$ sudo autopkgtest --no-built-binaries --apt-upgrade --setup-commands="apt -y -q install software-properties-common; add-apt-repository ppa:fheimes/lp1961427; apt update; apt -y upgrade" libbio-samtools-perl_1.43-3build2.dsc -- lxd autopkgtest/ubuntu/kinetic/s390x autopkgtest [15:53:44]: starting date: 2022-07-29 autopkgtest [15:53:44]: version 5.20 autopkgtest [15:53:44]: host s1lp14; command line: /usr/bin/autopkgtest --no-built-binaries --apt-upgrade '--setup-commands=apt -y -q install software-properties-common; add-apt-repository ppa:fheimes/lp1961427; apt update; apt -y upgrade' libbio-samtools-perl_1.43-3build2.dsc -- lxd autopkgtest/ubuntu/kinetic/s390x autopkgtest [15:53:53]: @@@@@@@@@@@@@@@@@@@@ test bed setup tee: /proc/self/fd/2: Permission denied Hit:1 http://ports.ubuntu.com/ubuntu-ports kinetic InRelease Hit:2 http://ports.ubuntu.com/ubuntu-ports kinetic-updates InRelease Hit:3 http://ports.ubuntu.com/ubuntu-ports kinetic-security InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: gir1.2-packagekitglib-1.0 libappstream4 libbrotli1 libcurl3-gnutls libglib2.0-bin libgstreamer1.0-0 libnghttp2-14 libpackagekit-glib2-18 libpolkit-agent-1-0 libpolkit-gobject-1-0 libpsl5 librtmp1 libssh-4 libstemmer0d libxmlb2 packagekit packagekit-tools pkexec policykit-1 polkitd publicsuffix python3-blinker python3-cffi-backend python3-cryptography python3-distro python3-distro-info python3-httplib2 python3-importlib-metadata python3-jeepney python3-jwt python3-keyring python3-launchpadlib python3-lazr.restfulclient python3-lazr.uri python3-more-itertools python3-oauthlib python3-pyparsing python3-secretstorage python3-six python3-software-properties python3-wadllib python3-zipp unattended-upgrades Suggested packages: gstreamer1.0-tools appstream python-blinker-doc python-cryptography-doc python3-cryptography-vectors python3-crypto gir1.2-secret-1 gnome-keyring libkf5wallet-bin python3-keyrings.alt python3-testresources python-pyparsing-doc python-secretstorage-doc bsd-mailx default-mta | mail-transport-agent needrestart powermgmt-base The following NEW packages will be installed: gir1.2-packagekitglib-1.0 libappstream4 libbrotli1 libcurl3-gnutls libglib2.0-bin libgstreamer1.0-0 libnghttp2-14 libpackagekit-glib2-18 libpolkit-agent-1-0 libpolkit-gobject-1-0 libpsl5 librtmp1 libssh-4 libstemmer0d libxmlb2 packagekit packagekit-tools pkexec policykit-1 polkitd publicsuffix python3-blinker python3-cffi-backend python3-cryptography python3-distro python3-distro-info python3-httplib2 python3-importlib-metadata python3-jeepney python3-jwt python3-keyring python3-launchpadlib python3-lazr.restfulclient python3-lazr.uri python3-more-itertools python3-oauthlib python3-pyparsing python3-secretstorage python3-six python3-software-properties python3-wadllib python3-zipp software-properties-common unattended-upgrades 0 upgraded, 44 newly installed, 0 to remove and 0 not upgraded. Need to get 4,269 kB of archives. After this operation, 18.5 MB of additional disk space will be used. Get:1 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libnghttp2-14 s390x 1.48.0-1 [72.1 kB] Get:2 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpsl5 s390x 0.21.0-1.2build2 [58.5 kB] Get:3 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x publicsuffix all 20220614.1839-1 [129 kB] Get:4 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-distro-info all 1.1build1 [6,962 B] Get:5 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpackagekit-glib2-18 s390x 1.2.5-2ubuntu2 [118 kB] Get:6 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x gir1.2-packagekitglib-1.0 s390x 1.2.5-2ubuntu2 [25.1 kB] Get:7 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libbrotli1 s390x 1.0.9-2build6 [318 kB] Get:8 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x librtmp1 s390x 2.4+20151223.gitfa8646d.1-2build4 [56.4 kB] Get:9 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libssh-4 s390x 0.9.6-2build1 [174 kB] Get:10 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libcurl3-gnutls s390x 7.83.1-2 [273 kB] Get:11 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libstemmer0d s390x 2.2.0-1build1 [161 kB] Get:12 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libxmlb2 s390x 0.3.8-1 [63.8 kB] Get:13 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libappstream4 s390x 0.15.4-1 [184 kB] Get:14 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libglib2.0-bin s390x 2.72.3-1 [78.4 kB] Get:15 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libgstreamer1.0-0 s390x 1.20.3-1 [899 kB] Get:16 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpolkit-gobject-1-0 s390x 0.105-33 [41.5 kB] Get:17 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpolkit-agent-1-0 s390x 0.105-33 [16.2 kB] Get:18 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x polkitd s390x 0.105-33 [78.2 kB] Get:19 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x pkexec s390x 0.105-33 [15.0 kB] Get:20 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x policykit-1 s390x 0.105-33 [2,428 B] Get:21 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x packagekit s390x 1.2.5-2ubuntu2 [426 kB] Get:22 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x packagekit-tools s390x 1.2.5-2ubuntu2 [27.7 kB] Get:23 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-blinker all 1.4+dfsg1-0.5 [14.0 kB] Get:24 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-cffi-backend s390x 1.15.1-1 [74.4 kB] Get:25 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-cryptography s390x 3.4.8-2 [232 kB] Get:26 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-pyparsing all 3.0.7-2 [82.6 kB] Get:27 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-httplib2 all 0.20.4-2 [29.8 kB] Get:28 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-more-itertools all 8.10.0-2 [47.9 kB] Get:29 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-zipp all 1.0.0-4 [5,548 B] Get:30 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-importlib-metadata all 4.6.4-1 [16.2 kB] Get:31 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-jeepney all 0.8.0-1 [35.2 kB] Get:32 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-jwt all 2.4.0-1 [17.4 kB] Get:33 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-secretstorage all 3.3.2-1 [13.4 kB] Get:34 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-keyring all 23.7.0-1 [37.0 kB] Get:35 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-lazr.uri all 1.0.6-2 [14.4 kB] Get:36 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-wadllib all 1.3.6-1 [36.4 kB] Get:37 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-distro all 1.7.0-1 [17.0 kB] Get:38 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-oauthlib all 3.2.0-1 [89.7 kB] Get:39 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-six all 1.16.0-3ubuntu1 [12.6 kB] Get:40 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-lazr.restfulclient all 0.14.4-1 [51.2 kB] Get:41 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-launchpadlib all 1.10.16-1 [125 kB] Get:42 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-software-properties all 0.99.25 [28.9 kB] Get:43 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x software-properties-common all 0.99.25 [13.9 kB] Get:44 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x unattended-upgrades all 2.8ubuntu1 [49.4 kB] Preconfiguring packages ... Fetched 4,269 kB in 1s (3,629 kB/s) Selecting previously unselected package libnghttp2-14:s390x. (Reading database ... 38736 files and directories currently installed.) Preparing to unpack .../00-libnghttp2-14_1.48.0-1_s390x.deb ... Unpacking libnghttp2-14:s390x (1.48.0-1) ... Selecting previously unselected package libpsl5:s390x. Preparing to unpack .../01-libpsl5_0.21.0-1.2build2_s390x.deb ... Unpacking libpsl5:s390x (0.21.0-1.2build2) ... Selecting previously unselected package publicsuffix. Preparing to unpack .../02-publicsuffix_20220614.1839-1_all.deb ... Unpacking publicsuffix (20220614.1839-1) ... Selecting previously unselected package python3-distro-info. Preparing to unpack .../03-python3-distro-info_1.1build1_all.deb ... Unpacking python3-distro-info (1.1build1) ... Selecting previously unselected package libpackagekit-glib2-18:s390x. Preparing to unpack .../04-libpackagekit-glib2-18_1.2.5-2ubuntu2_s390x.deb ... Unpacking libpackagekit-glib2-18:s390x (1.2.5-2ubuntu2) ... Selecting previously unselected package gir1.2-packagekitglib-1.0. Preparing to unpack .../05-gir1.2-packagekitglib-1.0_1.2.5-2ubuntu2_s390x.deb ... Unpacking gir1.2-packagekitglib-1.0 (1.2.5-2ubuntu2) ... Selecting previously unselected package libbrotli1:s390x. Preparing to unpack .../06-libbrotli1_1.0.9-2build6_s390x.deb ... Unpacking libbrotli1:s390x (1.0.9-2build6) ... Selecting previously unselected package librtmp1:s390x. Preparing to unpack .../07-librtmp1_2.4+20151223.gitfa8646d.1-2build4_s390x.deb ... Unpacking librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build4) ... Selecting previously unselected package libssh-4:s390x. Preparing to unpack .../08-libssh-4_0.9.6-2build1_s390x.deb ... Unpacking libssh-4:s390x (0.9.6-2build1) ... Selecting previously unselected package libcurl3-gnutls:s390x. Preparing to unpack .../09-libcurl3-gnutls_7.83.1-2_s390x.deb ... Unpacking libcurl3-gnutls:s390x (7.83.1-2) ... Selecting previously unselected package libstemmer0d:s390x. Preparing to unpack .../10-libstemmer0d_2.2.0-1build1_s390x.deb ... Unpacking libstemmer0d:s390x (2.2.0-1build1) ... Selecting previously unselected package libxmlb2:s390x. Preparing to unpack .../11-libxmlb2_0.3.8-1_s390x.deb ... Unpacking libxmlb2:s390x (0.3.8-1) ... Selecting previously unselected package libappstream4:s390x. Preparing to unpack .../12-libappstream4_0.15.4-1_s390x.deb ... Unpacking libappstream4:s390x (0.15.4-1) ... Selecting previously unselected package libglib2.0-bin. Preparing to unpack .../13-libglib2.0-bin_2.72.3-1_s390x.deb ... Unpacking libglib2.0-bin (2.72.3-1) ... Selecting previously unselected package libgstreamer1.0-0:s390x. Preparing to unpack .../14-libgstreamer1.0-0_1.20.3-1_s390x.deb ... Unpacking libgstreamer1.0-0:s390x (1.20.3-1) ... Selecting previously unselected package libpolkit-gobject-1-0:s390x. Preparing to unpack .../15-libpolkit-gobject-1-0_0.105-33_s390x.deb ... Unpacking libpolkit-gobject-1-0:s390x (0.105-33) ... Selecting previously unselected package libpolkit-agent-1-0:s390x. Preparing to unpack .../16-libpolkit-agent-1-0_0.105-33_s390x.deb ... Unpacking libpolkit-agent-1-0:s390x (0.105-33) ... Selecting previously unselected package polkitd. Preparing to unpack .../17-polkitd_0.105-33_s390x.deb ... Unpacking polkitd (0.105-33) ... Selecting previously unselected package pkexec. Preparing to unpack .../18-pkexec_0.105-33_s390x.deb ... Unpacking pkexec (0.105-33) ... Selecting previously unselected package policykit-1. Preparing to unpack .../19-policykit-1_0.105-33_s390x.deb ... Unpacking policykit-1 (0.105-33) ... Selecting previously unselected package packagekit. Preparing to unpack .../20-packagekit_1.2.5-2ubuntu2_s390x.deb ... Unpacking packagekit (1.2.5-2ubuntu2) ... Selecting previously unselected package packagekit-tools. Preparing to unpack .../21-packagekit-tools_1.2.5-2ubuntu2_s390x.deb ... Unpacking packagekit-tools (1.2.5-2ubuntu2) ... Selecting previously unselected package python3-blinker. Preparing to unpack .../22-python3-blinker_1.4+dfsg1-0.5_all.deb ... Unpacking python3-blinker (1.4+dfsg1-0.5) ... Selecting previously unselected package python3-cffi-backend:s390x. Preparing to unpack .../23-python3-cffi-backend_1.15.1-1_s390x.deb ... Unpacking python3-cffi-backend:s390x (1.15.1-1) ... Selecting previously unselected package python3-cryptography. Preparing to unpack .../24-python3-cryptography_3.4.8-2_s390x.deb ... Unpacking python3-cryptography (3.4.8-2) ... Selecting previously unselected package python3-pyparsing. Preparing to unpack .../25-python3-pyparsing_3.0.7-2_all.deb ... Unpacking python3-pyparsing (3.0.7-2) ... Selecting previously unselected package python3-httplib2. Preparing to unpack .../26-python3-httplib2_0.20.4-2_all.deb ... Unpacking python3-httplib2 (0.20.4-2) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../27-python3-more-itertools_8.10.0-2_all.deb ... Unpacking python3-more-itertools (8.10.0-2) ... Selecting previously unselected package python3-zipp. Preparing to unpack .../28-python3-zipp_1.0.0-4_all.deb ... Unpacking python3-zipp (1.0.0-4) ... Selecting previously unselected package python3-importlib-metadata. Preparing to unpack .../29-python3-importlib-metadata_4.6.4-1_all.deb ... Unpacking python3-importlib-metadata (4.6.4-1) ... Selecting previously unselected package python3-jeepney. Preparing to unpack .../30-python3-jeepney_0.8.0-1_all.deb ... Unpacking python3-jeepney (0.8.0-1) ... Selecting previously unselected package python3-jwt. Preparing to unpack .../31-python3-jwt_2.4.0-1_all.deb ... Unpacking python3-jwt (2.4.0-1) ... Selecting previously unselected package python3-secretstorage. Preparing to unpack .../32-python3-secretstorage_3.3.2-1_all.deb ... Unpacking python3-secretstorage (3.3.2-1) ... Selecting previously unselected package python3-keyring. Preparing to unpack .../33-python3-keyring_23.7.0-1_all.deb ... Unpacking python3-keyring (23.7.0-1) ... Selecting previously unselected package python3-lazr.uri. Preparing to unpack .../34-python3-lazr.uri_1.0.6-2_all.deb ... Unpacking python3-lazr.uri (1.0.6-2) ... Selecting previously unselected package python3-wadllib. Preparing to unpack .../35-python3-wadllib_1.3.6-1_all.deb ... Unpacking python3-wadllib (1.3.6-1) ... Selecting previously unselected package python3-distro. Preparing to unpack .../36-python3-distro_1.7.0-1_all.deb ... Unpacking python3-distro (1.7.0-1) ... Selecting previously unselected package python3-oauthlib. Preparing to unpack .../37-python3-oauthlib_3.2.0-1_all.deb ... Unpacking python3-oauthlib (3.2.0-1) ... Selecting previously unselected package python3-six. Preparing to unpack .../38-python3-six_1.16.0-3ubuntu1_all.deb ... Unpacking python3-six (1.16.0-3ubuntu1) ... Selecting previously unselected package python3-lazr.restfulclient. Preparing to unpack .../39-python3-lazr.restfulclient_0.14.4-1_all.deb ... Unpacking python3-lazr.restfulclient (0.14.4-1) ... Selecting previously unselected package python3-launchpadlib. Preparing to unpack .../40-python3-launchpadlib_1.10.16-1_all.deb ... Unpacking python3-launchpadlib (1.10.16-1) ... Selecting previously unselected package python3-software-properties. Preparing to unpack .../41-python3-software-properties_0.99.25_all.deb ... Unpacking python3-software-properties (0.99.25) ... Selecting previously unselected package software-properties-common. Preparing to unpack .../42-software-properties-common_0.99.25_all.deb ... Unpacking software-properties-common (0.99.25) ... Selecting previously unselected package unattended-upgrades. Preparing to unpack .../43-unattended-upgrades_2.8ubuntu1_all.deb ... Unpacking unattended-upgrades (2.8ubuntu1) ... Setting up python3-more-itertools (8.10.0-2) ... Setting up libpsl5:s390x (0.21.0-1.2build2) ... Setting up python3-distro (1.7.0-1) ... Setting up python3-jwt (2.4.0-1) ... Setting up libxmlb2:s390x (0.3.8-1) ... Setting up libbrotli1:s390x (1.0.9-2build6) ... Setting up libnghttp2-14:s390x (1.48.0-1) ... Setting up libglib2.0-bin (2.72.3-1) ... Setting up libpackagekit-glib2-18:s390x (1.2.5-2ubuntu2) ... Setting up python3-lazr.uri (1.0.6-2) ... Setting up python3-zipp (1.0.0-4) ... Setting up python3-six (1.16.0-3ubuntu1) ... Setting up gir1.2-packagekitglib-1.0 (1.2.5-2ubuntu2) ... Setting up python3-pyparsing (3.0.7-2) ... Setting up librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build4) ... Setting up python3-wadllib (1.3.6-1) ... Setting up libssh-4:s390x (0.9.6-2build1) ... Setting up python3-jeepney (0.8.0-1) ... Setting up python3-httplib2 (0.20.4-2) ... Setting up libstemmer0d:s390x (2.2.0-1build1) ... Setting up python3-distro-info (1.1build1) ... Setting up publicsuffix (20220614.1839-1) ... Setting up libpolkit-gobject-1-0:s390x (0.105-33) ... Setting up libgstreamer1.0-0:s390x (1.20.3-1) ... Setcap worked! gst-ptp-helper is not suid! Setting up python3-cffi-backend:s390x (1.15.1-1) ... Setting up python3-blinker (1.4+dfsg1-0.5) ... Setting up python3-importlib-metadata (4.6.4-1) ... Setting up libcurl3-gnutls:s390x (7.83.1-2) ... Setting up libappstream4:s390x (0.15.4-1) ... Setting up unattended-upgrades (2.8ubuntu1) ... Creating config file /etc/apt/apt.conf.d/20auto-upgrades with new version Creating config file /etc/apt/apt.conf.d/50unattended-upgrades with new version Created symlink /etc/systemd/system/multi-user.target.wants/unattended-upgrades.service → /lib/systemd/system/unattended-upgrades.service. Synchronizing state of unattended-upgrades.service with SysV service script with /lib/systemd/systemd-sysv-install. Executing: /lib/systemd/systemd-sysv-install enable unattended-upgrades Setting up python3-cryptography (3.4.8-2) ... Setting up libpolkit-agent-1-0:s390x (0.105-33) ... Setting up polkitd (0.105-33) ... Setting up pkexec (0.105-33) ... Setting up python3-oauthlib (3.2.0-1) ... Setting up python3-secretstorage (3.3.2-1) ... Setting up python3-keyring (23.7.0-1) ... Setting up python3-lazr.restfulclient (0.14.4-1) ... Setting up policykit-1 (0.105-33) ... Setting up python3-launchpadlib (1.10.16-1) ... Setting up python3-software-properties (0.99.25) ... Setting up packagekit (1.2.5-2ubuntu2) ... Created symlink /etc/systemd/user/sockets.target.wants/pk-debconf-helper.socket → /usr/lib/systemd/user/pk-debconf-helper.socket. Setting up packagekit-tools (1.2.5-2ubuntu2) ... Setting up software-properties-common (0.99.25) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... Processing triggers for dbus (1.12.20-2ubuntu4) ... Get:1 http://ports.ubuntu.com/ubuntu-ports kinetic InRelease [267 kB] Get:2 https://ppa.launchpadcontent.net/fheimes/lp1961427/ubuntu kinetic InRelease [18.1 kB] Hit:3 http://ports.ubuntu.com/ubuntu-ports kinetic-updates InRelease Hit:4 http://ports.ubuntu.com/ubuntu-ports kinetic-security InRelease Get:5 https://ppa.launchpadcontent.net/fheimes/lp1961427/ubuntu kinetic/main s390x Packages [832 B] Fetched 286 kB in 1s (283 kB/s) Reading package lists... Repository: 'deb https://ppa.launchpadcontent.net/fheimes/lp1961427/ubuntu/ kinetic main' Description: lp1961427 More info: https://launchpad.net/~fheimes/+archive/ubuntu/lp1961427 Adding repository. Adding deb entry to /etc/apt/sources.list.d/fheimes-ubuntu-lp1961427-kinetic.list Adding disabled deb-src entry to /etc/apt/sources.list.d/fheimes-ubuntu-lp1961427-kinetic.list Adding key to /etc/apt/trusted.gpg.d/fheimes-ubuntu-lp1961427.gpg with fingerprint 73E9E91F16C43C45C621AE3EDF0A28DEFAFEB468 WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Hit:1 http://ports.ubuntu.com/ubuntu-ports kinetic InRelease Hit:2 http://ports.ubuntu.com/ubuntu-ports kinetic-updates InRelease Hit:3 http://ports.ubuntu.com/ubuntu-ports kinetic-security InRelease Hit:4 https://ppa.launchpadcontent.net/fheimes/lp1961427/ubuntu kinetic InRelease Reading package lists... Building dependency tree... Reading state information... All packages are up to date. WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. autopkgtest [15:54:31]: rebooting testbed after setup commands that affected boot autopkgtest [15:54:39]: testbed running kernel: Linux 5.15.0-41-generic #44-Ubuntu SMP Wed Jun 22 14:22:27 UTC 2022 autopkgtest [15:54:39]: testbed dpkg architecture: s390x autopkgtest [15:54:41]: @@@@@@@@@@@@@@@@@@@@ source libbio-samtools-perl_1.43-3build2.dsc gpgv: Signature made Sun 06 Feb 2022 12:37:16 PM UTC gpgv: using RSA key D56571B88A8BBAF140BF63D6BD7EAA60778FA6F5 gpgv: issuer "doko@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify signature /tmp/autopkgtest.lIwGsU/libbio-samtools-perl_1.43-3build2.dsc dpkg-source: info: extracting libbio-samtools-perl in src dpkg-source: info: unpacking libbio-samtools-perl_1.43.orig.tar.gz dpkg-source: info: unpacking libbio-samtools-perl_1.43-3build2.debian.tar.xz autopkgtest [15:54:43]: testing package libbio-samtools-perl version 1.43-3build2 autopkgtest [15:54:43]: build not needed autopkgtest [15:54:44]: test autodep8-perl-build-deps: preparing testbed Reading package lists... Building dependency tree... Reading state information... Correcting dependencies...Starting pkgProblemResolver with broken count: 0 Starting 2 pkgProblemResolver with broken count: 0 Done Done Starting pkgProblemResolver with broken count: 0 Starting 2 pkgProblemResolver with broken count: 0 Done The following additional packages will be installed: autoconf autodep8 automake autopoint autotools-dev bsdextrautils build-essential cpp cpp-11 dctrl-tools debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file g++ g++-11 gcc gcc-11 gcc-11-base gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan6 libatomic1 libbam-dev libbio-perl-perl libbio-samtools-perl libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libdata-stag-perl libdebhelper-perl libdw1 libfile-stripnondeterminism-perl libgcc-11-dev libgomp1 libio-string-perl libisl23 libitm1 libmagic-mgc libmagic1 libmodule-build-perl libmpc3 libmpfr6 libnsl-dev libperl-dev libpipeline1 libsigsegv2 libstdc++-11-dev libsub-override-perl libtirpc-dev libtool libubsan1 libuchardet0 linux-libc-dev m4 man-db pkg-perl-autopkgtest po-debconf rpcsvc-proto zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-11-locales debtags dh-make g++-multilib g++-11-multilib gcc-11-doc gcc-multilib manpages-dev flex bison gdb gcc-doc gcc-11-multilib gettext-doc libasprintf-dev libgettextpo-dev groff bioperl libxml-sax-expatxs-perl glibc-doc libstdc++-11-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor www-browser libmail-box-perl Recommended packages: curl | wget | lynx bioperl-run | libbio-perl-run-perl libace-perl libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libhtml-tableextract-perl liblist-moreutils-perl libpostscript-perl libset-scalar-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl liburi-perl libxml-dom-xpath-perl libxml-parser-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-libxml-perl libwww-perl manpages manpages-dev libc-devtools perl-tk libgd-gd2-perl | libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl libxml-perl libarchive-cpio-perl libmodule-signature-perl libpod-readme-perl libsoftware-license-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf autodep8 automake autopoint autotools-dev bsdextrautils build-essential cpp cpp-11 dctrl-tools debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file g++ g++-11 gcc gcc-11 gcc-11-base gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan6 libatomic1 libbam-dev libbio-perl-perl libbio-samtools-perl libc-dev-bin libc6-dev libcc1-0 libcrypt-dev libdata-stag-perl libdebhelper-perl libdw1 libfile-stripnondeterminism-perl libgcc-11-dev libgomp1 libio-string-perl libisl23 libitm1 libmagic-mgc libmagic1 libmodule-build-perl libmpc3 libmpfr6 libnsl-dev libperl-dev libpipeline1 libsigsegv2 libstdc++-11-dev libsub-override-perl libtirpc-dev libtool libubsan1 libuchardet0 linux-libc-dev m4 man-db pkg-perl-autopkgtest po-debconf rpcsvc-proto zlib1g-dev 0 upgraded, 66 newly installed, 0 to remove and 0 not upgraded. 1 not fully installed or removed. Need to get 55.1 MB of archives. After this operation, 188 MB of additional disk space will be used. Get:1 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libio-string-perl all 1.08-3.1 [10.7 kB] Get:2 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x libdata-stag-perl all 0.14-3 [372 kB] Get:3 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x libbio-perl-perl all 1.7.8-1 [2,580 kB] Get:4 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x libbio-samtools-perl s390x 1.43-3build2 [194 kB] Get:5 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x autotools-dev all 20220109.1 [44.9 kB] Get:6 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libsigsegv2 s390x 2.13-1ubuntu3 [14.5 kB] Get:7 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x m4 s390x 1.4.18-5ubuntu2 [197 kB] Get:8 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x autoconf all 2.71-2 [338 kB] Get:9 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x automake all 1:1.16.5-1.3 [558 kB] Get:10 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x autopoint all 0.21-6 [421 kB] Get:11 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libdebhelper-perl all 13.8ubuntu1 [66.8 kB] Get:12 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x gcc-11-base s390x 11.3.0-5ubuntu1 [20.4 kB] Get:13 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libisl23 s390x 0.25-1 [706 kB] Get:14 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libmpfr6 s390x 4.1.0-3build3 [266 kB] Get:15 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libmpc3 s390x 1.2.1-2build1 [47.7 kB] Get:16 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x cpp-11 s390x 11.3.0-5ubuntu1 [7,806 kB] Get:17 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x cpp s390x 4:11.2.0-1ubuntu1 [27.7 kB] Get:18 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libcc1-0 s390x 12.1.0-5ubuntu1 [45.5 kB] Get:19 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libgomp1 s390x 12.1.0-5ubuntu1 [122 kB] Get:20 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libitm1 s390x 12.1.0-5ubuntu1 [29.5 kB] Get:21 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libatomic1 s390x 12.1.0-5ubuntu1 [8,944 B] Get:22 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libasan6 s390x 11.3.0-5ubuntu1 [2,230 kB] Get:23 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libubsan1 s390x 12.1.0-5ubuntu1 [958 kB] Get:24 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libgcc-11-dev s390x 11.3.0-5ubuntu1 [813 kB] Get:25 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x gcc-11 s390x 11.3.0-5ubuntu1 [15.7 MB] Get:26 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x gcc s390x 4:11.2.0-1ubuntu1 [5,118 B] Get:27 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libc-dev-bin s390x 2.35-0ubuntu3 [20.0 kB] Get:28 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x linux-libc-dev s390x 5.15.0-27.28 [1,302 kB] Get:29 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libcrypt-dev s390x 1:4.4.28-2 [114 kB] Get:30 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x rpcsvc-proto s390x 1.4.2-0ubuntu6 [64.7 kB] Get:31 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libtirpc-dev s390x 1.3.2-2build1 [189 kB] Get:32 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libnsl-dev s390x 1.3.0-2build2 [70.9 kB] Get:33 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libc6-dev s390x 2.35-0ubuntu3 [1,499 kB] Get:34 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libmagic-mgc s390x 1:5.41-4 [258 kB] Get:35 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libmagic1 s390x 1:5.41-4 [84.8 kB] Get:36 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x file s390x 1:5.41-4 [21.4 kB] Get:37 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libtool all 2.4.7-4 [166 kB] Get:38 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x dh-autoreconf all 20 [16.1 kB] Get:39 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libarchive-zip-perl all 1.68-1 [90.2 kB] Get:40 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libsub-override-perl all 0.09-3 [9,756 B] Get:41 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libfile-stripnondeterminism-perl all 1.13.0-1 [18.1 kB] Get:42 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x dh-strip-nondeterminism all 1.13.0-1 [5,344 B] Get:43 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libdw1 s390x 0.187-1 [245 kB] Get:44 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x debugedit s390x 1:5.0-5 [47.5 kB] Get:45 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x dwz s390x 0.14-1build2 [104 kB] Get:46 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x bsdextrautils s390x 2.38-4ubuntu1 [71.6 kB] Get:47 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libuchardet0 s390x 0.0.7-1build2 [76.4 kB] Get:48 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x groff-base s390x 1.22.4-8build1 [928 kB] Get:49 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpipeline1 s390x 1.5.6-1 [23.3 kB] Get:50 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x man-db s390x 2.10.2-1 [1,183 kB] Get:51 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x gettext-base s390x 0.21-6 [37.9 kB] Get:52 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x gettext s390x 0.21-6 [850 kB] Get:53 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:54 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x po-debconf all 1.0.21+nmu1 [233 kB] Get:55 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x debhelper all 13.8ubuntu1 [938 kB] Get:56 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libperl-dev s390x 5.34.0-5ubuntu1 [1,099 kB] Get:57 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x libmodule-build-perl all 0.423100-1 [200 kB] Get:58 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x zlib1g-dev s390x 1:1.2.11.dfsg-2ubuntu9 [170 kB] Get:59 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x libbam-dev s390x 0.1.19+dfsg-5 [114 kB] Get:60 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libstdc++-11-dev s390x 11.3.0-5ubuntu1 [2,081 kB] Get:61 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x g++-11 s390x 11.3.0-5ubuntu1 [9,129 kB] Get:62 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x g++ s390x 4:11.2.0-1ubuntu1 [1,408 B] Get:63 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x build-essential s390x 12.9ubuntu3 [4,748 B] Get:64 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x dctrl-tools s390x 2.24-3build2 [65.4 kB] Get:65 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x autodep8 all 0.26 [13.1 kB] Get:66 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x pkg-perl-autopkgtest all 0.71 [12.6 kB] Preconfiguring packages ... Fetched 55.1 MB in 2s (22.2 MB/s) Selecting previously unselected package libio-string-perl. (Reading database ... 39649 files and directories currently installed.) Preparing to unpack .../00-libio-string-perl_1.08-3.1_all.deb ... Unpacking libio-string-perl (1.08-3.1) ... Selecting previously unselected package libdata-stag-perl. Preparing to unpack .../01-libdata-stag-perl_0.14-3_all.deb ... Unpacking libdata-stag-perl (0.14-3) ... Selecting previously unselected package libbio-perl-perl. Preparing to unpack .../02-libbio-perl-perl_1.7.8-1_all.deb ... Unpacking libbio-perl-perl (1.7.8-1) ... Selecting previously unselected package libbio-samtools-perl. Preparing to unpack .../03-libbio-samtools-perl_1.43-3build2_s390x.deb ... Unpacking libbio-samtools-perl (1.43-3build2) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../04-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... 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Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libtool (2.4.7-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libperl-dev:s390x (5.34.0-5ubuntu1) ... Setting up man-db (2.10.2-1) ... Building database of manual pages ... Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. man-db.service is a disabled or a static unit, not starting it. Setting up gcc (4:11.2.0-1ubuntu1) ... Setting up dh-autoreconf (20) ... Setting up libstdc++-11-dev:s390x (11.3.0-5ubuntu1) ... Setting up zlib1g-dev:s390x (1:1.2.11.dfsg-2ubuntu9) ... Setting up g++-11 (11.3.0-5ubuntu1) ... Setting up debhelper (13.8ubuntu1) ... Setting up libbam-dev (0.1.19+dfsg-5) ... Setting up g++ (4:11.2.0-1ubuntu1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up build-essential (12.9ubuntu3) ... Setting up autopkgtest-satdep (0) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... (Reading database ... 45475 files and directories currently installed.) Removing autopkgtest-satdep (0) ... autopkgtest [15:54:56]: test autodep8-perl-build-deps: /usr/share/pkg-perl-autopkgtest/runner build-deps autopkgtest [15:54:56]: test autodep8-perl-build-deps: [----------------------- t/01sam.t .. 1..268 # Running under perl version 5.034000 for linux # Current time local: Fri Jul 29 15:54:56 2022 # Current time GMT: Fri Jul 29 15:54:56 2022 # Using Test.pm version 1.31 [fai_load] build FASTA index. ok 1 ok 2 ok 3 ok 4 ok 5 ok 6 ok 7 ok 8 ok 9 ok 10 ok 11 ok 12 ok 13 ok 14 ok 15 ok 16 ok 17 ok 18 ok 19 ok 20 ok 21 ok 22 ok 23 ok 24 ok 25 ok 26 ok 27 ok 28 ok 29 ok 30 ok 31 ok 32 ok 33 ok 34 ok 35 ok 36 ok 37 ok 38 ok 39 ok 40 ok 41 ok 42 ok 43 ok 44 ok 45 ok 46 ok 47 ok 48 ok 49 ok 50 ok 51 ok 52 ok 53 ok 54 ok 55 ok 56 ok 57 ok 58 ok 59 ok 60 ok 61 ok 62 ok 63 ok 64 ok 65 ok 66 ok 67 ok 68 ok 69 ok 70 ok 71 ok 72 ok 73 ok 74 ok 75 ok 76 ok 77 ok 78 ok 79 ok 80 ok 81 ok 82 ok 83 ok 84 ok 85 ok 86 ok 87 ok 88 ok 89 ok 90 ok 91 ok 92 ok 93 ok 94 ok 95 ok 96 ok 97 ok 98 ok 99 ok 100 ok 101 ok 102 ok 103 ok 104 ok 105 ok 106 ok 107 ok 108 ok 109 ok 110 ok 111 ok 112 ok 113 ok 114 ok 115 ok 116 ok 117 ok 118 ok 119 ok 120 [bam_parse_region] fail to determine the sequence name. ok 121 ok 122 ok 123 ok 124 ok 125 ok 126 ok 127 ok 128 ok 129 ok 130 ok 131 ok 132 ok 133 ok 134 ok 135 ok 136 ok 137 ok 138 ok 139 ok 140 ok 141 ok 142 ok 143 ok 144 ok 145 ok 146 ok 147 ok 148 ok 149 ok 150 ok 151 ok 152 ok 153 ok 154 ok 155 ok 156 ok 157 ok 158 ok 159 ok 160 ok 161 ok 162 ok 163 ok 164 ok 165 ok 166 ok 167 ok 168 ok 169 ok 170 ok 171 ok 172 ok 173 ok 174 ok 175 ok 176 ok 177 ok 178 ok 179 ok 180 ok 181 ok 182 ok 183 ok 184 ok 185 ok 186 ok 187 ok 188 ok 189 ok 190 ok 191 ok 192 ok 193 ok 194 ok 195 ok 196 ok 197 ok 198 ok 199 ok 200 ok 201 ok 202 ok 203 ok 204 ok 205 ok 206 ok 207 ok 208 ok 209 ok 210 ok 211 ok 212 ok 213 ok 214 ok 215 ok 216 ok 217 ok 218 ok 219 ok 220 ok 221 ok 222 ok 223 ok 224 ok 225 ok 226 ok 227 ok 228 ok 229 ok 230 ok 231 ok 232 ok 233 ok 234 ok 235 ok 236 ok 237 ok 238 ok 239 ok 240 ok 241 ok 242 ok 243 ok 244 ok 245 ok 246 ok 247 ok 248 ok 249 ok 250 ok 251 ok 252 ok 253 ok 254 ok 255 ok 256 ok 257 ok 258 ok 259 ok 260 ok 261 ok 262 ok 263 ok 264 ok 265 ok 266 ok 267 ok 268 ok All tests successful. Files=1, Tests=268, 1 wallclock secs ( 0.03 usr 0.01 sys + 0.52 cusr 0.06 csys = 0.62 CPU) Result: PASS autopkgtest [15:54:57]: test autodep8-perl-build-deps: -----------------------] autopkgtest [15:54:58]: test autodep8-perl-build-deps: - - - - - - - - - - results - - - - - - - - - - autodep8-perl-build-deps PASS autopkgtest [15:54:58]: test autodep8-perl: preparing testbed autopkgtest [15:55:11]: @@@@@@@@@@@@@@@@@@@@ test bed setup tee: /proc/self/fd/2: Permission denied Hit:1 http://ports.ubuntu.com/ubuntu-ports kinetic InRelease Hit:2 http://ports.ubuntu.com/ubuntu-ports kinetic-updates InRelease Hit:3 http://ports.ubuntu.com/ubuntu-ports kinetic-security InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: gir1.2-packagekitglib-1.0 libappstream4 libbrotli1 libcurl3-gnutls libglib2.0-bin libgstreamer1.0-0 libnghttp2-14 libpackagekit-glib2-18 libpolkit-agent-1-0 libpolkit-gobject-1-0 libpsl5 librtmp1 libssh-4 libstemmer0d libxmlb2 packagekit packagekit-tools pkexec policykit-1 polkitd publicsuffix python3-blinker python3-cffi-backend python3-cryptography python3-distro python3-distro-info python3-httplib2 python3-importlib-metadata python3-jeepney python3-jwt python3-keyring python3-launchpadlib python3-lazr.restfulclient python3-lazr.uri python3-more-itertools python3-oauthlib python3-pyparsing python3-secretstorage python3-six python3-software-properties python3-wadllib python3-zipp unattended-upgrades Suggested packages: gstreamer1.0-tools appstream python-blinker-doc python-cryptography-doc python3-cryptography-vectors python3-crypto gir1.2-secret-1 gnome-keyring libkf5wallet-bin python3-keyrings.alt python3-testresources python-pyparsing-doc python-secretstorage-doc bsd-mailx default-mta | mail-transport-agent needrestart powermgmt-base The following NEW packages will be installed: gir1.2-packagekitglib-1.0 libappstream4 libbrotli1 libcurl3-gnutls libglib2.0-bin libgstreamer1.0-0 libnghttp2-14 libpackagekit-glib2-18 libpolkit-agent-1-0 libpolkit-gobject-1-0 libpsl5 librtmp1 libssh-4 libstemmer0d libxmlb2 packagekit packagekit-tools pkexec policykit-1 polkitd publicsuffix python3-blinker python3-cffi-backend python3-cryptography python3-distro python3-distro-info python3-httplib2 python3-importlib-metadata python3-jeepney python3-jwt python3-keyring python3-launchpadlib python3-lazr.restfulclient python3-lazr.uri python3-more-itertools python3-oauthlib python3-pyparsing python3-secretstorage python3-six python3-software-properties python3-wadllib python3-zipp software-properties-common unattended-upgrades 0 upgraded, 44 newly installed, 0 to remove and 0 not upgraded. Need to get 4,269 kB of archives. After this operation, 18.5 MB of additional disk space will be used. Get:1 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libnghttp2-14 s390x 1.48.0-1 [72.1 kB] Get:2 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpsl5 s390x 0.21.0-1.2build2 [58.5 kB] Get:3 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x publicsuffix all 20220614.1839-1 [129 kB] Get:4 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-distro-info all 1.1build1 [6,962 B] Get:5 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpackagekit-glib2-18 s390x 1.2.5-2ubuntu2 [118 kB] Get:6 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x gir1.2-packagekitglib-1.0 s390x 1.2.5-2ubuntu2 [25.1 kB] Get:7 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libbrotli1 s390x 1.0.9-2build6 [318 kB] Get:8 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x librtmp1 s390x 2.4+20151223.gitfa8646d.1-2build4 [56.4 kB] Get:9 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libssh-4 s390x 0.9.6-2build1 [174 kB] Get:10 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libcurl3-gnutls s390x 7.83.1-2 [273 kB] Get:11 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libstemmer0d s390x 2.2.0-1build1 [161 kB] Get:12 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libxmlb2 s390x 0.3.8-1 [63.8 kB] Get:13 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libappstream4 s390x 0.15.4-1 [184 kB] Get:14 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libglib2.0-bin s390x 2.72.3-1 [78.4 kB] Get:15 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libgstreamer1.0-0 s390x 1.20.3-1 [899 kB] Get:16 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpolkit-gobject-1-0 s390x 0.105-33 [41.5 kB] Get:17 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libpolkit-agent-1-0 s390x 0.105-33 [16.2 kB] Get:18 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x polkitd s390x 0.105-33 [78.2 kB] Get:19 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x pkexec s390x 0.105-33 [15.0 kB] Get:20 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x policykit-1 s390x 0.105-33 [2,428 B] Get:21 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x packagekit s390x 1.2.5-2ubuntu2 [426 kB] Get:22 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x packagekit-tools s390x 1.2.5-2ubuntu2 [27.7 kB] Get:23 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-blinker all 1.4+dfsg1-0.5 [14.0 kB] Get:24 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-cffi-backend s390x 1.15.1-1 [74.4 kB] Get:25 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-cryptography s390x 3.4.8-2 [232 kB] Get:26 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-pyparsing all 3.0.7-2 [82.6 kB] Get:27 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-httplib2 all 0.20.4-2 [29.8 kB] Get:28 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-more-itertools all 8.10.0-2 [47.9 kB] Get:29 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-zipp all 1.0.0-4 [5,548 B] Get:30 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-importlib-metadata all 4.6.4-1 [16.2 kB] Get:31 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-jeepney all 0.8.0-1 [35.2 kB] Get:32 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-jwt all 2.4.0-1 [17.4 kB] Get:33 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-secretstorage all 3.3.2-1 [13.4 kB] Get:34 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-keyring all 23.7.0-1 [37.0 kB] Get:35 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-lazr.uri all 1.0.6-2 [14.4 kB] Get:36 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-wadllib all 1.3.6-1 [36.4 kB] Get:37 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-distro all 1.7.0-1 [17.0 kB] Get:38 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-oauthlib all 3.2.0-1 [89.7 kB] Get:39 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-six all 1.16.0-3ubuntu1 [12.6 kB] Get:40 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-lazr.restfulclient all 0.14.4-1 [51.2 kB] Get:41 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-launchpadlib all 1.10.16-1 [125 kB] Get:42 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x python3-software-properties all 0.99.25 [28.9 kB] Get:43 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x software-properties-common all 0.99.25 [13.9 kB] Get:44 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x unattended-upgrades all 2.8ubuntu1 [49.4 kB] Preconfiguring packages ... Fetched 4,269 kB in 1s (3,697 kB/s) Selecting previously unselected package libnghttp2-14:s390x. (Reading database ... 38736 files and directories currently installed.) Preparing to unpack .../00-libnghttp2-14_1.48.0-1_s390x.deb ... Unpacking libnghttp2-14:s390x (1.48.0-1) ... Selecting previously unselected package libpsl5:s390x. Preparing to unpack .../01-libpsl5_0.21.0-1.2build2_s390x.deb ... Unpacking libpsl5:s390x (0.21.0-1.2build2) ... Selecting previously unselected package publicsuffix. Preparing to unpack .../02-publicsuffix_20220614.1839-1_all.deb ... Unpacking publicsuffix (20220614.1839-1) ... Selecting previously unselected package python3-distro-info. Preparing to unpack .../03-python3-distro-info_1.1build1_all.deb ... Unpacking python3-distro-info (1.1build1) ... Selecting previously unselected package libpackagekit-glib2-18:s390x. Preparing to unpack .../04-libpackagekit-glib2-18_1.2.5-2ubuntu2_s390x.deb ... Unpacking libpackagekit-glib2-18:s390x (1.2.5-2ubuntu2) ... 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Selecting previously unselected package libpolkit-agent-1-0:s390x. Preparing to unpack .../16-libpolkit-agent-1-0_0.105-33_s390x.deb ... Unpacking libpolkit-agent-1-0:s390x (0.105-33) ... Selecting previously unselected package polkitd. Preparing to unpack .../17-polkitd_0.105-33_s390x.deb ... Unpacking polkitd (0.105-33) ... Selecting previously unselected package pkexec. Preparing to unpack .../18-pkexec_0.105-33_s390x.deb ... Unpacking pkexec (0.105-33) ... Selecting previously unselected package policykit-1. Preparing to unpack .../19-policykit-1_0.105-33_s390x.deb ... Unpacking policykit-1 (0.105-33) ... Selecting previously unselected package packagekit. Preparing to unpack .../20-packagekit_1.2.5-2ubuntu2_s390x.deb ... Unpacking packagekit (1.2.5-2ubuntu2) ... Selecting previously unselected package packagekit-tools. Preparing to unpack .../21-packagekit-tools_1.2.5-2ubuntu2_s390x.deb ... Unpacking packagekit-tools (1.2.5-2ubuntu2) ... Selecting previously unselected package python3-blinker. Preparing to unpack .../22-python3-blinker_1.4+dfsg1-0.5_all.deb ... Unpacking python3-blinker (1.4+dfsg1-0.5) ... Selecting previously unselected package python3-cffi-backend:s390x. Preparing to unpack .../23-python3-cffi-backend_1.15.1-1_s390x.deb ... Unpacking python3-cffi-backend:s390x (1.15.1-1) ... Selecting previously unselected package python3-cryptography. Preparing to unpack .../24-python3-cryptography_3.4.8-2_s390x.deb ... Unpacking python3-cryptography (3.4.8-2) ... Selecting previously unselected package python3-pyparsing. Preparing to unpack .../25-python3-pyparsing_3.0.7-2_all.deb ... Unpacking python3-pyparsing (3.0.7-2) ... Selecting previously unselected package python3-httplib2. Preparing to unpack .../26-python3-httplib2_0.20.4-2_all.deb ... Unpacking python3-httplib2 (0.20.4-2) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../27-python3-more-itertools_8.10.0-2_all.deb ... Unpacking python3-more-itertools (8.10.0-2) ... Selecting previously unselected package python3-zipp. Preparing to unpack .../28-python3-zipp_1.0.0-4_all.deb ... Unpacking python3-zipp (1.0.0-4) ... Selecting previously unselected package python3-importlib-metadata. Preparing to unpack .../29-python3-importlib-metadata_4.6.4-1_all.deb ... Unpacking python3-importlib-metadata (4.6.4-1) ... Selecting previously unselected package python3-jeepney. Preparing to unpack .../30-python3-jeepney_0.8.0-1_all.deb ... Unpacking python3-jeepney (0.8.0-1) ... Selecting previously unselected package python3-jwt. Preparing to unpack .../31-python3-jwt_2.4.0-1_all.deb ... Unpacking python3-jwt (2.4.0-1) ... Selecting previously unselected package python3-secretstorage. Preparing to unpack .../32-python3-secretstorage_3.3.2-1_all.deb ... Unpacking python3-secretstorage (3.3.2-1) ... Selecting previously unselected package python3-keyring. Preparing to unpack .../33-python3-keyring_23.7.0-1_all.deb ... Unpacking python3-keyring (23.7.0-1) ... Selecting previously unselected package python3-lazr.uri. Preparing to unpack .../34-python3-lazr.uri_1.0.6-2_all.deb ... Unpacking python3-lazr.uri (1.0.6-2) ... Selecting previously unselected package python3-wadllib. Preparing to unpack .../35-python3-wadllib_1.3.6-1_all.deb ... Unpacking python3-wadllib (1.3.6-1) ... Selecting previously unselected package python3-distro. Preparing to unpack .../36-python3-distro_1.7.0-1_all.deb ... Unpacking python3-distro (1.7.0-1) ... Selecting previously unselected package python3-oauthlib. Preparing to unpack .../37-python3-oauthlib_3.2.0-1_all.deb ... Unpacking python3-oauthlib (3.2.0-1) ... Selecting previously unselected package python3-six. Preparing to unpack .../38-python3-six_1.16.0-3ubuntu1_all.deb ... Unpacking python3-six (1.16.0-3ubuntu1) ... Selecting previously unselected package python3-lazr.restfulclient. Preparing to unpack .../39-python3-lazr.restfulclient_0.14.4-1_all.deb ... Unpacking python3-lazr.restfulclient (0.14.4-1) ... Selecting previously unselected package python3-launchpadlib. Preparing to unpack .../40-python3-launchpadlib_1.10.16-1_all.deb ... Unpacking python3-launchpadlib (1.10.16-1) ... Selecting previously unselected package python3-software-properties. Preparing to unpack .../41-python3-software-properties_0.99.25_all.deb ... Unpacking python3-software-properties (0.99.25) ... Selecting previously unselected package software-properties-common. Preparing to unpack .../42-software-properties-common_0.99.25_all.deb ... Unpacking software-properties-common (0.99.25) ... Selecting previously unselected package unattended-upgrades. Preparing to unpack .../43-unattended-upgrades_2.8ubuntu1_all.deb ... Unpacking unattended-upgrades (2.8ubuntu1) ... Setting up python3-more-itertools (8.10.0-2) ... Setting up libpsl5:s390x (0.21.0-1.2build2) ... Setting up python3-distro (1.7.0-1) ... Setting up python3-jwt (2.4.0-1) ... Setting up libxmlb2:s390x (0.3.8-1) ... Setting up libbrotli1:s390x (1.0.9-2build6) ... Setting up libnghttp2-14:s390x (1.48.0-1) ... Setting up libglib2.0-bin (2.72.3-1) ... Setting up libpackagekit-glib2-18:s390x (1.2.5-2ubuntu2) ... Setting up python3-lazr.uri (1.0.6-2) ... Setting up python3-zipp (1.0.0-4) ... Setting up python3-six (1.16.0-3ubuntu1) ... Setting up gir1.2-packagekitglib-1.0 (1.2.5-2ubuntu2) ... Setting up python3-pyparsing (3.0.7-2) ... Setting up librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build4) ... Setting up python3-wadllib (1.3.6-1) ... Setting up libssh-4:s390x (0.9.6-2build1) ... Setting up python3-jeepney (0.8.0-1) ... Setting up python3-httplib2 (0.20.4-2) ... Setting up libstemmer0d:s390x (2.2.0-1build1) ... Setting up python3-distro-info (1.1build1) ... Setting up publicsuffix (20220614.1839-1) ... Setting up libpolkit-gobject-1-0:s390x (0.105-33) ... Setting up libgstreamer1.0-0:s390x (1.20.3-1) ... Setcap worked! gst-ptp-helper is not suid! Setting up python3-cffi-backend:s390x (1.15.1-1) ... Setting up python3-blinker (1.4+dfsg1-0.5) ... Setting up python3-importlib-metadata (4.6.4-1) ... Setting up libcurl3-gnutls:s390x (7.83.1-2) ... Setting up libappstream4:s390x (0.15.4-1) ... Setting up unattended-upgrades (2.8ubuntu1) ... Creating config file /etc/apt/apt.conf.d/20auto-upgrades with new version Creating config file /etc/apt/apt.conf.d/50unattended-upgrades with new version Created symlink /etc/systemd/system/multi-user.target.wants/unattended-upgrades.service → /lib/systemd/system/unattended-upgrades.service. Synchronizing state of unattended-upgrades.service with SysV service script with /lib/systemd/systemd-sysv-install. Executing: /lib/systemd/systemd-sysv-install enable unattended-upgrades Setting up python3-cryptography (3.4.8-2) ... Setting up libpolkit-agent-1-0:s390x (0.105-33) ... Setting up polkitd (0.105-33) ... Setting up pkexec (0.105-33) ... Setting up python3-oauthlib (3.2.0-1) ... Setting up python3-secretstorage (3.3.2-1) ... Setting up python3-keyring (23.7.0-1) ... Setting up python3-lazr.restfulclient (0.14.4-1) ... Setting up policykit-1 (0.105-33) ... Setting up python3-launchpadlib (1.10.16-1) ... Setting up python3-software-properties (0.99.25) ... Setting up packagekit (1.2.5-2ubuntu2) ... Created symlink /etc/systemd/user/sockets.target.wants/pk-debconf-helper.socket → /usr/lib/systemd/user/pk-debconf-helper.socket. Setting up packagekit-tools (1.2.5-2ubuntu2) ... Setting up software-properties-common (0.99.25) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... Processing triggers for dbus (1.12.20-2ubuntu4) ... Hit:1 http://ports.ubuntu.com/ubuntu-ports kinetic InRelease Hit:2 http://ports.ubuntu.com/ubuntu-ports kinetic-updates InRelease Hit:3 http://ports.ubuntu.com/ubuntu-ports kinetic-security InRelease Get:4 https://ppa.launchpadcontent.net/fheimes/lp1961427/ubuntu kinetic InRelease [18.1 kB] Get:5 https://ppa.launchpadcontent.net/fheimes/lp1961427/ubuntu kinetic/main s390x Packages [832 B] Fetched 18.9 kB in 1s (20.5 kB/s) Reading package lists... Repository: 'deb https://ppa.launchpadcontent.net/fheimes/lp1961427/ubuntu/ kinetic main' Description: lp1961427 More info: https://launchpad.net/~fheimes/+archive/ubuntu/lp1961427 Adding repository. Adding deb entry to /etc/apt/sources.list.d/fheimes-ubuntu-lp1961427-kinetic.list Adding disabled deb-src entry to /etc/apt/sources.list.d/fheimes-ubuntu-lp1961427-kinetic.list Adding key to /etc/apt/trusted.gpg.d/fheimes-ubuntu-lp1961427.gpg with fingerprint 73E9E91F16C43C45C621AE3EDF0A28DEFAFEB468 WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Hit:1 http://ports.ubuntu.com/ubuntu-ports kinetic InRelease Hit:2 http://ports.ubuntu.com/ubuntu-ports kinetic-updates InRelease Hit:3 http://ports.ubuntu.com/ubuntu-ports kinetic-security InRelease Hit:4 https://ppa.launchpadcontent.net/fheimes/lp1961427/ubuntu kinetic InRelease Reading package lists... Building dependency tree... Reading state information... All packages are up to date. WARNING: apt does not have a stable CLI interface. Use with caution in scripts. Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. autopkgtest [15:55:48]: rebooting testbed after setup commands that affected boot autopkgtest [15:55:56]: testbed dpkg architecture: s390x Reading package lists... Building dependency tree... Reading state information... Correcting dependencies...Starting pkgProblemResolver with broken count: 0 Starting 2 pkgProblemResolver with broken count: 0 Done Done Starting pkgProblemResolver with broken count: 0 Starting 2 pkgProblemResolver with broken count: 0 Done The following additional packages will be installed: autodep8 dctrl-tools libbio-perl-perl libbio-samtools-perl libdata-stag-perl libio-string-perl pkg-perl-autopkgtest Suggested packages: debtags bioperl libxml-sax-expatxs-perl Recommended packages: bioperl-run | libbio-perl-run-perl libace-perl libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libhtml-tableextract-perl liblist-moreutils-perl libpostscript-perl libset-scalar-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl liburi-perl libxml-dom-xpath-perl libxml-parser-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-libxml-perl libwww-perl perl-tk libgd-gd2-perl | libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl libxml-perl The following NEW packages will be installed: autodep8 dctrl-tools libbio-perl-perl libbio-samtools-perl libdata-stag-perl libio-string-perl pkg-perl-autopkgtest 0 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. 1 not fully installed or removed. Need to get 3,248 kB of archives. After this operation, 10.6 MB of additional disk space will be used. Get:1 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x libio-string-perl all 1.08-3.1 [10.7 kB] Get:2 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x libdata-stag-perl all 0.14-3 [372 kB] Get:3 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x libbio-perl-perl all 1.7.8-1 [2,580 kB] Get:4 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x libbio-samtools-perl s390x 1.43-3build2 [194 kB] Get:5 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x dctrl-tools s390x 2.24-3build2 [65.4 kB] Get:6 http://ports.ubuntu.com/ubuntu-ports kinetic/main s390x autodep8 all 0.26 [13.1 kB] Get:7 http://ports.ubuntu.com/ubuntu-ports kinetic/universe s390x pkg-perl-autopkgtest all 0.71 [12.6 kB] Fetched 3,248 kB in 1s (4,334 kB/s) Selecting previously unselected package libio-string-perl. (Reading database ... 39649 files and directories currently installed.) Preparing to unpack .../0-libio-string-perl_1.08-3.1_all.deb ... Unpacking libio-string-perl (1.08-3.1) ... Selecting previously unselected package libdata-stag-perl. Preparing to unpack .../1-libdata-stag-perl_0.14-3_all.deb ... Unpacking libdata-stag-perl (0.14-3) ... Selecting previously unselected package libbio-perl-perl. Preparing to unpack .../2-libbio-perl-perl_1.7.8-1_all.deb ... Unpacking libbio-perl-perl (1.7.8-1) ... Selecting previously unselected package libbio-samtools-perl. Preparing to unpack .../3-libbio-samtools-perl_1.43-3build2_s390x.deb ... Unpacking libbio-samtools-perl (1.43-3build2) ... Selecting previously unselected package dctrl-tools. Preparing to unpack .../4-dctrl-tools_2.24-3build2_s390x.deb ... Unpacking dctrl-tools (2.24-3build2) ... Selecting previously unselected package autodep8. Preparing to unpack .../5-autodep8_0.26_all.deb ... Unpacking autodep8 (0.26) ... Selecting previously unselected package pkg-perl-autopkgtest. Preparing to unpack .../6-pkg-perl-autopkgtest_0.71_all.deb ... Unpacking pkg-perl-autopkgtest (0.71) ... Setting up libio-string-perl (1.08-3.1) ... Setting up libdata-stag-perl (0.14-3) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up dctrl-tools (2.24-3build2) ... Setting up autodep8 (0.26) ... Setting up libbio-samtools-perl (1.43-3build2) ... Setting up pkg-perl-autopkgtest (0.71) ... Setting up autopkgtest-satdep (0) ... (Reading database ... 40932 files and directories currently installed.) Removing autopkgtest-satdep (0) ... autopkgtest [15:56:05]: test autodep8-perl: /usr/share/pkg-perl-autopkgtest/runner runtime-deps autopkgtest [15:56:05]: test autodep8-perl: [----------------------- /usr/share/pkg-perl-autopkgtest/runtime-deps.d/use.t .. 1..4 ok 1 - /usr/bin/perl -w -M"Bio::DB::Sam" -e 1 2>&1 exited successfully ok 2 - /usr/bin/perl -w -M"Bio::DB::Sam" -e 1 2>&1 produced no (non-whitelisted) output ok 3 - env PERL_DL_NONLAZY=1 /usr/bin/perl -w -M"Bio::DB::Sam" -e 1 2>&1 exited successfully ok 4 - env PERL_DL_NONLAZY=1 /usr/bin/perl -w -M"Bio::DB::Sam" -e 1 2>&1 produced no (non-whitelisted) output ok All tests successful. Files=1, Tests=4, 0 wallclock secs ( 0.02 usr 0.00 sys + 0.16 cusr 0.03 csys = 0.21 CPU) Result: PASS autopkgtest [15:56:06]: test autodep8-perl: -----------------------] autopkgtest [15:56:06]: test autodep8-perl: - - - - - - - - - - results - - - - - - - - - - autodep8-perl PASS (superficial) autopkgtest [15:56:07]: test autodep8-perl-recommends: preparing testbed Reading package lists... Building dependency tree... Reading state information... Starting pkgProblemResolver with broken count: 0 Starting 2 pkgProblemResolver with broken count: 0 Done 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1 not fully installed or removed. After this operation, 0 B of additional disk space will be used. Setting up autopkgtest-satdep (0) ... (Reading database ... 40932 files and directories currently installed.) Removing autopkgtest-satdep (0) ... autopkgtest [15:56:11]: test autodep8-perl-recommends: /usr/share/pkg-perl-autopkgtest/runner runtime-deps-and-recommends autopkgtest [15:56:11]: test autodep8-perl-recommends: [----------------------- /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t .. 1..4 ok 1 - Package libbio-samtools-perl is known to dpkg ok 2 - Got status information for package libbio-samtools-perl ok 3 - Got file list for package libbio-samtools-perl # Subtest: all modules in libbio-samtools-perl pass the syntax check 1..12 ok 1 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/AlignWrapper.pm exited successfully # Subroutine each_tag_value redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 444. # Subroutine get_tag_values redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 446. # Subroutine has_tag redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 460. # Subroutine get_all_tags redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 474. # Subroutine start redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 482. # Subroutine end redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 488. # Subroutine stop redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 494. # Subroutine strand redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 497. # Subroutine abs_strand redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 501. # Subroutine mstrand redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 503. # Subroutine display_name redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 508. # Subroutine qscore redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 512. # Subroutine qstring redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 519. # Subroutine primary_id redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 523. # Subroutine cigar_str redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 533. # Subroutine cigar_array redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 546. # Subroutine flag_str redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 560. # Subroutine length redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 570. # Subroutine mate_start redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 577. # Subroutine mate_len redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 583. # Subroutine mate_end redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 600. # Subroutine query redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 606. # Subroutine get_SeqFeatures redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 611. # Subroutine target redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 615. # Subroutine primary_tag redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 620. # Subroutine source_tag redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 621. # Subroutine hit redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm line 623. ok 2 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Alignment.pm exited successfully ok 3 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/FetchIterator.pm exited successfully ok 4 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Pileup.pm exited successfully ok 5 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/PileupWrapper.pm exited successfully # Constant subroutine Bio::DB::Bam::Query::CIGAR_SKIP redefined at /usr/lib/s390x-linux-gnu/perl-base/constant.pm line 171. # Subroutine new redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 42. # Subroutine seq_id redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 54. # Subroutine name redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 65. # Subroutine display_name redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 76. # Subroutine primary_tag redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 84. # Subroutine source_tag redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 93. # Subroutine start redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 101. # Subroutine end redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 112. # Subroutine low redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 117. # Subroutine high redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 129. # Subroutine length redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 150. # Subroutine seq redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 163. # Subroutine qscore redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 178. # Subroutine dna redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 190. # Subroutine strand redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 201. # Subroutine subseq redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm line 213. ok 6 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Query.pm exited successfully ok 7 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/ReadIterator.pm exited successfully # Subroutine dna redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Target.pm line 20. # Subroutine qscore redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Target.pm line 26. # Subroutine start redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Target.pm line 34. # Subroutine end redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Target.pm line 39. # Subroutine reversec redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Target.pm line 46. ok 8 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Bam/Target.pm exited successfully ok 9 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam/Constants.pm exited successfully ok 10 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam/SamToGBrowse.pm exited successfully # Name "Bio::DB::Sam::Segment::ref" used only once: possible typo at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam/Segment.pm line 45. # Name "Bio::DB::Sam::Segment::abs_ref" used only once: possible typo at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam/Segment.pm line 45. # Name "Bio::DB::Sam::Segment::sourceseq" used only once: possible typo at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam/Segment.pm line 45. ok 11 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam/Segment.pm exited successfully # Constant subroutine Bio::DB::Sam::DUMP_INTERVAL redefined at /usr/lib/s390x-linux-gnu/perl-base/constant.pm line 171. # Subroutine new redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1384. # Subroutine bam redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1419. # Subroutine is_remote redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1421. # Subroutine clone redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1427. # Subroutine header redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1433. # Subroutine bam_path redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1438. # Subroutine fai redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1443. # Subroutine new_dna_accessor redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1445. # Subroutine can_do_seq redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1465. # Subroutine seq redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1474. # Subroutine expand_flags redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1483. # Subroutine split_splices redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1490. # Subroutine autoindex redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1497. # Subroutine force_refseq redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1504. # Subroutine reset_read redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1511. # Subroutine n_targets redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1516. # Subroutine target_name redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1520. # Subroutine target_len redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1527. # Subroutine seq_ids redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1534. # Subroutine _cache_targets redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1539. # Subroutine length redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1550. # Subroutine _fetch redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1556. # Subroutine fetch redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1571. # Subroutine pileup redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1583. # Subroutine fast_pileup redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1611. # Subroutine segment redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1638. # Subroutine get_features_by_location redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1662. # Subroutine get_features_by_attribute redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1676. # Subroutine get_features_by_tag redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1682. # Subroutine get_features_by_flag redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1686. # Subroutine get_feature_by_name redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1690. # Subroutine get_features_by_name redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1701. # Subroutine get_feature_by_id redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1703. # Subroutine get_seq_stream redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1721. # Subroutine get_seq_fh redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1726. # Subroutine types redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1731. # Subroutine features redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1735. # Subroutine coverage2BedGraph redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1841. # Subroutine _filter_features redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1883. # Subroutine _push_features redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1929. # Subroutine last_feature_count redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1954. # Subroutine _features redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1956. # Subroutine _build_mates redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 1978. # Subroutine _coverage redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2031. # Subroutine _segment_search redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2073. # Subroutine bam_index redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2088. # Subroutine _features_fh redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2093. # Subroutine tam_fh redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2106. # Subroutine max_pileup_cnt redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2111. # Subroutine _filter_by_name redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2118. # Subroutine _filter_by_attribute redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2133. # Subroutine _glob_match redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2161. # Subroutine open redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2173. # Subroutine seq redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2175. # Subroutine coverage redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2188. # Subroutine source redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2194. # Subroutine method redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2201. # Subroutine gff3_string redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2208. # Subroutine index redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2222. # Ambiguous call resolved as CORE::open(), qualify as such or use & at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2246. # Ambiguous call resolved as CORE::open(), qualify as such or use & at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2251. # Subroutine reindex redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2238. # Subroutine index_open_in_safewd redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2272. # Subroutine mtime redefined at /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm line 2282. ok 12 - /usr/bin/perl -wc /usr/lib/s390x-linux-gnu/perl5/5.34/Bio/DB/Sam.pm exited successfully ok 4 - all modules in libbio-samtools-perl pass the syntax check ok All tests successful. Files=1, Tests=4, 0 wallclock secs ( 0.02 usr 0.00 sys + 0.38 cusr 0.08 csys = 0.48 CPU) Result: PASS autopkgtest [15:56:13]: test autodep8-perl-recommends: -----------------------] autopkgtest [15:56:13]: test autodep8-perl-recommends: - - - - - - - - - - results - - - - - - - - - - autodep8-perl-recommends PASS (superficial) autopkgtest [15:56:13]: @@@@@@@@@@@@@@@@@@@@ summary autodep8-perl-build-deps PASS autodep8-perl PASS (superficial) autodep8-perl-recommends PASS (superficial) ubuntu@s1lp14:~/lp1961427$