0s autopkgtest [20:05:55]: starting date and time: 2024-03-26 20:05:55+0000 0s autopkgtest [20:05:55]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [20:05:55]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.d1ky_nym/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed --apt-upgrade pdb2pqr --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=python3-defaults/3.12.2-0ubuntu1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-s390x-13.secgroup --name adt-noble-s390x-pdb2pqr-20240326-200555-juju-7f2275-prod-proposed-migration-environment-2-a9789b6c-ba49-4af6-9f99-d9ccbe2376a5 --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/ 109s autopkgtest [20:07:44]: testbed dpkg architecture: s390x 110s autopkgtest [20:07:45]: testbed apt version: 2.7.12 110s autopkgtest [20:07:45]: @@@@@@@@@@@@@@@@@@@@ test bed setup 111s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 111s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [497 kB] 111s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [4001 kB] 112s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [8504 B] 112s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [55.4 kB] 112s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [693 kB] 112s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 112s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 112s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 112s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4152 kB] 112s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 112s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [48.3 kB] 112s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 114s Fetched 9584 kB in 3s (3363 kB/s) 114s Reading package lists... 116s Reading package lists... 116s Building dependency tree... 116s Reading state information... 116s Calculating upgrade... 117s The following packages will be upgraded: 117s psmisc 117s 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 117s Need to get 178 kB of archives. 117s After this operation, 28.7 kB disk space will be freed. 117s Get:1 http://ftpmaster.internal/ubuntu noble/main s390x psmisc s390x 23.7-1 [178 kB] 117s Fetched 178 kB in 0s (475 kB/s) 117s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52170 files and directories currently installed.) 117s Preparing to unpack .../psmisc_23.7-1_s390x.deb ... 117s Unpacking psmisc (23.7-1) over (23.6-2) ... 117s Setting up psmisc (23.7-1) ... 117s Processing triggers for man-db (2.12.0-3) ... 118s Reading package lists... 118s Building dependency tree... 118s Reading state information... 118s 0 upgraded, 0 newly installed, 0 to remove and 244 not upgraded. 119s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 119s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 119s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 119s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 120s Reading package lists... 120s Reading package lists... 120s Building dependency tree... 120s Reading state information... 121s Calculating upgrade... 121s The following packages were automatically installed and are no longer required: 121s libaio1 libnetplan0 python3-distutils python3-lib2to3 121s Use 'sudo apt autoremove' to remove them. 121s The following packages will be REMOVED: 121s libapt-pkg6.0 libarchive13 libatm1 libcurl3-gnutls libcurl4 libdb5.3 libelf1 121s libext2fs2 libgdbm-compat4 libgdbm6 libglib2.0-0 libgnutls30 libgpgme11 121s libhogweed6 libmagic1 libnettle8 libnpth0 libnvme1 libparted2 libperl5.38 121s libpng16-16 libpsl5 libreadline8 libreiserfscore0 libssl3 libtirpc3 liburcu8 121s libuv1 121s The following NEW packages will be installed: 121s bpfcc-tools bpftrace fontconfig-config fonts-dejavu-core fonts-dejavu-mono 121s hwdata ieee-data libaio1t64 libapt-pkg6.0t64 libarchive13t64 libatm1t64 121s libbpfcc libc-dev-bin libc-devtools libc6-dev libclang-cpp18 libclang1-18 121s libcrypt-dev libcurl3t64-gnutls libcurl4t64 libdb5.3t64 libdeflate0 121s libdw1t64 libelf1t64 libext2fs2t64 libfontconfig1 libfreetype6 libgd3 121s libgdbm-compat4t64 libgdbm6t64 libglib2.0-0t64 libgnutls30t64 libgpgme11t64 121s libhogweed6t64 libjbig0 libjpeg-turbo8 libjpeg8 libllvm18 libmagic1t64 121s libnetplan1 libnettle8t64 libnpth0t64 libnvme1t64 libparted2t64 121s libperl5.38t64 libpng16-16t64 libpsl5t64 libreadline8t64 libreiserfscore0t64 121s libsharpyuv0 libssl3t64 libtiff6 libtirpc3t64 liburcu8t64 libuv1t64 libwebp7 121s libxpm4 linux-headers-6.8.0-20 linux-headers-6.8.0-20-generic 121s linux-image-6.8.0-20-generic linux-libc-dev linux-modules-6.8.0-20-generic 121s linux-modules-extra-6.8.0-20-generic linux-tools-6.8.0-20 121s linux-tools-6.8.0-20-generic linux-tools-common manpages manpages-dev 121s python3-bpfcc python3-netaddr rpcsvc-proto ubuntu-kernel-accessories 121s xdg-user-dirs 121s The following packages have been kept back: 121s s390-tools 121s The following packages will be upgraded: 121s apparmor apt apt-utils base-files bash bind9-dnsutils bind9-host bind9-libs 121s binutils binutils-common binutils-s390x-linux-gnu bolt bsdextrautils 121s bsdutils btrfs-progs coreutils cryptsetup-bin curl dbus dbus-bin dbus-daemon 121s dbus-session-bus-common dbus-system-bus-common dbus-user-session dhcpcd-base 121s dirmngr dmsetup dpkg dpkg-dev e2fsprogs e2fsprogs-l10n eject fdisk file ftp 121s fwupd gawk gcc-13-base gcc-14-base gir1.2-girepository-2.0 gir1.2-glib-2.0 121s gnupg gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client gpgconf gpgsm gpgv 121s groff-base ibverbs-providers inetutils-telnet info initramfs-tools 121s initramfs-tools-bin initramfs-tools-core install-info iproute2 jq keyboxd 121s kmod kpartx krb5-locales libapparmor1 libaudit-common libaudit1 libbinutils 121s libblkid1 libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 121s libblockdev-mdraid3 libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 121s libblockdev-utils3 libblockdev3 libbpf1 libbrotli1 libcap-ng0 libcom-err2 121s libcryptsetup12 libctf-nobfd0 libctf0 libdbus-1-3 libdebconfclient0 121s libdevmapper1.02.1 libdpkg-perl libevent-core-2.1-7 libexpat1 libfdisk1 121s libfido2-1 libftdi1-2 libfwupd2 libgcc-s1 libgirepository-1.0-1 121s libglib2.0-data libgssapi-krb5-2 libgudev-1.0-0 libgusb2 libibverbs1 121s libjcat1 libjq1 libjson-glib-1.0-0 libjson-glib-1.0-common libk5crypto3 121s libkmod2 libkrb5-3 libkrb5support0 libldap-common libldap2 121s liblocale-gettext-perl liblzma5 libmagic-mgc libmbim-glib4 libmbim-proxy 121s libmm-glib0 libmount1 libnghttp2-14 libnsl2 libnss-systemd libpam-modules 121s libpam-modules-bin libpam-runtime libpam-systemd libpam0g libplymouth5 121s libpolkit-agent-1-0 libpolkit-gobject-1-0 libproc2-0 libprotobuf-c1 121s libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib 121s libpython3.12-minimal libpython3.12-stdlib libqmi-glib5 libqmi-proxy 121s libqrtr-glib0 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db 121s libseccomp2 libselinux1 libsemanage-common libsemanage2 libsframe1 libslang2 121s libsmartcols1 libsqlite3-0 libss2 libssh-4 libstdc++6 libsystemd-shared 121s libsystemd0 libtext-charwidth-perl libtext-iconv-perl libtirpc-common 121s libudev1 libudisks2-0 libusb-1.0-0 libuuid1 libvolume-key1 libxml2 libxmlb2 121s libxmuu1 linux-generic linux-headers-generic linux-headers-virtual 121s linux-image-generic linux-image-virtual linux-virtual logsave lshw lsof 121s man-db motd-news-config mount mtr-tiny multipath-tools netplan-generator 121s netplan.io openssh-client openssh-server openssh-sftp-server openssl parted 121s perl perl-base perl-modules-5.38 pinentry-curses plymouth 121s plymouth-theme-ubuntu-text procps python-apt-common python3 python3-apt 121s python3-cryptography python3-dbus python3-distutils python3-gdbm python3-gi 121s python3-lib2to3 python3-minimal python3-netplan python3-pkg-resources 121s python3-pyrsistent python3-setuptools python3-typing-extensions python3-yaml 121s python3.11 python3.11-minimal python3.12 python3.12-minimal readline-common 121s rsync rsyslog s390-tools-data shared-mime-info sudo systemd systemd-dev 121s systemd-resolved systemd-sysv systemd-timesyncd tcpdump telnet tnftp 121s ubuntu-pro-client ubuntu-pro-client-l10n udev udisks2 usb.ids util-linux 121s uuid-runtime vim-common vim-tiny wget xxd xz-utils zlib1g 121s 243 upgraded, 73 newly installed, 28 to remove and 1 not upgraded. 121s Need to get 228 MB of archives. 121s After this operation, 524 MB of additional disk space will be used. 121s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main s390x motd-news-config all 13ubuntu8 [5098 B] 121s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x base-files s390x 13ubuntu8 [74.2 kB] 121s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bash s390x 5.2.21-2ubuntu3 [845 kB] 122s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bsdutils s390x 1:2.39.3-9ubuntu2 [96.1 kB] 122s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libbrotli1 s390x 1.1.0-2build1 [375 kB] 122s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgssapi-krb5-2 s390x 1.20.1-6ubuntu1 [149 kB] 122s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkrb5-3 s390x 1.20.1-6ubuntu1 [360 kB] 122s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkrb5support0 s390x 1.20.1-6ubuntu1 [34.6 kB] 122s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libk5crypto3 s390x 1.20.1-6ubuntu1 [90.3 kB] 122s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcom-err2 s390x 1.47.0-2.4~exp1ubuntu2 [22.9 kB] 122s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main s390x zlib1g s390x 1:1.3.dfsg-3.1ubuntu1 [75.7 kB] 122s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main s390x librtmp1 s390x 2.4+20151223.gitfa8646d.1-2build6 [58.4 kB] 122s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main s390x udisks2 s390x 2.10.1-6 [298 kB] 122s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libudisks2-0 s390x 2.10.1-6 [179 kB] 122s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblkid1 s390x 2.39.3-9ubuntu2 [128 kB] 122s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main s390x liblzma5 s390x 5.6.0-0.2 [137 kB] 122s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main s390x kmod s390x 31+20240202-2ubuntu4 [107 kB] 122s Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libkmod2 s390x 31+20240202-2ubuntu4 [56.3 kB] 122s Get:19 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-dev all 255.4-1ubuntu5 [103 kB] 122s Get:20 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-timesyncd s390x 255.4-1ubuntu5 [35.3 kB] 122s Get:21 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-session-bus-common all 1.14.10-4ubuntu2 [80.3 kB] 122s Get:22 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libaudit-common all 1:3.1.2-2.1 [5674 B] 122s Get:23 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcap-ng0 s390x 0.8.4-2build1 [15.7 kB] 122s Get:24 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libaudit1 s390x 1:3.1.2-2.1 [48.9 kB] 122s Get:25 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam0g s390x 1.5.3-5ubuntu3 [69.8 kB] 122s Get:26 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libselinux1 s390x 3.5-2ubuntu1 [84.7 kB] 122s Get:27 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl4t64 s390x 8.5.0-2ubuntu8 [363 kB] 122s Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main s390x curl s390x 8.5.0-2ubuntu8 [227 kB] 122s Get:29 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpsl5t64 s390x 0.21.2-1.1 [57.6 kB] 122s Get:30 http://ftpmaster.internal/ubuntu noble-proposed/main s390x wget s390x 1.21.4-1ubuntu2 [351 kB] 122s Get:31 http://ftpmaster.internal/ubuntu noble-proposed/main s390x tnftp s390x 20230507-2build1 [107 kB] 122s Get:32 http://ftpmaster.internal/ubuntu noble-proposed/main s390x tcpdump s390x 4.99.4-3ubuntu2 [490 kB] 122s Get:33 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsystemd-shared s390x 255.4-1ubuntu5 [2131 kB] 122s Get:34 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-resolved s390x 255.4-1ubuntu5 [304 kB] 122s Get:35 http://ftpmaster.internal/ubuntu noble-proposed/main s390x sudo s390x 1.9.15p5-3ubuntu3 [968 kB] 122s Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main s390x rsync s390x 3.2.7-1build1 [446 kB] 122s Get:37 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-cryptography s390x 41.0.7-4build2 [918 kB] 122s Get:38 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssl s390x 3.0.13-0ubuntu2 [1010 kB] 122s Get:39 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-sftp-server s390x 1:9.6p1-3ubuntu11 [39.0 kB] 123s Get:40 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-client s390x 1:9.6p1-3ubuntu11 [935 kB] 123s Get:41 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssh-server s390x 1:9.6p1-3ubuntu11 [529 kB] 123s Get:42 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssh-4 s390x 0.10.6-2build1 [189 kB] 123s Get:43 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-modules s390x 2.1.28+dfsg1-5ubuntu1 [76.6 kB] 123s Get:44 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.12 s390x 3.12.2-4build3 [645 kB] 123s Get:45 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.12-minimal s390x 3.12.2-4build3 [2419 kB] 123s Get:46 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.12-minimal s390x 3.12.2-4build3 [829 kB] 123s Get:47 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libparted2t64 s390x 3.6-3.1build2 [172 kB] 123s Get:48 http://ftpmaster.internal/ubuntu noble-proposed/main s390x parted s390x 3.6-3.1build2 [44.6 kB] 123s Get:49 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.11 s390x 3.11.8-1build4 [589 kB] 123s Get:50 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3.11-minimal s390x 3.11.8-1build4 [2280 kB] 123s Get:51 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.11-minimal s390x 3.11.8-1build4 [838 kB] 123s Get:52 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.11-stdlib s390x 3.11.8-1build4 [1944 kB] 123s Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main s390x shared-mime-info s390x 2.4-1build1 [474 kB] 123s Get:54 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gir1.2-girepository-2.0 s390x 1.79.1-1ubuntu6 [24.5 kB] 123s Get:55 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gir1.2-glib-2.0 s390x 2.79.3-3ubuntu5 [180 kB] 123s Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgirepository-1.0-1 s390x 1.79.1-1ubuntu6 [84.0 kB] 123s Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-gi s390x 3.47.0-3build1 [236 kB] 123s Get:58 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-dbus s390x 1.3.2-5build2 [100 kB] 123s Get:59 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnetplan1 s390x 1.0-1 [123 kB] 123s Get:60 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-netplan s390x 1.0-1 [23.0 kB] 123s Get:61 http://ftpmaster.internal/ubuntu noble-proposed/main s390x netplan-generator s390x 1.0-1 [59.1 kB] 123s Get:62 http://ftpmaster.internal/ubuntu noble-proposed/main s390x initramfs-tools-bin s390x 0.142ubuntu23 [20.5 kB] 123s Get:63 http://ftpmaster.internal/ubuntu noble-proposed/main s390x initramfs-tools-core all 0.142ubuntu23 [50.1 kB] 123s Get:64 http://ftpmaster.internal/ubuntu noble-proposed/main s390x initramfs-tools all 0.142ubuntu23 [9058 B] 123s Get:65 http://ftpmaster.internal/ubuntu noble-proposed/main s390x netplan.io s390x 1.0-1 [65.4 kB] 123s Get:66 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxmlb2 s390x 0.3.15-1build1 [70.6 kB] 123s Get:67 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgpgme11t64 s390x 1.18.0-4.1ubuntu3 [150 kB] 123s Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libvolume-key1 s390x 0.3.12-7build1 [40.8 kB] 123s Get:69 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqrtr-glib0 s390x 1.2.2-1ubuntu3 [17.5 kB] 123s Get:70 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqmi-glib5 s390x 1.35.2-0ubuntu1 [918 kB] 123s Get:71 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libqmi-proxy s390x 1.35.2-0ubuntu1 [6122 B] 124s Get:72 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpolkit-agent-1-0 s390x 124-1ubuntu1 [17.8 kB] 124s Get:73 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpolkit-gobject-1-0 s390x 124-1ubuntu1 [48.3 kB] 124s Get:74 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmm-glib0 s390x 1.23.4-0ubuntu1 [251 kB] 124s Get:75 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmbim-glib4 s390x 1.31.2-0ubuntu2 [238 kB] 124s Get:76 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmbim-proxy s390x 1.31.2-0ubuntu2 [6154 B] 124s Get:77 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjson-glib-1.0-common all 1.8.0-2build1 [4210 B] 124s Get:78 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjson-glib-1.0-0 s390x 1.8.0-2build1 [68.4 kB] 124s Get:79 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgusb2 s390x 0.4.8-1build1 [39.0 kB] 124s Get:80 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgudev-1.0-0 s390x 1:238-3ubuntu2 [15.7 kB] 124s Get:81 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libarchive13t64 s390x 3.7.2-1.1ubuntu2 [419 kB] 124s Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main s390x fwupd s390x 1.9.15-2 [4435 kB] 124s Get:83 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl3t64-gnutls s390x 8.5.0-2ubuntu8 [356 kB] 124s Get:84 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfwupd2 s390x 1.9.15-2 [136 kB] 124s Get:85 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev3 s390x 3.1.0-1build1 [52.3 kB] 124s Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-utils3 s390x 3.1.0-1build1 [19.2 kB] 124s Get:87 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-swap3 s390x 3.1.0-1build1 [7778 B] 124s Get:88 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-part3 s390x 3.1.0-1build1 [15.4 kB] 124s Get:89 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnvme1t64 s390x 1.8-3 [78.7 kB] 124s Get:90 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-nvme3 s390x 3.1.0-1build1 [18.3 kB] 124s Get:91 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-mdraid3 s390x 3.1.0-1build1 [13.2 kB] 124s Get:92 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-loop3 s390x 3.1.0-1build1 [7138 B] 124s Get:93 http://ftpmaster.internal/ubuntu noble-proposed/main s390x e2fsprogs-l10n all 1.47.0-2.4~exp1ubuntu2 [5996 B] 124s Get:94 http://ftpmaster.internal/ubuntu noble-proposed/main s390x logsave s390x 1.47.0-2.4~exp1ubuntu2 [22.5 kB] 124s Get:95 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libext2fs2t64 s390x 1.47.0-2.4~exp1ubuntu2 [235 kB] 124s Get:96 http://ftpmaster.internal/ubuntu noble-proposed/main s390x e2fsprogs s390x 1.47.0-2.4~exp1ubuntu2 [615 kB] 124s Get:97 http://ftpmaster.internal/ubuntu noble/main s390x libreiserfscore0t64 s390x 1:3.6.27-7.1 [85.5 kB] 124s Get:98 http://ftpmaster.internal/ubuntu noble-proposed/main s390x btrfs-progs s390x 6.6.3-1.1build1 [959 kB] 124s Get:99 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-fs3 s390x 3.1.0-1build1 [36.5 kB] 124s Get:100 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libblockdev-crypto3 s390x 3.1.0-1build1 [21.6 kB] 124s Get:101 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bolt s390x 0.9.6-2build1 [142 kB] 124s Get:102 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libglib2.0-0t64 s390x 2.79.3-3ubuntu5 [1566 kB] 125s Get:103 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjcat1 s390x 0.2.0-2build2 [34.4 kB] 125s Get:104 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libldap2 s390x 2.6.7+dfsg-1~exp1ubuntu6 [202 kB] 125s Get:105 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ubuntu-pro-client-l10n s390x 31.2.2 [19.4 kB] 125s Get:106 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ubuntu-pro-client s390x 31.2.2 [214 kB] 125s Get:107 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg-utils s390x 2.4.4-2ubuntu15 [116 kB] 125s Get:108 http://ftpmaster.internal/ubuntu noble-proposed/main s390x keyboxd s390x 2.4.4-2ubuntu15 [83.1 kB] 125s Get:109 http://ftpmaster.internal/ubuntu noble/main s390x libnpth0t64 s390x 1.6-3.1 [8148 B] 125s Get:110 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgv s390x 2.4.4-2ubuntu15 [165 kB] 125s Get:111 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg-wks-client s390x 2.4.4-2ubuntu15 [76.8 kB] 125s Get:112 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg-agent s390x 2.4.4-2ubuntu15 [240 kB] 125s Get:113 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpg s390x 2.4.4-2ubuntu15 [589 kB] 125s Get:114 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dirmngr s390x 2.4.4-2ubuntu15 [340 kB] 125s Get:115 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg all 2.4.4-2ubuntu15 [359 kB] 125s Get:116 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-apt s390x 2.7.7 [171 kB] 125s Get:117 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apt-utils s390x 2.7.14 [214 kB] 125s Get:118 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libapt-pkg6.0t64 s390x 2.7.14 [1014 kB] 125s Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnettle8t64 s390x 3.9.1-2.2 [210 kB] 125s Get:120 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libhogweed6t64 s390x 3.9.1-2.2 [204 kB] 125s Get:121 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgnutls30t64 s390x 3.8.3-1.1ubuntu2 [1044 kB] 125s Get:122 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apt s390x 2.7.14 [1390 kB] 125s Get:123 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgconf s390x 2.4.4-2ubuntu15 [111 kB] 125s Get:124 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gpgsm s390x 2.4.4-2ubuntu15 [244 kB] 125s Get:125 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libreadline8t64 s390x 8.2-4 [170 kB] 125s Get:126 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gawk s390x 1:5.2.1-2build2 [496 kB] 125s Get:127 http://ftpmaster.internal/ubuntu noble-proposed/main s390x fdisk s390x 2.39.3-9ubuntu2 [124 kB] 125s Get:128 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3.12-stdlib s390x 3.12.2-4build3 [2046 kB] 125s Get:129 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl-base s390x 5.38.2-3.2 [1961 kB] 125s Get:130 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl-modules-5.38 all 5.38.2-3.2 [3110 kB] 126s Get:131 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-gdbm s390x 3.12.2-3ubuntu1.1 [19.0 kB] 126s Get:132 http://ftpmaster.internal/ubuntu noble-proposed/main s390x man-db s390x 2.12.0-3build4 [1246 kB] 126s Get:133 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgdbm6t64 s390x 1.23-5.1 [36.4 kB] 126s Get:134 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgdbm-compat4t64 s390x 1.23-5.1 [6880 B] 126s Get:135 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libperl5.38t64 s390x 5.38.2-3.2 [5007 kB] 126s Get:136 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl s390x 5.38.2-3.2 [231 kB] 126s Get:137 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdb5.3t64 s390x 5.3.28+dfsg2-6 [763 kB] 126s Get:138 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-modules-db s390x 2.1.28+dfsg1-5ubuntu1 [21.1 kB] 126s Get:139 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsasl2-2 s390x 2.1.28+dfsg1-5ubuntu1 [57.8 kB] 126s Get:140 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfido2-1 s390x 1.14.0-1build1 [81.0 kB] 126s Get:141 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcryptsetup12 s390x 2:2.7.0-1ubuntu2 [264 kB] 126s Get:142 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dhcpcd-base s390x 1:10.0.6-1ubuntu2 [217 kB] 126s Get:143 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libuv1t64 s390x 1.48.0-1.1 [101 kB] 126s Get:144 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-host s390x 1:9.18.24-0ubuntu3 [50.5 kB] 126s Get:145 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-dnsutils s390x 1:9.18.24-0ubuntu3 [162 kB] 126s Get:146 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bind9-libs s390x 1:9.18.24-0ubuntu3 [1243 kB] 126s Get:147 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl3t64 s390x 3.0.13-0ubuntu2 [1675 kB] 126s Get:148 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnss-systemd s390x 255.4-1ubuntu5 [166 kB] 126s Get:149 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libudev1 s390x 255.4-1ubuntu5 [178 kB] 126s Get:150 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd s390x 255.4-1ubuntu5 [3533 kB] 126s Get:151 http://ftpmaster.internal/ubuntu noble-proposed/main s390x udev s390x 255.4-1ubuntu5 [1887 kB] 126s Get:152 http://ftpmaster.internal/ubuntu noble-proposed/main s390x systemd-sysv s390x 255.4-1ubuntu5 [11.9 kB] 126s Get:153 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-systemd s390x 255.4-1ubuntu5 [242 kB] 126s Get:154 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsystemd0 s390x 255.4-1ubuntu5 [443 kB] 126s Get:155 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-modules-bin s390x 1.5.3-5ubuntu3 [57.4 kB] 126s Get:156 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-modules s390x 1.5.3-5ubuntu3 [289 kB] 126s Get:157 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpam-runtime all 1.5.3-5ubuntu3 [40.8 kB] 126s Get:158 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-user-session s390x 1.14.10-4ubuntu2 [9960 B] 126s Get:159 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libapparmor1 s390x 4.0.0-beta3-0ubuntu2 [50.8 kB] 126s Get:160 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libexpat1 s390x 2.6.1-2 [94.8 kB] 126s Get:161 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-system-bus-common all 1.14.10-4ubuntu2 [81.5 kB] 127s Get:162 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-bin s390x 1.14.10-4ubuntu2 [41.4 kB] 127s Get:163 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus s390x 1.14.10-4ubuntu2 [24.3 kB] 127s Get:164 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dbus-daemon s390x 1.14.10-4ubuntu2 [118 kB] 127s Get:165 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdbus-1-3 s390x 1.14.10-4ubuntu2 [213 kB] 127s Get:166 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmount1 s390x 2.39.3-9ubuntu2 [138 kB] 127s Get:167 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libseccomp2 s390x 2.5.5-1ubuntu2 [53.4 kB] 127s Get:168 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdevmapper1.02.1 s390x 2:1.02.185-3ubuntu2 [142 kB] 127s Get:169 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libuuid1 s390x 2.39.3-9ubuntu2 [35.6 kB] 127s Get:170 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfdisk1 s390x 2.39.3-9ubuntu2 [151 kB] 127s Get:171 http://ftpmaster.internal/ubuntu noble-proposed/main s390x mount s390x 2.39.3-9ubuntu2 [119 kB] 127s Get:172 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsqlite3-0 s390x 3.45.1-1ubuntu1 [747 kB] 127s Get:173 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gcc-14-base s390x 14-20240315-1ubuntu1 [47.0 kB] 127s Get:174 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgcc-s1 s390x 14-20240315-1ubuntu1 [35.9 kB] 127s Get:175 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libstdc++6 s390x 14-20240315-1ubuntu1 [908 kB] 127s Get:176 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dpkg s390x 1.22.6ubuntu5 [1278 kB] 127s Get:177 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-minimal s390x 3.12.2-0ubuntu1 [27.1 kB] 127s Get:178 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3 s390x 3.12.2-0ubuntu1 [24.1 kB] 127s Get:179 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpython3-stdlib s390x 3.12.2-0ubuntu1 [9804 B] 127s Get:180 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsmartcols1 s390x 2.39.3-9ubuntu2 [67.9 kB] 127s Get:181 http://ftpmaster.internal/ubuntu noble-proposed/main s390x bsdextrautils s390x 2.39.3-9ubuntu2 [76.3 kB] 127s Get:182 http://ftpmaster.internal/ubuntu noble-proposed/main s390x groff-base s390x 1.23.0-3build1 [1049 kB] 127s Get:183 http://ftpmaster.internal/ubuntu noble-proposed/main s390x pinentry-curses s390x 1.2.1-3ubuntu4 [37.6 kB] 127s Get:184 http://ftpmaster.internal/ubuntu noble-proposed/main s390x readline-common all 8.2-4 [56.4 kB] 127s Get:185 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxml2 s390x 2.9.14+dfsg-1.3ubuntu2 [818 kB] 127s Get:186 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libbpf1 s390x 1:1.3.0-2build1 [176 kB] 127s Get:187 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libelf1t64 s390x 0.190-1.1build2 [69.7 kB] 127s Get:188 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtirpc-common all 1.3.4+ds-1.1 [8018 B] 127s Get:189 http://ftpmaster.internal/ubuntu noble-proposed/main s390x lsof s390x 4.95.0-1build2 [248 kB] 127s Get:190 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnsl2 s390x 1.3.0-3build2 [44.1 kB] 127s Get:191 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtirpc3t64 s390x 1.3.4+ds-1.1 [85.8 kB] 127s Get:192 http://ftpmaster.internal/ubuntu noble-proposed/main s390x iproute2 s390x 6.1.0-1ubuntu5 [1156 kB] 127s Get:193 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-yaml s390x 6.0.1-2build1 [121 kB] 127s Get:194 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libusb-1.0-0 s390x 2:1.0.27-1 [54.8 kB] 127s Get:195 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libprotobuf-c1 s390x 1.4.1-1ubuntu3 [23.4 kB] 127s Get:196 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libnghttp2-14 s390x 1.59.0-1build1 [77.8 kB] 127s Get:197 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libproc2-0 s390x 2:4.0.4-4ubuntu2 [60.1 kB] 127s Get:198 http://ftpmaster.internal/ubuntu noble-proposed/main s390x procps s390x 2:4.0.4-4ubuntu2 [724 kB] 127s Get:199 http://ftpmaster.internal/ubuntu noble-proposed/main s390x coreutils s390x 9.4-3ubuntu3 [1482 kB] 127s Get:200 http://ftpmaster.internal/ubuntu noble-proposed/main s390x util-linux s390x 2.39.3-9ubuntu2 [1143 kB] 127s Get:201 http://ftpmaster.internal/ubuntu noble-proposed/main s390x file s390x 1:5.45-3 [22.2 kB] 127s Get:202 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmagic-mgc s390x 1:5.45-3 [305 kB] 127s Get:203 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libmagic1t64 s390x 1:5.45-3 [93.1 kB] 128s Get:204 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libplymouth5 s390x 24.004.60-1ubuntu6 [151 kB] 128s Get:205 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpng16-16t64 s390x 1.6.43-3 [200 kB] 128s Get:206 http://ftpmaster.internal/ubuntu noble-proposed/main s390x multipath-tools s390x 0.9.4-5ubuntu6 [318 kB] 128s Get:207 http://ftpmaster.internal/ubuntu noble/main s390x liburcu8t64 s390x 0.14.0-3.1 [67.3 kB] 128s Get:208 http://ftpmaster.internal/ubuntu noble-proposed/main s390x liblocale-gettext-perl s390x 1.07-6ubuntu4 [15.8 kB] 128s Get:209 http://ftpmaster.internal/ubuntu noble-proposed/main s390x uuid-runtime s390x 2.39.3-9ubuntu2 [33.4 kB] 128s Get:210 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdebconfclient0 s390x 0.271ubuntu2 [11.4 kB] 128s Get:211 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsemanage-common all 3.5-1build4 [10.1 kB] 128s Get:212 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsemanage2 s390x 3.5-1build4 [96.7 kB] 128s Get:213 http://ftpmaster.internal/ubuntu noble-proposed/main s390x install-info s390x 7.1-3build1 [64.5 kB] 128s Get:214 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gcc-13-base s390x 13.2.0-21ubuntu1 [48.3 kB] 128s Get:215 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libss2 s390x 1.47.0-2.4~exp1ubuntu2 [17.2 kB] 128s Get:216 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dmsetup s390x 2:1.02.185-3ubuntu2 [80.4 kB] 128s Get:217 http://ftpmaster.internal/ubuntu noble-proposed/main s390x eject s390x 2.39.3-9ubuntu2 [26.2 kB] 128s Get:218 http://ftpmaster.internal/ubuntu noble-proposed/main s390x krb5-locales all 1.20.1-6ubuntu1 [13.8 kB] 128s Get:219 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libglib2.0-data all 2.79.3-3ubuntu5 [46.6 kB] 128s Get:220 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libslang2 s390x 2.3.3-3build1 [501 kB] 128s Get:221 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtext-charwidth-perl s390x 0.04-11build2 [9484 B] 128s Get:222 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtext-iconv-perl s390x 1.7-8build2 [13.8 kB] 128s Get:223 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python-apt-common all 2.7.7 [19.8 kB] 128s Get:224 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-setuptools all 68.1.2-2ubuntu1 [396 kB] 128s Get:225 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-pkg-resources all 68.1.2-2ubuntu1 [168 kB] 128s Get:226 http://ftpmaster.internal/ubuntu noble-proposed/main s390x rsyslog s390x 8.2312.0-3ubuntu7 [536 kB] 128s Get:227 http://ftpmaster.internal/ubuntu noble-proposed/main s390x vim-tiny s390x 2:9.1.0016-1ubuntu6 [879 kB] 128s Get:228 http://ftpmaster.internal/ubuntu noble-proposed/main s390x vim-common all 2:9.1.0016-1ubuntu6 [385 kB] 128s Get:229 http://ftpmaster.internal/ubuntu noble/main s390x xdg-user-dirs s390x 0.18-1 [18.5 kB] 128s Get:230 http://ftpmaster.internal/ubuntu noble-proposed/main s390x xxd s390x 2:9.1.0016-1ubuntu6 [63.5 kB] 128s Get:231 http://ftpmaster.internal/ubuntu noble-proposed/main s390x apparmor s390x 4.0.0-beta3-0ubuntu2 [710 kB] 128s Get:232 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ftp all 20230507-2build1 [4724 B] 128s Get:233 http://ftpmaster.internal/ubuntu noble-proposed/main s390x inetutils-telnet s390x 2:2.5-3ubuntu3 [105 kB] 128s Get:234 http://ftpmaster.internal/ubuntu noble-proposed/main s390x info s390x 7.1-3build1 [152 kB] 128s Get:235 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxmuu1 s390x 2:1.1.3-3build1 [8860 B] 128s Get:236 http://ftpmaster.internal/ubuntu noble-proposed/main s390x lshw s390x 02.19.git.2021.06.19.996aaad9c7-2build2 [346 kB] 128s Get:237 http://ftpmaster.internal/ubuntu noble/main s390x manpages all 6.05.01-1 [1340 kB] 129s Get:238 http://ftpmaster.internal/ubuntu noble-proposed/main s390x mtr-tiny s390x 0.95-1.1build1 [57.0 kB] 129s Get:239 http://ftpmaster.internal/ubuntu noble-proposed/main s390x plymouth-theme-ubuntu-text s390x 24.004.60-1ubuntu6 [10.2 kB] 129s Get:240 http://ftpmaster.internal/ubuntu noble-proposed/main s390x plymouth s390x 24.004.60-1ubuntu6 [147 kB] 129s Get:241 http://ftpmaster.internal/ubuntu noble-proposed/main s390x telnet all 0.17+2.5-3ubuntu3 [3682 B] 129s Get:242 http://ftpmaster.internal/ubuntu noble-proposed/main s390x usb.ids all 2024.03.18-1 [223 kB] 129s Get:243 http://ftpmaster.internal/ubuntu noble-proposed/main s390x xz-utils s390x 5.6.0-0.2 [274 kB] 129s Get:244 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libctf0 s390x 2.42-4ubuntu1 [98.4 kB] 129s Get:245 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libctf-nobfd0 s390x 2.42-4ubuntu1 [100 kB] 129s Get:246 http://ftpmaster.internal/ubuntu noble-proposed/main s390x binutils-s390x-linux-gnu s390x 2.42-4ubuntu1 [2270 kB] 129s Get:247 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libbinutils s390x 2.42-4ubuntu1 [477 kB] 129s Get:248 http://ftpmaster.internal/ubuntu noble-proposed/main s390x binutils s390x 2.42-4ubuntu1 [3056 B] 129s Get:249 http://ftpmaster.internal/ubuntu noble-proposed/main s390x binutils-common s390x 2.42-4ubuntu1 [217 kB] 129s Get:250 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsframe1 s390x 2.42-4ubuntu1 [14.2 kB] 129s Get:251 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libllvm18 s390x 1:18.1.2-1ubuntu2 [33.4 MB] 131s Get:252 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libclang-cpp18 s390x 1:18.1.2-1ubuntu2 [16.1 MB] 132s Get:253 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libbpfcc s390x 0.29.1+ds-1ubuntu4 [697 kB] 132s Get:254 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x python3-bpfcc all 0.29.1+ds-1ubuntu4 [40.2 kB] 132s Get:255 http://ftpmaster.internal/ubuntu noble/main s390x ieee-data all 20220827.1 [2113 kB] 132s Get:256 http://ftpmaster.internal/ubuntu noble/main s390x python3-netaddr all 0.8.0-2ubuntu1 [319 kB] 132s Get:257 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x bpfcc-tools all 0.29.1+ds-1ubuntu4 [687 kB] 132s Get:258 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libclang1-18 s390x 1:18.1.2-1ubuntu2 [9349 kB] 132s Get:259 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdw1t64 s390x 0.190-1.1build2 [286 kB] 132s Get:260 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x bpftrace s390x 0.20.2-1ubuntu1 [1139 kB] 132s Get:261 http://ftpmaster.internal/ubuntu noble-proposed/main s390x cryptsetup-bin s390x 2:2.7.0-1ubuntu2 [211 kB] 132s Get:262 http://ftpmaster.internal/ubuntu noble-proposed/main s390x dpkg-dev all 1.22.6ubuntu5 [1074 kB] 132s Get:263 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdpkg-perl all 1.22.6ubuntu5 [269 kB] 132s Get:264 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 132s Get:265 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 132s Get:266 http://ftpmaster.internal/ubuntu noble-proposed/main s390x fontconfig-config s390x 2.15.0-1.1ubuntu1 [37.4 kB] 132s Get:267 http://ftpmaster.internal/ubuntu noble-proposed/main s390x gnupg-l10n all 2.4.4-2ubuntu15 [65.8 kB] 132s Get:268 http://ftpmaster.internal/ubuntu noble/main s390x hwdata all 0.379-1 [29.1 kB] 132s Get:269 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libibverbs1 s390x 50.0-2build1 [70.0 kB] 132s Get:270 http://ftpmaster.internal/ubuntu noble-proposed/main s390x ibverbs-providers s390x 50.0-2build1 [408 kB] 132s Get:271 http://ftpmaster.internal/ubuntu noble-proposed/main s390x jq s390x 1.7.1-3 [66.5 kB] 132s Get:272 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjq1 s390x 1.7.1-3 [168 kB] 132s Get:273 http://ftpmaster.internal/ubuntu noble/main s390x libaio1t64 s390x 0.3.113-6 [7290 B] 132s Get:274 http://ftpmaster.internal/ubuntu noble/main s390x libatm1t64 s390x 1:2.5.1-5.1 [24.5 kB] 132s Get:275 http://ftpmaster.internal/ubuntu noble/main s390x libc-dev-bin s390x 2.39-0ubuntu6 [20.2 kB] 132s Get:276 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfreetype6 s390x 2.13.2+dfsg-1build2 [437 kB] 132s Get:277 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libfontconfig1 s390x 2.15.0-1.1ubuntu1 [150 kB] 132s Get:278 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB] 132s Get:279 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 132s Get:280 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB] 132s Get:281 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB] 132s Get:282 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libsharpyuv0 s390x 1.3.2-0.4build2 [14.9 kB] 132s Get:283 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libwebp7 s390x 1.3.2-0.4build2 [207 kB] 132s Get:284 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libtiff6 s390x 4.5.1+git230720-4ubuntu1 [218 kB] 132s Get:285 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libxpm4 s390x 1:3.5.17-1build1 [41.4 kB] 132s Get:286 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgd3 s390x 2.3.3-9ubuntu3 [141 kB] 132s Get:287 http://ftpmaster.internal/ubuntu noble/main s390x libc-devtools s390x 2.39-0ubuntu6 [30.6 kB] 132s Get:288 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-libc-dev s390x 6.8.0-20.20 [1592 kB] 133s Get:289 http://ftpmaster.internal/ubuntu noble/main s390x libcrypt-dev s390x 1:4.4.36-4 [135 kB] 133s Get:290 http://ftpmaster.internal/ubuntu noble/main s390x rpcsvc-proto s390x 1.4.2-0ubuntu6 [64.7 kB] 133s Get:291 http://ftpmaster.internal/ubuntu noble/main s390x libc6-dev s390x 2.39-0ubuntu6 [1629 kB] 133s Get:292 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libevent-core-2.1-7 s390x 2.1.12-stable-9build1 [94.3 kB] 133s Get:293 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libftdi1-2 s390x 1.5-6build4 [29.3 kB] 133s Get:294 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libldap-common all 2.6.7+dfsg-1~exp1ubuntu6 [31.3 kB] 133s Get:295 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-modules-6.8.0-20-generic s390x 6.8.0-20.20 [21.0 MB] 133s Get:296 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-6.8.0-20-generic s390x 6.8.0-20.20 [9872 kB] 134s Get:297 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] 134s Get:298 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-generic s390x 6.8.0-20.20+1 [1734 B] 134s Get:299 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-generic s390x 6.8.0-20.20+1 [9688 B] 134s Get:300 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-virtual s390x 6.8.0-20.20+1 [1682 B] 134s Get:301 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-image-virtual s390x 6.8.0-20.20+1 [9700 B] 134s Get:302 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-virtual s390x 6.8.0-20.20+1 [1642 B] 134s Get:303 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-6.8.0-20 all 6.8.0-20.20 [13.6 MB] 135s Get:304 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-6.8.0-20-generic s390x 6.8.0-20.20 [2579 kB] 136s Get:305 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-headers-generic s390x 6.8.0-20.20+1 [9608 B] 136s Get:306 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-common all 6.8.0-20.20 [437 kB] 136s Get:307 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-6.8.0-20 s390x 6.8.0-20.20 [2674 kB] 136s Get:308 http://ftpmaster.internal/ubuntu noble-proposed/main s390x linux-tools-6.8.0-20-generic s390x 6.8.0-20.20 [1724 B] 136s Get:309 http://ftpmaster.internal/ubuntu noble/main s390x manpages-dev all 6.05.01-1 [2018 kB] 136s Get:310 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-distutils all 3.12.2-3ubuntu1.1 [133 kB] 136s Get:311 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-lib2to3 all 3.12.2-3ubuntu1.1 [79.1 kB] 136s Get:312 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-pyrsistent s390x 0.20.0-1build1 [55.8 kB] 136s Get:313 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-typing-extensions all 4.10.0-1 [60.7 kB] 136s Get:314 http://ftpmaster.internal/ubuntu noble-proposed/main s390x s390-tools-data all 2.31.0-0ubuntu3 [17.8 kB] 136s Get:315 http://ftpmaster.internal/ubuntu noble/main s390x ubuntu-kernel-accessories s390x 1.536build1 [10.5 kB] 136s Get:316 http://ftpmaster.internal/ubuntu noble-proposed/main s390x kpartx s390x 0.9.4-5ubuntu6 [32.8 kB] 137s Preconfiguring packages ... 137s Fetched 228 MB in 15s (14.9 MB/s) 137s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 137s Preparing to unpack .../motd-news-config_13ubuntu8_all.deb ... 137s Unpacking motd-news-config (13ubuntu8) over (13ubuntu7) ... 137s Preparing to unpack .../base-files_13ubuntu8_s390x.deb ... 137s Unpacking base-files (13ubuntu8) over (13ubuntu7) ... 137s Setting up base-files (13ubuntu8) ... 138s motd-news.service is a disabled or a static unit not running, not starting it. 138s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 138s Preparing to unpack .../bash_5.2.21-2ubuntu3_s390x.deb ... 138s Unpacking bash (5.2.21-2ubuntu3) over (5.2.21-2ubuntu2) ... 138s Setting up bash (5.2.21-2ubuntu3) ... 138s 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 138s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 138s Preparing to unpack .../bsdutils_1%3a2.39.3-9ubuntu2_s390x.deb ... 138s Unpacking bsdutils (1:2.39.3-9ubuntu2) over (1:2.39.3-6ubuntu2) ... 138s Setting up bsdutils (1:2.39.3-9ubuntu2) ... 138s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 138s Preparing to unpack .../0-libbrotli1_1.1.0-2build1_s390x.deb ... 138s Unpacking libbrotli1:s390x (1.1.0-2build1) over (1.1.0-2) ... 138s Preparing to unpack .../1-libgssapi-krb5-2_1.20.1-6ubuntu1_s390x.deb ... 138s Unpacking libgssapi-krb5-2:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 138s Preparing to unpack .../2-libkrb5-3_1.20.1-6ubuntu1_s390x.deb ... 138s Unpacking libkrb5-3:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 138s Preparing to unpack .../3-libkrb5support0_1.20.1-6ubuntu1_s390x.deb ... 138s Unpacking libkrb5support0:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 138s Preparing to unpack .../4-libk5crypto3_1.20.1-6ubuntu1_s390x.deb ... 138s Unpacking libk5crypto3:s390x (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 138s Preparing to unpack .../5-libcom-err2_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 138s Unpacking libcom-err2:s390x (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 138s Preparing to unpack .../6-zlib1g_1%3a1.3.dfsg-3.1ubuntu1_s390x.deb ... 138s Unpacking zlib1g:s390x (1:1.3.dfsg-3.1ubuntu1) over (1:1.3.dfsg-3ubuntu1) ... 138s Setting up zlib1g:s390x (1:1.3.dfsg-3.1ubuntu1) ... 138s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 138s Preparing to unpack .../librtmp1_2.4+20151223.gitfa8646d.1-2build6_s390x.deb ... 138s Unpacking librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build6) over (2.4+20151223.gitfa8646d.1-2build4) ... 138s Preparing to unpack .../udisks2_2.10.1-6_s390x.deb ... 138s Unpacking udisks2 (2.10.1-6) over (2.10.1-1ubuntu2) ... 138s Preparing to unpack .../libudisks2-0_2.10.1-6_s390x.deb ... 138s Unpacking libudisks2-0:s390x (2.10.1-6) over (2.10.1-1ubuntu2) ... 139s Preparing to unpack .../libblkid1_2.39.3-9ubuntu2_s390x.deb ... 139s Unpacking libblkid1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 139s Setting up libblkid1:s390x (2.39.3-9ubuntu2) ... 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Preparing to unpack .../liblzma5_5.6.0-0.2_s390x.deb ... 139s Unpacking liblzma5:s390x (5.6.0-0.2) over (5.4.5-0.3) ... 139s Setting up liblzma5:s390x (5.6.0-0.2) ... 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Preparing to unpack .../0-kmod_31+20240202-2ubuntu4_s390x.deb ... 139s Unpacking kmod (31+20240202-2ubuntu4) over (30+20230601-2ubuntu1) ... 139s Preparing to unpack .../1-libkmod2_31+20240202-2ubuntu4_s390x.deb ... 139s Unpacking libkmod2:s390x (31+20240202-2ubuntu4) over (30+20230601-2ubuntu1) ... 139s Preparing to unpack .../2-systemd-dev_255.4-1ubuntu5_all.deb ... 139s Unpacking systemd-dev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 139s Preparing to unpack .../3-systemd-timesyncd_255.4-1ubuntu5_s390x.deb ... 139s Unpacking systemd-timesyncd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 139s Preparing to unpack .../4-dbus-session-bus-common_1.14.10-4ubuntu2_all.deb ... 139s Unpacking dbus-session-bus-common (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 139s Preparing to unpack .../5-libaudit-common_1%3a3.1.2-2.1_all.deb ... 139s Unpacking libaudit-common (1:3.1.2-2.1) over (1:3.1.2-2) ... 139s Setting up libaudit-common (1:3.1.2-2.1) ... 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Preparing to unpack .../libcap-ng0_0.8.4-2build1_s390x.deb ... 139s Unpacking libcap-ng0:s390x (0.8.4-2build1) over (0.8.4-2) ... 139s Setting up libcap-ng0:s390x (0.8.4-2build1) ... 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Preparing to unpack .../libaudit1_1%3a3.1.2-2.1_s390x.deb ... 139s Unpacking libaudit1:s390x (1:3.1.2-2.1) over (1:3.1.2-2) ... 139s Setting up libaudit1:s390x (1:3.1.2-2.1) ... 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Preparing to unpack .../libpam0g_1.5.3-5ubuntu3_s390x.deb ... 139s Unpacking libpam0g:s390x (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 139s Setting up libpam0g:s390x (1.5.3-5ubuntu3) ... 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Preparing to unpack .../libselinux1_3.5-2ubuntu1_s390x.deb ... 139s Unpacking libselinux1:s390x (3.5-2ubuntu1) over (3.5-2build1) ... 139s Setting up libselinux1:s390x (3.5-2ubuntu1) ... 139s dpkg: libcurl4:s390x: dependency problems, but removing anyway as you requested: 139s s390-tools depends on libcurl4 (>= 7.16.2). 139s curl depends on libcurl4 (= 8.5.0-2ubuntu2). 139s 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Removing libcurl4:s390x (8.5.0-2ubuntu2) ... 139s Selecting previously unselected package libcurl4t64:s390x. 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Preparing to unpack .../libcurl4t64_8.5.0-2ubuntu8_s390x.deb ... 139s Unpacking libcurl4t64:s390x (8.5.0-2ubuntu8) ... 139s Preparing to unpack .../curl_8.5.0-2ubuntu8_s390x.deb ... 139s Unpacking curl (8.5.0-2ubuntu8) over (8.5.0-2ubuntu2) ... 139s dpkg: libpsl5:s390x: dependency problems, but removing anyway as you requested: 139s wget depends on libpsl5 (>= 0.16.0). 139s libcurl3-gnutls:s390x depends on libpsl5 (>= 0.16.0). 139s 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Removing libpsl5:s390x (0.21.2-1build1) ... 139s Selecting previously unselected package libpsl5t64:s390x. 139s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 139s Preparing to unpack .../00-libpsl5t64_0.21.2-1.1_s390x.deb ... 139s Unpacking libpsl5t64:s390x (0.21.2-1.1) ... 139s Preparing to unpack .../01-wget_1.21.4-1ubuntu2_s390x.deb ... 139s Unpacking wget (1.21.4-1ubuntu2) over (1.21.4-1ubuntu1) ... 139s Preparing to unpack .../02-tnftp_20230507-2build1_s390x.deb ... 139s Unpacking tnftp (20230507-2build1) over (20230507-2) ... 139s Preparing to unpack .../03-tcpdump_4.99.4-3ubuntu2_s390x.deb ... 139s Unpacking tcpdump (4.99.4-3ubuntu2) over (4.99.4-3ubuntu1) ... 140s Preparing to unpack .../04-libsystemd-shared_255.4-1ubuntu5_s390x.deb ... 140s Unpacking libsystemd-shared:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 140s Preparing to unpack .../05-systemd-resolved_255.4-1ubuntu5_s390x.deb ... 140s Unpacking systemd-resolved (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 140s Preparing to unpack .../06-sudo_1.9.15p5-3ubuntu3_s390x.deb ... 140s Unpacking sudo (1.9.15p5-3ubuntu3) over (1.9.15p5-3ubuntu1) ... 140s Preparing to unpack .../07-rsync_3.2.7-1build1_s390x.deb ... 140s Unpacking rsync (3.2.7-1build1) over (3.2.7-1) ... 140s Preparing to unpack .../08-python3-cryptography_41.0.7-4build2_s390x.deb ... 140s Unpacking python3-cryptography (41.0.7-4build2) over (41.0.7-3) ... 140s Preparing to unpack .../09-openssl_3.0.13-0ubuntu2_s390x.deb ... 140s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 140s Preparing to unpack .../10-openssh-sftp-server_1%3a9.6p1-3ubuntu11_s390x.deb ... 140s Unpacking openssh-sftp-server (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 140s Preparing to unpack .../11-openssh-client_1%3a9.6p1-3ubuntu11_s390x.deb ... 140s Unpacking openssh-client (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 140s Preparing to unpack .../12-openssh-server_1%3a9.6p1-3ubuntu11_s390x.deb ... 140s Unpacking openssh-server (1:9.6p1-3ubuntu11) over (1:9.6p1-3ubuntu2) ... 140s Preparing to unpack .../13-libssh-4_0.10.6-2build1_s390x.deb ... 140s Unpacking libssh-4:s390x (0.10.6-2build1) over (0.10.6-2) ... 140s Preparing to unpack .../14-libsasl2-modules_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 140s Unpacking libsasl2-modules:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 140s Preparing to unpack .../15-python3.12_3.12.2-4build3_s390x.deb ... 140s Unpacking python3.12 (3.12.2-4build3) over (3.12.2-1) ... 140s Preparing to unpack .../16-python3.12-minimal_3.12.2-4build3_s390x.deb ... 140s Unpacking python3.12-minimal (3.12.2-4build3) over (3.12.2-1) ... 140s Preparing to unpack .../17-libpython3.12-minimal_3.12.2-4build3_s390x.deb ... 140s Unpacking libpython3.12-minimal:s390x (3.12.2-4build3) over (3.12.2-1) ... 140s dpkg: libparted2:s390x: dependency problems, but removing anyway as you requested: 140s parted depends on libparted2 (= 3.6-3). 140s 140s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 140s Removing libparted2:s390x (3.6-3) ... 140s Selecting previously unselected package libparted2t64:s390x. 140s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 140s Preparing to unpack .../00-libparted2t64_3.6-3.1build2_s390x.deb ... 140s Unpacking libparted2t64:s390x (3.6-3.1build2) ... 140s Preparing to unpack .../01-parted_3.6-3.1build2_s390x.deb ... 140s Unpacking parted (3.6-3.1build2) over (3.6-3) ... 140s Preparing to unpack .../02-python3.11_3.11.8-1build4_s390x.deb ... 141s Unpacking python3.11 (3.11.8-1build4) over (3.11.8-1) ... 141s Preparing to unpack .../03-python3.11-minimal_3.11.8-1build4_s390x.deb ... 141s Unpacking python3.11-minimal (3.11.8-1build4) over (3.11.8-1) ... 141s Preparing to unpack .../04-libpython3.11-minimal_3.11.8-1build4_s390x.deb ... 141s Unpacking libpython3.11-minimal:s390x (3.11.8-1build4) over (3.11.8-1) ... 141s Preparing to unpack .../05-libpython3.11-stdlib_3.11.8-1build4_s390x.deb ... 141s Unpacking libpython3.11-stdlib:s390x (3.11.8-1build4) over (3.11.8-1) ... 141s Preparing to unpack .../06-shared-mime-info_2.4-1build1_s390x.deb ... 141s Unpacking shared-mime-info (2.4-1build1) over (2.4-1) ... 141s Preparing to unpack .../07-gir1.2-girepository-2.0_1.79.1-1ubuntu6_s390x.deb ... 141s Unpacking gir1.2-girepository-2.0:s390x (1.79.1-1ubuntu6) over (1.79.1-1) ... 141s Preparing to unpack .../08-gir1.2-glib-2.0_2.79.3-3ubuntu5_s390x.deb ... 141s Unpacking gir1.2-glib-2.0:s390x (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 141s Preparing to unpack .../09-libgirepository-1.0-1_1.79.1-1ubuntu6_s390x.deb ... 141s Unpacking libgirepository-1.0-1:s390x (1.79.1-1ubuntu6) over (1.79.1-1) ... 141s Preparing to unpack .../10-python3-gi_3.47.0-3build1_s390x.deb ... 141s Unpacking python3-gi (3.47.0-3build1) over (3.47.0-3) ... 141s Preparing to unpack .../11-python3-dbus_1.3.2-5build2_s390x.deb ... 141s Unpacking python3-dbus (1.3.2-5build2) over (1.3.2-5build1) ... 141s Selecting previously unselected package libnetplan1:s390x. 141s Preparing to unpack .../12-libnetplan1_1.0-1_s390x.deb ... 141s Unpacking libnetplan1:s390x (1.0-1) ... 141s Preparing to unpack .../13-python3-netplan_1.0-1_s390x.deb ... 141s Unpacking python3-netplan (1.0-1) over (0.107.1-3) ... 141s Preparing to unpack .../14-netplan-generator_1.0-1_s390x.deb ... 141s Adding 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 141s Unpacking netplan-generator (1.0-1) over (0.107.1-3) ... 141s Preparing to unpack .../15-initramfs-tools-bin_0.142ubuntu23_s390x.deb ... 141s Unpacking initramfs-tools-bin (0.142ubuntu23) over (0.142ubuntu20) ... 142s Preparing to unpack .../16-initramfs-tools-core_0.142ubuntu23_all.deb ... 142s Unpacking initramfs-tools-core (0.142ubuntu23) over (0.142ubuntu20) ... 142s Preparing to unpack .../17-initramfs-tools_0.142ubuntu23_all.deb ... 142s Unpacking initramfs-tools (0.142ubuntu23) over (0.142ubuntu20) ... 142s Preparing to unpack .../18-netplan.io_1.0-1_s390x.deb ... 142s Unpacking netplan.io (1.0-1) over (0.107.1-3) ... 142s Preparing to unpack .../19-libxmlb2_0.3.15-1build1_s390x.deb ... 142s Unpacking libxmlb2:s390x (0.3.15-1build1) over (0.3.15-1) ... 142s dpkg: libgpgme11:s390x: dependency problems, but removing anyway as you requested: 142s libvolume-key1:s390x depends on libgpgme11 (>= 1.4.1). 142s libjcat1:s390x depends on libgpgme11 (>= 1.2.0). 142s 142s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 142s Removing libgpgme11:s390x (1.18.0-4ubuntu1) ... 142s Selecting previously unselected package libgpgme11t64:s390x. 142s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 142s Preparing to unpack .../00-libgpgme11t64_1.18.0-4.1ubuntu3_s390x.deb ... 142s Unpacking libgpgme11t64:s390x (1.18.0-4.1ubuntu3) ... 142s Preparing to unpack .../01-libvolume-key1_0.3.12-7build1_s390x.deb ... 142s Unpacking libvolume-key1:s390x (0.3.12-7build1) over (0.3.12-5build2) ... 142s Preparing to unpack .../02-libqrtr-glib0_1.2.2-1ubuntu3_s390x.deb ... 142s Unpacking libqrtr-glib0:s390x (1.2.2-1ubuntu3) over (1.2.2-1ubuntu2) ... 142s Preparing to unpack .../03-libqmi-glib5_1.35.2-0ubuntu1_s390x.deb ... 142s Unpacking libqmi-glib5:s390x (1.35.2-0ubuntu1) over (1.34.0-2) ... 142s Preparing to unpack .../04-libqmi-proxy_1.35.2-0ubuntu1_s390x.deb ... 142s Unpacking libqmi-proxy (1.35.2-0ubuntu1) over (1.34.0-2) ... 142s Preparing to unpack .../05-libpolkit-agent-1-0_124-1ubuntu1_s390x.deb ... 142s Unpacking libpolkit-agent-1-0:s390x (124-1ubuntu1) over (124-1) ... 142s Preparing to unpack .../06-libpolkit-gobject-1-0_124-1ubuntu1_s390x.deb ... 142s Unpacking libpolkit-gobject-1-0:s390x (124-1ubuntu1) over (124-1) ... 142s Preparing to unpack .../07-libmm-glib0_1.23.4-0ubuntu1_s390x.deb ... 142s Unpacking libmm-glib0:s390x (1.23.4-0ubuntu1) over (1.22.0-3) ... 142s Preparing to unpack .../08-libmbim-glib4_1.31.2-0ubuntu2_s390x.deb ... 142s Unpacking libmbim-glib4:s390x (1.31.2-0ubuntu2) over (1.30.0-1) ... 142s Preparing to unpack .../09-libmbim-proxy_1.31.2-0ubuntu2_s390x.deb ... 142s Unpacking libmbim-proxy (1.31.2-0ubuntu2) over (1.30.0-1) ... 142s Preparing to unpack .../10-libjson-glib-1.0-common_1.8.0-2build1_all.deb ... 142s Unpacking libjson-glib-1.0-common (1.8.0-2build1) over (1.8.0-2) ... 142s Preparing to unpack .../11-libjson-glib-1.0-0_1.8.0-2build1_s390x.deb ... 142s Unpacking libjson-glib-1.0-0:s390x (1.8.0-2build1) over (1.8.0-2) ... 142s Preparing to unpack .../12-libgusb2_0.4.8-1build1_s390x.deb ... 142s Unpacking libgusb2:s390x (0.4.8-1build1) over (0.4.8-1) ... 142s Preparing to unpack .../13-libgudev-1.0-0_1%3a238-3ubuntu2_s390x.deb ... 142s Unpacking libgudev-1.0-0:s390x (1:238-3ubuntu2) over (1:238-3) ... 142s dpkg: libarchive13:s390x: dependency problems, but removing anyway as you requested: 142s fwupd depends on libarchive13 (>= 3.2.1). 142s 142s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 142s Removing libarchive13:s390x (3.7.2-1ubuntu2) ... 142s Selecting previously unselected package libarchive13t64:s390x. 142s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 142s Preparing to unpack .../libarchive13t64_3.7.2-1.1ubuntu2_s390x.deb ... 142s Unpacking libarchive13t64:s390x (3.7.2-1.1ubuntu2) ... 142s Preparing to unpack .../fwupd_1.9.15-2_s390x.deb ... 142s Unpacking fwupd (1.9.15-2) over (1.9.14-1) ... 142s dpkg: libcurl3-gnutls:s390x: dependency problems, but removing anyway as you requested: 142s libfwupd2:s390x depends on libcurl3-gnutls (>= 7.63.0). 142s 142s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 142s Removing libcurl3-gnutls:s390x (8.5.0-2ubuntu2) ... 142s Selecting previously unselected package libcurl3t64-gnutls:s390x. 142s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 142s Preparing to unpack .../0-libcurl3t64-gnutls_8.5.0-2ubuntu8_s390x.deb ... 142s Unpacking libcurl3t64-gnutls:s390x (8.5.0-2ubuntu8) ... 142s Preparing to unpack .../1-libfwupd2_1.9.15-2_s390x.deb ... 142s Unpacking libfwupd2:s390x (1.9.15-2) over (1.9.14-1) ... 142s Preparing to unpack .../2-libblockdev3_3.1.0-1build1_s390x.deb ... 142s Unpacking libblockdev3:s390x (3.1.0-1build1) over (3.1.0-1) ... 142s Preparing to unpack .../3-libblockdev-utils3_3.1.0-1build1_s390x.deb ... 142s Unpacking libblockdev-utils3:s390x (3.1.0-1build1) over (3.1.0-1) ... 142s Preparing to unpack .../4-libblockdev-swap3_3.1.0-1build1_s390x.deb ... 142s Unpacking libblockdev-swap3:s390x (3.1.0-1build1) over (3.1.0-1) ... 142s Preparing to unpack .../5-libblockdev-part3_3.1.0-1build1_s390x.deb ... 142s Unpacking libblockdev-part3:s390x (3.1.0-1build1) over (3.1.0-1) ... 142s dpkg: libnvme1: dependency problems, but removing anyway as you requested: 142s libblockdev-nvme3:s390x depends on libnvme1 (>= 1.7.1). 142s 142s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 142s Removing libnvme1 (1.8-2) ... 142s Selecting previously unselected package libnvme1t64. 142s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 142s Preparing to unpack .../0-libnvme1t64_1.8-3_s390x.deb ... 142s Unpacking libnvme1t64 (1.8-3) ... 143s Preparing to unpack .../1-libblockdev-nvme3_3.1.0-1build1_s390x.deb ... 143s Unpacking libblockdev-nvme3:s390x (3.1.0-1build1) over (3.1.0-1) ... 143s Preparing to unpack .../2-libblockdev-mdraid3_3.1.0-1build1_s390x.deb ... 143s Unpacking libblockdev-mdraid3:s390x (3.1.0-1build1) over (3.1.0-1) ... 143s Preparing to unpack .../3-libblockdev-loop3_3.1.0-1build1_s390x.deb ... 143s Unpacking libblockdev-loop3:s390x (3.1.0-1build1) over (3.1.0-1) ... 143s Preparing to unpack .../4-e2fsprogs-l10n_1.47.0-2.4~exp1ubuntu2_all.deb ... 143s Unpacking e2fsprogs-l10n (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 143s Preparing to unpack .../5-logsave_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 143s Unpacking logsave (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 143s dpkg: libext2fs2:s390x: dependency problems, but removing anyway as you requested: 143s libblockdev-fs3:s390x depends on libext2fs2 (>= 1.42.11). 143s e2fsprogs depends on libext2fs2 (= 1.47.0-2ubuntu1). 143s btrfs-progs depends on libext2fs2 (>= 1.42). 143s 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Removing libext2fs2:s390x (1.47.0-2ubuntu1) ... 143s Selecting previously unselected package libext2fs2t64:s390x. 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Preparing to unpack .../libext2fs2t64_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 143s Adding 'diversion of /lib/s390x-linux-gnu/libe2p.so.2 to /lib/s390x-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' 143s 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' 143s Adding 'diversion of /lib/s390x-linux-gnu/libext2fs.so.2 to /lib/s390x-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' 143s 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' 143s Unpacking libext2fs2t64:s390x (1.47.0-2.4~exp1ubuntu2) ... 143s Setting up libcom-err2:s390x (1.47.0-2.4~exp1ubuntu2) ... 143s Setting up libext2fs2t64:s390x (1.47.0-2.4~exp1ubuntu2) ... 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Preparing to unpack .../e2fsprogs_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 143s Unpacking e2fsprogs (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 143s dpkg: libreiserfscore0: dependency problems, but removing anyway as you requested: 143s btrfs-progs depends on libreiserfscore0 (>= 1:3.6.27). 143s 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Removing libreiserfscore0 (1:3.6.27-7) ... 143s Selecting previously unselected package libreiserfscore0t64. 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Preparing to unpack .../libreiserfscore0t64_1%3a3.6.27-7.1_s390x.deb ... 143s Unpacking libreiserfscore0t64 (1:3.6.27-7.1) ... 143s Preparing to unpack .../btrfs-progs_6.6.3-1.1build1_s390x.deb ... 143s Unpacking btrfs-progs (6.6.3-1.1build1) over (6.6.3-1.1) ... 143s Preparing to unpack .../libblockdev-fs3_3.1.0-1build1_s390x.deb ... 143s Unpacking libblockdev-fs3:s390x (3.1.0-1build1) over (3.1.0-1) ... 143s Preparing to unpack .../libblockdev-crypto3_3.1.0-1build1_s390x.deb ... 143s Unpacking libblockdev-crypto3:s390x (3.1.0-1build1) over (3.1.0-1) ... 143s Preparing to unpack .../bolt_0.9.6-2build1_s390x.deb ... 143s Unpacking bolt (0.9.6-2build1) over (0.9.6-2) ... 143s dpkg: libglib2.0-0:s390x: dependency problems, but removing anyway as you requested: 143s s390-tools depends on libglib2.0-0 (>= 2.77.0). 143s libnetplan0:s390x depends on libglib2.0-0 (>= 2.75.3). 143s libjcat1:s390x depends on libglib2.0-0 (>= 2.75.3). 143s 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Removing libglib2.0-0:s390x (2.79.2-1~ubuntu1) ... 143s Selecting previously unselected package libglib2.0-0t64:s390x. 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Preparing to unpack .../0-libglib2.0-0t64_2.79.3-3ubuntu5_s390x.deb ... 143s 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... 143s removed '/var/lib/dpkg/info/libglib2.0-0:s390x.postrm' 143s Unpacking libglib2.0-0t64:s390x (2.79.3-3ubuntu5) ... 143s Preparing to unpack .../1-libjcat1_0.2.0-2build2_s390x.deb ... 143s Unpacking libjcat1:s390x (0.2.0-2build2) over (0.2.0-2) ... 143s Preparing to unpack .../2-libldap2_2.6.7+dfsg-1~exp1ubuntu6_s390x.deb ... 143s Unpacking libldap2:s390x (2.6.7+dfsg-1~exp1ubuntu6) over (2.6.7+dfsg-1~exp1ubuntu1) ... 143s Preparing to unpack .../3-ubuntu-pro-client-l10n_31.2.2_s390x.deb ... 143s Unpacking ubuntu-pro-client-l10n (31.2.2) over (31.1) ... 143s Preparing to unpack .../4-ubuntu-pro-client_31.2.2_s390x.deb ... 143s Unpacking ubuntu-pro-client (31.2.2) over (31.1) ... 143s Preparing to unpack .../5-gnupg-utils_2.4.4-2ubuntu15_s390x.deb ... 143s Unpacking gnupg-utils (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 143s Preparing to unpack .../6-keyboxd_2.4.4-2ubuntu15_s390x.deb ... 143s Unpacking keyboxd (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 143s dpkg: libnpth0:s390x: dependency problems, but removing anyway as you requested: 143s gpgv depends on libnpth0 (>= 0.90). 143s gpgsm depends on libnpth0 (>= 0.90). 143s gpg-agent depends on libnpth0 (>= 0.90). 143s gpg depends on libnpth0 (>= 0.90). 143s dirmngr depends on libnpth0 (>= 0.90). 143s 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Removing libnpth0:s390x (1.6-3build2) ... 143s Selecting previously unselected package libnpth0t64:s390x. 143s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 143s Preparing to unpack .../libnpth0t64_1.6-3.1_s390x.deb ... 143s Unpacking libnpth0t64:s390x (1.6-3.1) ... 143s Setting up libnpth0t64:s390x (1.6-3.1) ... 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52186 files and directories currently installed.) 144s Preparing to unpack .../gpgv_2.4.4-2ubuntu15_s390x.deb ... 144s Unpacking gpgv (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 144s Setting up gpgv (2.4.4-2ubuntu15) ... 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52186 files and directories currently installed.) 144s Preparing to unpack .../0-gpg-wks-client_2.4.4-2ubuntu15_s390x.deb ... 144s Unpacking gpg-wks-client (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 144s Preparing to unpack .../1-gpg-agent_2.4.4-2ubuntu15_s390x.deb ... 144s Unpacking gpg-agent (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 144s Preparing to unpack .../2-gpg_2.4.4-2ubuntu15_s390x.deb ... 144s Unpacking gpg (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 144s Preparing to unpack .../3-dirmngr_2.4.4-2ubuntu15_s390x.deb ... 144s Unpacking dirmngr (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 144s Preparing to unpack .../4-gnupg_2.4.4-2ubuntu15_all.deb ... 144s Unpacking gnupg (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 144s Preparing to unpack .../5-python3-apt_2.7.7_s390x.deb ... 144s Unpacking python3-apt (2.7.7) over (2.7.6) ... 144s Preparing to unpack .../6-apt-utils_2.7.14_s390x.deb ... 144s Unpacking apt-utils (2.7.14) over (2.7.12) ... 144s dpkg: libapt-pkg6.0:s390x: dependency problems, but removing anyway as you requested: 144s apt depends on libapt-pkg6.0 (>= 2.7.12). 144s 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52184 files and directories currently installed.) 144s Removing libapt-pkg6.0:s390x (2.7.12) ... 144s dpkg: libnettle8:s390x: dependency problems, but removing anyway as you requested: 144s libhogweed6:s390x depends on libnettle8. 144s libgnutls30:s390x depends on libnettle8 (>= 3.9~). 144s 144s Removing libnettle8:s390x (3.9.1-2) ... 144s Selecting previously unselected package libapt-pkg6.0t64:s390x. 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52128 files and directories currently installed.) 144s Preparing to unpack .../libapt-pkg6.0t64_2.7.14_s390x.deb ... 144s Unpacking libapt-pkg6.0t64:s390x (2.7.14) ... 144s Setting up libapt-pkg6.0t64:s390x (2.7.14) ... 144s Selecting previously unselected package libnettle8t64:s390x. 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52178 files and directories currently installed.) 144s Preparing to unpack .../libnettle8t64_3.9.1-2.2_s390x.deb ... 144s Unpacking libnettle8t64:s390x (3.9.1-2.2) ... 144s Setting up libnettle8t64:s390x (3.9.1-2.2) ... 144s dpkg: libhogweed6:s390x: dependency problems, but removing anyway as you requested: 144s libgnutls30:s390x depends on libhogweed6 (>= 3.6). 144s 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52186 files and directories currently installed.) 144s Removing libhogweed6:s390x (3.9.1-2) ... 144s Selecting previously unselected package libhogweed6t64:s390x. 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52181 files and directories currently installed.) 144s Preparing to unpack .../libhogweed6t64_3.9.1-2.2_s390x.deb ... 144s Unpacking libhogweed6t64:s390x (3.9.1-2.2) ... 144s Setting up libhogweed6t64:s390x (3.9.1-2.2) ... 144s dpkg: libgnutls30:s390x: dependency problems, but removing anyway as you requested: 144s apt depends on libgnutls30 (>= 3.8.1). 144s 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52187 files and directories currently installed.) 144s Removing libgnutls30:s390x (3.8.3-1ubuntu1) ... 144s Selecting previously unselected package libgnutls30t64:s390x. 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52178 files and directories currently installed.) 144s Preparing to unpack .../libgnutls30t64_3.8.3-1.1ubuntu2_s390x.deb ... 144s Unpacking libgnutls30t64:s390x (3.8.3-1.1ubuntu2) ... 144s Setting up libgnutls30t64:s390x (3.8.3-1.1ubuntu2) ... 144s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52206 files and directories currently installed.) 144s Preparing to unpack .../archives/apt_2.7.14_s390x.deb ... 144s Unpacking apt (2.7.14) over (2.7.12) ... 144s Setting up apt (2.7.14) ... 145s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 145s Preparing to unpack .../gpgconf_2.4.4-2ubuntu15_s390x.deb ... 145s Unpacking gpgconf (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 145s Preparing to unpack .../gpgsm_2.4.4-2ubuntu15_s390x.deb ... 145s Unpacking gpgsm (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 145s dpkg: libreadline8:s390x: dependency problems, but removing anyway as you requested: 145s libpython3.12-stdlib:s390x depends on libreadline8 (>= 7.0~beta). 145s gawk depends on libreadline8 (>= 6.0). 145s fdisk depends on libreadline8 (>= 6.0). 145s 145s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 145s Removing libreadline8:s390x (8.2-3) ... 145s Selecting previously unselected package libreadline8t64:s390x. 145s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 145s Preparing to unpack .../libreadline8t64_8.2-4_s390x.deb ... 145s Adding 'diversion of /lib/s390x-linux-gnu/libhistory.so.8 to /lib/s390x-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' 145s 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' 145s Adding 'diversion of /lib/s390x-linux-gnu/libreadline.so.8 to /lib/s390x-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' 145s 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' 145s Unpacking libreadline8t64:s390x (8.2-4) ... 145s Setting up libreadline8t64:s390x (8.2-4) ... 145s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 145s Preparing to unpack .../gawk_1%3a5.2.1-2build2_s390x.deb ... 145s Unpacking gawk (1:5.2.1-2build2) over (1:5.2.1-2) ... 145s Preparing to unpack .../fdisk_2.39.3-9ubuntu2_s390x.deb ... 145s Unpacking fdisk (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 145s Preparing to unpack .../libpython3.12-stdlib_3.12.2-4build3_s390x.deb ... 145s Unpacking libpython3.12-stdlib:s390x (3.12.2-4build3) over (3.12.2-1) ... 145s Preparing to unpack .../perl-base_5.38.2-3.2_s390x.deb ... 145s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ... 146s Setting up perl-base (5.38.2-3.2) ... 146s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 146s Preparing to unpack .../perl-modules-5.38_5.38.2-3.2_all.deb ... 146s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ... 146s Preparing to unpack .../python3-gdbm_3.12.2-3ubuntu1.1_s390x.deb ... 146s Unpacking python3-gdbm:s390x (3.12.2-3ubuntu1.1) over (3.11.5-1) ... 146s Preparing to unpack .../man-db_2.12.0-3build4_s390x.deb ... 146s Unpacking man-db (2.12.0-3build4) over (2.12.0-3) ... 146s dpkg: libgdbm-compat4:s390x: dependency problems, but removing anyway as you requested: 146s libperl5.38:s390x depends on libgdbm-compat4 (>= 1.18-3). 146s 146s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 146s Removing libgdbm-compat4:s390x (1.23-5) ... 146s dpkg: libgdbm6:s390x: dependency problems, but removing anyway as you requested: 146s libperl5.38:s390x depends on libgdbm6 (>= 1.21). 146s 146s Removing libgdbm6:s390x (1.23-5) ... 146s Selecting previously unselected package libgdbm6t64:s390x. 146s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 146s Preparing to unpack .../libgdbm6t64_1.23-5.1_s390x.deb ... 146s Unpacking libgdbm6t64:s390x (1.23-5.1) ... 146s Selecting previously unselected package libgdbm-compat4t64:s390x. 146s Preparing to unpack .../libgdbm-compat4t64_1.23-5.1_s390x.deb ... 146s Unpacking libgdbm-compat4t64:s390x (1.23-5.1) ... 146s dpkg: libperl5.38:s390x: dependency problems, but removing anyway as you requested: 146s perl depends on libperl5.38 (= 5.38.2-3). 146s 146s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 146s Removing libperl5.38:s390x (5.38.2-3) ... 146s Selecting previously unselected package libperl5.38t64:s390x. 146s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 146s Preparing to unpack .../libperl5.38t64_5.38.2-3.2_s390x.deb ... 146s Unpacking libperl5.38t64:s390x (5.38.2-3.2) ... 147s Preparing to unpack .../perl_5.38.2-3.2_s390x.deb ... 147s Unpacking perl (5.38.2-3.2) over (5.38.2-3) ... 147s dpkg: libdb5.3:s390x: dependency problems, but removing anyway as you requested: 147s libsasl2-modules-db:s390x depends on libdb5.3. 147s libpam-modules:s390x depends on libdb5.3. 147s iproute2 depends on libdb5.3. 147s 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 147s Removing libdb5.3:s390x (5.3.28+dfsg2-4) ... 147s Selecting previously unselected package libdb5.3t64:s390x. 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 147s Preparing to unpack .../0-libdb5.3t64_5.3.28+dfsg2-6_s390x.deb ... 147s Unpacking libdb5.3t64:s390x (5.3.28+dfsg2-6) ... 147s Preparing to unpack .../1-libsasl2-modules-db_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 147s Unpacking libsasl2-modules-db:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 147s Preparing to unpack .../2-libsasl2-2_2.1.28+dfsg1-5ubuntu1_s390x.deb ... 147s Unpacking libsasl2-2:s390x (2.1.28+dfsg1-5ubuntu1) over (2.1.28+dfsg1-4) ... 147s Preparing to unpack .../3-libfido2-1_1.14.0-1build1_s390x.deb ... 147s Unpacking libfido2-1:s390x (1.14.0-1build1) over (1.14.0-1) ... 147s Preparing to unpack .../4-libcryptsetup12_2%3a2.7.0-1ubuntu2_s390x.deb ... 147s Unpacking libcryptsetup12:s390x (2:2.7.0-1ubuntu2) over (2:2.7.0-1ubuntu1) ... 147s Preparing to unpack .../5-dhcpcd-base_1%3a10.0.6-1ubuntu2_s390x.deb ... 147s Unpacking dhcpcd-base (1:10.0.6-1ubuntu2) over (1:10.0.6-1ubuntu1) ... 147s dpkg: libuv1:s390x: dependency problems, but removing anyway as you requested: 147s bind9-libs:s390x depends on libuv1 (>= 1.40.0). 147s 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 147s Removing libuv1:s390x (1.48.0-1) ... 147s Selecting previously unselected package libuv1t64:s390x. 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 147s Preparing to unpack .../libuv1t64_1.48.0-1.1_s390x.deb ... 147s Unpacking libuv1t64:s390x (1.48.0-1.1) ... 147s Preparing to unpack .../bind9-host_1%3a9.18.24-0ubuntu3_s390x.deb ... 147s Unpacking bind9-host (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 147s Preparing to unpack .../bind9-dnsutils_1%3a9.18.24-0ubuntu3_s390x.deb ... 147s Unpacking bind9-dnsutils (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 147s Preparing to unpack .../bind9-libs_1%3a9.18.24-0ubuntu3_s390x.deb ... 147s Unpacking bind9-libs:s390x (1:9.18.24-0ubuntu3) over (1:9.18.21-0ubuntu1) ... 147s dpkg: libssl3:s390x: dependency problems, but removing anyway as you requested: 147s systemd depends on libssl3 (>= 3.0.0). 147s s390-tools depends on libssl3 (>= 3.0.0). 147s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 147s 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 147s Removing libssl3:s390x (3.0.10-1ubuntu4) ... 147s Selecting previously unselected package libssl3t64:s390x. 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 147s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_s390x.deb ... 147s Unpacking libssl3t64:s390x (3.0.13-0ubuntu2) ... 147s Setting up libssl3t64:s390x (3.0.13-0ubuntu2) ... 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 147s Preparing to unpack .../libnss-systemd_255.4-1ubuntu5_s390x.deb ... 147s Unpacking libnss-systemd:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 147s Preparing to unpack .../libudev1_255.4-1ubuntu5_s390x.deb ... 147s Unpacking libudev1:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 147s Setting up libudev1:s390x (255.4-1ubuntu5) ... 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 147s Preparing to unpack .../systemd_255.4-1ubuntu5_s390x.deb ... 147s Unpacking systemd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 148s Preparing to unpack .../udev_255.4-1ubuntu5_s390x.deb ... 148s Unpacking udev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 148s Preparing to unpack .../libsystemd0_255.4-1ubuntu5_s390x.deb ... 148s Unpacking libsystemd0:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 148s Setting up libsystemd0:s390x (255.4-1ubuntu5) ... 148s Setting up libcryptsetup12:s390x (2:2.7.0-1ubuntu2) ... 148s Setting up libkmod2:s390x (31+20240202-2ubuntu4) ... 148s Setting up libsystemd-shared:s390x (255.4-1ubuntu5) ... 148s Setting up systemd-dev (255.4-1ubuntu5) ... 148s Setting up systemd (255.4-1ubuntu5) ... 148s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 148s Preparing to unpack .../systemd-sysv_255.4-1ubuntu5_s390x.deb ... 148s Unpacking systemd-sysv (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 148s Preparing to unpack .../libpam-systemd_255.4-1ubuntu5_s390x.deb ... 148s Unpacking libpam-systemd:s390x (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 148s Preparing to unpack .../libpam-modules-bin_1.5.3-5ubuntu3_s390x.deb ... 148s Unpacking libpam-modules-bin (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 148s Setting up libpam-modules-bin (1.5.3-5ubuntu3) ... 149s pam_namespace.service is a disabled or a static unit not running, not starting it. 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 149s Preparing to unpack .../libpam-modules_1.5.3-5ubuntu3_s390x.deb ... 149s Unpacking libpam-modules:s390x (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 149s Setting up libpam-modules:s390x (1.5.3-5ubuntu3) ... 149s Installing new version of config file /etc/security/namespace.init ... 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 149s Preparing to unpack .../libpam-runtime_1.5.3-5ubuntu3_all.deb ... 149s Unpacking libpam-runtime (1.5.3-5ubuntu3) over (1.5.2-9.1ubuntu3) ... 149s Setting up libpam-runtime (1.5.3-5ubuntu3) ... 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 149s Preparing to unpack .../0-dbus-user-session_1.14.10-4ubuntu2_s390x.deb ... 149s Unpacking dbus-user-session (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 149s Preparing to unpack .../1-libapparmor1_4.0.0-beta3-0ubuntu2_s390x.deb ... 149s Unpacking libapparmor1:s390x (4.0.0-beta3-0ubuntu2) over (4.0.0~alpha4-0ubuntu1) ... 149s Preparing to unpack .../2-libexpat1_2.6.1-2_s390x.deb ... 149s Unpacking libexpat1:s390x (2.6.1-2) over (2.6.0-1) ... 149s Preparing to unpack .../3-dbus-system-bus-common_1.14.10-4ubuntu2_all.deb ... 149s Unpacking dbus-system-bus-common (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 149s Preparing to unpack .../4-dbus-bin_1.14.10-4ubuntu2_s390x.deb ... 149s Unpacking dbus-bin (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 149s Preparing to unpack .../5-dbus_1.14.10-4ubuntu2_s390x.deb ... 149s Unpacking dbus (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 149s Preparing to unpack .../6-dbus-daemon_1.14.10-4ubuntu2_s390x.deb ... 149s Unpacking dbus-daemon (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 149s Preparing to unpack .../7-libdbus-1-3_1.14.10-4ubuntu2_s390x.deb ... 149s Unpacking libdbus-1-3:s390x (1.14.10-4ubuntu2) over (1.14.10-4ubuntu1) ... 149s Preparing to unpack .../8-libmount1_2.39.3-9ubuntu2_s390x.deb ... 149s Unpacking libmount1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 149s Setting up libmount1:s390x (2.39.3-9ubuntu2) ... 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 149s Preparing to unpack .../libseccomp2_2.5.5-1ubuntu2_s390x.deb ... 149s Unpacking libseccomp2:s390x (2.5.5-1ubuntu2) over (2.5.5-1ubuntu1) ... 149s Setting up libseccomp2:s390x (2.5.5-1ubuntu2) ... 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 149s Preparing to unpack .../libdevmapper1.02.1_2%3a1.02.185-3ubuntu2_s390x.deb ... 149s Unpacking libdevmapper1.02.1:s390x (2:1.02.185-3ubuntu2) over (2:1.02.185-3ubuntu1) ... 149s Preparing to unpack .../libuuid1_2.39.3-9ubuntu2_s390x.deb ... 149s Unpacking libuuid1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 150s Setting up libuuid1:s390x (2.39.3-9ubuntu2) ... 150s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 150s Preparing to unpack .../libfdisk1_2.39.3-9ubuntu2_s390x.deb ... 150s Unpacking libfdisk1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 150s Preparing to unpack .../mount_2.39.3-9ubuntu2_s390x.deb ... 150s Unpacking mount (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 150s Preparing to unpack .../libsqlite3-0_3.45.1-1ubuntu1_s390x.deb ... 150s Unpacking libsqlite3-0:s390x (3.45.1-1ubuntu1) over (3.45.1-1) ... 150s Preparing to unpack .../gcc-14-base_14-20240315-1ubuntu1_s390x.deb ... 150s Unpacking gcc-14-base:s390x (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 150s Setting up gcc-14-base:s390x (14-20240315-1ubuntu1) ... 150s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 150s Preparing to unpack .../libgcc-s1_14-20240315-1ubuntu1_s390x.deb ... 150s Unpacking libgcc-s1:s390x (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 150s Setting up libgcc-s1:s390x (14-20240315-1ubuntu1) ... 150s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 150s Preparing to unpack .../libstdc++6_14-20240315-1ubuntu1_s390x.deb ... 150s Unpacking libstdc++6:s390x (14-20240315-1ubuntu1) over (14-20240303-1ubuntu1) ... 150s Setting up libstdc++6:s390x (14-20240315-1ubuntu1) ... 150s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 150s Preparing to unpack .../dpkg_1.22.6ubuntu5_s390x.deb ... 150s Unpacking dpkg (1.22.6ubuntu5) over (1.22.4ubuntu5) ... 150s Setting up dpkg (1.22.6ubuntu5) ... 151s Setting up libpython3.12-minimal:s390x (3.12.2-4build3) ... 151s Setting up libexpat1:s390x (2.6.1-2) ... 151s Setting up python3.12-minimal (3.12.2-4build3) ... 152s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 152s Preparing to unpack .../python3-minimal_3.12.2-0ubuntu1_s390x.deb ... 152s Unpacking python3-minimal (3.12.2-0ubuntu1) over (3.12.1-0ubuntu2) ... 152s Setting up python3-minimal (3.12.2-0ubuntu1) ... 152s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 152s Preparing to unpack .../python3_3.12.2-0ubuntu1_s390x.deb ... 152s Unpacking python3 (3.12.2-0ubuntu1) over (3.12.1-0ubuntu2) ... 152s Preparing to unpack .../libpython3-stdlib_3.12.2-0ubuntu1_s390x.deb ... 152s Unpacking libpython3-stdlib:s390x (3.12.2-0ubuntu1) over (3.12.1-0ubuntu2) ... 152s Preparing to unpack .../libsmartcols1_2.39.3-9ubuntu2_s390x.deb ... 152s Unpacking libsmartcols1:s390x (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 152s Setting up libsmartcols1:s390x (2.39.3-9ubuntu2) ... 152s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 152s Preparing to unpack .../0-bsdextrautils_2.39.3-9ubuntu2_s390x.deb ... 152s Unpacking bsdextrautils (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 152s Preparing to unpack .../1-groff-base_1.23.0-3build1_s390x.deb ... 152s Unpacking groff-base (1.23.0-3build1) over (1.23.0-3) ... 152s Preparing to unpack .../2-pinentry-curses_1.2.1-3ubuntu4_s390x.deb ... 152s Unpacking pinentry-curses (1.2.1-3ubuntu4) over (1.2.1-3ubuntu1) ... 152s Preparing to unpack .../3-readline-common_8.2-4_all.deb ... 152s Unpacking readline-common (8.2-4) over (8.2-3) ... 152s Preparing to unpack .../4-libxml2_2.9.14+dfsg-1.3ubuntu2_s390x.deb ... 152s Unpacking libxml2:s390x (2.9.14+dfsg-1.3ubuntu2) over (2.9.14+dfsg-1.3ubuntu1) ... 152s Preparing to unpack .../5-libbpf1_1%3a1.3.0-2build1_s390x.deb ... 152s Unpacking libbpf1:s390x (1:1.3.0-2build1) over (1:1.3.0-2) ... 152s dpkg: libelf1:s390x: dependency problems, but removing anyway as you requested: 152s linux-headers-6.8.0-11-generic depends on libelf1 (>= 0.144). 152s iproute2 depends on libelf1 (>= 0.131). 152s 152s (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 ... 52210 files and directories currently installed.) 152s Preparing to unpack .../libelf1t64_0.190-1.1build2_s390x.deb ... 152s Unpacking libelf1t64:s390x (0.190-1.1build2) ... 152s Preparing to unpack .../libtirpc-common_1.3.4+ds-1.1_all.deb ... 152s Unpacking libtirpc-common (1.3.4+ds-1.1) over (1.3.4+ds-1build1) ... 152s Preparing to unpack .../lsof_4.95.0-1build2_s390x.deb ... 152s Unpacking lsof (4.95.0-1build2) over (4.95.0-1build1) ... 152s Preparing to unpack .../libnsl2_1.3.0-3build2_s390x.deb ... 152s Unpacking libnsl2:s390x (1.3.0-3build2) over (1.3.0-3) ... 152s dpkg: libtirpc3:s390x: dependency problems, but removing anyway as you requested: 152s iproute2 depends on libtirpc3 (>= 1.0.2). 152s 152s (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.) 152s Preparing to unpack .../0-libtirpc3t64_1.3.4+ds-1.1_s390x.deb ... 152s Adding 'diversion of /lib/s390x-linux-gnu/libtirpc.so.3 to /lib/s390x-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' 152s 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' 152s Unpacking libtirpc3t64:s390x (1.3.4+ds-1.1) ... 152s Preparing to unpack .../1-iproute2_6.1.0-1ubuntu5_s390x.deb ... 152s Unpacking iproute2 (6.1.0-1ubuntu5) over (6.1.0-1ubuntu2) ... 152s Preparing to unpack .../2-python3-yaml_6.0.1-2build1_s390x.deb ... 152s Unpacking python3-yaml (6.0.1-2build1) over (6.0.1-2) ... 152s Preparing to unpack .../3-libusb-1.0-0_2%3a1.0.27-1_s390x.deb ... 152s Unpacking libusb-1.0-0:s390x (2:1.0.27-1) over (2:1.0.26-1) ... 152s Preparing to unpack .../4-libprotobuf-c1_1.4.1-1ubuntu3_s390x.deb ... 152s Unpacking libprotobuf-c1:s390x (1.4.1-1ubuntu3) over (1.4.1-1ubuntu2) ... 152s Preparing to unpack .../5-libnghttp2-14_1.59.0-1build1_s390x.deb ... 152s Unpacking libnghttp2-14:s390x (1.59.0-1build1) over (1.59.0-1) ... 152s Preparing to unpack .../6-libproc2-0_2%3a4.0.4-4ubuntu2_s390x.deb ... 152s Unpacking libproc2-0:s390x (2:4.0.4-4ubuntu2) over (2:4.0.4-4ubuntu1) ... 153s Preparing to unpack .../7-procps_2%3a4.0.4-4ubuntu2_s390x.deb ... 153s Unpacking procps (2:4.0.4-4ubuntu2) over (2:4.0.4-4ubuntu1) ... 153s Preparing to unpack .../8-coreutils_9.4-3ubuntu3_s390x.deb ... 153s Unpacking coreutils (9.4-3ubuntu3) over (9.4-2ubuntu4) ... 153s Setting up coreutils (9.4-3ubuntu3) ... 153s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52220 files and directories currently installed.) 153s Preparing to unpack .../util-linux_2.39.3-9ubuntu2_s390x.deb ... 153s Unpacking util-linux (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 153s Setting up util-linux (2.39.3-9ubuntu2) ... 154s fstrim.service is a disabled or a static unit not running, not starting it. 154s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52220 files and directories currently installed.) 154s Removing libatm1:s390x (1:2.5.1-5) ... 154s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 154s Preparing to unpack .../file_1%3a5.45-3_s390x.deb ... 154s Unpacking file (1:5.45-3) over (1:5.45-2) ... 154s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 154s Removing libmagic1:s390x (1:5.45-2) ... 154s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52205 files and directories currently installed.) 154s Preparing to unpack .../libmagic-mgc_1%3a5.45-3_s390x.deb ... 154s Unpacking libmagic-mgc (1:5.45-3) over (1:5.45-2) ... 154s Selecting previously unselected package libmagic1t64:s390x. 154s Preparing to unpack .../libmagic1t64_1%3a5.45-3_s390x.deb ... 154s Unpacking libmagic1t64:s390x (1:5.45-3) ... 154s Preparing to unpack .../libplymouth5_24.004.60-1ubuntu6_s390x.deb ... 154s Unpacking libplymouth5:s390x (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 154s (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52206 files and directories currently installed.) 154s Preparing to unpack .../libpng16-16t64_1.6.43-3_s390x.deb ... 154s Unpacking libpng16-16t64:s390x (1.6.43-3) ... 154s Preparing to unpack .../multipath-tools_0.9.4-5ubuntu6_s390x.deb ... 154s Unpacking multipath-tools (0.9.4-5ubuntu6) over (0.9.4-5ubuntu3) ... 154s dpkg: liburcu8:s390x: dependency problems, but removing anyway as you requested: 154s xfsprogs depends on liburcu8 (>= 0.13.0). 154s 154s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52216 files and directories currently installed.) 154s Removing liburcu8:s390x (0.14.0-3) ... 154s Selecting previously unselected package liburcu8t64:s390x. 154s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52197 files and directories currently installed.) 154s Preparing to unpack .../liburcu8t64_0.14.0-3.1_s390x.deb ... 154s Unpacking liburcu8t64:s390x (0.14.0-3.1) ... 154s Preparing to unpack .../liblocale-gettext-perl_1.07-6ubuntu4_s390x.deb ... 154s Unpacking liblocale-gettext-perl (1.07-6ubuntu4) over (1.07-6build1) ... 154s Preparing to unpack .../uuid-runtime_2.39.3-9ubuntu2_s390x.deb ... 154s Unpacking uuid-runtime (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 154s Preparing to unpack .../libdebconfclient0_0.271ubuntu2_s390x.deb ... 154s Unpacking libdebconfclient0:s390x (0.271ubuntu2) over (0.271ubuntu1) ... 154s Setting up libdebconfclient0:s390x (0.271ubuntu2) ... 154s (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 ... 52217 files and directories currently installed.) 154s Preparing to unpack .../libsemanage2_3.5-1build4_s390x.deb ... 154s Unpacking libsemanage2:s390x (3.5-1build4) over (3.5-1build2) ... 154s Setting up libsemanage2:s390x (3.5-1build4) ... 154s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 154s Preparing to unpack .../install-info_7.1-3build1_s390x.deb ... 154s Unpacking install-info (7.1-3build1) over (7.1-3) ... 154s Setting up install-info (7.1-3build1) ... 154s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 154s Preparing to unpack .../000-gcc-13-base_13.2.0-21ubuntu1_s390x.deb ... 154s Unpacking gcc-13-base:s390x (13.2.0-21ubuntu1) over (13.2.0-17ubuntu2) ... 154s Preparing to unpack .../001-libss2_1.47.0-2.4~exp1ubuntu2_s390x.deb ... 154s Unpacking libss2:s390x (1.47.0-2.4~exp1ubuntu2) over (1.47.0-2ubuntu1) ... 154s Preparing to unpack .../002-dmsetup_2%3a1.02.185-3ubuntu2_s390x.deb ... 154s Unpacking dmsetup (2:1.02.185-3ubuntu2) over (2:1.02.185-3ubuntu1) ... 154s Preparing to unpack .../003-eject_2.39.3-9ubuntu2_s390x.deb ... 154s Unpacking eject (2.39.3-9ubuntu2) over (2.39.3-6ubuntu2) ... 154s Preparing to unpack .../004-krb5-locales_1.20.1-6ubuntu1_all.deb ... 154s Unpacking krb5-locales (1.20.1-6ubuntu1) over (1.20.1-5build1) ... 154s Preparing to unpack .../005-libglib2.0-data_2.79.3-3ubuntu5_all.deb ... 154s Unpacking libglib2.0-data (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 154s Preparing to unpack .../006-libslang2_2.3.3-3build1_s390x.deb ... 154s Unpacking libslang2:s390x (2.3.3-3build1) over (2.3.3-3) ... 155s Preparing to unpack .../007-libtext-charwidth-perl_0.04-11build2_s390x.deb ... 155s Unpacking libtext-charwidth-perl:s390x (0.04-11build2) over (0.04-11build1) ... 155s Preparing to unpack .../008-libtext-iconv-perl_1.7-8build2_s390x.deb ... 155s Unpacking libtext-iconv-perl:s390x (1.7-8build2) over (1.7-8build1) ... 155s Preparing to unpack .../009-python-apt-common_2.7.7_all.deb ... 155s Unpacking python-apt-common (2.7.7) over (2.7.6) ... 155s Preparing to unpack .../010-python3-setuptools_68.1.2-2ubuntu1_all.deb ... 155s Unpacking python3-setuptools (68.1.2-2ubuntu1) over (68.1.2-2) ... 155s Preparing to unpack .../011-python3-pkg-resources_68.1.2-2ubuntu1_all.deb ... 155s Unpacking python3-pkg-resources (68.1.2-2ubuntu1) over (68.1.2-2) ... 155s Preparing to unpack .../012-rsyslog_8.2312.0-3ubuntu7_s390x.deb ... 155s Unpacking rsyslog (8.2312.0-3ubuntu7) over (8.2312.0-3ubuntu3) ... 155s Preparing to unpack .../013-vim-tiny_2%3a9.1.0016-1ubuntu6_s390x.deb ... 155s Unpacking vim-tiny (2:9.1.0016-1ubuntu6) over (2:9.1.0016-1ubuntu2) ... 155s Preparing to unpack .../014-vim-common_2%3a9.1.0016-1ubuntu6_all.deb ... 155s Unpacking vim-common (2:9.1.0016-1ubuntu6) over (2:9.1.0016-1ubuntu2) ... 155s Selecting previously unselected package xdg-user-dirs. 155s Preparing to unpack .../015-xdg-user-dirs_0.18-1_s390x.deb ... 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(02.19.git.2021.06.19.996aaad9c7-2build2) over (02.19.git.2021.06.19.996aaad9c7-2build1) ... 156s Selecting previously unselected package manpages. 156s Preparing to unpack .../023-manpages_6.05.01-1_all.deb ... 156s Unpacking manpages (6.05.01-1) ... 156s Preparing to unpack .../024-mtr-tiny_0.95-1.1build1_s390x.deb ... 156s Unpacking mtr-tiny (0.95-1.1build1) over (0.95-1.1) ... 156s Preparing to unpack .../025-plymouth-theme-ubuntu-text_24.004.60-1ubuntu6_s390x.deb ... 156s Unpacking plymouth-theme-ubuntu-text (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 156s Preparing to unpack .../026-plymouth_24.004.60-1ubuntu6_s390x.deb ... 156s Unpacking plymouth (24.004.60-1ubuntu6) over (24.004.60-1ubuntu3) ... 156s Preparing to unpack .../027-telnet_0.17+2.5-3ubuntu3_all.deb ... 156s Unpacking telnet (0.17+2.5-3ubuntu3) over (0.17+2.5-3ubuntu1) ... 156s Preparing to unpack .../028-usb.ids_2024.03.18-1_all.deb ... 156s Unpacking usb.ids (2024.03.18-1) over (2024.01.30-1) ... 156s Preparing to unpack .../029-xz-utils_5.6.0-0.2_s390x.deb ... 156s Unpacking xz-utils (5.6.0-0.2) over (5.4.5-0.3) ... 156s Preparing to unpack .../030-libctf0_2.42-4ubuntu1_s390x.deb ... 156s Unpacking libctf0:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 156s Preparing to unpack .../031-libctf-nobfd0_2.42-4ubuntu1_s390x.deb ... 156s Unpacking libctf-nobfd0:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 156s Preparing to unpack .../032-binutils-s390x-linux-gnu_2.42-4ubuntu1_s390x.deb ... 156s Unpacking binutils-s390x-linux-gnu (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 156s Preparing to unpack .../033-libbinutils_2.42-4ubuntu1_s390x.deb ... 156s Unpacking libbinutils:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 156s Preparing to unpack .../034-binutils_2.42-4ubuntu1_s390x.deb ... 156s Unpacking binutils (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 156s Preparing to unpack .../035-binutils-common_2.42-4ubuntu1_s390x.deb ... 156s Unpacking binutils-common:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 156s Preparing to unpack .../036-libsframe1_2.42-4ubuntu1_s390x.deb ... 156s Unpacking libsframe1:s390x (2.42-4ubuntu1) over (2.42-3ubuntu1) ... 156s Selecting previously unselected package libllvm18:s390x. 156s Preparing to unpack .../037-libllvm18_1%3a18.1.2-1ubuntu2_s390x.deb ... 156s Unpacking libllvm18:s390x (1:18.1.2-1ubuntu2) ... 157s Selecting previously unselected package libclang-cpp18. 157s Preparing to unpack .../038-libclang-cpp18_1%3a18.1.2-1ubuntu2_s390x.deb ... 157s Unpacking libclang-cpp18 (1:18.1.2-1ubuntu2) ... 158s Selecting previously unselected package libbpfcc:s390x. 158s Preparing to unpack .../039-libbpfcc_0.29.1+ds-1ubuntu4_s390x.deb ... 158s Unpacking libbpfcc:s390x (0.29.1+ds-1ubuntu4) ... 158s Selecting previously unselected package python3-bpfcc. 158s Preparing to unpack .../040-python3-bpfcc_0.29.1+ds-1ubuntu4_all.deb ... 158s Unpacking python3-bpfcc (0.29.1+ds-1ubuntu4) ... 158s Selecting previously unselected package ieee-data. 158s Preparing to unpack .../041-ieee-data_20220827.1_all.deb ... 158s Unpacking ieee-data (20220827.1) ... 158s Selecting previously unselected package python3-netaddr. 158s Preparing to unpack .../042-python3-netaddr_0.8.0-2ubuntu1_all.deb ... 158s Unpacking python3-netaddr (0.8.0-2ubuntu1) ... 158s Selecting previously unselected package bpfcc-tools. 158s Preparing to unpack .../043-bpfcc-tools_0.29.1+ds-1ubuntu4_all.deb ... 158s Unpacking bpfcc-tools (0.29.1+ds-1ubuntu4) ... 158s Selecting previously unselected package libclang1-18. 158s Preparing to unpack .../044-libclang1-18_1%3a18.1.2-1ubuntu2_s390x.deb ... 158s Unpacking libclang1-18 (1:18.1.2-1ubuntu2) ... 158s Selecting previously unselected package libdw1t64:s390x. 158s Preparing to unpack .../045-libdw1t64_0.190-1.1build2_s390x.deb ... 158s Unpacking libdw1t64:s390x (0.190-1.1build2) ... 158s Selecting previously unselected package bpftrace. 158s Preparing to unpack .../046-bpftrace_0.20.2-1ubuntu1_s390x.deb ... 158s Unpacking bpftrace (0.20.2-1ubuntu1) ... 158s Preparing to unpack .../047-cryptsetup-bin_2%3a2.7.0-1ubuntu2_s390x.deb ... 158s Unpacking cryptsetup-bin (2:2.7.0-1ubuntu2) over (2:2.7.0-1ubuntu1) ... 158s Preparing to unpack .../048-dpkg-dev_1.22.6ubuntu5_all.deb ... 158s Unpacking dpkg-dev (1.22.6ubuntu5) over (1.22.4ubuntu5) ... 159s Preparing to unpack .../049-libdpkg-perl_1.22.6ubuntu5_all.deb ... 159s Unpacking libdpkg-perl (1.22.6ubuntu5) over (1.22.4ubuntu5) ... 159s Selecting previously unselected package fonts-dejavu-mono. 159s Preparing to unpack .../050-fonts-dejavu-mono_2.37-8_all.deb ... 159s Unpacking fonts-dejavu-mono (2.37-8) ... 159s Selecting previously unselected package fonts-dejavu-core. 159s Preparing to unpack .../051-fonts-dejavu-core_2.37-8_all.deb ... 159s Unpacking fonts-dejavu-core (2.37-8) ... 159s Selecting previously unselected package fontconfig-config. 159s Preparing to unpack .../052-fontconfig-config_2.15.0-1.1ubuntu1_s390x.deb ... 159s Unpacking fontconfig-config (2.15.0-1.1ubuntu1) ... 159s Preparing to unpack .../053-gnupg-l10n_2.4.4-2ubuntu15_all.deb ... 159s Unpacking gnupg-l10n (2.4.4-2ubuntu15) over (2.4.4-2ubuntu7) ... 159s Selecting previously unselected package hwdata. 159s Preparing to unpack .../054-hwdata_0.379-1_all.deb ... 159s Unpacking hwdata (0.379-1) ... 159s Preparing to unpack .../055-libibverbs1_50.0-2build1_s390x.deb ... 159s Unpacking libibverbs1:s390x (50.0-2build1) over (50.0-2) ... 159s Preparing to unpack .../056-ibverbs-providers_50.0-2build1_s390x.deb ... 159s Unpacking ibverbs-providers:s390x (50.0-2build1) over (50.0-2) ... 159s Preparing to unpack .../057-jq_1.7.1-3_s390x.deb ... 159s Unpacking jq (1.7.1-3) over (1.7.1-2) ... 159s Preparing to unpack .../058-libjq1_1.7.1-3_s390x.deb ... 159s Unpacking libjq1:s390x (1.7.1-3) over (1.7.1-2) ... 159s Selecting previously unselected package libaio1t64:s390x. 159s Preparing to unpack .../059-libaio1t64_0.3.113-6_s390x.deb ... 159s Unpacking libaio1t64:s390x (0.3.113-6) ... 159s Selecting previously unselected package libatm1t64:s390x. 159s Preparing to unpack .../060-libatm1t64_1%3a2.5.1-5.1_s390x.deb ... 159s Unpacking libatm1t64:s390x (1:2.5.1-5.1) ... 159s Selecting previously unselected package libc-dev-bin. 159s Preparing to unpack .../061-libc-dev-bin_2.39-0ubuntu6_s390x.deb ... 159s Unpacking libc-dev-bin (2.39-0ubuntu6) ... 159s Selecting previously unselected package libfreetype6:s390x. 159s Preparing to unpack .../062-libfreetype6_2.13.2+dfsg-1build2_s390x.deb ... 159s Unpacking libfreetype6:s390x (2.13.2+dfsg-1build2) ... 159s Selecting previously unselected package libfontconfig1:s390x. 159s Preparing to unpack .../063-libfontconfig1_2.15.0-1.1ubuntu1_s390x.deb ... 159s Unpacking libfontconfig1:s390x (2.15.0-1.1ubuntu1) ... 159s Selecting previously unselected package libjpeg-turbo8:s390x. 159s Preparing to unpack .../064-libjpeg-turbo8_2.1.5-2ubuntu1_s390x.deb ... 159s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 159s Selecting previously unselected package libjpeg8:s390x. 159s Preparing to unpack .../065-libjpeg8_8c-2ubuntu11_s390x.deb ... 159s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 159s Selecting previously unselected package libdeflate0:s390x. 159s Preparing to unpack .../066-libdeflate0_1.19-1_s390x.deb ... 159s Unpacking libdeflate0:s390x (1.19-1) ... 159s Selecting previously unselected package libjbig0:s390x. 159s Preparing to unpack .../067-libjbig0_2.1-6.1ubuntu1_s390x.deb ... 159s Unpacking libjbig0:s390x (2.1-6.1ubuntu1) ... 159s Selecting previously unselected package libsharpyuv0:s390x. 159s Preparing to unpack .../068-libsharpyuv0_1.3.2-0.4build2_s390x.deb ... 159s Unpacking libsharpyuv0:s390x (1.3.2-0.4build2) ... 159s Selecting previously unselected package libwebp7:s390x. 159s Preparing to unpack .../069-libwebp7_1.3.2-0.4build2_s390x.deb ... 159s Unpacking libwebp7:s390x (1.3.2-0.4build2) ... 159s Selecting previously unselected package libtiff6:s390x. 159s Preparing to unpack .../070-libtiff6_4.5.1+git230720-4ubuntu1_s390x.deb ... 159s Unpacking libtiff6:s390x (4.5.1+git230720-4ubuntu1) ... 159s Selecting previously unselected package libxpm4:s390x. 159s Preparing to unpack .../071-libxpm4_1%3a3.5.17-1build1_s390x.deb ... 159s Unpacking libxpm4:s390x (1:3.5.17-1build1) ... 159s Selecting previously unselected package libgd3:s390x. 159s Preparing to unpack .../072-libgd3_2.3.3-9ubuntu3_s390x.deb ... 159s Unpacking libgd3:s390x (2.3.3-9ubuntu3) ... 159s Selecting previously unselected package libc-devtools. 159s Preparing to unpack .../073-libc-devtools_2.39-0ubuntu6_s390x.deb ... 159s Unpacking libc-devtools (2.39-0ubuntu6) ... 159s Selecting previously unselected package linux-libc-dev:s390x. 159s Preparing to unpack .../074-linux-libc-dev_6.8.0-20.20_s390x.deb ... 159s Unpacking linux-libc-dev:s390x (6.8.0-20.20) ... 159s Selecting previously unselected package libcrypt-dev:s390x. 159s Preparing to unpack .../075-libcrypt-dev_1%3a4.4.36-4_s390x.deb ... 159s Unpacking libcrypt-dev:s390x (1:4.4.36-4) ... 159s Selecting previously unselected package rpcsvc-proto. 159s Preparing to unpack .../076-rpcsvc-proto_1.4.2-0ubuntu6_s390x.deb ... 159s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... 159s Selecting previously unselected package libc6-dev:s390x. 159s Preparing to unpack .../077-libc6-dev_2.39-0ubuntu6_s390x.deb ... 159s Unpacking libc6-dev:s390x (2.39-0ubuntu6) ... 159s Preparing to unpack .../078-libevent-core-2.1-7_2.1.12-stable-9build1_s390x.deb ... 159s Unpacking libevent-core-2.1-7:s390x (2.1.12-stable-9build1) over (2.1.12-stable-9) ... 159s Preparing to unpack .../079-libftdi1-2_1.5-6build4_s390x.deb ... 159s Unpacking libftdi1-2:s390x (1.5-6build4) over (1.5-6build3) ... 160s Preparing to unpack .../080-libldap-common_2.6.7+dfsg-1~exp1ubuntu6_all.deb ... 160s Unpacking libldap-common (2.6.7+dfsg-1~exp1ubuntu6) over (2.6.7+dfsg-1~exp1ubuntu1) ... 160s Selecting previously unselected package linux-modules-6.8.0-20-generic. 160s Preparing to unpack .../081-linux-modules-6.8.0-20-generic_6.8.0-20.20_s390x.deb ... 160s Unpacking linux-modules-6.8.0-20-generic (6.8.0-20.20) ... 160s Selecting previously unselected package linux-image-6.8.0-20-generic. 160s Preparing to unpack .../082-linux-image-6.8.0-20-generic_6.8.0-20.20_s390x.deb ... 160s Unpacking linux-image-6.8.0-20-generic (6.8.0-20.20) ... 160s Selecting previously unselected package linux-modules-extra-6.8.0-20-generic. 160s Preparing to unpack .../083-linux-modules-extra-6.8.0-20-generic_6.8.0-20.20_s390x.deb ... 160s Unpacking linux-modules-extra-6.8.0-20-generic (6.8.0-20.20) ... 160s Preparing to unpack .../084-linux-generic_6.8.0-20.20+1_s390x.deb ... 160s Unpacking linux-generic (6.8.0-20.20+1) over (6.8.0-11.11+1) ... 160s Preparing to unpack .../085-linux-image-generic_6.8.0-20.20+1_s390x.deb ... 160s Unpacking linux-image-generic (6.8.0-20.20+1) over (6.8.0-11.11+1) ... 160s Preparing to unpack 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to unpack .../097-python3-lib2to3_3.12.2-3ubuntu1.1_all.deb ... 163s Unpacking python3-lib2to3 (3.12.2-3ubuntu1.1) over (3.11.5-1) ... 163s Preparing to unpack .../098-python3-pyrsistent_0.20.0-1build1_s390x.deb ... 163s Unpacking python3-pyrsistent:s390x (0.20.0-1build1) over (0.20.0-1) ... 163s Preparing to unpack .../099-python3-typing-extensions_4.10.0-1_all.deb ... 163s Unpacking python3-typing-extensions (4.10.0-1) over (4.9.0-1) ... 163s Preparing to unpack .../100-s390-tools-data_2.31.0-0ubuntu3_all.deb ... 163s Unpacking s390-tools-data (2.31.0-0ubuntu3) over (2.31.0-0ubuntu1) ... 163s Selecting previously unselected package ubuntu-kernel-accessories. 163s Preparing to unpack .../101-ubuntu-kernel-accessories_1.536build1_s390x.deb ... 163s Unpacking ubuntu-kernel-accessories (1.536build1) ... 163s Preparing to unpack .../102-kpartx_0.9.4-5ubuntu6_s390x.deb ... 163s Unpacking kpartx (0.9.4-5ubuntu6) over (0.9.4-5ubuntu3) ... 163s Setting up cryptsetup-bin (2:2.7.0-1ubuntu2) ... 163s Setting up pinentry-curses (1.2.1-3ubuntu4) ... 163s Setting up motd-news-config (13ubuntu8) ... 163s Setting up libtext-iconv-perl:s390x (1.7-8build2) ... 163s Setting up libtext-charwidth-perl:s390x (0.04-11build2) ... 163s Setting up libsharpyuv0:s390x (1.3.2-0.4build2) ... 163s Setting up liburcu8t64:s390x (0.14.0-3.1) ... 163s Setting up tcpdump (4.99.4-3ubuntu2) ... 164s Setting up libibverbs1:s390x (50.0-2build1) ... 164s Setting up systemd-sysv (255.4-1ubuntu5) ... 164s Setting up ubuntu-kernel-accessories (1.536build1) ... 164s Setting up libapparmor1:s390x (4.0.0-beta3-0ubuntu2) ... 164s Setting up libatm1t64:s390x (1:2.5.1-5.1) ... 164s Setting up libgdbm6t64:s390x (1.23-5.1) ... 164s Setting up bsdextrautils (2.39.3-9ubuntu2) ... 164s Setting up libxpm4:s390x (1:3.5.17-1build1) ... 164s Setting up libgdbm-compat4t64:s390x (1.23-5.1) ... 164s Setting up xdg-user-dirs (0.18-1) ... 164s Setting up ibverbs-providers:s390x (50.0-2build1) ... 164s Setting up linux-headers-6.8.0-20 (6.8.0-20.20) ... 164s Setting up libmagic-mgc (1:5.45-3) ... 164s Setting up gawk (1:5.2.1-2build2) ... 164s Setting up libjq1:s390x (1.7.1-3) ... 164s Setting up manpages (6.05.01-1) ... 164s Setting up libtirpc-common (1.3.4+ds-1.1) ... 164s Setting up libbrotli1:s390x (1.1.0-2build1) ... 164s Setting up libsqlite3-0:s390x (3.45.1-1ubuntu1) ... 164s Setting up libsasl2-modules:s390x (2.1.28+dfsg1-5ubuntu1) ... 164s Setting up libuv1t64:s390x (1.48.0-1.1) ... 164s Setting up libmagic1t64:s390x (1:5.45-3) ... 164s Setting up rsyslog (8.2312.0-3ubuntu7) ... 164s info: The user `syslog' is already a member of `adm'. 165s Setting up binutils-common:s390x (2.42-4ubuntu1) ... 165s Setting up libpsl5t64:s390x (0.21.2-1.1) ... 165s Setting up libnghttp2-14:s390x (1.59.0-1build1) ... 165s Setting up libdeflate0:s390x (1.19-1) ... 165s Setting up linux-libc-dev:s390x (6.8.0-20.20) ... 165s Setting up libreiserfscore0t64 (1:3.6.27-7.1) ... 165s Setting up libctf-nobfd0:s390x (2.42-4ubuntu1) ... 165s Setting up libnss-systemd:s390x (255.4-1ubuntu5) ... 165s Setting up krb5-locales (1.20.1-6ubuntu1) ... 165s Setting up file (1:5.45-3) ... 165s Setting up kmod (31+20240202-2ubuntu4) ... 165s Setting up lshw (02.19.git.2021.06.19.996aaad9c7-2build2) ... 165s Setting up libldap-common (2.6.7+dfsg-1~exp1ubuntu6) ... 165s Setting up libprotobuf-c1:s390x (1.4.1-1ubuntu3) ... 165s Setting up libjbig0:s390x (2.1-6.1ubuntu1) ... 165s Setting up xxd (2:9.1.0016-1ubuntu6) ... 165s Setting up libsframe1:s390x (2.42-4ubuntu1) ... 165s Setting up libelf1t64:s390x (0.190-1.1build2) ... 165s Setting up libkrb5support0:s390x (1.20.1-6ubuntu1) ... 165s Setting up libdw1t64:s390x (0.190-1.1build2) ... 165s Setting up linux-headers-6.8.0-20-generic (6.8.0-20.20) ... 165s Setting up eject (2.39.3-9ubuntu2) ... 165s Setting up apparmor (4.0.0-beta3-0ubuntu2) ... 165s Installing new version of config file /etc/apparmor.d/abstractions/authentication ... 165s Installing new version of config file /etc/apparmor.d/abstractions/crypto ... 165s Installing new version of config file /etc/apparmor.d/abstractions/kde-open5 ... 165s Installing new version of config file /etc/apparmor.d/abstractions/openssl ... 165s Installing new version of config file /etc/apparmor.d/code ... 165s Installing new version of config file /etc/apparmor.d/firefox ... 166s Reloading AppArmor profiles 166s Setting up libglib2.0-0t64:s390x (2.79.3-3ubuntu5) ... 166s No schema files found: doing nothing. 166s Setting up libglib2.0-data (2.79.3-3ubuntu5) ... 166s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... 166s Setting up vim-common (2:9.1.0016-1ubuntu6) ... 166s Setting up gcc-13-base:s390x (13.2.0-21ubuntu1) ... 166s Setting up libqrtr-glib0:s390x (1.2.2-1ubuntu3) ... 166s Setting up libslang2:s390x (2.3.3-3build1) ... 166s Setting up libnvme1t64 (1.8-3) ... 166s Setting up mtr-tiny (0.95-1.1build1) ... 166s Setting up gnupg-l10n (2.4.4-2ubuntu15) ... 166s Setting up librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build6) ... 166s Setting up libdbus-1-3:s390x (1.14.10-4ubuntu2) ... 166s Setting up xz-utils (5.6.0-0.2) ... 166s Setting up perl-modules-5.38 (5.38.2-3.2) ... 166s Setting up libproc2-0:s390x (2:4.0.4-4ubuntu2) ... 166s Setting up libblockdev-utils3:s390x (3.1.0-1build1) ... 166s Setting up fonts-dejavu-mono (2.37-8) ... 166s Setting up libpng16-16t64:s390x (1.6.43-3) ... 166s Setting up systemd-timesyncd (255.4-1ubuntu5) ... 167s Setting up libevent-core-2.1-7:s390x (2.1.12-stable-9build1) ... 167s Setting up udev (255.4-1ubuntu5) ... 168s Setting up libss2:s390x (1.47.0-2.4~exp1ubuntu2) ... 168s Setting up usb.ids (2024.03.18-1) ... 168s Setting up sudo (1.9.15p5-3ubuntu3) ... 168s Setting up fonts-dejavu-core (2.37-8) ... 168s Setting up dhcpcd-base (1:10.0.6-1ubuntu2) ... 168s Setting up gir1.2-glib-2.0:s390x (2.79.3-3ubuntu5) ... 168s Setting up libk5crypto3:s390x (1.20.1-6ubuntu1) ... 168s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 168s Setting up logsave (1.47.0-2.4~exp1ubuntu2) ... 168s Setting up libwebp7:s390x (1.3.2-0.4build2) ... 168s Setting up libfdisk1:s390x (2.39.3-9ubuntu2) ... 168s Setting up libdb5.3t64:s390x (5.3.28+dfsg2-6) ... 168s Setting up libblockdev-nvme3:s390x (3.1.0-1build1) ... 168s Setting up libdevmapper1.02.1:s390x (2:1.02.185-3ubuntu2) ... 168s Setting up libblockdev-fs3:s390x (3.1.0-1build1) ... 168s Setting up libaio1t64:s390x (0.3.113-6) ... 168s Setting up python-apt-common (2.7.7) ... 168s Setting up mount (2.39.3-9ubuntu2) ... 168s Setting up dmsetup (2:1.02.185-3ubuntu2) ... 168s Setting up uuid-runtime (2.39.3-9ubuntu2) ... 168s uuidd.service is a disabled or a static unit not running, not starting it. 168s Setting up libmm-glib0:s390x (1.23.4-0ubuntu1) ... 168s Setting up groff-base (1.23.0-3build1) ... 168s Setting up libcrypt-dev:s390x (1:4.4.36-4) ... 168s Setting up libplymouth5:s390x (24.004.60-1ubuntu6) ... 168s Setting up dbus-session-bus-common (1.14.10-4ubuntu2) ... 168s Setting up kpartx (0.9.4-5ubuntu6) ... 168s Setting up jq (1.7.1-3) ... 168s Setting up procps (2:4.0.4-4ubuntu2) ... 169s Setting up gpgconf (2.4.4-2ubuntu15) ... 169s Setting up libgirepository-1.0-1:s390x (1.79.1-1ubuntu6) ... 169s Setting up libjson-glib-1.0-common (1.8.0-2build1) ... 169s Setting up libkrb5-3:s390x (1.20.1-6ubuntu1) ... 169s Setting up libpython3.11-minimal:s390x (3.11.8-1build4) ... 169s Setting up libusb-1.0-0:s390x (2:1.0.27-1) ... 169s Setting up libperl5.38t64:s390x (5.38.2-3.2) ... 169s Setting up tnftp (20230507-2build1) ... 169s Setting up libbinutils:s390x (2.42-4ubuntu1) ... 169s Setting up dbus-system-bus-common (1.14.10-4ubuntu2) ... 169s Setting up libfido2-1:s390x (1.14.0-1build1) ... 169s Setting up libc-dev-bin (2.39-0ubuntu6) ... 169s Setting up openssl (3.0.13-0ubuntu2) ... 169s Setting up linux-modules-6.8.0-20-generic (6.8.0-20.20) ... 169s Setting up readline-common (8.2-4) ... 169s Setting up libxml2:s390x (2.9.14+dfsg-1.3ubuntu2) ... 169s Setting up libxmuu1:s390x (2:1.1.3-3build1) ... 169s Setting up dbus-bin (1.14.10-4ubuntu2) ... 169s Setting up info (7.1-3build1) ... 169s Setting up liblocale-gettext-perl (1.07-6ubuntu4) ... 169s Setting up gpg (2.4.4-2ubuntu15) ... 169s Setting up libgudev-1.0-0:s390x (1:238-3ubuntu2) ... 169s Setting up libpolkit-gobject-1-0:s390x (124-1ubuntu1) ... 169s Setting up libbpf1:s390x (1:1.3.0-2build1) ... 169s Setting up libmbim-glib4:s390x (1.31.2-0ubuntu2) ... 169s Setting up rsync (3.2.7-1build1) ... 170s rsync.service is a disabled or a static unit not running, not starting it. 170s Setting up libudisks2-0:s390x (2.10.1-6) ... 170s Setting up bolt (0.9.6-2build1) ... 170s bolt.service is a disabled or a static unit not running, not starting it. 170s Setting up s390-tools-data (2.31.0-0ubuntu3) ... 170s Setting up libllvm18:s390x (1:18.1.2-1ubuntu2) ... 170s Setting up gnupg-utils (2.4.4-2ubuntu15) ... 170s Setting up initramfs-tools-bin (0.142ubuntu23) ... 170s Setting up libctf0:s390x (2.42-4ubuntu1) ... 170s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 170s Setting up python3.11-minimal (3.11.8-1build4) ... 172s Setting up libclang1-18 (1:18.1.2-1ubuntu2) ... 172s Setting up manpages-dev (6.05.01-1) ... 172s Setting up linux-modules-extra-6.8.0-20-generic (6.8.0-20.20) ... 172s Setting up apt-utils (2.7.14) ... 172s Setting up binutils-s390x-linux-gnu (2.42-4ubuntu1) ... 172s Setting up gpg-agent (2.4.4-2ubuntu15) ... 172s Setting up libpython3.12-stdlib:s390x (3.12.2-4build3) ... 172s Setting up libblockdev-mdraid3:s390x (3.1.0-1build1) ... 172s Setting up wget (1.21.4-1ubuntu2) ... 172s Setting up linux-image-6.8.0-20-generic (6.8.0-20.20) ... 173s I: /boot/vmlinuz is now a symlink to vmlinuz-6.8.0-20-generic 173s I: /boot/initrd.img is now a symlink to initrd.img-6.8.0-20-generic 173s Setting up libblockdev-swap3:s390x (3.1.0-1build1) ... 173s Setting up plymouth (24.004.60-1ubuntu6) ... 173s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 173s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 177s Not invoking zipl: initrd doesn't exist yet 177s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 177s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 177s Setting up fontconfig-config (2.15.0-1.1ubuntu1) ... 177s Setting up libxmlb2:s390x (0.3.15-1build1) ... 177s Setting up btrfs-progs (6.6.3-1.1build1) ... 177s Setting up libpython3.11-stdlib:s390x (3.11.8-1build4) ... 177s Setting up python3.12 (3.12.2-4build3) ... 179s Setting up libblockdev-loop3:s390x (3.1.0-1build1) ... 179s Setting up gpgsm (2.4.4-2ubuntu15) ... 179s Setting up inetutils-telnet (2:2.5-3ubuntu3) ... 179s Setting up e2fsprogs (1.47.0-2.4~exp1ubuntu2) ... 179s update-initramfs: deferring update (trigger activated) 179s e2scrub_all.service is a disabled or a static unit not running, not starting it. 179s Setting up libparted2t64:s390x (3.6-3.1build2) ... 179s Setting up linux-headers-generic (6.8.0-20.20+1) ... 179s Setting up dbus-daemon (1.14.10-4ubuntu2) ... 179s Setting up binutils (2.42-4ubuntu1) ... 179s Setting up libmbim-proxy (1.31.2-0ubuntu2) ... 179s Setting up vim-tiny (2:9.1.0016-1ubuntu6) ... 179s Setting up libnetplan1:s390x (1.0-1) ... 179s Setting up man-db (2.12.0-3build4) ... 179s Updating database of manual pages ... 181s man-db.service is a disabled or a static unit not running, not starting it. 181s Setting up libblockdev3:s390x (3.1.0-1build1) ... 181s Setting up fdisk (2.39.3-9ubuntu2) ... 181s Setting up multipath-tools (0.9.4-5ubuntu6) ... 182s Setting up libjson-glib-1.0-0:s390x (1.8.0-2build1) ... 182s Setting up libblockdev-part3:s390x (3.1.0-1build1) ... 182s Setting up libsasl2-modules-db:s390x (2.1.28+dfsg1-5ubuntu1) ... 182s Setting up hwdata (0.379-1) ... 182s Setting up libftdi1-2:s390x (1.5-6build4) ... 182s Setting up perl (5.38.2-3.2) ... 182s Setting up plymouth-theme-ubuntu-text (24.004.60-1ubuntu6) ... 182s update-initramfs: deferring update (trigger activated) 182s Setting up libfreetype6:s390x (2.13.2+dfsg-1build2) ... 182s Setting up gir1.2-girepository-2.0:s390x (1.79.1-1ubuntu6) ... 182s Setting up dbus (1.14.10-4ubuntu2) ... 182s A reboot is required to replace the running dbus-daemon. 182s Please reboot the system when convenient. 182s Setting up shared-mime-info (2.4-1build1) ... 182s Setting up libgssapi-krb5-2:s390x (1.20.1-6ubuntu1) ... 182s Setting up ftp (20230507-2build1) ... 182s Setting up keyboxd (2.4.4-2ubuntu15) ... 183s Setting up libdpkg-perl (1.22.6ubuntu5) ... 183s Setting up libsasl2-2:s390x (2.1.28+dfsg1-5ubuntu1) ... 183s Setting up libssh-4:s390x (0.10.6-2build1) ... 183s Setting up ieee-data (20220827.1) ... 183s Setting up libtiff6:s390x (4.5.1+git230720-4ubuntu1) ... 183s Setting up libpam-systemd:s390x (255.4-1ubuntu5) ... 183s Setting up libpolkit-agent-1-0:s390x (124-1ubuntu1) ... 183s Setting up libc6-dev:s390x (2.39-0ubuntu6) ... 183s Setting up libgpgme11t64:s390x (1.18.0-4.1ubuntu3) ... 183s Setting up libfontconfig1:s390x (2.15.0-1.1ubuntu1) ... 183s Setting up linux-image-virtual (6.8.0-20.20+1) ... 183s Setting up netplan-generator (1.0-1) ... 183s Removing 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 183s Setting up initramfs-tools-core (0.142ubuntu23) ... 183s Setting up libclang-cpp18 (1:18.1.2-1ubuntu2) ... 183s Setting up libbpfcc:s390x (0.29.1+ds-1ubuntu4) ... 183s Setting up linux-tools-common (6.8.0-20.20) ... 183s Setting up libarchive13t64:s390x (3.7.2-1.1ubuntu2) ... 183s Setting up libldap2:s390x (2.6.7+dfsg-1~exp1ubuntu6) ... 183s Setting up libpython3-stdlib:s390x (3.12.2-0ubuntu1) ... 183s Setting up systemd-resolved (255.4-1ubuntu5) ... 183s Setting up python3.11 (3.11.8-1build4) ... 184s Setting up linux-image-generic (6.8.0-20.20+1) ... 184s Setting up telnet (0.17+2.5-3ubuntu3) ... 184s Setting up initramfs-tools (0.142ubuntu23) ... 184s update-initramfs: deferring update (trigger activated) 184s Setting up linux-headers-virtual (6.8.0-20.20+1) ... 184s Setting up linux-generic (6.8.0-20.20+1) ... 184s Setting up libcurl4t64:s390x (8.5.0-2ubuntu8) ... 184s Setting up bpftrace (0.20.2-1ubuntu1) ... 184s Setting up bind9-libs:s390x (1:9.18.24-0ubuntu3) ... 184s Setting up libtirpc3t64:s390x (1.3.4+ds-1.1) ... 184s Setting up e2fsprogs-l10n (1.47.0-2.4~exp1ubuntu2) ... 184s Setting up iproute2 (6.1.0-1ubuntu5) ... 184s Setting up openssh-client (1:9.6p1-3ubuntu11) ... 184s Setting up libgusb2:s390x (0.4.8-1build1) ... 184s Setting up libcurl3t64-gnutls:s390x (8.5.0-2ubuntu8) ... 184s Setting up parted (3.6-3.1build2) ... 184s Setting up libqmi-glib5:s390x (1.35.2-0ubuntu1) ... 184s Setting up linux-tools-6.8.0-20 (6.8.0-20.20) ... 184s Setting up python3 (3.12.2-0ubuntu1) ... 185s Setting up libjcat1:s390x (0.2.0-2build2) ... 185s Setting up dpkg-dev (1.22.6ubuntu5) ... 185s Setting up linux-virtual (6.8.0-20.20+1) ... 185s Setting up dirmngr (2.4.4-2ubuntu15) ... 185s Setting up dbus-user-session (1.14.10-4ubuntu2) ... 185s Setting up linux-tools-6.8.0-20-generic (6.8.0-20.20) ... 185s Setting up python3-cryptography (41.0.7-4build2) ... 185s Setting up python3-gi (3.47.0-3build1) ... 185s Setting up libgd3:s390x (2.3.3-9ubuntu3) ... 185s Setting up python3-typing-extensions (4.10.0-1) ... 185s Setting up lsof (4.95.0-1build2) ... 185s Setting up python3-pyrsistent:s390x (0.20.0-1build1) ... 186s Setting up python3-netaddr (0.8.0-2ubuntu1) ... 186s Setting up libnsl2:s390x (1.3.0-3build2) ... 186s Setting up gnupg (2.4.4-2ubuntu15) ... 186s Setting up python3-netplan (1.0-1) ... 186s Setting up curl (8.5.0-2ubuntu8) ... 186s Setting up libvolume-key1:s390x (0.3.12-7build1) ... 186s Setting up bind9-host (1:9.18.24-0ubuntu3) ... 186s Setting up python3-lib2to3 (3.12.2-3ubuntu1.1) ... 186s Setting up python3-bpfcc (0.29.1+ds-1ubuntu4) ... 186s Setting up libc-devtools (2.39-0ubuntu6) ... 186s Setting up python3-pkg-resources (68.1.2-2ubuntu1) ... 186s Setting up python3-distutils (3.12.2-3ubuntu1.1) ... 187s python3.12: can't get files for byte-compilation 187s Setting up openssh-sftp-server (1:9.6p1-3ubuntu11) ... 187s Setting up python3-dbus (1.3.2-5build2) ... 187s Setting up python3-setuptools (68.1.2-2ubuntu1) ... 187s Setting up gpg-wks-client (2.4.4-2ubuntu15) ... 187s Setting up openssh-server (1:9.6p1-3ubuntu11) ... 187s Replacing config file /etc/ssh/sshd_config with new version 189s Created symlink /etc/systemd/system/ssh.service.requires/ssh.socket → /usr/lib/systemd/system/ssh.socket. 190s Setting up libblockdev-crypto3:s390x (3.1.0-1build1) ... 190s Setting up python3-gdbm:s390x (3.12.2-3ubuntu1.1) ... 190s Setting up python3-apt (2.7.7) ... 190s Setting up libfwupd2:s390x (1.9.15-2) ... 190s Setting up python3-yaml (6.0.1-2build1) ... 190s Setting up libqmi-proxy (1.35.2-0ubuntu1) ... 190s Setting up netplan.io (1.0-1) ... 190s Setting up bpfcc-tools (0.29.1+ds-1ubuntu4) ... 190s Setting up bind9-dnsutils (1:9.18.24-0ubuntu3) ... 190s Setting up ubuntu-pro-client (31.2.2) ... 192s Setting up fwupd (1.9.15-2) ... 192s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 192s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 193s Setting up ubuntu-pro-client-l10n (31.2.2) ... 193s Setting up udisks2 (2.10.1-6) ... 193s Processing triggers for ufw (0.36.2-5) ... 193s Processing triggers for debianutils (5.17) ... 193s Processing triggers for install-info (7.1-3build1) ... 193s Processing triggers for libc-bin (2.39-0ubuntu6) ... 193s Processing triggers for linux-image-6.8.0-20-generic (6.8.0-20.20) ... 193s /etc/kernel/postinst.d/initramfs-tools: 193s update-initramfs: Generating /boot/initrd.img-6.8.0-20-generic 193s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 197s Using config file '/etc/zipl.conf' 197s Building bootmap in '/boot' 197s Adding IPL section 'ubuntu' (default) 197s Preparing boot device for LD-IPL: vda (0000). 197s Done. 197s /etc/kernel/postinst.d/zz-zipl: 197s Using config file '/etc/zipl.conf' 197s Building bootmap in '/boot' 197s Adding IPL section 'ubuntu' (default) 197s Preparing boot device for LD-IPL: vda (0000). 197s Done. 197s Processing triggers for initramfs-tools (0.142ubuntu23) ... 197s update-initramfs: Generating /boot/initrd.img-6.8.0-20-generic 197s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 200s Using config file '/etc/zipl.conf' 200s Building bootmap in '/boot' 200s Adding IPL section 'ubuntu' (default) 201s Preparing boot device for LD-IPL: vda (0000). 201s Done. 202s Reading package lists... 202s Building dependency tree... 202s Reading state information... 202s The following packages will be REMOVED: 202s libaio1* libnetplan0* python3-distutils* python3-lib2to3* 203s 0 upgraded, 0 newly installed, 4 to remove and 1 not upgraded. 203s After this operation, 1445 kB disk space will be freed. 203s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 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.) 203s Removing libaio1:s390x (0.3.113-5) ... 203s Removing libnetplan0:s390x (0.107.1-3) ... 203s Removing python3-distutils (3.12.2-3ubuntu1.1) ... 203s Removing python3-lib2to3 (3.12.2-3ubuntu1.1) ... 203s Processing triggers for libc-bin (2.39-0ubuntu6) ... 203s autopkgtest [20:09:18]: rebooting testbed after setup commands that affected boot 233s autopkgtest [20:09:48]: testbed running kernel: Linux 6.8.0-20-generic #20-Ubuntu SMP Mon Mar 18 10:49:25 UTC 2024 236s autopkgtest [20:09:51]: @@@@@@@@@@@@@@@@@@@@ apt-source pdb2pqr 241s Get:1 http://ftpmaster.internal/ubuntu noble/universe pdb2pqr 3.6.1+dfsg-1 (dsc) [1860 B] 241s Get:2 http://ftpmaster.internal/ubuntu noble/universe pdb2pqr 3.6.1+dfsg-1 (tar) [7570 kB] 241s Get:3 http://ftpmaster.internal/ubuntu noble/universe pdb2pqr 3.6.1+dfsg-1 (diff) [9876 B] 241s gpgv: Signature made Mon Jun 12 17:36:50 2023 UTC 241s gpgv: using EDDSA key A095B66EE09024BEE6A2F0722A27904BD7243EDA 241s gpgv: Can't check signature: No public key 241s dpkg-source: warning: cannot verify inline signature for ./pdb2pqr_3.6.1+dfsg-1.dsc: no acceptable signature found 242s autopkgtest [20:09:57]: testing package pdb2pqr version 3.6.1+dfsg-1 243s autopkgtest [20:09:58]: build not needed 245s autopkgtest [20:10:00]: test installation-test: preparing testbed 246s Reading package lists... 247s Building dependency tree... 247s Reading state information... 247s Starting pkgProblemResolver with broken count: 0 247s Starting 2 pkgProblemResolver with broken count: 0 247s Done 247s The following additional packages will be installed: 247s docutils-common libblas3 libgfortran5 liblapack3 pdb2pqr python3-docutils 247s python3-numpy python3-pdb2pqr python3-pdbx python3-propka python3-roman 247s sgml-base xml-core 247s Suggested packages: 247s apbs docutils-doc fonts-linuxlibertine | ttf-linux-libertine 247s texlive-lang-french texlive-latex-base texlive-latex-recommended gcc 247s gfortran python3-dev python3-pytest python-pdbx-doc python-propka-doc 247s sgml-base-doc debhelper 247s Recommended packages: 247s libpaper-utils python3-pil 247s The following NEW packages will be installed: 247s autopkgtest-satdep docutils-common libblas3 libgfortran5 liblapack3 pdb2pqr 247s python3-docutils python3-numpy python3-pdb2pqr python3-pdbx python3-propka 247s python3-roman sgml-base xml-core 247s 0 upgraded, 14 newly installed, 0 to remove and 1 not upgraded. 247s Need to get 8802 kB/8802 kB of archives. 247s After this operation, 36.8 MB of additional disk space will be used. 247s Get:1 /tmp/autopkgtest.MRCI3G/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [704 B] 247s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x sgml-base all 1.31 [11.4 kB] 247s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x xml-core all 0.19 [20.3 kB] 247s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x docutils-common all 0.20.1+dfsg-3 [132 kB] 248s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libblas3 s390x 3.12.0-3 [245 kB] 248s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgfortran5 s390x 14-20240315-1ubuntu1 [600 kB] 248s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x liblapack3 s390x 3.12.0-3 [2979 kB] 248s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main s390x python3-numpy s390x 1:1.24.2-3ubuntu1 [4155 kB] 249s Get:9 http://ftpmaster.internal/ubuntu noble/main s390x python3-roman all 3.3-3 [9632 B] 249s Get:10 http://ftpmaster.internal/ubuntu noble/main s390x python3-docutils all 0.20.1+dfsg-3 [393 kB] 249s Get:11 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pdbx all 2.0.1-2 [16.5 kB] 249s Get:12 http://ftpmaster.internal/ubuntu noble/universe s390x python3-propka all 3.5.1-1 [85.5 kB] 249s Get:13 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pdb2pqr all 3.6.1+dfsg-1 [145 kB] 249s Get:14 http://ftpmaster.internal/ubuntu noble/universe s390x pdb2pqr all 3.6.1+dfsg-1 [10.4 kB] 249s Fetched 8802 kB in 2s (4724 kB/s) 249s Selecting previously unselected package sgml-base. 249s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 81562 files and directories currently installed.) 249s Preparing to unpack .../00-sgml-base_1.31_all.deb ... 249s Unpacking sgml-base (1.31) ... 249s Selecting previously unselected package xml-core. 249s Preparing to unpack .../01-xml-core_0.19_all.deb ... 249s Unpacking xml-core (0.19) ... 249s Selecting previously unselected package docutils-common. 249s Preparing to unpack .../02-docutils-common_0.20.1+dfsg-3_all.deb ... 249s Unpacking docutils-common (0.20.1+dfsg-3) ... 249s Selecting previously unselected package libblas3:s390x. 249s Preparing to unpack .../03-libblas3_3.12.0-3_s390x.deb ... 249s Unpacking libblas3:s390x (3.12.0-3) ... 249s Selecting previously unselected package libgfortran5:s390x. 249s Preparing to unpack .../04-libgfortran5_14-20240315-1ubuntu1_s390x.deb ... 249s Unpacking libgfortran5:s390x (14-20240315-1ubuntu1) ... 249s Selecting previously unselected package liblapack3:s390x. 249s Preparing to unpack .../05-liblapack3_3.12.0-3_s390x.deb ... 249s Unpacking liblapack3:s390x (3.12.0-3) ... 249s Selecting previously unselected package python3-numpy. 249s Preparing to unpack .../06-python3-numpy_1%3a1.24.2-3ubuntu1_s390x.deb ... 249s Unpacking python3-numpy (1:1.24.2-3ubuntu1) ... 250s Selecting previously unselected package python3-roman. 250s Preparing to unpack .../07-python3-roman_3.3-3_all.deb ... 250s Unpacking python3-roman (3.3-3) ... 250s Selecting previously unselected package python3-docutils. 250s Preparing to unpack .../08-python3-docutils_0.20.1+dfsg-3_all.deb ... 250s Unpacking python3-docutils (0.20.1+dfsg-3) ... 250s Selecting previously unselected package python3-pdbx. 250s Preparing to unpack .../09-python3-pdbx_2.0.1-2_all.deb ... 250s Unpacking python3-pdbx (2.0.1-2) ... 250s Selecting previously unselected package python3-propka. 250s Preparing to unpack .../10-python3-propka_3.5.1-1_all.deb ... 250s Unpacking python3-propka (3.5.1-1) ... 250s Selecting previously unselected package python3-pdb2pqr. 250s Preparing to unpack .../11-python3-pdb2pqr_3.6.1+dfsg-1_all.deb ... 250s Unpacking python3-pdb2pqr (3.6.1+dfsg-1) ... 250s Selecting previously unselected package pdb2pqr. 250s Preparing to unpack .../12-pdb2pqr_3.6.1+dfsg-1_all.deb ... 250s Unpacking pdb2pqr (3.6.1+dfsg-1) ... 250s Selecting previously unselected package autopkgtest-satdep. 250s Preparing to unpack .../13-1-autopkgtest-satdep.deb ... 250s Unpacking autopkgtest-satdep (0) ... 250s Setting up python3-propka (3.5.1-1) ... 250s Setting up python3-pdbx (2.0.1-2) ... 250s Setting up python3-roman (3.3-3) ... 250s Setting up libblas3:s390x (3.12.0-3) ... 250s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode 250s Setting up libgfortran5:s390x (14-20240315-1ubuntu1) ... 250s Setting up sgml-base (1.31) ... 250s Setting up liblapack3:s390x (3.12.0-3) ... 250s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode 250s Setting up python3-numpy (1:1.24.2-3ubuntu1) ... 253s Setting up xml-core (0.19) ... 253s Processing triggers for libc-bin (2.39-0ubuntu6) ... 253s Processing triggers for man-db (2.12.0-3build4) ... 254s Processing triggers for sgml-base (1.31) ... 254s Setting up docutils-common (0.20.1+dfsg-3) ... 254s Processing triggers for sgml-base (1.31) ... 254s Setting up python3-docutils (0.20.1+dfsg-3) ... 254s Setting up python3-pdb2pqr (3.6.1+dfsg-1) ... 254s Setting up pdb2pqr (3.6.1+dfsg-1) ... 254s Setting up autopkgtest-satdep (0) ... 257s (Reading database ... 83044 files and directories currently installed.) 257s Removing autopkgtest-satdep (0) ... 258s autopkgtest [20:10:13]: test installation-test: [----------------------- 258s Run pdb2pqr... 258s INFO:PDB2PQR v3.6.1: biomolecular structure conversion software. 258s INFO:Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 258s INFO:Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 258s INFO:Checking and transforming input arguments. 258s INFO:Loading topology files. 258s INFO:Loading molecule: examples/1a1p/1a1p.pdb 258s INFO:Setting up molecule. 258s WARNING:Unable to find amino or nucleic acid definition for NH2. Parsing as new residue. 258s INFO:Created biomolecule object with 14 residues and 208 atoms. 258s INFO:Setting termini states for biomolecule chains. 258s INFO:Loading forcefield. 258s INFO:Loading hydrogen topology definitions. 258s INFO:This biomolecule is clean. No repair needed. 258s INFO:Updating disulfide bridges. 258s INFO:Debumping biomolecule. 258s INFO:Adding hydrogens to biomolecule. 258s INFO:Debumping biomolecule (again). 258s INFO:Optimizing hydrogen bonds 258s INFO:Applying force field to biomolecule states. 258s INFO:Regenerating headers. 258s INFO:Regenerating PDB lines. 258s WARNING:Ignoring 852 header lines in output. 258s WARNING:Ignoring 3 missing lines in output. 258s autopkgtest [20:10:13]: test installation-test: -----------------------] 259s autopkgtest [20:10:14]: test installation-test: - - - - - - - - - - results - - - - - - - - - - 259s installation-test PASS 259s autopkgtest [20:10:14]: test pdb2pka-test: preparing testbed 261s Reading package lists... 262s Building dependency tree... 262s Reading state information... 262s Starting pkgProblemResolver with broken count: 0 262s Starting 2 pkgProblemResolver with broken count: 0 262s Done 262s The following additional packages will be installed: 262s fonts-font-awesome fonts-lato libjs-jquery libjs-sphinxdoc libjs-underscore 262s pdb2pqr-doc sphinx-rtd-theme-common 262s Recommended packages: 262s javascript-common 262s The following NEW packages will be installed: 262s autopkgtest-satdep fonts-font-awesome fonts-lato libjs-jquery 262s libjs-sphinxdoc libjs-underscore pdb2pqr-doc sphinx-rtd-theme-common 262s 0 upgraded, 8 newly installed, 0 to remove and 1 not upgraded. 262s Need to get 5162 kB/5162 kB of archives. 262s After this operation, 20.1 MB of additional disk space will be used. 262s Get:1 /tmp/autopkgtest.MRCI3G/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [720 B] 262s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x fonts-lato all 2.015-1 [2781 kB] 263s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 263s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 264s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 264s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libjs-sphinxdoc all 7.2.6-6 [149 kB] 264s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x sphinx-rtd-theme-common all 2.0.0+dfsg-1 [1012 kB] 264s Get:8 http://ftpmaster.internal/ubuntu noble/universe s390x pdb2pqr-doc all 3.6.1+dfsg-1 [258 kB] 264s Fetched 5162 kB in 2s (3133 kB/s) 264s Selecting previously unselected package fonts-lato. 264s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 83044 files and directories currently installed.) 264s Preparing to unpack .../0-fonts-lato_2.015-1_all.deb ... 264s Unpacking fonts-lato (2.015-1) ... 264s Selecting previously unselected package fonts-font-awesome. 264s Preparing to unpack .../1-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... 264s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 264s Selecting previously unselected package libjs-jquery. 264s Preparing to unpack .../2-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 264s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 264s Selecting previously unselected package libjs-underscore. 264s Preparing to unpack .../3-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 264s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 264s Selecting previously unselected package libjs-sphinxdoc. 264s Preparing to unpack .../4-libjs-sphinxdoc_7.2.6-6_all.deb ... 264s Unpacking libjs-sphinxdoc (7.2.6-6) ... 265s Selecting previously unselected package sphinx-rtd-theme-common. 265s Preparing to unpack .../5-sphinx-rtd-theme-common_2.0.0+dfsg-1_all.deb ... 265s Unpacking sphinx-rtd-theme-common (2.0.0+dfsg-1) ... 265s Selecting previously unselected package pdb2pqr-doc. 265s Preparing to unpack .../6-pdb2pqr-doc_3.6.1+dfsg-1_all.deb ... 265s Unpacking pdb2pqr-doc (3.6.1+dfsg-1) ... 265s Selecting previously unselected package autopkgtest-satdep. 265s Preparing to unpack .../7-2-autopkgtest-satdep.deb ... 265s Unpacking autopkgtest-satdep (0) ... 265s Setting up fonts-lato (2.015-1) ... 265s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 265s Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 265s Setting up sphinx-rtd-theme-common (2.0.0+dfsg-1) ... 265s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 265s Setting up libjs-sphinxdoc (7.2.6-6) ... 265s Setting up pdb2pqr-doc (3.6.1+dfsg-1) ... 265s Setting up autopkgtest-satdep (0) ... 267s (Reading database ... 83376 files and directories currently installed.) 267s Removing autopkgtest-satdep (0) ... 268s autopkgtest [20:10:23]: test pdb2pka-test: [----------------------- 268s Run pdb2pqr... 268s INFO:PDB2PQR v3.6.1: biomolecular structure conversion software. 268s INFO:Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 268s INFO:Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 268s INFO:Checking and transforming input arguments. 268s INFO:Loading topology files. 268s INFO:Loading molecule: 1a1p/1a1p.pdb 268s INFO:Setting up molecule. 268s WARNING:Unable to find amino or nucleic acid definition for NH2. Parsing as new residue. 268s INFO:Created biomolecule object with 14 residues and 208 atoms. 268s INFO:Setting termini states for biomolecule chains. 268s INFO:Loading forcefield. 268s INFO:Loading hydrogen topology definitions. 268s INFO:This biomolecule is clean. No repair needed. 268s INFO:Updating disulfide bridges. 268s INFO:Debumping biomolecule. 268s INFO:Adding hydrogens to biomolecule. 268s INFO:Debumping biomolecule (again). 268s INFO:Optimizing hydrogen bonds 268s INFO:Applying force field to biomolecule states. 268s INFO:Regenerating headers. 268s INFO:Regenerating PDB lines. 268s WARNING:Ignoring 852 header lines in output. 268s WARNING:Ignoring 3 missing lines in output. 269s autopkgtest [20:10:24]: test pdb2pka-test: -----------------------] 269s autopkgtest [20:10:24]: test pdb2pka-test: - - - - - - - - - - results - - - - - - - - - - 269s pdb2pka-test PASS 270s autopkgtest [20:10:25]: test command1: preparing testbed 271s Reading package lists... 271s Building dependency tree... 271s Reading state information... 272s Starting pkgProblemResolver with broken count: 0 272s Starting 2 pkgProblemResolver with broken count: 0 272s Done 272s The following additional packages will be installed: 272s python3-dateutil python3-iniconfig python3-packaging python3-pandas 272s python3-pandas-lib python3-pluggy python3-pytest python3-testfixtures 272s Suggested packages: 272s python-pandas-doc python3-statsmodels python-testfixtures-doc 272s Recommended packages: 272s python3-scipy python3-matplotlib python3-bottleneck python3-numexpr 272s python3-odf python3-openpyxl python3-bs4 python3-html5lib python3-lxml 272s python3-tables 272s The following NEW packages will be installed: 272s autopkgtest-satdep python3-dateutil python3-iniconfig python3-packaging 272s python3-pandas python3-pandas-lib python3-pluggy python3-pytest 272s python3-testfixtures 272s 0 upgraded, 9 newly installed, 0 to remove and 1 not upgraded. 272s Need to get 12.4 MB/12.4 MB of archives. 272s After this operation, 66.0 MB of additional disk space will be used. 272s Get:1 /tmp/autopkgtest.MRCI3G/3-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [740 B] 272s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x python3-dateutil all 2.8.2-3 [79.2 kB] 272s Get:3 http://ftpmaster.internal/ubuntu noble/universe s390x python3-iniconfig all 1.1.1-2 [6024 B] 272s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x python3-packaging all 23.2-1 [40.6 kB] 272s Get:5 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pandas-lib s390x 2.1.4+dfsg-4ubuntu2 [8852 kB] 274s Get:6 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB] 275s Get:7 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pluggy all 1.4.0-1 [20.4 kB] 275s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x python3-pytest all 8.0.2-1 [248 kB] 275s Get:9 http://ftpmaster.internal/ubuntu noble/universe s390x python3-testfixtures all 8.1.0-1 [73.5 kB] 275s Fetched 12.4 MB in 3s (4518 kB/s) 275s Selecting previously unselected package python3-dateutil. 275s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 83376 files and directories currently installed.) 275s Preparing to unpack .../0-python3-dateutil_2.8.2-3_all.deb ... 275s Unpacking python3-dateutil (2.8.2-3) ... 275s Selecting previously unselected package python3-iniconfig. 275s Preparing to unpack .../1-python3-iniconfig_1.1.1-2_all.deb ... 275s Unpacking python3-iniconfig (1.1.1-2) ... 275s Selecting previously unselected package python3-packaging. 275s Preparing to unpack .../2-python3-packaging_23.2-1_all.deb ... 275s Unpacking python3-packaging (23.2-1) ... 275s Selecting previously unselected package python3-pandas-lib:s390x. 275s Preparing to unpack .../3-python3-pandas-lib_2.1.4+dfsg-4ubuntu2_s390x.deb ... 275s Unpacking python3-pandas-lib:s390x (2.1.4+dfsg-4ubuntu2) ... 275s Selecting previously unselected package python3-pandas. 275s Preparing to unpack .../4-python3-pandas_2.1.4+dfsg-4ubuntu2_all.deb ... 275s Unpacking python3-pandas (2.1.4+dfsg-4ubuntu2) ... 276s Selecting previously unselected package python3-pluggy. 276s Preparing to unpack .../5-python3-pluggy_1.4.0-1_all.deb ... 276s Unpacking python3-pluggy (1.4.0-1) ... 276s Selecting previously unselected package python3-pytest. 276s Preparing to unpack .../6-python3-pytest_8.0.2-1_all.deb ... 276s Unpacking python3-pytest (8.0.2-1) ... 276s Selecting previously unselected package python3-testfixtures. 276s Preparing to unpack .../7-python3-testfixtures_8.1.0-1_all.deb ... 276s Unpacking python3-testfixtures (8.1.0-1) ... 276s Selecting previously unselected package autopkgtest-satdep. 276s Preparing to unpack .../8-3-autopkgtest-satdep.deb ... 276s Unpacking autopkgtest-satdep (0) ... 276s Setting up python3-iniconfig (1.1.1-2) ... 276s Setting up python3-pandas-lib:s390x (2.1.4+dfsg-4ubuntu2) ... 276s Setting up python3-testfixtures (8.1.0-1) ... 276s Setting up python3-packaging (23.2-1) ... 276s Setting up python3-pluggy (1.4.0-1) ... 276s Setting up python3-dateutil (2.8.2-3) ... 276s Setting up python3-pytest (8.0.2-1) ... 277s Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ... 283s Setting up autopkgtest-satdep (0) ... 283s Processing triggers for man-db (2.12.0-3build4) ... 286s (Reading database ... 85390 files and directories currently installed.) 286s Removing autopkgtest-satdep (0) ... 287s autopkgtest [20:10:42]: test command1: pytest-3 287s autopkgtest [20:10:42]: test command1: [----------------------- 288s ============================= test session starts ============================== 288s platform linux -- Python 3.12.2, pytest-8.0.2, pluggy-1.4.0 288s rootdir: /tmp/autopkgtest.MRCI3G/build.2QL/src 288s configfile: pytest.ini 288s 288s ----------------------------- live log collection ------------------------------ 288s WARNING py.warnings:warnings.py:110 /tmp/autopkgtest.MRCI3G/build.2QL/src/tests/core_test.py:81: PytestUnknownMarkWarning: Unknown pytest.mark.long_test - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html 288s @pytest.mark.long_test 288s 288s ERROR regression_test:regression_test.py:173 Need to reinstate the --apbs-input test with a temporary directory as path 288s collected 316 items 288s 288s tests/core_test.py::test_short_pdb[7BNA] SKIPPED (not running tests ...) [ 0%] 288s tests/core_test.py::test_short_pdb[4UN3] SKIPPED (not running tests ...) [ 0%] 288s tests/core_test.py::test_short_pdb[1NAJ] SKIPPED (not running tests ...) [ 0%] 288s tests/core_test.py::test_short_pdb[1K1I] SKIPPED (not running tests ...) [ 1%] 288s tests/core_test.py::test_short_pdb[5D8V] SKIPPED (not running tests ...) [ 1%] 288s tests/core_test.py::test_short_pdb[1FAS] SKIPPED (not running tests ...) [ 1%] 288s tests/core_test.py::test_short_pdb[1AQO] SKIPPED (not running tests ...) [ 2%] 288s tests/core_test.py::test_short_pdb[4E8M] SKIPPED (not running tests ...) 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[ 54%] 288s tests/core_test.py::test_long_pdb[2CGQ] SKIPPED (not running tests r...) [ 55%] 288s tests/core_test.py::test_long_pdb[2GUS] SKIPPED (not running tests r...) [ 55%] 288s tests/core_test.py::test_long_pdb[4CRH] SKIPPED (not running tests r...) [ 55%] 288s tests/core_test.py::test_long_pdb[2IWN] SKIPPED (not running tests r...) [ 56%] 288s tests/core_test.py::test_long_pdb[4PGR] SKIPPED (not running tests r...) [ 56%] 288s tests/core_test.py::test_long_pdb[2OCH] SKIPPED (not running tests r...) [ 56%] 288s tests/core_test.py::test_long_pdb[3TSV] SKIPPED (not running tests r...) [ 56%] 288s tests/core_test.py::test_long_pdb[2CJJ] SKIPPED (not running tests r...) [ 57%] 288s tests/core_test.py::test_long_pdb[4OSN] SKIPPED (not running tests r...) [ 57%] 288s tests/core_test.py::test_long_pdb[2ERA] SKIPPED (not running tests r...) [ 57%] 288s tests/core_test.py::test_long_pdb[1BM8] SKIPPED (not running tests r...) [ 58%] 288s tests/core_test.py::test_long_pdb[4N6T] SKIPPED (not running tests r...) [ 58%] 288s tests/core_test.py::test_long_pdb[2PTV] SKIPPED (not running tests r...) [ 58%] 288s tests/core_test.py::test_long_pdb[2NSN] SKIPPED (not running tests r...) [ 59%] 288s tests/core_test.py::test_long_pdb[3LS0] SKIPPED (not running tests r...) [ 59%] 288s tests/core_test.py::test_long_pdb[2HDZ] SKIPPED (not running tests r...) [ 59%] 288s tests/core_test.py::test_long_pdb[1YZM] SKIPPED (not running tests r...) [ 60%] 288s tests/core_test.py::test_long_pdb[1NXO] SKIPPED (not running tests r...) [ 60%] 288s tests/core_test.py::test_long_pdb[4GMQ] SKIPPED (not running tests r...) [ 60%] 288s tests/core_test.py::test_long_pdb[1IS5] SKIPPED (not running tests r...) [ 61%] 288s tests/core_test.py::test_long_pdb[2FRG] SKIPPED (not running tests r...) [ 61%] 288s tests/core_test.py::test_long_pdb[4YPC] SKIPPED (not running tests r...) [ 61%] 288s tests/core_test.py::test_long_pdb[3B7H] SKIPPED (not running tests r...) [ 62%] 288s tests/core_test.py::test_long_pdb[2FWG] SKIPPED (not running tests r...) [ 62%] 288s tests/core_test.py::test_long_pdb[1TGN] SKIPPED (not running tests r...) [ 62%] 288s tests/core_test.py::test_long_pdb[4IL7] SKIPPED (not running tests r...) [ 62%] 288s tests/core_test.py::test_long_pdb[3JTE] SKIPPED (not running tests r...) [ 63%] 288s tests/core_test.py::test_long_pdb[3CP1] SKIPPED (not running tests r...) [ 63%] 288s tests/core_test.py::test_long_pdb[2HC8] SKIPPED (not running tests r...) [ 63%] 288s tests/core_test.py::test_long_pdb[3RFF] SKIPPED (not running tests r...) [ 64%] 288s tests/core_test.py::test_long_pdb[4RWU] SKIPPED (not running tests r...) [ 64%] 288s tests/core_test.py::test_long_pdb[1PHT] SKIPPED (not running tests r...) [ 64%] 288s tests/core_test.py::test_long_pdb[4HS2] SKIPPED (not running tests r...) [ 65%] 288s tests/core_test.py::test_long_pdb[3HRO] SKIPPED (not running tests r...) [ 65%] 288s tests/core_test.py::test_long_pdb[1B0X] SKIPPED (not running tests r...) [ 65%] 288s tests/core_test.py::test_long_pdb[2ERW] SKIPPED (not running tests r...) [ 66%] 288s tests/core_test.py::test_broken_backbone[3U7T] 288s -------------------------------- live log call --------------------------------- 288s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_broken_backbone_3U7T_0/3U7T.log 288s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 288s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 288s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 288s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 288s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 288s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: 3U7T 289s INFO PDB2PQR3.6.1:main.py:768 Dropping water from structure. 289s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 289s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 46 residues and 652 atoms. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: N in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: C in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: O in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OG in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB2 in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB3 in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG2 in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG3 in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD2 in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD3 in PRO A 22. 289s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in PRO A 22. At least one of the instances is being ignored. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: N in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: C in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: O in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG1 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG2 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD1 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: H in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG12 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG13 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG21 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG22 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG23 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD11 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD12 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD13 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD2 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB2 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB3 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD21 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD22 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD23 in LEU A 25. 289s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in LEU A 25. At least one of the instances is being ignored. 289s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 289s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 289s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 289s INFO PDB2PQR3.6.1:main.py:459 This biomolecule is clean. No repair needed. 289s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 289s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 289s CRITICAL PDB2PQR3.6.1:main.py:800 Unable to debump biomolecule. Biomolecular structure is incomplete: Found gap in biomolecule structure for atom ATOM 313 OG PRO 22 -13.108 -5.696 -15.739 0.0000 0.0000 289s CRITICAL PDB2PQR3.6.1:main.py:801 Giving up. 289s XFAIL [ 66%] 289s tests/core_test.py::test_broken_backbone[4MGP] 289s -------------------------------- live log call --------------------------------- 289s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_broken_backbone_4MGP_0/4MGP.log 289s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 289s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 289s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 289s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 289s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 289s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: 4MGP 290s INFO PDB2PQR3.6.1:main.py:768 Dropping water from structure. 290s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 290s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 23 residues and 163 atoms. 290s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in MET A 21. 290s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in MET A 21. 290s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in MET A 21. 290s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: SD in MET A 21. 290s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CE in MET A 21. 290s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in MET A 21. At least one of the instances is being ignored. 290s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 290s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 290s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CE in residue LYS A 11 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom NZ in residue LYS A 11 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CG in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CD in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CE in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom NZ in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CA in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom C in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom O in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CB in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OG in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CE in residue LYS A 11 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom NZ in residue LYS A 11 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CG in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CD in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CE in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom NZ in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CA in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom C in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom O in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CB in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OG in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue SER A 23 290s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 12 missing atoms in biomolecule. 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CE in residue LYS A 11 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom NZ in residue LYS A 11 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CG in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CD in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CE in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom NZ in residue LYS A 14 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CA in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom C in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom O in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CB in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OG in residue SER A 23 290s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue SER A 23 290s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom CE to residue LYS A 11 at coordinates 1.430, -1.683, -11.529 290s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom NZ to residue LYS A 11 at coordinates 1.940, -0.315, -11.800 290s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom CG to residue LYS A 14 at coordinates -1.600, -8.819, -6.913 290s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom CD to residue LYS A 14 at coordinates -2.056, -8.844, -8.361 290s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom CE to residue LYS A 14 at coordinates -3.548, -9.031, -8.498 290s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom NZ to residue LYS A 14 at coordinates -3.947, -9.048, -9.928 290s CRITICAL PDB2PQR3.6.1:main.py:800 Too few atoms present to reconstruct or cap residue SER A 23 in structure! This error is generally caused by missing backbone atoms in this biomolecule; you must use an external program to complete gaps in the biomolecule backbone. Heavy atoms missing from SER A 23: C O CB OG OXT CA 290s CRITICAL PDB2PQR3.6.1:main.py:801 Giving up. 290s XFAIL [ 66%] 290s tests/core_test.py::test_broken_backbone[2V75] 290s -------------------------------- live log call --------------------------------- 290s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_broken_backbone_2V75_0/2V75.log 290s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 290s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 290s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 290s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 290s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 290s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: 2V75 291s INFO PDB2PQR3.6.1:main.py:768 Dropping water from structure. 291s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 291s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 90 residues and 687 atoms. 291s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 291s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 291s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CA in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom C in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom O in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CB in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CG in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OD1 in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom ND2 in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CA in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom C in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom O in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CB in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CG in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OD1 in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom ND2 in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue ASN A 95 291s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 8 missing atoms in biomolecule. 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CA in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom C in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom O in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CB in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom CG in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OD1 in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom ND2 in residue ASN A 95 291s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue ASN A 95 291s CRITICAL PDB2PQR3.6.1:main.py:800 Too few atoms present to reconstruct or cap residue ASN A 95 in structure! This error is generally caused by missing backbone atoms in this biomolecule; you must use an external program to complete gaps in the biomolecule backbone. Heavy atoms missing from ASN A 95: C O CB CG OD1 ND2 OXT CA 291s CRITICAL PDB2PQR3.6.1:main.py:801 Giving up. 291s XFAIL [ 67%] 291s tests/core_test.py::test_broken_backbone[1EJG] 291s -------------------------------- live log call --------------------------------- 291s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_broken_backbone_1EJG_0/1EJG.log 291s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 291s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 291s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 291s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 291s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 291s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: 1EJG 292s INFO PDB2PQR3.6.1:main.py:768 Dropping water from structure. 292s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 292s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 46 residues and 650 atoms. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: N in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OG1 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG2 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: H1 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: H2 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: H3 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG1 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG21 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG22 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG23 in THR A 1. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in THR A 1. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OG1 in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG2 in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG1 in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG21 in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG22 in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG23 in THR A 2. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in THR A 2. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: C in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: O in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG1 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG2 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD1 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG12 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG13 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG21 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG22 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG23 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD11 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD12 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD13 in ILE A 7. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in ILE A 7. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: N in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG1 in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG2 in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: H in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG11 in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG12 in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG13 in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG21 in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG22 in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG23 in VAL A 8. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in VAL A 8. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: NE in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CZ in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: NH1 in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: NH2 in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HE in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HH11 in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HH12 in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HH21 in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HH22 in ARG A 10. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in ARG A 10. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OD1 in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: ND2 in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB2 in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB3 in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD21 in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD22 in ASN A 12. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in ASN A 12. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD1 in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD2 in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CE1 in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CE2 in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CZ in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD1 in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD2 in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HE1 in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HE2 in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HZ in PHE A 13. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in PHE A 13. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in PRO A 19. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB2 in PRO A 19. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB3 in PRO A 19. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG2 in PRO A 19. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG3 in PRO A 19. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD2 in PRO A 19. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD3 in PRO A 19. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in PRO A 19. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: C in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: O in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB2 in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB3 in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG2 in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG3 in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD2 in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD3 in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OG in SER A 22. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in SER A 22. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in GLU A 23. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD in GLU A 23. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OE1 in GLU A 23. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OE2 in GLU A 23. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG2 in GLU A 23. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG3 in GLU A 23. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in GLU A 23. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: N in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CA in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: C in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: O in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD1 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD2 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: H in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HA in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB2 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB3 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD11 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD12 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD13 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD21 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD22 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD23 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG1 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG2 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG12 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG13 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG21 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG22 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG23 in ILE A 25. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in ILE A 25. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD1 in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD2 in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CE1 in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CE2 in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CZ in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OH in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD1 in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD2 in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HE1 in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HE2 in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HH in TYR A 29. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in TYR A 29. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG1 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG2 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CD1 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG12 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG13 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG21 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG22 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG23 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD11 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD12 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD13 in ILE A 34. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in ILE A 34. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in PRO A 36. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in PRO A 36. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB2 in PRO A 36. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB3 in PRO A 36. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG2 in PRO A 36. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG3 in PRO A 36. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in PRO A 36. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in THR A 39. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OG1 in THR A 39. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG2 in THR A 39. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB in THR A 39. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG21 in THR A 39. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG22 in THR A 39. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HG23 in THR A 39. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in THR A 39. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CB in ASP A 43. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in ASP A 43. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OD1 in ASP A 43. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OD2 in ASP A 43. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB2 in ASP A 43. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HB3 in ASP A 43. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in ASP A 43. At least one of the instances is being ignored. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: CG in ASN A 46. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: OD1 in ASN A 46. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: ND2 in ASN A 46. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD21 in ASN A 46. 292s WARNING PDB2PQR3.6.1:main.py:418 Multiple occupancies found: HD22 in ASN A 46. 292s WARNING PDB2PQR3.6.1:main.py:424 Multiple occupancies found in ASN A 46. At least one of the instances is being ignored. 292s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 292s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 292s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 292s INFO PDB2PQR3.6.1:main.py:459 This biomolecule is clean. No repair needed. 292s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 292s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 292s CRITICAL PDB2PQR3.6.1:main.py:800 Unable to debump biomolecule. Biomolecular structure is incomplete: Found gap in biomolecule structure for atom ATOM 405 CG SER 22 4.661 14.854 -4.058 0.0000 0.0000 292s CRITICAL PDB2PQR3.6.1:main.py:801 Giving up. 292s XFAIL [ 67%] 292s tests/core_test.py::test_protonated_terminals[C-terminal HID] 292s -------------------------------- live log call --------------------------------- 292s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_protonated_terminals_C_te0/cterm_hid.log 292s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 292s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 292s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 292s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 292s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 292s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/cterm_hid.pdb 292s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 292s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 14 residues and 115 atoms. 292s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 292s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 292s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 292s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue HIS B 209 292s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue HIS B 209 292s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 1 missing atoms in biomolecule. 292s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue HIS B 209 292s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue HIS B 209 at coordinates -25.652, 1.939, 26.402 292s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 292s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 292s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 292s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 292s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 292s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 292s INFO PDB2PQR3.6.1:main.py:707 Applying custom naming scheme (amber). 292s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 292s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 292s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 464 header lines in output. 292s INFO common:common.py:198 0 atoms have position differences > 0 292s INFO common:common.py:198 0 atoms have position differences > 0.01 292s INFO common:common.py:198 0 atoms have charge differences > 0 292s INFO common:common.py:198 0 atoms have charge differences > 0.01 292s INFO common:common.py:198 0 atoms have radius differences > 0 292s INFO common:common.py:198 0 atoms have radius differences > 0.01 292s PASSED [ 67%] 292s tests/core_test.py::test_cyclic_peptide[Cyclic peptide] 292s -------------------------------- live log call --------------------------------- 292s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_cyclic_peptide_Cyclic_pep0/5vav_cyclic_peptide.log 292s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 292s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 292s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 292s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 292s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 292s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/5vav_cyclic_peptide.pdb 292s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 292s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 14 residues and 209 atoms. 292s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 292s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 292s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 292s INFO PDB2PQR3.6.1:main.py:459 This biomolecule is clean. No repair needed. 292s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 292s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 292s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 292s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 292s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 292s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 292s INFO PDB2PQR3.6.1:main.py:707 Applying custom naming scheme (amber). 292s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 292s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 292s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 464 header lines in output. 292s INFO common:common.py:198 0 atoms have position differences > 0 292s INFO common:common.py:198 0 atoms have position differences > 0.01 292s INFO common:common.py:198 0 atoms have charge differences > 0 292s INFO common:common.py:198 0 atoms have charge differences > 0.01 292s INFO common:common.py:198 0 atoms have radius differences > 0 292s INFO common:common.py:198 0 atoms have radius differences > 0.01 292s PASSED [ 68%] 292s tests/io_test.py::test_read_pqr[tests/data/1AFS_chain_whitespace_ff=AMBER.pqr] PASSED [ 68%] 292s tests/io_test.py::test_read_pqr[tests/data/1AFS_ff=AMBER.pqr] PASSED [ 68%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_nodebump_noopt_whitespace_ff=AMBER.pqr] PASSED [ 68%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_neutralc_neutraln_whitespace_ff=PARSE.pqr] PASSED [ 69%] 293s tests/io_test.py::test_read_pqr[tests/data/5vav_cyclic_peptide_out.pqr] PASSED [ 69%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_whitespace_ff=AMBER.pqr] PASSED [ 69%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_whitespace_ff=PEOEPB.pqr] PASSED [ 70%] 293s tests/io_test.py::test_read_pqr[tests/data/cterm_hid_out.pqr] PASSED [ 70%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_userff_usernames_whitespace.pqr] PASSED [ 70%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_whitespace_ff=SWANSON.pqr] PASSED [ 71%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_whitespace_ff=TYL06.pqr] PASSED [ 71%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_drop-water_ff=AMBER.pqr] PASSED [ 71%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_clean_whitespace.pqr] PASSED [ 72%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_apbs-input_include-header_whitespace_ff=AMBER.pqr] PASSED [ 72%] 293s tests/io_test.py::test_read_pqr[tests/data/1A1P_assign-only_whitespace_ff=AMBER.pqr] PASSED [ 72%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_whitespace_ff=CHARMM.pqr] PASSED [ 73%] 293s tests/io_test.py::test_read_pqr[tests/data/1AFS_whitespace_ff=PARSE.pqr] PASSED [ 73%] 293s tests/io_test.py::test_read_pqr[tests/data/1HPX_with-ph=7.00_titration_state_method=propka_ligand=LIG_1HPX_ff=AMBER.pqr] PASSED [ 73%] 293s tests/io_test.py::test_read_pqr[tests/data/dx2cube.pqr] PASSED [ 74%] 293s tests/io_test.py::test_read_qcd PASSED [ 74%] 293s tests/io_test.py::test_dx2cube 293s -------------------------------- live log call --------------------------------- 293s INFO io_test:io_test.py:44 Reading PQR from tests/data/dx2cube.pqr... 293s INFO io_test:io_test.py:47 Reading DX from tests/data/dx2cube.dx... 294s INFO io_test:io_test.py:50 Writing Cube to /tmp/pytest-of-ubuntu/pytest-0/test_dx2cube0/test.cube... 295s INFO io_test:io_test.py:53 Reading this cube from /tmp/pytest-of-ubuntu/pytest-0/test_dx2cube0/test.cube... 295s INFO io_test:io_test.py:55 Reading test cube from tests/data/dx2cube.cube... 295s INFO io_test:io_test.py:68 No differences found in output 295s PASSED [ 74%] 296s tests/ligand_test.py::test_peoe_charges 296s -------------------------------- live log call --------------------------------- 296s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 296s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 296s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 296s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 296s PASSED [ 75%] 297s tests/ligand_test.py::test_assign_parameters[1HPX-ligand.mol2] 297s -------------------------------- live log call --------------------------------- 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> 0.00 297s PASSED [ 75%] 297s tests/ligand_test.py::test_assign_parameters[1QBS-ligand.mol2] 297s -------------------------------- live log call --------------------------------- 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> -0.00 297s PASSED [ 75%] 297s tests/ligand_test.py::test_assign_parameters[1US0-ligand.mol2] 297s -------------------------------- live log call --------------------------------- 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 297s INFO ligand_test:ligand_test.py:73 Total charge: -1.00 -> -1.00 297s PASSED [ 75%] 297s tests/ligand_test.py::test_assign_parameters[acetate.mol2] 297s -------------------------------- live log call --------------------------------- 297s INFO ligand_test:ligand_test.py:73 Total charge: -1.00 -> -1.00 297s PASSED [ 76%] 297s tests/ligand_test.py::test_assign_parameters[acetonitrile.mol2] 297s -------------------------------- live log call --------------------------------- 297s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> -0.00 297s PASSED [ 76%] 297s tests/ligand_test.py::test_assign_parameters[acetylcholine.mol2] 297s -------------------------------- live log call --------------------------------- 297s WARNING pdb2pqr.ligand.mol2:mol2.py:283 Correcting ammonium atom type. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:283 Correcting ammonium atom type. 297s INFO ligand_test:ligand_test.py:73 Total charge: 1.00 -> 1.00 297s PASSED [ 76%] 297s tests/ligand_test.py::test_assign_parameters[adp.mol2] 297s -------------------------------- live log call --------------------------------- 297s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:253 Correcting aromatic nitrogen bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:253 Correcting aromatic nitrogen bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:261 Correcting aromatic carbon bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:253 Correcting aromatic nitrogen bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:253 Correcting aromatic nitrogen bond order. 297s WARNING pdb2pqr.ligand.mol2:mol2.py:261 Correcting aromatic carbon bond order. 297s INFO ligand_test:ligand_test.py:73 Total charge: -2.00 -> -2.00 297s PASSED [ 77%] 297s tests/ligand_test.py::test_assign_parameters[anthracene.mol2] 297s -------------------------------- live log call --------------------------------- 297s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> -0.00 297s PASSED [ 77%] 297s tests/ligand_test.py::test_assign_parameters[cyclohexane.mol2] 297s -------------------------------- live log call --------------------------------- 297s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> 0.00 297s PASSED [ 77%] 297s tests/ligand_test.py::test_assign_parameters[ethanol.mol2] 297s -------------------------------- live log call --------------------------------- 297s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> 0.00 298s PASSED [ 78%] 298s tests/ligand_test.py::test_assign_parameters[fatty-acid.mol2] 298s -------------------------------- live log call --------------------------------- 298s INFO ligand_test:ligand_test.py:73 Total charge: -1.00 -> -1.00 298s PASSED [ 78%] 298s tests/ligand_test.py::test_assign_parameters[glycerol.mol2] 298s -------------------------------- live log call --------------------------------- 298s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> 0.00 298s PASSED [ 78%] 298s tests/ligand_test.py::test_assign_parameters[naphthalene.mol2] 298s -------------------------------- live log call --------------------------------- 298s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> -0.00 298s PASSED [ 79%] 298s tests/ligand_test.py::test_assign_parameters[pyrrole.mol2] 298s -------------------------------- live log call --------------------------------- 298s INFO ligand_test:ligand_test.py:73 Total charge: 0.00 -> 0.00 298s PASSED [ 79%] 298s tests/ligand_test.py::test_assign_parameters[tetramethylammonium.mol2] 298s -------------------------------- live log call --------------------------------- 298s WARNING pdb2pqr.ligand.mol2:mol2.py:283 Correcting ammonium atom type. 298s WARNING pdb2pqr.ligand.mol2:mol2.py:283 Correcting ammonium atom type. 298s INFO ligand_test:ligand_test.py:73 Total charge: 1.00 -> 1.00 298s PASSED [ 79%] 298s tests/ligand_test.py::test_formal_charge[1HPX-ligand.mol2] 298s -------------------------------- live log call --------------------------------- 298s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 298s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 298s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 298s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 298s PASSED [ 80%] 299s tests/ligand_test.py::test_formal_charge[1QBS-ligand.mol2] 299s -------------------------------- live log call --------------------------------- 299s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 299s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 299s PASSED [ 80%] 299s tests/ligand_test.py::test_formal_charge[1US0-ligand.mol2] 299s -------------------------------- live log call --------------------------------- 299s WARNING pdb2pqr.ligand.mol2:mol2.py:245 Correcting planar/amide bond order. 299s PASSED [ 80%] 299s tests/ligand_test.py::test_formal_charge[acetate.mol2] PASSED [ 81%] 299s tests/ligand_test.py::test_formal_charge[acetonitrile.mol2] PASSED [ 81%] 299s tests/ligand_test.py::test_formal_charge[acetylcholine.mol2] 299s -------------------------------- live log call --------------------------------- 299s WARNING pdb2pqr.ligand.mol2:mol2.py:283 Correcting ammonium atom type. 299s PASSED [ 81%] 299s tests/ligand_test.py::test_formal_charge[adp.mol2] 299s -------------------------------- live log call --------------------------------- 299s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 299s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 299s WARNING pdb2pqr.ligand.mol2:mol2.py:295 Correcting phosphate bond order. 299s WARNING pdb2pqr.ligand.mol2:mol2.py:253 Correcting aromatic nitrogen bond order. 299s WARNING pdb2pqr.ligand.mol2:mol2.py:253 Correcting aromatic nitrogen bond order. 299s WARNING pdb2pqr.ligand.mol2:mol2.py:261 Correcting aromatic carbon bond order. 299s PASSED [ 81%] 299s tests/ligand_test.py::test_formal_charge[anthracene.mol2] PASSED [ 82%] 299s tests/ligand_test.py::test_formal_charge[cyclohexane.mol2] PASSED [ 82%] 299s tests/ligand_test.py::test_formal_charge[ethanol.mol2] PASSED [ 82%] 299s tests/ligand_test.py::test_formal_charge[fatty-acid.mol2] PASSED [ 83%] 299s tests/ligand_test.py::test_formal_charge[glycerol.mol2] PASSED [ 83%] 299s tests/ligand_test.py::test_formal_charge[naphthalene.mol2] PASSED [ 83%] 299s tests/ligand_test.py::test_formal_charge[pyrrole.mol2] PASSED [ 84%] 299s tests/ligand_test.py::test_formal_charge[tetramethylammonium.mol2] 299s -------------------------------- live log call --------------------------------- 299s WARNING pdb2pqr.ligand.mol2:mol2.py:283 Correcting ammonium atom type. 299s PASSED [ 84%] 299s tests/ligand_test.py::test_torsions[acetylcholine.mol2] PASSED [ 84%] 299s tests/ligand_test.py::test_torsions[ethanol.mol2] PASSED [ 85%] 299s tests/ligand_test.py::test_torsions[pyrrole.mol2] PASSED [ 85%] 299s tests/ligand_test.py::test_torsions[tetramethylammonium.mol2] PASSED [ 85%] 299s tests/ligand_test.py::test_torsions[glycerol.mol2] PASSED [ 86%] 299s tests/ligand_test.py::test_torsions[cyclohexane.mol2] PASSED [ 86%] 300s tests/ligand_test.py::test_rings[1HPX-ligand.mol2] PASSED [ 86%] 301s tests/ligand_test.py::test_rings[1QBS-ligand.mol2] PASSED [ 87%] 301s tests/ligand_test.py::test_rings[1US0-ligand.mol2] PASSED [ 87%] 301s tests/ligand_test.py::test_rings[acetate.mol2] PASSED [ 87%] 301s tests/ligand_test.py::test_rings[acetonitrile.mol2] PASSED [ 87%] 301s tests/ligand_test.py::test_rings[acetylcholine.mol2] PASSED [ 88%] 301s tests/ligand_test.py::test_rings[adp.mol2] PASSED [ 88%] 301s tests/ligand_test.py::test_rings[anthracene.mol2] PASSED [ 88%] 301s tests/ligand_test.py::test_rings[cyclohexane.mol2] PASSED [ 89%] 301s tests/ligand_test.py::test_rings[ethanol.mol2] PASSED [ 89%] 301s tests/ligand_test.py::test_rings[fatty-acid.mol2] PASSED [ 89%] 301s tests/ligand_test.py::test_rings[glycerol.mol2] PASSED [ 90%] 301s tests/ligand_test.py::test_rings[naphthalene.mol2] PASSED [ 90%] 301s tests/ligand_test.py::test_rings[pyrrole.mol2] PASSED [ 90%] 301s tests/ligand_test.py::test_rings[tetramethylammonium.mol2] PASSED [ 91%] 301s tests/ligand_test.py::test_ligand_biomolecule[1HPX] SKIPPED (not run...) [ 91%] 301s tests/logging_test.py::test_log_output_in_pqr_location[1A1P.pdb-1A1P_assign-only_whitespace_ff=AMBER_log.pqr] PASSED [ 91%] 301s tests/propka_test.py::test_propka_apo[1K1I] SKIPPED (not running tes...) [ 92%] 301s tests/propka_test.py::test_propka_apo[1AFS] SKIPPED (not running tes...) [ 92%] 301s tests/propka_test.py::test_propka_apo[1FAS] SKIPPED (not running tes...) [ 92%] 301s tests/propka_test.py::test_propka_apo[5DV8] SKIPPED (not running tes...) [ 93%] 301s tests/propka_test.py::test_propka_apo[5D8V] SKIPPED (not running tes...) [ 93%] 301s tests/propka_test.py::test_propka_pka[1K1I] SKIPPED (not running tes...) [ 93%] 301s tests/propka_test.py::test_propka_pka[1AFS] SKIPPED (not running tes...) [ 93%] 301s tests/propka_test.py::test_propka_pka[1FAS] SKIPPED (not running tes...) [ 94%] 301s tests/propka_test.py::test_propka_pka[5DV8] SKIPPED (not running tes...) [ 94%] 301s tests/propka_test.py::test_propka_pka[5D8V] SKIPPED (not running tes...) [ 94%] 301s tests/regression_test.py::test_basic[1AFS basic local] 301s -------------------------------- live log call --------------------------------- 301s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_basic_1AFS_basic_local_0/output.log 301s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 301s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 301s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 301s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 301s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 301s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 301s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 301s WARNING pdb2pqr.biomolecule:biomolecule.py:992 Unable to find amino or nucleic acid definition for NAP. Parsing as new residue. 301s WARNING pdb2pqr.biomolecule:biomolecule.py:992 Unable to find amino or nucleic acid definition for TES. Parsing as new residue. 301s WARNING pdb2pqr.biomolecule:biomolecule.py:992 Unable to find amino or nucleic acid definition for NAP. Parsing as new residue. 301s WARNING pdb2pqr.biomolecule:biomolecule.py:992 Unable to find amino or nucleic acid definition for TES. Parsing as new residue. 301s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 301s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 301s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 301s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 301s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 301s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 301s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 301s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 301s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 301s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 301s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 301s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 301s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 301s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 301s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 301s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 302s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 303s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H1 in HOH A 333 skipped when optimizing H2 in HOH A 334 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H1 in HOH A 333 skipped when optimizing H2 in HOH A 334 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H1 in HOH A 333 skipped when optimizing H2 in HOH A 334 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H1 in HOH A 333 skipped when optimizing H2 in HOH A 334 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H1 in HOH A 333 skipped when optimizing H2 in HOH A 334 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H1 in HOH A 333 skipped when optimizing H2 in HOH A 334 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H1 in HOH A 333 skipped when optimizing H2 in HOH A 334 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H2 in HOH A 334 skipped when optimizing H2 in HOH A 333 304s WARNING pdb2pqr.debump:debump.py:354 Skipped atom during water optimization: H2 in HOH A 334 skipped when optimizing H2 in HOH A 333 304s WARNING pdb2pqr.io:io.py:40 Suppressing further "Skipped atom during water optimization" messages 306s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 306s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 306s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 306s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5424 header lines in output. 306s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 306s WARNING common:common.py:186 6 atoms have position differences > 0 306s INFO common:common.py:198 0 atoms have position differences > 0.01 306s INFO common:common.py:198 0 atoms have charge differences > 0 306s INFO common:common.py:198 0 atoms have charge differences > 0.01 306s INFO common:common.py:198 0 atoms have radius differences > 0 306s INFO common:common.py:198 0 atoms have radius differences > 0.01 306s PASSED [ 95%] 306s tests/regression_test.py::test_forcefields[1AFS whitespace AMBER] 306s -------------------------------- live log call --------------------------------- 306s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_forcefields_1AFS_whitespa0/output.log 306s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 306s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 306s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 306s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 306s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 306s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 306s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 306s WARNING pdb2pqr.biomolecule:biomolecule.py:992 Unable to find amino or nucleic acid definition for NAP. Parsing as new residue. 306s WARNING pdb2pqr.biomolecule:biomolecule.py:992 Unable to find amino or nucleic acid definition for TES. Parsing as new residue. 306s WARNING pdb2pqr.biomolecule:biomolecule.py:992 Unable to find amino or nucleic acid definition for NAP. Parsing as new residue. 306s WARNING pdb2pqr.biomolecule:biomolecule.py:992 Unable to find amino or nucleic acid definition for TES. Parsing as new residue. 306s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 306s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 306s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 306s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 306s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 306s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 306s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 306s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 306s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 306s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 306s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 306s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 306s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 306s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 306s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 306s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 307s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 308s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 311s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 311s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 311s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 311s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5424 header lines in output. 311s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 311s WARNING common:common.py:186 6 atoms have position differences > 0 311s INFO common:common.py:198 0 atoms have position differences > 0.01 311s INFO common:common.py:198 0 atoms have charge differences > 0 311s INFO common:common.py:198 0 atoms have charge differences > 0.01 311s INFO common:common.py:198 0 atoms have radius differences > 0 311s INFO common:common.py:198 0 atoms have radius differences > 0.01 311s PASSED [ 95%] 311s tests/regression_test.py::test_forcefields[1AFS whitespace CHARMM] 311s -------------------------------- live log call --------------------------------- 311s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_forcefields_1AFS_whitespa1/output.log 311s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 311s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 311s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 311s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 311s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 311s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 311s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 311s WARNING pdb2pqr.io:io.py:40 Suppressing further "Unable to find amino or nucleic acid definition for" messages 311s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 311s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 311s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 311s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 311s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 311s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 311s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 311s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 311s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 311s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 311s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 311s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 311s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 311s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 311s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 311s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 312s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 313s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 316s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 316s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 316s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 316s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5426 header lines in output. 316s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 316s WARNING common:common.py:186 5 atoms have position differences > 0 316s INFO common:common.py:198 0 atoms have position differences > 0.01 316s INFO common:common.py:198 0 atoms have charge differences > 0 316s INFO common:common.py:198 0 atoms have charge differences > 0.01 316s INFO common:common.py:198 0 atoms have radius differences > 0 316s INFO common:common.py:198 0 atoms have radius differences > 0.01 316s PASSED [ 95%] 316s tests/regression_test.py::test_forcefields[1AFS whitespace PARSE] 316s -------------------------------- live log call --------------------------------- 316s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_forcefields_1AFS_whitespa2/output.log 316s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 316s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 316s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 316s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 316s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 316s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 316s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 316s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 316s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 316s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 316s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 316s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 316s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 316s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 316s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 316s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 316s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 316s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 316s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 316s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 316s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 316s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 317s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 317s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 318s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 321s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 321s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 321s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 321s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5424 header lines in output. 321s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 321s WARNING common:common.py:186 6 atoms have position differences > 0 321s INFO common:common.py:198 0 atoms have position differences > 0.01 321s INFO common:common.py:198 0 atoms have charge differences > 0 321s INFO common:common.py:198 0 atoms have charge differences > 0.01 321s INFO common:common.py:198 0 atoms have radius differences > 0 321s INFO common:common.py:198 0 atoms have radius differences > 0.01 321s PASSED [ 96%] 321s tests/regression_test.py::test_forcefields[1AFS whitespace PEOEPB] 321s -------------------------------- live log call --------------------------------- 321s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_forcefields_1AFS_whitespa3/output.log 321s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 321s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 321s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 321s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 321s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 321s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 321s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 321s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 321s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 321s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 321s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 321s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 321s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 321s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 321s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 321s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 321s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 321s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 321s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 321s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 321s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 321s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 321s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 322s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 323s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 326s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 326s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 326s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 326s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5426 header lines in output. 326s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 326s WARNING common:common.py:186 6 atoms have position differences > 0 326s INFO common:common.py:198 0 atoms have position differences > 0.01 326s INFO common:common.py:198 0 atoms have charge differences > 0 326s INFO common:common.py:198 0 atoms have charge differences > 0.01 326s INFO common:common.py:198 0 atoms have radius differences > 0 326s INFO common:common.py:198 0 atoms have radius differences > 0.01 326s PASSED [ 96%] 326s tests/regression_test.py::test_forcefields[1AFS whitespace SWANSON] 326s -------------------------------- live log call --------------------------------- 326s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_forcefields_1AFS_whitespa4/output.log 326s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 326s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 326s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 326s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 326s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 326s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 326s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 327s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 327s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 327s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 327s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 327s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 327s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 327s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 327s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 327s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 327s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 327s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 327s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 327s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 327s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 327s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 327s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 327s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 328s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 331s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 331s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 331s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 331s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5428 header lines in output. 331s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 331s WARNING common:common.py:186 6 atoms have position differences > 0 331s INFO common:common.py:198 0 atoms have position differences > 0.01 331s INFO common:common.py:198 0 atoms have charge differences > 0 331s INFO common:common.py:198 0 atoms have charge differences > 0.01 331s INFO common:common.py:198 0 atoms have radius differences > 0 331s INFO common:common.py:198 0 atoms have radius differences > 0.01 331s PASSED [ 96%] 331s tests/regression_test.py::test_forcefields[1AFS whitespace TYL06] 331s -------------------------------- live log call --------------------------------- 331s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_forcefields_1AFS_whitespa5/output.log 331s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 331s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 331s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 331s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 331s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 331s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 331s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 331s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 331s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 331s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 331s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 331s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 331s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 331s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 331s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 331s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 331s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 331s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 331s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 331s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 331s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 331s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 332s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 332s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 333s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 336s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 336s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 336s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 336s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5424 header lines in output. 336s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 336s WARNING common:common.py:186 6 atoms have position differences > 0 336s INFO common:common.py:198 0 atoms have position differences > 0.01 336s INFO common:common.py:198 0 atoms have charge differences > 0 336s INFO common:common.py:198 0 atoms have charge differences > 0.01 336s INFO common:common.py:198 0 atoms have radius differences > 0 336s INFO common:common.py:198 0 atoms have radius differences > 0.01 336s PASSED [ 97%] 336s tests/regression_test.py::test_other_options[1AFS whitespace clean] 336s -------------------------------- live log call --------------------------------- 336s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_other_options_1AFS_whites0/output.log 336s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 336s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 336s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 336s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 336s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 336s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 336s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 336s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 336s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 336s INFO PDB2PQR3.6.1:main.py:778 Arguments specified cleaning only; skipping remaining steps. 336s INFO common:common.py:198 0 atoms have position differences > 0 336s INFO common:common.py:198 0 atoms have position differences > 0.01 336s INFO common:common.py:198 0 atoms have charge differences > 0 336s INFO common:common.py:198 0 atoms have charge differences > 0.01 336s INFO common:common.py:198 0 atoms have radius differences > 0 336s INFO common:common.py:198 0 atoms have radius differences > 0.01 336s PASSED [ 97%] 336s tests/regression_test.py::test_other_options[1A1P assign-only whitespace AMBER] 336s -------------------------------- live log call --------------------------------- 336s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_other_options_1A1P_assign0/output.log 336s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 336s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 336s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 336s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 336s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 336s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1A1P.pdb 336s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 336s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 14 residues and 208 atoms. 336s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 336s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 336s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 336s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 336s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 336s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 336s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 852 header lines in output. 336s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 3 missing lines in output. 337s INFO common:common.py:198 0 atoms have position differences > 0 337s INFO common:common.py:198 0 atoms have position differences > 0.01 337s INFO common:common.py:198 0 atoms have charge differences > 0 337s INFO common:common.py:198 0 atoms have charge differences > 0.01 337s INFO common:common.py:198 0 atoms have radius differences > 0 337s INFO common:common.py:198 0 atoms have radius differences > 0.01 337s PASSED [ 97%] 337s tests/regression_test.py::test_other_options[1A1P nodebump noopt whitespace AMBER] 337s -------------------------------- live log call --------------------------------- 337s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_other_options_1A1P_nodebu0/output.log 337s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 337s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 337s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 337s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 337s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 337s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1A1P.pdb 337s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 337s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 14 residues and 208 atoms. 337s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 337s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 337s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 337s INFO PDB2PQR3.6.1:main.py:459 This biomolecule is clean. No repair needed. 337s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 337s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 337s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 337s INFO pdb2pqr.hydrogens:__init__.py:370 Initializing water bonding optimization... 337s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 337s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 337s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 337s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 852 header lines in output. 337s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 3 missing lines in output. 337s INFO common:common.py:198 0 atoms have position differences > 0 337s INFO common:common.py:198 0 atoms have position differences > 0.01 337s INFO common:common.py:198 0 atoms have charge differences > 0 337s INFO common:common.py:198 0 atoms have charge differences > 0.01 337s INFO common:common.py:198 0 atoms have radius differences > 0 337s INFO common:common.py:198 0 atoms have radius differences > 0.01 337s PASSED [ 98%] 337s tests/regression_test.py::test_other_options[1AFS chain whitespace AMBER] 337s -------------------------------- live log call --------------------------------- 337s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_other_options_1AFS_chain_0/output.log 337s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 337s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 337s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 337s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 337s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 337s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 337s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 337s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 337s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 337s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 337s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 337s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 337s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 337s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 337s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 337s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 337s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 337s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 337s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 337s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 337s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 337s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 337s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 338s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 338s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 341s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 341s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 341s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 341s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5424 header lines in output. 341s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 342s WARNING common:common.py:186 6 atoms have position differences > 0 342s INFO common:common.py:198 0 atoms have position differences > 0.01 342s INFO common:common.py:198 0 atoms have charge differences > 0 342s INFO common:common.py:198 0 atoms have charge differences > 0.01 342s INFO common:common.py:198 0 atoms have radius differences > 0 342s INFO common:common.py:198 0 atoms have radius differences > 0.01 342s PASSED [ 98%] 342s tests/regression_test.py::test_other_options[1AFS neutralc neutraln PARSE] 342s -------------------------------- live log call --------------------------------- 342s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_other_options_1AFS_neutra0/output.log 342s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 342s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 342s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 342s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 342s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 342s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 342s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 342s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 342s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 342s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 342s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 342s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 342s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 342s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 342s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 342s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 342s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 342s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 342s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 342s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 342s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 342s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 342s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 343s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 343s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 346s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 346s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 346s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 346s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5424 header lines in output. 346s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 347s WARNING common:common.py:186 6 atoms have position differences > 0 347s INFO common:common.py:198 0 atoms have position differences > 0.01 347s INFO common:common.py:198 0 atoms have charge differences > 0 347s INFO common:common.py:198 0 atoms have charge differences > 0.01 347s INFO common:common.py:198 0 atoms have radius differences > 0 347s INFO common:common.py:198 0 atoms have radius differences > 0.01 347s PASSED [ 98%] 347s tests/regression_test.py::test_other_options[1AFS drop-water AMBER] 347s -------------------------------- live log call --------------------------------- 347s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_other_options_1AFS_drop_w0/output.log 347s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 347s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 347s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 347s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 347s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 347s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 347s INFO PDB2PQR3.6.1:main.py:768 Dropping water from structure. 347s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 347s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 642 residues and 5300 atoms. 347s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 347s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 347s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 347s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 347s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 347s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 347s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 347s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 347s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 347s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 347s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 347s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 347s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 347s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 347s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 348s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 348s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 350s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 350s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 350s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 350s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5424 header lines in output. 350s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 351s WARNING common:common.py:186 6 atoms have position differences > 0 351s INFO common:common.py:198 0 atoms have position differences > 0.01 351s INFO common:common.py:198 0 atoms have charge differences > 0 351s INFO common:common.py:198 0 atoms have charge differences > 0.01 351s INFO common:common.py:198 0 atoms have radius differences > 0 351s INFO common:common.py:198 0 atoms have radius differences > 0.01 351s PASSED [ 99%] 351s tests/regression_test.py::test_other_options[1AFS userff usernames whitespace] 351s -------------------------------- live log call --------------------------------- 351s INFO pdb2pqr.io:io.py:514 Logs stored: /tmp/pytest-of-ubuntu/pytest-0/test_other_options_1AFS_userff0/output.log 351s INFO PDB2PQR3.6.1:main.py:240 PDB2PQR v3.6.1: biomolecular structure conversion software. 351s INFO PDB2PQR3.6.1:main.py:242 Please cite: Jurrus E, et al. Improvements to the APBS biomolecular solvation software suite. Protein Sci 27 112-128 (2018). 351s INFO PDB2PQR3.6.1:main.py:242 Please cite: Dolinsky TJ, et al. PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Res 35 W522-W525 (2007). 351s INFO PDB2PQR3.6.1:main.py:759 Checking and transforming input arguments. 351s INFO PDB2PQR3.6.1:main.py:763 Loading topology files. 351s INFO PDB2PQR3.6.1:main.py:765 Loading molecule: tests/data/1AFS.pdb 351s INFO PDB2PQR3.6.1:main.py:770 Setting up molecule. 351s INFO PDB2PQR3.6.1:main.py:408 Created biomolecule object with 700 residues and 5358 atoms. 351s INFO PDB2PQR3.6.1:main.py:774 Setting termini states for biomolecule chains. 351s INFO PDB2PQR3.6.1:main.py:604 Loading forcefield. 351s INFO PDB2PQR3.6.1:main.py:608 Loading hydrogen topology definitions. 351s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 351s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 351s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 351s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 351s INFO PDB2PQR3.6.1:main.py:618 Attempting to repair 2 missing atoms in biomolecule. 351s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE A 319 351s WARNING pdb2pqr.biomolecule:biomolecule.py:157 Missing atom OXT in residue PHE B 319 351s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE A 319 at coordinates -20.664, 13.168, 13.288 351s INFO pdb2pqr.biomolecule:biomolecule.py:1077 Added atom OXT to residue PHE B 319 at coordinates -20.299, 64.352, -34.928 351s INFO PDB2PQR3.6.1:main.py:623 Updating disulfide bridges. 351s INFO PDB2PQR3.6.1:main.py:626 Debumping biomolecule. 351s INFO PDB2PQR3.6.1:main.py:649 Adding hydrogens to biomolecule. 351s INFO PDB2PQR3.6.1:main.py:652 Debumping biomolecule (again). 352s INFO PDB2PQR3.6.1:main.py:654 Optimizing hydrogen bonds 355s INFO PDB2PQR3.6.1:main.py:666 Applying force field to biomolecule states. 355s INFO PDB2PQR3.6.1:main.py:713 Regenerating headers. 355s INFO PDB2PQR3.6.1:main.py:738 Regenerating PDB lines. 355s WARNING PDB2PQR3.6.1:main.py:311 Ignoring 5424 header lines in output. 355s WARNING PDB2PQR3.6.1:main.py:315 Ignoring 138 missing lines in output. 356s WARNING common:common.py:186 6 atoms have position differences > 0 356s INFO common:common.py:198 0 atoms have position differences > 0.01 356s INFO common:common.py:198 0 atoms have charge differences > 0 356s INFO common:common.py:198 0 atoms have charge differences > 0.01 356s INFO common:common.py:198 0 atoms have radius differences > 0 356s INFO common:common.py:198 0 atoms have radius differences > 0.01 356s PASSED [ 99%] 356s tests/test_version.py::test_version_exists PASSED [ 99%] 356s tests/test_version.py::test_version PASSED [100%] 356s 356s =============================== warnings summary =============================== 356s ../../../../usr/lib/python3/dist-packages/dateutil/tz/tz.py:37 356s /usr/lib/python3/dist-packages/dateutil/tz/tz.py:37: DeprecationWarning: datetime.datetime.utcfromtimestamp() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.fromtimestamp(timestamp, datetime.UTC). 356s EPOCH = datetime.datetime.utcfromtimestamp(0) 356s 356s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 356s ======= 92 passed, 220 skipped, 4 xfailed, 1 warning in 68.27s (0:01:08) ======= 356s autopkgtest [20:11:51]: test command1: -----------------------] 357s command1 PASS 357s autopkgtest [20:11:52]: test command1: - - - - - - - - - - results - - - - - - - - - - 357s autopkgtest [20:11:52]: @@@@@@@@@@@@@@@@@@@@ summary 357s installation-test PASS 357s pdb2pka-test PASS 357s command1 PASS 368s Creating nova instance adt-noble-s390x-pdb2pqr-20240326-200555-juju-7f2275-prod-proposed-migration-environment-2-a9789b6c-ba49-4af6-9f99-d9ccbe2376a5 from image adt/ubuntu-noble-s390x-server-20240326.img (UUID c527e0e4-2e65-4e86-ad63-05d7f665f2fb)...