triplet.tmp.cram.sam_ 471s ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.cram.sam_ 471s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#triplet.tmp.bam > xx#triplet.tmp.bam.cram 471s ./test_view -@4 xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.bam.sam_ 471s ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.bam.sam_ 471s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 -o seqs_per_slice=7 -o slices_per_container=5 xx#triplet.tmp.bam.cram > xx#triplet.tmp.bam.cram.ms 471s ./test_view -@4 xx#triplet.tmp.bam.cram.ms > xx#triplet.tmp.bam.cram.sam_ 471s ./compare_sam.pl -nomd xx#triplet.sam xx#triplet.tmp.bam.cram.sam_ 471s .. ok 471s 471s test_view testing xx#unsorted.sam, ref xx.fa: 471s ./test_view -@4 -S -l0 -b xx#unsorted.sam > xx#unsorted.tmp.bam 471s ./test_view -@4 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.sam_ 471s ./compare_sam.pl xx#unsorted.sam xx#unsorted.tmp.bam.sam_ 471s ./test_view -@4 -t xx.fa -S -C -o VERSION=2.1 xx#unsorted.sam > xx#unsorted.tmp.cram 471s ./test_view -@4 -D xx#unsorted.tmp.cram > xx#unsorted.tmp.cram.sam_ 471s ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.cram.sam_ 471s ./test_view -@4 -t xx.fa -C -o VERSION=3.0 xx#unsorted.tmp.bam > xx#unsorted.tmp.bam.cram 471s ./test_view -@4 xx#unsorted.tmp.bam.cram > xx#unsorted.tmp.bam.cram.bam.sam_ 471s ./compare_sam.pl -nomd xx#unsorted.sam xx#unsorted.tmp.bam.cram.bam.sam_ 471s .. ok 471s 471s test_view testing embed_ref=2: 471s ./test_view -@4 -C -p ce#1000_er.tmp.cram ce#1000.sam 471s [W::cram_get_ref] Failed to populate reference for id 0 471s [W::cram_write_SAM_hdr] No M5 tags present and could not find reference 471s [W::cram_write_SAM_hdr] Enabling embed_ref=2 option 471s [W::cram_write_SAM_hdr] NOTE: the CRAM file will be bigger than using an external reference 471s ./test_view -@4 -p ce#1000_er.tmp.cram.sam ce#1000_er.tmp.cram 471s ./compare_sam.pl ce#1000.sam ce#1000_er.tmp.cram.sam 471s .. ok 471s 471s test_view testing region queries: 471s ./test_view -@4 -i reference=ce.fa range.cram CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp 471s ./compare_sam.pl range.tmp range.out 471s ./test_view -@4 range.bam CHROMOSOME_II:2980-2980 CHROMOSOME_IV:1500-1500 CHROMOSOME_II:2980-2980 CHROMOSOME_I:1000-1100 > range.tmp 471s ./compare_sam.pl range.tmp range.out 471s .. ok 471s 471s test_view testing BAM files with absent @SQ lines: 471s ./test_view -@4 -p no_hdr_sq_1.tmp.sam no_hdr_sq_1.bam 471s ./compare_sam.pl no_hdr_sq_1.tmp.sam no_hdr_sq_1.expected.sam 471s ./test_view -@4 -p no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.bam CHROMOSOME_I 471s ./compare_sam.pl no_hdr_sq_1.chr1.tmp.sam no_hdr_sq_1.expected.sam 471s .. ok 471s 471s test_view testing large (> 2Gbases) positions: 471s ./test_view -@4 -z -p longrefs/longref.tmp.sam.gz -x longrefs/longref.tmp.sam.gz.csi.otf -m 14 longrefs/longref.sam 471s ./test_view -@4 -p longrefs/longref.tmp.sam_ longrefs/longref.tmp.sam.gz 471s ./compare_sam.pl longrefs/longref.sam longrefs/longref.tmp.sam_ 471s test_view: 471s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_index -c longrefs/longref.tmp.sam.gz 471s .. ok 471s 471s ./test_view -@4 -p longrefs/longref_itr.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 471s ./compare_sam.pl longrefs/longref_itr.expected.sam longrefs/longref_itr.tmp.sam 471s ./test_view -@4 -M -p longrefs/longref_multi.tmp.sam longrefs/longref.tmp.sam.gz CHROMOSOME_I:10000000000-10000000003 CHROMOSOME_I:10000000100-10000000110 471s ./compare_sam.pl longrefs/longref_multi.expected.sam longrefs/longref_multi.tmp.sam 471s .. ok 471s 471s 471s test_MD testing xx#MD.sam, ref xx.fa: 471s ./test_view -o store_nm=1 -o store_md=1 -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram 471s ./test_view -i decode_md=0 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ 471s ./compare_sam.pl xx#MD.sam xx#MD.tmp.cram.sam_ 472s ./test_view -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram 472s ./test_view -i decode_md=0 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ 472s ./compare_sam.pl -partialmd=2 xx#MD.sam xx#MD.tmp.cram.sam_ 472s Checking for MD/NM in xx#MD.sam 472s ./test_view -t xx.fa -C xx#MD.sam > xx#MD.tmp.cram 472s ./test_view -i decode_md=1 -D xx#MD.tmp.cram > xx#MD.tmp.cram.sam_ 472s ./compare_sam.pl -partialmd=1 xx#MD.sam xx#MD.tmp.cram.sam_ 472s .. ok 472s 472s 472s test_MD testing xx#MD2.sam, ref xx.fa: 472s ./test_view -o store_nm=1 -o store_md=1 -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram 472s ./test_view -i decode_md=0 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ 472s ./compare_sam.pl xx#MD2.sam xx#MD2.tmp.cram.sam_ 472s ./test_view -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram 472s ./test_view -i decode_md=0 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ 472s ./compare_sam.pl -partialmd=2 xx#MD2.sam xx#MD2.tmp.cram.sam_ 472s ./test_view -t xx.fa -C xx#MD2.sam > xx#MD2.tmp.cram 472s ./test_view -i decode_md=1 -D xx#MD2.tmp.cram > xx#MD2.tmp.cram.sam_ 472s ./compare_sam.pl -partialmd=1 xx#MD2.sam xx#MD2.tmp.cram.sam_ 472s .. ok 472s 472s test_vcf_api: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-vcf-api /tmp/BVyXYmgknn/test-vcf-api.bcf 472s .. ok 472s 472s test_bcf2vcf: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/tabix/vcf_file.bcf 472s .. ok 472s 472s test_vcf_sweep: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-vcf-sweep /tmp/BVyXYmgknn/test-vcf-api.bcf 472s .. ok 472s 472s test_vcf_various: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/htsfile -ch /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-vcf-hdr-in.vcf 472s .. ok 472s 472s test_vcf_various: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/htsfile -c /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/formatcols.vcf 472s .. ok 472s 472s test_vcf_various: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/htsfile -c /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/noroundtrip.vcf 472s .. ok 472s 472s test_vcf_various: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/htsfile -c /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/formatmissing.vcf 472s .. ok 472s 472s test_vcf_various: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/htsfile -c /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/vcf_meta_meta.vcf 472s .. ok 472s 472s test_vcf_various: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/modhdr.vcf.gz chr22:1-2 472s .. ok 472s 472s test-bcf-sr: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 74452500 472s .. ok 472s 472s test-bcf-sr: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 34270147 472s .. ok 472s 472s test-bcf-sr: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 11108528 472s .. ok 472s 472s test-bcf-sr: 472s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 42233895 473s .. ok 473s 473s test-bcf-sr: 473s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 8111117 473s .. ok 473s 473s test-bcf-sr: 473s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 85644070 473s .. ok 473s 473s test-bcf-sr: 473s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 49879942 473s .. ok 473s 473s test-bcf-sr: 473s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 47881429 473s .. ok 473s 473s test-bcf-sr: 473s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 69081244 473s .. ok 473s 473s test-bcf-sr: 473s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr.pl -t /tmp/BVyXYmgknn -s 83459376 474s .. ok 474s 474s test_bcf_sr_no_index: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr --no-index -p all --args /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.a.vcf /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.b.vcf /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.c.vcf 2> /tmp/BVyXYmgknn/no_index_1.err 474s .. ok 474s 474s test_bcf_sr_no_index: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr --no-index -p all --args /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.a.vcf /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.hdr_order.vcf > /tmp/BVyXYmgknn/no_index_2.out 2> /tmp/BVyXYmgknn/no_index_2.err (expected fail) 474s .. ok 474s 474s test_bcf_sr_no_index: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr --no-index -p all --args /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.a.vcf /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.rec_order.vcf > /tmp/BVyXYmgknn/no_index_3.out 2> /tmp/BVyXYmgknn/no_index_3.err (expected fail) 474s .. ok 474s 474s test_bcf_sr_no_index: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr --no-index -p all --args /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.rec_order.vcf /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/merge.noidx.a.vcf > /tmp/BVyXYmgknn/no_index_4.out 2> /tmp/BVyXYmgknn/no_index_4.err (expected fail) 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -b -p /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf -x /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf.csi /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bcf-sr/weird-chr-names.vcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_1.out.vcf -r '1' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_2.out.vcf -r '1:1-2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_3.out.vcf -r '1:1,1:2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_4.out.vcf -r '1:1-1' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_5.out.vcf -r '{1:1}' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_6.out.vcf -r '{1:1}:1-2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_7.out.vcf -r '{1:1}:1,{1:1}:2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_8.out.vcf -r '{1:1}:1-1' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_9.out.vcf -r '{1:1-1}' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_10.out.vcf -r '{1:1-1}:1-2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_11.out.vcf -r '{1:1-1}:1,{1:1-1}:2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_12.out.vcf -r '{1:1-1}:1-1' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_13.out.vcf -r '{1:1-1}-2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf (expected fail) 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_14.out.vcf -t '1' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_15.out.vcf -t '1:1-2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s [E::_regions_init_string] Could not parse the region(s): {1:1-1}-2 474s Failed to set regions 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_16.out.vcf -t '1:1,1:2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_17.out.vcf -t '1:1-1' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_18.out.vcf -t '{1:1}' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_19.out.vcf -t '{1:1}:1-2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_20.out.vcf -t '{1:1}:1,{1:1}:2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_21.out.vcf -t '{1:1}:1-1' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_22.out.vcf -t '{1:1-1}' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_23.out.vcf -t '{1:1-1}:1-2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_24.out.vcf -t '{1:1-1}:1,{1:1-1}:2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_25.out.vcf -t '{1:1-1}:1-1' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf 474s .. ok 474s 474s test_bcf_sr_range: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-sr -O vcf -o /tmp/BVyXYmgknn/range_test_26.out.vcf -t '{1:1-1}-2' --args /tmp/BVyXYmgknn/weird-chr-names.vcf.bcf (expected fail) 474s .. ok 474s 474s test_command: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf-translate - 474s [E::_regions_init_string] Could not parse the region(s): {1:1-1}-2 474s Failed to set targets 474s .. ok 474s 474s test_convert_padded_header: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -t ce.fa -C /tmp/BVyXYmgknn/headernul0.bam 474s .. ok 474s 474s test_convert_padded_header: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -t ce.fa -C /tmp/BVyXYmgknn/headernul1.bam 474s .. ok 474s 474s test_convert_padded_header: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_view -t ce.fa -C /tmp/BVyXYmgknn/headernul678.bam 474s .. ok 474s 474s test_rebgzip: Alternate zlib/deflate library detected 474s test_rebgzip: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/bgzip -I /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bgziptest.txt.tmp.gz.gzi -c -g /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/bgziptest.txt 474s .. ok 474s 474s test-logging: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-logging.pl 474s .. ok 474s 474s test_plugin_loading: 474s HTS_PATH=/tmp/autopkgtest.kDs0D2/autopkgtest_tmp /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/with-shlib.sh /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/htsfile https://localhost:99999/invalid_port 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn01.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn01.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -a -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn01.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn01.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -a -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -e -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn01.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn01.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -e -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -r -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02-r.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -a -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02_exp.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02.fa -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn02_exp-a.sam -o - 474s .. ok 474s 474s test_realn: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test_realn -f /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn03.fa -e -i /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/realn03.sam -o - 474s .. ok 474s 474s test-bcf_set_variant_type: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/test-bcf_set_variant_type 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap --allow-dups -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap --allow-dups -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap --allow-dups -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -c chr,beg,end -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -c chr,beg,end -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -c chr,beg,end -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl,value:overlap,value -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl,value:overlap,value -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl,value:overlap,value -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -O 0.5 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -O 0.5 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -O 0.5 -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -rO 0.5 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -rO 0.5 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -rO 0.5 -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap --allow-dups --max-annots 2 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap --allow-dups --max-annots 2 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.1.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap --allow-dups --max-annots 2 -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.1.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 --allow-dups -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 --allow-dups -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 --allow-dups -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4,value:5,value -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4,value:5,value -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4,value:5,value -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f value,4:value,5 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f value,4:value,5 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f value,4:value,5 -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f value,4:value,5 -a nbp,frac -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f value,4:value,5 -a nbp,frac -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f value,4:value,5 -a nbp,frac -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 --allow-dups --max-annots 2 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 --allow-dups --max-annots 2 -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.2.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:1,2,3 -f 4:5 --allow-dups --max-annots 2 -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.2.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -a nbp,frac -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.3.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.3.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.3.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -a nbp,frac -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.3.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.3.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl:overlap -a nbp,frac -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.3.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 2,3,4:2,3,4 -m 1:1 -f 1:1 -a nbp,frac -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.4.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.4.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.4.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 2,3,4:2,3,4 -m 1:1 -f 1:1 -a nbp,frac -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.4.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.4.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 2,3,4:2,3,4 -m 1:1 -f 1:1 -a nbp,frac -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.4.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 2,3,4:2,3,4 -a nbp,frac -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.5.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.5.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.5.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 2,3,4:2,3,4 -a nbp,frac -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.5.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.5.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 2,3,4:2,3,4 -a nbp,frac -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.5.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,2:1,2,2 -a nbp -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.6.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.6.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.6.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,2:1,2,2 -a nbp -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.6.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.6.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,2:1,2,2 -a nbp -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.6.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,2:1,2,2 -f overlap -H -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.7.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.7.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.7.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,2:1,2,2 -f overlap -H -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.7.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.7.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,2:1,2,2 -f overlap -H -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.7.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c chr,beg,end:chr,start,end -m sample -f is_tp -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.8.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.8.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.8.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c chr,beg,end:chr,start,end -m sample -f is_tp -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.8.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.8.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c chr,beg,end:chr,start,end -m sample -f is_tp -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.8.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:chr,beg,end -a nbp,frac,cnt -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.9.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.9.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.9.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:chr,beg,end -a nbp,frac,cnt -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.9.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.9.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -c 1,2,3:chr,beg,end -a nbp,frac,cnt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.9.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -f smpl -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -x -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -x -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -x -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -f smpl -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -f smpl -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt 474s .. ok 474s 474s run_annot_tsv: 474s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -f smpl -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 475s .. ok 475s 475s run_annot_tsv: 475s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 475s .. ok 475s 475s run_annot_tsv: 475s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt 475s .. ok 475s 475s run_annot_tsv: 475s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 475s .. ok 475s 475s run_annot_tsv: 475s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -x -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 475s .. ok 475s 475s run_annot_tsv: 475s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -x -s /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt 475s .. ok 475s 475s run_annot_tsv: 475s cat /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/src.10.txt | /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/annot-tsv -m smpl -x -t /tmp/autopkgtest.kDs0D2/autopkgtest_tmp/test/annot-tsv/dst.10.txt 475s + echo PASS 475s .. ok 475s 475s 475s Number of tests: 475s total .. 291 475s passed .. 291 475s failed .. 0 475s 475s PASS 475s autopkgtest [14:38:03]: test run-unit-test: -----------------------] 476s autopkgtest [14:38:04]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 476s run-unit-test PASS 476s autopkgtest [14:38:04]: @@@@@@@@@@@@@@@@@@@@ summary 476s run-unit-test PASS 488s Creating nova instance adt-noble-s390x-htslib-20240327-143008-juju-7f2275-prod-proposed-migration-environment-2-b069cec5-5f23-4721-9601-0ad611c1b82d from image adt/ubuntu-noble-s390x-server-20240327.img (UUID 4dc0c4c2-a3ae-40cd-8411-e7fc228c10ae)...