0s autopkgtest [08:42:42]: starting date and time: 2024-03-20 08:42:42+0000 0s autopkgtest [08:42:42]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [08:42:42]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.z9ffn10h/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:perl,src:liblocale-gettext-perl --apt-upgrade pique --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=perl/5.38.2-3.2 liblocale-gettext-perl/1.07-6ubuntu3' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-s390x-22.secgroup --name adt-noble-s390x-pique-20240320-084242-juju-7f2275-prod-proposed-migration-environment-2 --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/ 82s autopkgtest [08:44:04]: testbed dpkg architecture: s390x 82s autopkgtest [08:44:04]: testbed apt version: 2.7.12 82s autopkgtest [08:44:04]: @@@@@@@@@@@@@@@@@@@@ test bed setup 83s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 83s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3810 kB] 83s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [52.7 kB] 83s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 83s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [497 kB] 83s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [653 kB] 83s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 83s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 83s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 83s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [4050 kB] 84s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 84s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [34.4 kB] 84s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 86s Fetched 9232 kB in 2s (4010 kB/s) 86s Reading package lists... 88s Reading package lists... 89s Building dependency tree... 89s Reading state information... 89s Calculating upgrade... 89s The following packages were automatically installed and are no longer required: 89s fuse3 libfuse3-3 libgdbm-compat4t64 libperl5.38 lto-disabled-list make 89s perl-modules-5.38 s390-tools-data s390-tools-signed 89s Use 'sudo apt autoremove' to remove them. 89s The following packages will be REMOVED: 89s dpkg-dev libdpkg-perl libgdbm-compat4 libgdbm6 perl s390-tools 89s sysconfig-hardware 89s The following NEW packages will be installed: 89s libgdbm-compat4t64 libgdbm6t64 89s The following packages will be upgraded: 89s liblocale-gettext-perl perl-base perl-modules-5.38 89s 3 upgraded, 2 newly installed, 7 to remove and 0 not upgraded. 89s Need to get 5130 kB of archives. 89s After this operation, 15.7 MB disk space will be freed. 89s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl-base s390x 5.38.2-3.2 [1961 kB] 90s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgdbm6t64 s390x 1.23-5.1 [36.4 kB] 90s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libgdbm-compat4t64 s390x 1.23-5.1 [6880 B] 90s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x liblocale-gettext-perl s390x 1.07-6ubuntu3 [15.7 kB] 90s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl-modules-5.38 all 5.38.2-3.2 [3110 kB] 90s Fetched 5130 kB in 1s (6377 kB/s) 90s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 52171 files and directories currently installed.) 90s Removing sysconfig-hardware (0.0.14ubuntu2) ... 90s Removing s390-tools (2.31.0-0ubuntu1) ... 90s Removing dpkg-dev (1.22.4ubuntu5) ... 90s Removing libdpkg-perl (1.22.4ubuntu5) ... 90s Removing perl (5.38.2-3) ... 91s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 51332 files and directories currently installed.) 91s Preparing to unpack .../perl-base_5.38.2-3.2_s390x.deb ... 91s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ... 91s Setting up perl-base (5.38.2-3.2) ... 91s dpkg: libgdbm6:s390x: dependency problems, but removing anyway as you requested: 91s python3-gdbm:s390x depends on libgdbm6 (>= 1.16). 91s man-db depends on libgdbm6 (>= 1.16). 91s libperl5.38:s390x depends on libgdbm6 (>= 1.21). 91s libgdbm-compat4:s390x depends on libgdbm6 (>= 1.16). 91s 91s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 51332 files and directories currently installed.) 91s Removing libgdbm6:s390x (1.23-5) ... 91s Selecting previously unselected package libgdbm6t64:s390x. 91s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 51327 files and directories currently installed.) 91s Preparing to unpack .../libgdbm6t64_1.23-5.1_s390x.deb ... 91s Unpacking libgdbm6t64:s390x (1.23-5.1) ... 91s dpkg: libgdbm-compat4:s390x: dependency problems, but removing anyway as you requested: 91s libperl5.38:s390x depends on libgdbm-compat4 (>= 1.18-3). 91s 91s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 51333 files and directories currently installed.) 91s Removing libgdbm-compat4:s390x (1.23-5) ... 91s Selecting previously unselected package libgdbm-compat4t64:s390x. 91s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 51328 files and directories currently installed.) 91s Preparing to unpack .../libgdbm-compat4t64_1.23-5.1_s390x.deb ... 91s Unpacking libgdbm-compat4t64:s390x (1.23-5.1) ... 91s Preparing to unpack .../liblocale-gettext-perl_1.07-6ubuntu3_s390x.deb ... 91s Unpacking liblocale-gettext-perl (1.07-6ubuntu3) over (1.07-6build1) ... 91s Preparing to unpack .../perl-modules-5.38_5.38.2-3.2_all.deb ... 91s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ... 91s Setting up libgdbm6t64:s390x (1.23-5.1) ... 91s Setting up libgdbm-compat4t64:s390x (1.23-5.1) ... 91s Setting up perl-modules-5.38 (5.38.2-3.2) ... 91s Setting up liblocale-gettext-perl (1.07-6ubuntu3) ... 91s Processing triggers for libc-bin (2.39-0ubuntu2) ... 91s Processing triggers for man-db (2.12.0-3) ... 92s Processing triggers for initramfs-tools (0.142ubuntu20) ... 92s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 92s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 95s Reading package lists... 95s Building dependency tree... 95s Reading state information... 95s The following packages will be REMOVED: 95s fuse3* libfuse3-3* libgdbm-compat4t64* libperl5.38* lto-disabled-list* make* 95s perl-modules-5.38* s390-tools-data* s390-tools-signed* 96s 0 upgraded, 0 newly installed, 9 to remove and 0 not upgraded. 96s After this operation, 50.6 MB disk space will be freed. 96s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 51334 files and directories currently installed.) 96s Removing fuse3 (3.14.0-5) ... 96s update-initramfs: deferring update (trigger activated) 96s Removing libfuse3-3:s390x (3.14.0-5) ... 96s Removing libperl5.38:s390x (5.38.2-3) ... 96s Removing libgdbm-compat4t64:s390x (1.23-5.1) ... 96s Removing lto-disabled-list (47) ... 96s Removing make (4.3-4.1build1) ... 96s Removing perl-modules-5.38 (5.38.2-3.2) ... 96s Removing s390-tools-data (2.31.0-0ubuntu1) ... 96s Removing s390-tools-signed (2.31.0-0ubuntu1) ... 96s Processing triggers for libc-bin (2.39-0ubuntu2) ... 96s Processing triggers for man-db (2.12.0-3) ... 96s Processing triggers for initramfs-tools (0.142ubuntu20) ... 96s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 96s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 99s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 49337 files and directories currently installed.) 99s Purging configuration files for fuse3 (3.14.0-5) ... 99s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 99s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 99s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 100s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 101s Reading package lists... 101s Reading package lists... 101s Building dependency tree... 101s Reading state information... 101s Calculating upgrade... 101s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 101s Reading package lists... 101s Building dependency tree... 101s Reading state information... 101s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 102s autopkgtest [08:44:24]: rebooting testbed after setup commands that affected boot 124s autopkgtest [08:44:46]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024 127s autopkgtest [08:44:49]: @@@@@@@@@@@@@@@@@@@@ apt-source pique 129s Reading package lists... 130s Building dependency tree... 130s Reading state information... 130s Starting pkgProblemResolver with broken count: 0 130s Starting 2 pkgProblemResolver with broken count: 0 130s Done 130s The following additional packages will be installed: 130s dpkg-dev libdb5.3t64 libdpkg-perl libgdbm-compat4t64 libperl5.38t64 130s lto-disabled-list make perl perl-modules-5.38 130s Suggested packages: 130s debian-keyring gcc | c-compiler git bzr make-doc perl-doc 130s libterm-readline-gnu-perl | libterm-readline-perl-perl 130s libtap-harness-archive-perl 130s Recommended packages: 130s build-essential gcc | c-compiler fakeroot libalgorithm-merge-perl 130s libfile-fcntllock-perl 130s The following packages will be REMOVED: 130s libdb5.3 130s The following NEW packages will be installed: 130s autopkgtest-satdep dpkg-dev libdb5.3t64 libdpkg-perl libgdbm-compat4t64 130s libperl5.38t64 lto-disabled-list make perl perl-modules-5.38 130s 0 upgraded, 10 newly installed, 1 to remove and 0 not upgraded. 130s Need to get 7542 kB/10.7 MB of archives. 130s After this operation, 54.4 MB of additional disk space will be used. 130s Get:1 /tmp/autopkgtest.yGdL7q/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [708 B] 130s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libdb5.3t64 s390x 5.3.28+dfsg2-5build1 [763 kB] 131s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libperl5.38t64 s390x 5.38.2-3.2 [5007 kB] 131s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x perl s390x 5.38.2-3.2 [231 kB] 131s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libdpkg-perl all 1.22.4ubuntu5 [268 kB] 131s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x make s390x 4.3-4.1build1 [182 kB] 131s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x lto-disabled-list all 47 [12.4 kB] 131s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x dpkg-dev all 1.22.4ubuntu5 [1078 kB] 131s Fetched 7542 kB in 1s (9425 kB/s) 131s dpkg: libdb5.3:s390x: dependency problems, but removing anyway as you requested: 131s libsasl2-modules-db:s390x depends on libdb5.3. 131s libpython3.12-stdlib:s390x depends on libdb5.3. 131s libpython3.11-stdlib:s390x depends on libdb5.3. 131s libpam-modules:s390x depends on libdb5.3. 131s iproute2 depends on libdb5.3. 131s apt-utils depends on libdb5.3. 131s 131s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 49336 files and directories currently installed.) 131s Removing libdb5.3:s390x (5.3.28+dfsg2-4) ... 131s Selecting previously unselected package libdb5.3t64:s390x. 131s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 49330 files and directories currently installed.) 131s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-5build1_s390x.deb ... 131s Unpacking libdb5.3t64:s390x (5.3.28+dfsg2-5build1) ... 131s Setting up libdb5.3t64:s390x (5.3.28+dfsg2-5build1) ... 131s Selecting previously unselected package perl-modules-5.38. 131s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 49336 files and directories currently installed.) 131s Preparing to unpack .../0-perl-modules-5.38_5.38.2-3.2_all.deb ... 131s Unpacking perl-modules-5.38 (5.38.2-3.2) ... 132s Selecting previously unselected package libgdbm-compat4t64:s390x. 132s Preparing to unpack .../1-libgdbm-compat4t64_1.23-5.1_s390x.deb ... 132s Unpacking libgdbm-compat4t64:s390x (1.23-5.1) ... 132s Selecting previously unselected package libperl5.38t64:s390x. 132s Preparing to unpack .../2-libperl5.38t64_5.38.2-3.2_s390x.deb ... 132s Unpacking libperl5.38t64:s390x (5.38.2-3.2) ... 132s Selecting previously unselected package perl. 132s Preparing to unpack .../3-perl_5.38.2-3.2_s390x.deb ... 132s Unpacking perl (5.38.2-3.2) ... 132s Selecting previously unselected package libdpkg-perl. 132s Preparing to unpack .../4-libdpkg-perl_1.22.4ubuntu5_all.deb ... 132s Unpacking libdpkg-perl (1.22.4ubuntu5) ... 132s Selecting previously unselected package make. 132s Preparing to unpack .../5-make_4.3-4.1build1_s390x.deb ... 132s Unpacking make (4.3-4.1build1) ... 132s Selecting previously unselected package lto-disabled-list. 132s Preparing to unpack .../6-lto-disabled-list_47_all.deb ... 132s Unpacking lto-disabled-list (47) ... 132s Selecting previously unselected package dpkg-dev. 132s Preparing to unpack .../7-dpkg-dev_1.22.4ubuntu5_all.deb ... 132s Unpacking dpkg-dev (1.22.4ubuntu5) ... 132s Selecting previously unselected package autopkgtest-satdep. 132s Preparing to unpack .../8-1-autopkgtest-satdep.deb ... 132s Unpacking autopkgtest-satdep (0) ... 132s Setting up lto-disabled-list (47) ... 132s Setting up libgdbm-compat4t64:s390x (1.23-5.1) ... 132s Setting up make (4.3-4.1build1) ... 132s Setting up perl-modules-5.38 (5.38.2-3.2) ... 132s Setting up libperl5.38t64:s390x (5.38.2-3.2) ... 132s Setting up perl (5.38.2-3.2) ... 132s Setting up libdpkg-perl (1.22.4ubuntu5) ... 132s Setting up dpkg-dev (1.22.4ubuntu5) ... 132s Setting up autopkgtest-satdep (0) ... 132s Processing triggers for man-db (2.12.0-3) ... 133s Processing triggers for libc-bin (2.39-0ubuntu2) ... 134s (Reading database ... 51881 files and directories currently installed.) 134s Removing autopkgtest-satdep (0) ... 136s Get:1 http://ftpmaster.internal/ubuntu noble/universe pique 1.0-7 (dsc) [2005 B] 136s Get:2 http://ftpmaster.internal/ubuntu noble/universe pique 1.0-7 (tar) [2017 kB] 136s Get:3 http://ftpmaster.internal/ubuntu noble/universe pique 1.0-7 (diff) [5236 B] 136s gpgv: Signature made Tue Dec 12 20:17:37 2023 UTC 136s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 136s gpgv: issuer "tille@debian.org" 136s gpgv: Can't check signature: No public key 136s dpkg-source: warning: cannot verify inline signature for ./pique_1.0-7.dsc: no acceptable signature found 136s autopkgtest [08:44:58]: testing package pique version 1.0-7 136s autopkgtest [08:44:58]: build not needed 141s autopkgtest [08:45:03]: test run-unit-test: preparing testbed 146s Reading package lists... 146s Building dependency tree... 146s Reading state information... 146s Starting pkgProblemResolver with broken count: 0 146s Starting 2 pkgProblemResolver with broken count: 0 146s Done 146s The following additional packages will be installed: 147s eigensoft emmax fontconfig fontconfig-config fonts-dejavu-core 147s fonts-dejavu-mono fonts-font-awesome fonts-glyphicons-halflings 147s fonts-mathjax javascript-common libb-hooks-op-check-perl libblas3 libcairo2 147s libclass-method-modifiers-perl libclass-xsaccessor-perl libdatrie1 147s libdeflate0 libdevel-callchecker-perl libdynaloader-functions-perl 147s libfile-slurp-perl libfontconfig1 libfreetype6 libgfortran5 libgomp1 147s libgraphite2-3 libgsl27 libgslcblas0 libharfbuzz0b libice6 147s libimport-into-perl libjbig0 libjpeg-turbo8 libjpeg8 libjs-bootstrap 147s libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery 147s libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json 147s libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js 147s libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker liblapack3 147s liblapacke liblua5.4-0 libmodule-runtime-perl libmoo-perl libpango-1.0-0 147s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 147s libparallel-forkmanager-perl libparams-classify-perl libpixman-1-0 147s libreadonly-perl librole-tiny-perl libsharpyuv0 libsm6 libsub-quote-perl 147s libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 libtmglib3 libwebp7 147s libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6 littler 147s node-bootstrap-sass node-html5shiv node-normalize.css pandoc pandoc-data 147s pique pique-doc plink r-base-core r-bioc-biobase r-bioc-biocgenerics 147s r-bioc-multtest r-cran-acepack r-cran-backports r-cran-base64enc 147s r-cran-bslib r-cran-cachem r-cran-checkmate r-cran-chron r-cran-cli 147s r-cran-cluster r-cran-colorspace r-cran-commonmark r-cran-cpp11 147s r-cran-crayon r-cran-curl r-cran-data.table r-cran-deldir r-cran-digest 147s r-cran-dplyr r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver 147s r-cran-fastmap r-cran-fontawesome r-cran-forecast r-cran-foreign 147s r-cran-formula r-cran-fracdiff r-cran-fs r-cran-generics r-cran-getopt 147s r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-highr 147s r-cran-hmisc r-cran-htmltable r-cran-htmltools r-cran-htmlwidgets 147s r-cran-httpuv r-cran-interp r-cran-isoband r-cran-jpeg r-cran-jquerylib 147s r-cran-jsonlite r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice 147s r-cran-latticeextra r-cran-lifecycle r-cran-littler r-cran-lmtest 147s r-cran-magrittr r-cran-mass r-cran-matrix r-cran-memoise r-cran-mgcv 147s r-cran-mime r-cran-munsell r-cran-nlme r-cran-nnet r-cran-optparse 147s r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-png r-cran-promises 147s r-cran-purrr r-cran-quadprog r-cran-quantmod r-cran-r6 r-cran-rappdirs 147s r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen 147s r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rstudioapi r-cran-sass 147s r-cran-scales r-cran-shiny r-cran-sourcetools r-cran-stringi r-cran-stringr 147s r-cran-survival r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timedate 147s r-cran-tinytex r-cran-tseries r-cran-ttr r-cran-urca r-cran-uroot 147s r-cran-utf8 r-cran-vctrs r-cran-viridis r-cran-viridislite r-cran-withr 147s r-cran-xfun r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo unzip x11-common 147s xdg-utils zip 147s Suggested packages: 147s apache2 | lighttpd | httpd gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info 147s | gsl-ref-html libjs-jquery-ui-docs fonts-mathjax-extras fonts-stix 147s libjs-mathjax-doc libscalar-number-perl libxstring-perl tcl8.6 tk8.6 nodejs 147s texlive-latex-recommended texlive-xetex texlive-luatex pandoc-citeproc 147s texlive-latex-extra context wkhtmltopdf librsvg2-bin groff ghc php python 147s ruby libjs-katex citation-style-language-styles elpa-ess r-doc-info 147s | r-doc-pdf r-mathlib r-base-html r-bioc-all r-cran-runit r-bioc-biocstyle 147s r-bioc-s4vectors r-bioc-iranges r-bioc-genomicranges r-bioc-delayedarray 147s r-bioc-biostrings r-bioc-rsamtools r-bioc-annotationdbi r-bioc-affy 147s r-bioc-deseq2 r-bioc-annotate r-cran-snow r-cran-kernsmooth r-cran-kernlab 147s r-cran-mvtnorm r-cran-vcd r-cran-shinyjs r-cran-polyclip r-cran-covr 147s r-cran-markdown r-cran-sp r-cran-scatterplot3d r-cran-magick r-cran-sf 147s r-cran-testthat r-cran-httr r-cran-bit64 r-cran-dbi r-cran-formattable 147s r-cran-nanotime r-cran-palmerpenguins r-cran-units r-cran-vdiffr 147s r-cran-roxygen2 r-cran-inline r-cran-bench r-cran-blob r-cran-brio 147s r-cran-callr r-cran-here r-cran-hms r-cran-pkgbuild r-cran-pkgload 147s r-cran-plm 147s Recommended packages: 147s gnuplot node-jquery libnamespace-clean-perl med-config r-recommended 147s r-base-dev r-doc-html r-cran-testthat r-cran-thematic r-cran-fastmatch 147s r-cran-devtools r-cran-tinytest r-cran-callr r-cran-covr r-cran-mockery 147s r-cran-processx r-cran-ps r-cran-rprojroot r-cran-whoami r-cran-xml2 147s r-cran-bench r-cran-brio r-cran-decor r-cran-desc r-cran-lobstr 147s r-cran-progress r-cran-spelling r-cran-webutils r-cran-bit64 r-cran-bit 147s r-cran-r.utils r-cran-nanotime r-cran-broom r-cran-dbi r-cran-dbplyr 147s r-cran-rmysql r-cran-rpostgresql r-cran-rsqlite r-cran-unitizer r-cran-rsvg 147s r-cran-pkgload r-cran-hexbin r-cran-mapproj r-cran-maps r-cran-multcomp 147s r-cran-profvis r-cran-quantreg r-cran-ragg r-cran-sf r-cran-svglite 147s r-cran-vdiffr r-cran-waldo r-cran-testit r-cran-cairo r-cran-markdown 147s r-cran-httr r-cran-r.rsp r-cran-codetools r-cran-formatr r-cran-gridsvg 147s r-cran-magick r-cran-reticulate r-cran-rgl r-cran-tikzdevice r-cran-webshot 147s node-highlight.js r-cran-lintr r-cran-tidyverse r-cran-lubridate 147s r-cran-future r-cran-usethis r-cran-dygraphs r-cran-rsconnect r-cran-downlit 147s r-cran-dichromat r-cran-hms r-cran-mockr r-cran-formattable r-cran-readr 147s r-cran-pkgdown r-cran-zeallot r-cran-remotes r-cran-renv r-cran-timeseries 147s r-cran-runit libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl 147s x11-utils x11-xserver-utils 147s The following NEW packages will be installed: 147s autopkgtest-satdep eigensoft emmax fontconfig fontconfig-config 147s fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome 147s fonts-glyphicons-halflings fonts-mathjax javascript-common 147s libb-hooks-op-check-perl libblas3 libcairo2 libclass-method-modifiers-perl 147s libclass-xsaccessor-perl libdatrie1 libdeflate0 libdevel-callchecker-perl 147s libdynaloader-functions-perl libfile-slurp-perl libfontconfig1 libfreetype6 147s libgfortran5 libgomp1 libgraphite2-3 libgsl27 libgslcblas0 libharfbuzz0b 147s libice6 libimport-into-perl libjbig0 libjpeg-turbo8 libjpeg8 libjs-bootstrap 147s libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery 147s libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json 147s libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js 147s libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker liblapack3 147s liblapacke liblua5.4-0 libmodule-runtime-perl libmoo-perl libpango-1.0-0 147s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 147s libparallel-forkmanager-perl libparams-classify-perl libpixman-1-0 147s libreadonly-perl librole-tiny-perl libsharpyuv0 libsm6 libsub-quote-perl 147s libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 libtmglib3 libwebp7 147s libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6 littler 147s node-bootstrap-sass node-html5shiv node-normalize.css pandoc pandoc-data 147s pique pique-doc plink r-base-core r-bioc-biobase r-bioc-biocgenerics 147s r-bioc-multtest r-cran-acepack r-cran-backports r-cran-base64enc 147s r-cran-bslib r-cran-cachem r-cran-checkmate r-cran-chron r-cran-cli 147s r-cran-cluster r-cran-colorspace r-cran-commonmark r-cran-cpp11 147s r-cran-crayon r-cran-curl r-cran-data.table r-cran-deldir r-cran-digest 147s r-cran-dplyr r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver 147s r-cran-fastmap r-cran-fontawesome r-cran-forecast r-cran-foreign 147s r-cran-formula r-cran-fracdiff r-cran-fs r-cran-generics r-cran-getopt 147s r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-highr 147s r-cran-hmisc r-cran-htmltable r-cran-htmltools r-cran-htmlwidgets 147s r-cran-httpuv r-cran-interp r-cran-isoband r-cran-jpeg r-cran-jquerylib 147s r-cran-jsonlite r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice 147s r-cran-latticeextra r-cran-lifecycle r-cran-littler r-cran-lmtest 147s r-cran-magrittr r-cran-mass r-cran-matrix r-cran-memoise r-cran-mgcv 147s r-cran-mime r-cran-munsell r-cran-nlme r-cran-nnet r-cran-optparse 147s r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-png r-cran-promises 147s r-cran-purrr r-cran-quadprog r-cran-quantmod r-cran-r6 r-cran-rappdirs 147s r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen 147s r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rstudioapi r-cran-sass 147s r-cran-scales r-cran-shiny r-cran-sourcetools r-cran-stringi r-cran-stringr 147s r-cran-survival r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timedate 147s r-cran-tinytex r-cran-tseries r-cran-ttr r-cran-urca r-cran-uroot 147s r-cran-utf8 r-cran-vctrs r-cran-viridis r-cran-viridislite r-cran-withr 147s r-cran-xfun r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo unzip x11-common 147s xdg-utils zip 147s 0 upgraded, 207 newly installed, 0 to remove and 0 not upgraded. 147s Need to get 188 MB/188 MB of archives. 147s After this operation, 639 MB of additional disk space will be used. 147s Get:1 /tmp/autopkgtest.yGdL7q/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [728 B] 147s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x libblas3 s390x 3.12.0-3 [245 kB] 147s Get:3 http://ftpmaster.internal/ubuntu noble/universe s390x libgslcblas0 s390x 2.7.1+dfsg-6ubuntu1 [147 kB] 147s Get:4 http://ftpmaster.internal/ubuntu noble/universe s390x libgsl27 s390x 2.7.1+dfsg-6ubuntu1 [1069 kB] 147s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libgfortran5 s390x 14-20240303-1ubuntu1 [598 kB] 147s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x liblapack3 s390x 3.12.0-3 [2979 kB] 147s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x libtmglib3 s390x 3.12.0-3 [152 kB] 147s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x liblapacke s390x 3.12.0-3 [437 kB] 147s Get:9 http://ftpmaster.internal/ubuntu noble/universe s390x eigensoft s390x 8.0.0+dfsg-2 [351 kB] 147s Get:10 http://ftpmaster.internal/ubuntu noble/universe s390x emmax s390x 0~beta.20100307-5 [32.7 kB] 147s Get:11 http://ftpmaster.internal/ubuntu noble/main s390x libfreetype6 s390x 2.13.2+dfsg-1 [431 kB] 147s Get:12 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 147s Get:13 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 147s Get:14 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig-config s390x 2.15.0-1ubuntu1 [37.0 kB] 147s Get:15 http://ftpmaster.internal/ubuntu noble/main s390x libfontconfig1 s390x 2.15.0-1ubuntu1 [150 kB] 147s Get:16 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig s390x 2.15.0-1ubuntu1 [191 kB] 147s Get:17 http://ftpmaster.internal/ubuntu noble/main s390x fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 147s Get:18 http://ftpmaster.internal/ubuntu noble/universe s390x fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 147s Get:19 http://ftpmaster.internal/ubuntu noble/main s390x fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 147s Get:20 http://ftpmaster.internal/ubuntu noble/main s390x javascript-common all 11+nmu1 [5936 B] 147s Get:21 http://ftpmaster.internal/ubuntu noble/main s390x libb-hooks-op-check-perl s390x 0.22-2build2 [9388 B] 147s Get:22 http://ftpmaster.internal/ubuntu noble/main s390x libpixman-1-0 s390x 0.42.2-1 [173 kB] 147s Get:23 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-render0 s390x 1.15-1 [17.0 kB] 147s Get:24 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-shm0 s390x 1.15-1 [5782 B] 147s Get:25 http://ftpmaster.internal/ubuntu noble/main s390x libxrender1 s390x 1:0.9.10-1.1 [19.4 kB] 147s Get:26 http://ftpmaster.internal/ubuntu noble/main s390x libcairo2 s390x 1.18.0-1 [578 kB] 147s Get:27 http://ftpmaster.internal/ubuntu noble/main s390x libclass-method-modifiers-perl all 2.15-1 [16.1 kB] 147s Get:28 http://ftpmaster.internal/ubuntu noble/main s390x libclass-xsaccessor-perl s390x 1.19-4build2 [35.2 kB] 147s Get:29 http://ftpmaster.internal/ubuntu noble/main s390x libdatrie1 s390x 0.2.13-3 [22.6 kB] 147s Get:30 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB] 147s Get:31 http://ftpmaster.internal/ubuntu noble/main s390x libdynaloader-functions-perl all 0.003-3 [12.1 kB] 147s Get:32 http://ftpmaster.internal/ubuntu noble/main s390x libdevel-callchecker-perl s390x 0.008-2build1 [13.8 kB] 147s Get:33 http://ftpmaster.internal/ubuntu noble/universe s390x libfile-slurp-perl all 9999.32-2 [21.7 kB] 147s Get:34 http://ftpmaster.internal/ubuntu noble/main s390x libgomp1 s390x 14-20240303-1ubuntu1 [151 kB] 147s Get:35 http://ftpmaster.internal/ubuntu noble/main s390x libgraphite2-3 s390x 1.3.14-2 [90.4 kB] 147s Get:36 http://ftpmaster.internal/ubuntu noble/main s390x libharfbuzz0b s390x 8.3.0-2 [515 kB] 147s Get:37 http://ftpmaster.internal/ubuntu noble/main s390x x11-common all 1:7.7+23ubuntu2 [23.4 kB] 147s Get:38 http://ftpmaster.internal/ubuntu noble/main s390x libice6 s390x 2:1.0.10-1build2 [40.8 kB] 147s Get:39 http://ftpmaster.internal/ubuntu noble/main s390x libparams-classify-perl s390x 0.015-2build3 [20.5 kB] 147s Get:40 http://ftpmaster.internal/ubuntu noble/main s390x libmodule-runtime-perl all 0.016-2 [16.4 kB] 147s Get:41 http://ftpmaster.internal/ubuntu noble/main s390x libimport-into-perl all 1.002005-2 [10.7 kB] 147s Get:42 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB] 147s Get:43 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 147s Get:44 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 147s Get:45 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-popper.js all 1.16.1+ds-6 [54.1 kB] 147s Get:46 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB] 148s Get:47 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-d3 all 3.5.17-4 [132 kB] 148s Get:48 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-es5-shim all 4.6.7-2 [39.8 kB] 148s Get:49 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB] 148s Get:50 http://ftpmaster.internal/ubuntu noble/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 148s Get:51 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB] 148s Get:52 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB] 148s Get:53 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B] 148s Get:54 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB] 148s Get:55 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 148s Get:56 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-json all 0~20221030+~1.0.8-1 [20.6 kB] 148s Get:57 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB] 148s Get:58 http://ftpmaster.internal/ubuntu noble/main s390x liblua5.4-0 s390x 5.4.6-3 [179 kB] 148s Get:59 http://ftpmaster.internal/ubuntu noble/main s390x librole-tiny-perl all 2.002004-1 [16.3 kB] 148s Get:60 http://ftpmaster.internal/ubuntu noble/main s390x libsub-quote-perl all 2.006008-1ubuntu1 [20.7 kB] 148s Get:61 http://ftpmaster.internal/ubuntu noble/main s390x libmoo-perl all 2.005005-1 [47.4 kB] 148s Get:62 http://ftpmaster.internal/ubuntu noble/main s390x libthai-data all 0.1.29-2 [158 kB] 148s Get:63 http://ftpmaster.internal/ubuntu noble/main s390x libthai0 s390x 0.1.29-2 [20.6 kB] 148s Get:64 http://ftpmaster.internal/ubuntu noble/main s390x libpango-1.0-0 s390x 1.51.0+ds-4 [240 kB] 148s Get:65 http://ftpmaster.internal/ubuntu noble/main s390x libpangoft2-1.0-0 s390x 1.51.0+ds-4 [43.6 kB] 148s Get:66 http://ftpmaster.internal/ubuntu noble/main s390x libpangocairo-1.0-0 s390x 1.51.0+ds-4 [28.9 kB] 148s Get:67 http://ftpmaster.internal/ubuntu noble/main s390x libpaper1 s390x 1.1.29 [13.3 kB] 148s Get:68 http://ftpmaster.internal/ubuntu noble/main s390x libpaper-utils s390x 1.1.29 [8452 B] 148s Get:69 http://ftpmaster.internal/ubuntu noble/universe s390x libparallel-forkmanager-perl all 2.02-1 [27.7 kB] 148s Get:70 http://ftpmaster.internal/ubuntu noble/universe s390x libreadonly-perl all 2.050-3 [19.9 kB] 148s Get:71 http://ftpmaster.internal/ubuntu noble/main s390x libsharpyuv0 s390x 1.3.2-0.4 [14.8 kB] 148s Get:72 http://ftpmaster.internal/ubuntu noble/main s390x libsm6 s390x 2:1.2.3-1build2 [16.9 kB] 148s Get:73 http://ftpmaster.internal/ubuntu noble/main s390x libtcl8.6 s390x 8.6.13+dfsg-2 [948 kB] 148s Get:74 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB] 148s Get:75 http://ftpmaster.internal/ubuntu noble/main s390x libwebp7 s390x 1.3.2-0.4 [207 kB] 148s Get:76 http://ftpmaster.internal/ubuntu noble/main s390x libtiff6 s390x 4.5.1+git230720-3ubuntu1 [253 kB] 148s Get:77 http://ftpmaster.internal/ubuntu noble/main s390x libxft2 s390x 2.3.6-1 [44.3 kB] 148s Get:78 http://ftpmaster.internal/ubuntu noble/main s390x libxss1 s390x 1:1.2.3-1build2 [8192 B] 148s Get:79 http://ftpmaster.internal/ubuntu noble/main s390x libtk8.6 s390x 8.6.13-2 [757 kB] 148s Get:80 http://ftpmaster.internal/ubuntu noble/main s390x libxt6 s390x 1:1.2.1-1.1 [166 kB] 148s Get:81 http://ftpmaster.internal/ubuntu noble/main s390x zip s390x 3.0-13 [175 kB] 148s Get:82 http://ftpmaster.internal/ubuntu noble/main s390x unzip s390x 6.0-28ubuntu3 [180 kB] 148s Get:83 http://ftpmaster.internal/ubuntu noble/main s390x xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] 148s Get:84 http://ftpmaster.internal/ubuntu noble/universe s390x r-base-core s390x 4.3.2-1build1 [27.1 MB] 149s Get:85 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-littler s390x 0.3.19-1 [93.0 kB] 149s Get:86 http://ftpmaster.internal/ubuntu noble/universe s390x littler all 0.3.19-1 [2472 B] 149s Get:87 http://ftpmaster.internal/ubuntu noble/universe s390x node-bootstrap-sass all 3.4.3-2 [187 kB] 149s Get:88 http://ftpmaster.internal/ubuntu noble/universe s390x node-html5shiv all 3.7.3+dfsg-5 [13.5 kB] 149s Get:89 http://ftpmaster.internal/ubuntu noble/universe s390x node-normalize.css all 8.0.1-5 [10.8 kB] 149s Get:90 http://ftpmaster.internal/ubuntu noble/universe s390x pandoc-data all 3.1.3-1 [92.4 kB] 149s Get:91 http://ftpmaster.internal/ubuntu noble/universe s390x pandoc s390x 3.1.3+ds-2 [41.5 MB] 151s Get:92 http://ftpmaster.internal/ubuntu noble/universe s390x plink s390x 1.07+dfsg-4 [1051 kB] 151s Get:93 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-getopt all 1.20.4-1 [38.4 kB] 151s Get:94 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-colorspace s390x 2.1-0+dfsg-1 [1540 kB] 151s Get:95 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-fracdiff s390x 1.5-3-1 [114 kB] 151s Get:96 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-generics all 0.1.3-1 [81.3 kB] 151s Get:97 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-cli s390x 3.6.2-1 [1382 kB] 151s Get:98 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-glue s390x 1.7.0-1 [154 kB] 151s Get:99 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rlang s390x 1.1.3-1 [1672 kB] 151s Get:100 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 151s Get:101 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-gtable all 0.3.4+dfsg-1 [191 kB] 151s Get:102 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-isoband s390x 0.2.7-1 [1481 kB] 151s Get:103 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-mass s390x 7.3-60.0.1-1 [1122 kB] 152s Get:104 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-lattice s390x 0.22-5-1 [1341 kB] 152s Get:105 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-nlme s390x 3.1.164-1 [2268 kB] 152s Get:106 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-matrix s390x 1.6-5-1 [3983 kB] 152s Get:107 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-mgcv s390x 1.9-1-1 [3348 kB] 152s Get:108 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-farver s390x 2.1.1-1 [1347 kB] 152s Get:109 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-labeling all 0.4.3-1 [62.1 kB] 152s Get:110 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-munsell all 0.5.0-2build1 [208 kB] 152s Get:111 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-r6 all 2.5.1-1 [99.0 kB] 152s Get:112 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB] 152s Get:113 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-viridislite all 0.4.2-2 [1088 kB] 152s Get:114 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-scales all 1.3.0-1 [603 kB] 152s Get:115 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-fansi s390x 1.0.5-1 [615 kB] 152s Get:116 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-magrittr s390x 2.0.3-1 [154 kB] 152s Get:117 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-utf8 s390x 1.2.4-1 [143 kB] 152s Get:118 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-vctrs s390x 0.6.5-1 [1448 kB] 152s Get:119 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-pillar all 1.9.0+dfsg-1 [464 kB] 152s Get:120 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 152s Get:121 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-tibble s390x 3.2.1+dfsg-2 [415 kB] 152s Get:122 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-withr all 2.5.0-1 [225 kB] 152s Get:123 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-ggplot2 all 3.4.4+dfsg-1 [3411 kB] 153s Get:124 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-zoo s390x 1.8-12-2 [984 kB] 153s Get:125 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-lmtest s390x 0.9.40-1 [396 kB] 153s Get:126 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-nnet s390x 7.3-19-2 [112 kB] 153s Get:127 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-pkgkitten all 0.2.3-1 [25.1 kB] 153s Get:128 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rcpp s390x 1.0.12-1 [1985 kB] 153s Get:129 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-timedate s390x 4032.109-1 [1229 kB] 153s Get:130 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-quadprog s390x 1.5-8-1build1 [30.8 kB] 153s Get:131 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-xts s390x 0.13.2-1 [776 kB] 153s Get:132 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-curl s390x 5.2.0+dfsg-1 [189 kB] 153s Get:133 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-ttr s390x 0.24.4-1 [513 kB] 153s Get:134 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-jsonlite s390x 1.8.8+dfsg-1 [444 kB] 153s Get:135 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-quantmod all 0.4.26-1 [1027 kB] 153s Get:136 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-tseries s390x 0.10-55-1 [373 kB] 153s Get:137 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-urca s390x 1.3-3-1 [1072 kB] 153s Get:138 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rcpparmadillo s390x 0.12.8.0.0-1 [869 kB] 153s Get:139 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-forecast s390x 8.21.1-1 [1565 kB] 153s Get:140 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biocgenerics all 0.48.1-2 [595 kB] 153s Get:141 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biobase s390x 2.62.0-1 [2137 kB] 153s Get:142 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-survival s390x 3.5-8-1 [6161 kB] 154s Get:143 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-multtest s390x 2.58.0-1 [841 kB] 154s Get:144 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-optparse all 1.7.4-1 [81.6 kB] 154s Get:145 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-uroot all 2.1-3-1 [1927 kB] 154s Get:146 http://ftpmaster.internal/ubuntu noble/universe s390x pique all 1.0-7 [21.3 kB] 154s Get:147 http://ftpmaster.internal/ubuntu noble/universe s390x pique-doc all 1.0-7 [1931 kB] 154s Get:148 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-acepack s390x 1.4.2-1 [68.3 kB] 154s Get:149 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-backports s390x 1.4.1-1 [101 kB] 154s Get:150 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-base64enc s390x 0.1-3-3 [28.0 kB] 154s Get:151 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-fastmap s390x 1.1.1-1 [69.1 kB] 154s Get:152 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-cachem s390x 1.0.8-1 [72.1 kB] 154s Get:153 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-digest s390x 0.6.34-1 [187 kB] 154s Get:154 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-ellipsis s390x 0.3.2-2 [35.4 kB] 154s Get:155 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-htmltools s390x 0.5.7-1 [368 kB] 154s Get:156 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB] 154s Get:157 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-memoise all 2.0.1-1 [53.9 kB] 154s Get:158 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-mime s390x 0.12-1 [35.7 kB] 154s Get:159 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-fs s390x 1.6.3+dfsg-1 [229 kB] 154s Get:160 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rappdirs s390x 0.3.3-1 [47.5 kB] 154s Get:161 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-sass s390x 0.4.8+dfsg-1 [1025 kB] 154s Get:162 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-bslib all 0.6.1+dfsg-1 [5138 kB] 154s Get:163 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-checkmate s390x 2.3.1-1 [716 kB] 154s Get:164 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-chron s390x 2.3-61-2 [186 kB] 154s Get:165 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-cluster s390x 2.1.6-1 [562 kB] 154s Get:166 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-commonmark s390x 1.9.1-1 [142 kB] 154s Get:167 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-cpp11 all 0.4.7-1 [266 kB] 154s Get:168 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-crayon all 1.5.2-1 [164 kB] 154s Get:169 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-data.table s390x 1.14.10+dfsg-1 [1880 kB] 154s Get:170 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-deldir s390x 2.0-4-1 [271 kB] 154s Get:171 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-tidyselect s390x 1.2.0+dfsg-1 [218 kB] 154s Get:172 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-dplyr s390x 1.1.4-1 [1515 kB] 154s Get:173 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-evaluate all 0.23-1 [90.2 kB] 154s Get:174 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-fontawesome all 0.5.2-1 [1300 kB] 155s Get:175 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-foreign s390x 0.8.86-1 [247 kB] 155s Get:176 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-formula all 1.2-5-1 [158 kB] 155s Get:177 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-gridextra all 2.3-3build1 [1024 kB] 155s Get:178 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-xfun s390x 0.41+dfsg-1 [415 kB] 155s Get:179 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-highr all 0.10+dfsg-1 [38.3 kB] 155s Get:180 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rpart s390x 4.1.23-1 [667 kB] 155s Get:181 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-stringi s390x 1.8.3-1 [885 kB] 155s Get:182 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-stringr all 1.5.1-1 [290 kB] 155s Get:183 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-yaml s390x 2.3.8-1 [127 kB] 155s Get:184 http://ftpmaster.internal/ubuntu noble/main s390x libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 155s Get:185 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-knitr all 1.45+dfsg-1 [917 kB] 155s Get:186 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-tinytex all 0.49-1 [141 kB] 155s Get:187 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-modernizr all 2.6.2+ds1-5 [48.3 kB] 155s Get:188 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-later s390x 1.3.2+dfsg-1 [126 kB] 155s Get:189 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-promises s390x 1.2.1+dfsg-1 [285 kB] 155s Get:190 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-httpuv s390x 1.6.14+dfsg-1 [519 kB] 155s Get:191 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-xtable all 1:1.8-4-2 [689 kB] 155s Get:192 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-sourcetools s390x 0.1.7-1-1 [47.1 kB] 155s Get:193 http://ftpmaster.internal/ubuntu noble/universe s390x libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB] 155s Get:194 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-shiny all 1.8.0+dfsg-1 [2762 kB] 156s Get:195 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rmarkdown all 2.25+dfsg-3 [1481 kB] 156s Get:196 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-htmlwidgets all 1.6.4+dfsg-1 [123 kB] 156s Get:197 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rstudioapi all 0.15.0-1 [277 kB] 156s Get:198 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-purrr s390x 1.0.2-1 [501 kB] 156s Get:199 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-tidyr s390x 1.3.1-1 [1157 kB] 156s Get:200 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-htmltable all 2.4.2-1 [381 kB] 156s Get:201 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-viridis all 0.6.5-1 [2770 kB] 156s Get:202 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-png s390x 0.1-8-1 [40.5 kB] 156s Get:203 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-jpeg s390x 0.1-10-1 [31.3 kB] 156s Get:204 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rcppeigen s390x 0.3.3.9.4-1 [1187 kB] 156s Get:205 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-interp s390x 1.1-6-1 [1465 kB] 156s Get:206 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-latticeextra all 0.6-30-1 [2198 kB] 156s Get:207 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-hmisc s390x 5.1-1-1 [3488 kB] 157s Preconfiguring packages ... 157s Fetched 188 MB in 10s (18.3 MB/s) 157s Selecting previously unselected package libblas3:s390x. 157s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 51881 files and directories currently installed.) 157s Preparing to unpack .../000-libblas3_3.12.0-3_s390x.deb ... 157s Unpacking libblas3:s390x (3.12.0-3) ... 157s Selecting previously unselected package libgslcblas0:s390x. 157s Preparing to unpack .../001-libgslcblas0_2.7.1+dfsg-6ubuntu1_s390x.deb ... 157s Unpacking libgslcblas0:s390x (2.7.1+dfsg-6ubuntu1) ... 157s Selecting previously unselected package libgsl27:s390x. 157s Preparing to unpack .../002-libgsl27_2.7.1+dfsg-6ubuntu1_s390x.deb ... 157s Unpacking libgsl27:s390x (2.7.1+dfsg-6ubuntu1) ... 157s Selecting previously unselected package libgfortran5:s390x. 157s Preparing to unpack .../003-libgfortran5_14-20240303-1ubuntu1_s390x.deb ... 157s Unpacking libgfortran5:s390x (14-20240303-1ubuntu1) ... 157s Selecting previously unselected package liblapack3:s390x. 157s Preparing to unpack .../004-liblapack3_3.12.0-3_s390x.deb ... 157s Unpacking liblapack3:s390x (3.12.0-3) ... 157s Selecting previously unselected package libtmglib3:s390x. 157s Preparing to unpack .../005-libtmglib3_3.12.0-3_s390x.deb ... 157s Unpacking libtmglib3:s390x (3.12.0-3) ... 157s Selecting previously unselected package liblapacke:s390x. 157s Preparing to unpack .../006-liblapacke_3.12.0-3_s390x.deb ... 157s Unpacking liblapacke:s390x (3.12.0-3) ... 157s Selecting previously unselected package eigensoft. 157s Preparing to unpack .../007-eigensoft_8.0.0+dfsg-2_s390x.deb ... 157s Unpacking eigensoft (8.0.0+dfsg-2) ... 158s Selecting previously unselected package emmax. 158s Preparing to unpack .../008-emmax_0~beta.20100307-5_s390x.deb ... 158s Unpacking emmax (0~beta.20100307-5) ... 158s Selecting previously unselected package libfreetype6:s390x. 158s Preparing to unpack .../009-libfreetype6_2.13.2+dfsg-1_s390x.deb ... 158s Unpacking libfreetype6:s390x (2.13.2+dfsg-1) ... 158s Selecting previously unselected package fonts-dejavu-mono. 158s Preparing to unpack .../010-fonts-dejavu-mono_2.37-8_all.deb ... 158s Unpacking fonts-dejavu-mono (2.37-8) ... 158s Selecting previously unselected package fonts-dejavu-core. 158s Preparing to unpack .../011-fonts-dejavu-core_2.37-8_all.deb ... 158s Unpacking fonts-dejavu-core (2.37-8) ... 158s Selecting previously unselected package fontconfig-config. 158s Preparing to unpack .../012-fontconfig-config_2.15.0-1ubuntu1_s390x.deb ... 158s Unpacking fontconfig-config (2.15.0-1ubuntu1) ... 158s Selecting previously unselected package libfontconfig1:s390x. 158s Preparing to unpack .../013-libfontconfig1_2.15.0-1ubuntu1_s390x.deb ... 158s Unpacking libfontconfig1:s390x (2.15.0-1ubuntu1) ... 158s Selecting previously unselected package fontconfig. 158s Preparing to unpack .../014-fontconfig_2.15.0-1ubuntu1_s390x.deb ... 158s Unpacking fontconfig (2.15.0-1ubuntu1) ... 158s Selecting previously unselected package fonts-font-awesome. 158s Preparing to unpack .../015-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... 158s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 158s Selecting previously unselected package fonts-glyphicons-halflings. 158s Preparing to unpack .../016-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ... 158s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 158s Selecting previously unselected package fonts-mathjax. 158s Preparing to unpack .../017-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 158s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 158s Selecting previously unselected package javascript-common. 158s Preparing to unpack .../018-javascript-common_11+nmu1_all.deb ... 158s Unpacking javascript-common (11+nmu1) ... 158s Selecting previously unselected package libb-hooks-op-check-perl:s390x. 158s Preparing to unpack .../019-libb-hooks-op-check-perl_0.22-2build2_s390x.deb ... 158s Unpacking libb-hooks-op-check-perl:s390x (0.22-2build2) ... 158s Selecting previously unselected package libpixman-1-0:s390x. 158s Preparing to unpack .../020-libpixman-1-0_0.42.2-1_s390x.deb ... 158s Unpacking libpixman-1-0:s390x (0.42.2-1) ... 158s Selecting previously unselected package libxcb-render0:s390x. 158s Preparing to unpack .../021-libxcb-render0_1.15-1_s390x.deb ... 158s Unpacking libxcb-render0:s390x (1.15-1) ... 158s Selecting previously unselected package libxcb-shm0:s390x. 158s Preparing to unpack .../022-libxcb-shm0_1.15-1_s390x.deb ... 158s Unpacking libxcb-shm0:s390x (1.15-1) ... 158s Selecting previously unselected package libxrender1:s390x. 158s Preparing to unpack .../023-libxrender1_1%3a0.9.10-1.1_s390x.deb ... 158s Unpacking libxrender1:s390x (1:0.9.10-1.1) ... 158s Selecting previously unselected package libcairo2:s390x. 158s Preparing to unpack .../024-libcairo2_1.18.0-1_s390x.deb ... 158s Unpacking libcairo2:s390x (1.18.0-1) ... 158s Selecting previously unselected package libclass-method-modifiers-perl. 158s Preparing to unpack .../025-libclass-method-modifiers-perl_2.15-1_all.deb ... 158s Unpacking libclass-method-modifiers-perl (2.15-1) ... 158s Selecting previously unselected package libclass-xsaccessor-perl. 158s Preparing to unpack .../026-libclass-xsaccessor-perl_1.19-4build2_s390x.deb ... 158s Unpacking libclass-xsaccessor-perl (1.19-4build2) ... 158s Selecting previously unselected package libdatrie1:s390x. 158s Preparing to unpack .../027-libdatrie1_0.2.13-3_s390x.deb ... 158s Unpacking libdatrie1:s390x (0.2.13-3) ... 158s Selecting previously unselected package libdeflate0:s390x. 158s Preparing to unpack .../028-libdeflate0_1.19-1_s390x.deb ... 158s Unpacking libdeflate0:s390x (1.19-1) ... 158s Selecting previously unselected package libdynaloader-functions-perl. 158s Preparing to unpack .../029-libdynaloader-functions-perl_0.003-3_all.deb ... 158s Unpacking libdynaloader-functions-perl (0.003-3) ... 158s Selecting previously unselected package libdevel-callchecker-perl:s390x. 158s Preparing to unpack .../030-libdevel-callchecker-perl_0.008-2build1_s390x.deb ... 158s Unpacking libdevel-callchecker-perl:s390x (0.008-2build1) ... 158s Selecting previously unselected package libfile-slurp-perl. 158s Preparing to unpack .../031-libfile-slurp-perl_9999.32-2_all.deb ... 158s Unpacking libfile-slurp-perl (9999.32-2) ... 158s Selecting previously unselected package libgomp1:s390x. 158s Preparing to unpack .../032-libgomp1_14-20240303-1ubuntu1_s390x.deb ... 158s Unpacking libgomp1:s390x (14-20240303-1ubuntu1) ... 158s Selecting previously unselected package libgraphite2-3:s390x. 158s Preparing to unpack .../033-libgraphite2-3_1.3.14-2_s390x.deb ... 158s Unpacking libgraphite2-3:s390x (1.3.14-2) ... 158s Selecting previously unselected package libharfbuzz0b:s390x. 158s Preparing to unpack .../034-libharfbuzz0b_8.3.0-2_s390x.deb ... 158s Unpacking libharfbuzz0b:s390x (8.3.0-2) ... 158s Selecting previously unselected package x11-common. 158s Preparing to unpack .../035-x11-common_1%3a7.7+23ubuntu2_all.deb ... 158s Unpacking x11-common (1:7.7+23ubuntu2) ... 158s Selecting previously unselected package libice6:s390x. 158s Preparing to unpack .../036-libice6_2%3a1.0.10-1build2_s390x.deb ... 158s Unpacking libice6:s390x (2:1.0.10-1build2) ... 158s Selecting previously unselected package libparams-classify-perl:s390x. 158s Preparing to unpack .../037-libparams-classify-perl_0.015-2build3_s390x.deb ... 158s Unpacking libparams-classify-perl:s390x (0.015-2build3) ... 158s Selecting previously unselected package libmodule-runtime-perl. 158s Preparing to unpack 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159s Unpacking libjs-popper.js (1.16.1+ds-6) ... 159s Selecting previously unselected package libjs-bootstrap4. 159s Preparing to unpack .../044-libjs-bootstrap4_4.6.1+dfsg1-4_all.deb ... 159s Unpacking libjs-bootstrap4 (4.6.1+dfsg1-4) ... 159s Selecting previously unselected package libjs-d3. 159s Preparing to unpack .../045-libjs-d3_3.5.17-4_all.deb ... 159s Unpacking libjs-d3 (3.5.17-4) ... 159s Selecting previously unselected package libjs-es5-shim. 159s Preparing to unpack .../046-libjs-es5-shim_4.6.7-2_all.deb ... 159s Unpacking libjs-es5-shim (4.6.7-2) ... 159s Selecting previously unselected package libjs-highlight.js. 159s Preparing to unpack .../047-libjs-highlight.js_9.18.5+dfsg1-2_all.deb ... 159s Unpacking libjs-highlight.js (9.18.5+dfsg1-2) ... 159s Selecting previously unselected package libjs-jquery. 159s Preparing to unpack .../048-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 159s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 159s Selecting previously unselected package libjs-jquery-datatables. 159s Preparing to unpack .../049-libjs-jquery-datatables_1.11.5+dfsg-2_all.deb ... 159s Unpacking libjs-jquery-datatables (1.11.5+dfsg-2) ... 159s Selecting previously unselected package libjs-sifter.js. 159s Preparing to unpack .../050-libjs-sifter.js_0.6.0+dfsg-3_all.deb ... 159s Unpacking libjs-sifter.js (0.6.0+dfsg-3) ... 159s Selecting previously unselected package libjs-microplugin.js. 159s Preparing to unpack .../051-libjs-microplugin.js_0.0.3+dfsg-1.1_all.deb ... 159s Unpacking libjs-microplugin.js (0.0.3+dfsg-1.1) ... 159s Selecting previously unselected package libjs-jquery-selectize.js. 159s Preparing to unpack .../052-libjs-jquery-selectize.js_0.12.6+dfsg-1.1_all.deb ... 159s Unpacking libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... 159s Selecting previously unselected package libjs-jquery-ui. 159s Preparing to unpack .../053-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 159s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 159s Selecting previously unselected package libjs-json. 159s Preparing to unpack .../054-libjs-json_0~20221030+~1.0.8-1_all.deb ... 159s Unpacking libjs-json (0~20221030+~1.0.8-1) ... 159s Selecting previously unselected package libjs-prettify. 159s Preparing to unpack .../055-libjs-prettify_2015.12.04+dfsg-1.1_all.deb ... 159s Unpacking libjs-prettify (2015.12.04+dfsg-1.1) ... 159s Selecting previously unselected package liblua5.4-0:s390x. 159s Preparing to unpack .../056-liblua5.4-0_5.4.6-3_s390x.deb ... 159s Unpacking liblua5.4-0:s390x (5.4.6-3) ... 159s Selecting previously unselected package librole-tiny-perl. 159s Preparing to unpack .../057-librole-tiny-perl_2.002004-1_all.deb ... 159s Unpacking librole-tiny-perl (2.002004-1) ... 159s Selecting previously unselected package libsub-quote-perl. 159s Preparing to unpack .../058-libsub-quote-perl_2.006008-1ubuntu1_all.deb ... 159s Unpacking libsub-quote-perl (2.006008-1ubuntu1) ... 159s Selecting previously unselected package libmoo-perl. 159s Preparing to unpack .../059-libmoo-perl_2.005005-1_all.deb ... 159s Unpacking libmoo-perl (2.005005-1) ... 159s Selecting previously unselected package libthai-data. 159s Preparing to unpack .../060-libthai-data_0.1.29-2_all.deb ... 159s Unpacking libthai-data (0.1.29-2) ... 159s Selecting previously unselected package libthai0:s390x. 159s Preparing to unpack .../061-libthai0_0.1.29-2_s390x.deb ... 159s Unpacking libthai0:s390x (0.1.29-2) ... 159s Selecting previously unselected package libpango-1.0-0:s390x. 159s Preparing to unpack .../062-libpango-1.0-0_1.51.0+ds-4_s390x.deb ... 159s Unpacking libpango-1.0-0:s390x (1.51.0+ds-4) ... 159s Selecting previously unselected package libpangoft2-1.0-0:s390x. 159s Preparing to unpack .../063-libpangoft2-1.0-0_1.51.0+ds-4_s390x.deb ... 159s Unpacking libpangoft2-1.0-0:s390x (1.51.0+ds-4) ... 159s Selecting previously unselected package libpangocairo-1.0-0:s390x. 159s Preparing to unpack .../064-libpangocairo-1.0-0_1.51.0+ds-4_s390x.deb ... 159s Unpacking libpangocairo-1.0-0:s390x (1.51.0+ds-4) ... 159s Selecting previously unselected package libpaper1:s390x. 159s Preparing to unpack .../065-libpaper1_1.1.29_s390x.deb ... 159s Unpacking libpaper1:s390x (1.1.29) ... 159s Selecting previously unselected package libpaper-utils. 159s Preparing to unpack .../066-libpaper-utils_1.1.29_s390x.deb ... 159s Unpacking libpaper-utils (1.1.29) ... 159s Selecting previously unselected package libparallel-forkmanager-perl. 159s Preparing to unpack .../067-libparallel-forkmanager-perl_2.02-1_all.deb ... 159s Unpacking libparallel-forkmanager-perl (2.02-1) ... 159s Selecting previously unselected package libreadonly-perl. 159s Preparing to unpack .../068-libreadonly-perl_2.050-3_all.deb ... 159s Unpacking libreadonly-perl (2.050-3) ... 159s Selecting previously unselected package libsharpyuv0:s390x. 159s Preparing to unpack .../069-libsharpyuv0_1.3.2-0.4_s390x.deb ... 159s Unpacking libsharpyuv0:s390x (1.3.2-0.4) ... 159s Selecting previously unselected package libsm6:s390x. 159s Preparing to unpack .../070-libsm6_2%3a1.2.3-1build2_s390x.deb ... 159s Unpacking libsm6:s390x (2:1.2.3-1build2) ... 159s Selecting previously unselected package libtcl8.6:s390x. 159s Preparing to unpack .../071-libtcl8.6_8.6.13+dfsg-2_s390x.deb ... 159s Unpacking libtcl8.6:s390x (8.6.13+dfsg-2) ... 159s Selecting previously unselected package libjbig0:s390x. 159s Preparing to unpack .../072-libjbig0_2.1-6.1ubuntu1_s390x.deb ... 159s Unpacking libjbig0:s390x (2.1-6.1ubuntu1) ... 159s Selecting previously unselected package libwebp7:s390x. 159s Preparing to unpack .../073-libwebp7_1.3.2-0.4_s390x.deb ... 159s Unpacking libwebp7:s390x (1.3.2-0.4) ... 159s Selecting previously unselected package libtiff6:s390x. 159s Preparing to unpack .../074-libtiff6_4.5.1+git230720-3ubuntu1_s390x.deb ... 159s Unpacking libtiff6:s390x (4.5.1+git230720-3ubuntu1) ... 159s Selecting previously unselected package libxft2:s390x. 159s Preparing to unpack .../075-libxft2_2.3.6-1_s390x.deb ... 159s Unpacking libxft2:s390x (2.3.6-1) ... 159s Selecting previously unselected package libxss1:s390x. 159s Preparing to unpack .../076-libxss1_1%3a1.2.3-1build2_s390x.deb ... 159s Unpacking libxss1:s390x (1:1.2.3-1build2) ... 159s Selecting previously unselected package libtk8.6:s390x. 159s Preparing to unpack .../077-libtk8.6_8.6.13-2_s390x.deb ... 159s Unpacking libtk8.6:s390x (8.6.13-2) ... 159s Selecting previously unselected package libxt6:s390x. 159s Preparing to unpack .../078-libxt6_1%3a1.2.1-1.1_s390x.deb ... 159s Unpacking libxt6:s390x (1:1.2.1-1.1) ... 159s Selecting previously unselected package zip. 159s Preparing to unpack .../079-zip_3.0-13_s390x.deb ... 159s Unpacking zip (3.0-13) ... 159s Selecting previously unselected package unzip. 159s Preparing to unpack .../080-unzip_6.0-28ubuntu3_s390x.deb ... 159s Unpacking unzip (6.0-28ubuntu3) ... 159s Selecting previously unselected package xdg-utils. 159s Preparing to unpack .../081-xdg-utils_1.1.3-4.1ubuntu3_all.deb ... 159s Unpacking xdg-utils (1.1.3-4.1ubuntu3) ... 159s Selecting previously unselected package r-base-core. 159s Preparing to unpack .../082-r-base-core_4.3.2-1build1_s390x.deb ... 159s Unpacking r-base-core (4.3.2-1build1) ... 160s Selecting previously unselected package r-cran-littler. 160s Preparing to unpack .../083-r-cran-littler_0.3.19-1_s390x.deb ... 160s Unpacking r-cran-littler (0.3.19-1) ... 160s Selecting previously unselected package littler. 160s Preparing to unpack .../084-littler_0.3.19-1_all.deb ... 160s Unpacking littler (0.3.19-1) ... 160s Selecting previously unselected package node-bootstrap-sass. 160s Preparing to unpack .../085-node-bootstrap-sass_3.4.3-2_all.deb ... 160s Unpacking node-bootstrap-sass (3.4.3-2) ... 160s Selecting previously unselected package node-html5shiv. 160s Preparing to unpack .../086-node-html5shiv_3.7.3+dfsg-5_all.deb ... 160s Unpacking node-html5shiv (3.7.3+dfsg-5) ... 160s Selecting previously unselected package node-normalize.css. 160s Preparing to unpack .../087-node-normalize.css_8.0.1-5_all.deb ... 160s Unpacking node-normalize.css (8.0.1-5) ... 160s Selecting previously unselected package pandoc-data. 160s Preparing to unpack .../088-pandoc-data_3.1.3-1_all.deb ... 160s Unpacking pandoc-data (3.1.3-1) ... 160s Selecting previously unselected package pandoc. 160s Preparing to unpack .../089-pandoc_3.1.3+ds-2_s390x.deb ... 160s Unpacking pandoc (3.1.3+ds-2) ... 162s Selecting previously unselected package plink. 162s Preparing to unpack .../090-plink_1.07+dfsg-4_s390x.deb ... 162s Unpacking plink (1.07+dfsg-4) ... 162s Selecting previously unselected package r-cran-getopt. 162s Preparing to unpack .../091-r-cran-getopt_1.20.4-1_all.deb ... 162s Unpacking r-cran-getopt (1.20.4-1) ... 162s Selecting previously unselected package r-cran-colorspace. 162s Preparing to unpack .../092-r-cran-colorspace_2.1-0+dfsg-1_s390x.deb ... 162s Unpacking r-cran-colorspace (2.1-0+dfsg-1) ... 162s Selecting previously unselected package r-cran-fracdiff. 162s Preparing to unpack .../093-r-cran-fracdiff_1.5-3-1_s390x.deb ... 162s Unpacking r-cran-fracdiff (1.5-3-1) ... 162s Selecting previously unselected package r-cran-generics. 162s Preparing to unpack .../094-r-cran-generics_0.1.3-1_all.deb ... 162s Unpacking r-cran-generics (0.1.3-1) ... 162s Selecting previously unselected package r-cran-cli. 162s Preparing to unpack .../095-r-cran-cli_3.6.2-1_s390x.deb ... 162s Unpacking r-cran-cli (3.6.2-1) ... 162s Selecting previously unselected package r-cran-glue. 162s Preparing to unpack .../096-r-cran-glue_1.7.0-1_s390x.deb ... 162s Unpacking r-cran-glue (1.7.0-1) ... 162s Selecting previously unselected package r-cran-rlang. 162s Preparing to unpack .../097-r-cran-rlang_1.1.3-1_s390x.deb ... 162s Unpacking r-cran-rlang (1.1.3-1) ... 162s Selecting previously unselected package r-cran-lifecycle. 162s Preparing to unpack .../098-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ... 162s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ... 162s Selecting previously unselected package r-cran-gtable. 162s Preparing to unpack .../099-r-cran-gtable_0.3.4+dfsg-1_all.deb ... 162s Unpacking r-cran-gtable (0.3.4+dfsg-1) ... 162s Selecting previously unselected package r-cran-isoband. 162s Preparing to unpack .../100-r-cran-isoband_0.2.7-1_s390x.deb ... 162s Unpacking r-cran-isoband (0.2.7-1) ... 162s Selecting previously unselected package r-cran-mass. 162s Preparing to unpack .../101-r-cran-mass_7.3-60.0.1-1_s390x.deb ... 162s Unpacking r-cran-mass (7.3-60.0.1-1) ... 162s Selecting previously unselected package r-cran-lattice. 162s Preparing to unpack .../102-r-cran-lattice_0.22-5-1_s390x.deb ... 162s Unpacking r-cran-lattice (0.22-5-1) ... 162s Selecting previously unselected package r-cran-nlme. 162s Preparing to unpack .../103-r-cran-nlme_3.1.164-1_s390x.deb ... 162s Unpacking r-cran-nlme (3.1.164-1) ... 162s Selecting previously unselected package r-cran-matrix. 162s Preparing to unpack .../104-r-cran-matrix_1.6-5-1_s390x.deb ... 162s Unpacking r-cran-matrix (1.6-5-1) ... 162s Selecting previously unselected package r-cran-mgcv. 162s Preparing to unpack .../105-r-cran-mgcv_1.9-1-1_s390x.deb ... 162s Unpacking r-cran-mgcv (1.9-1-1) ... 162s Selecting previously unselected package r-cran-farver. 162s Preparing to unpack .../106-r-cran-farver_2.1.1-1_s390x.deb ... 162s Unpacking r-cran-farver (2.1.1-1) ... 162s Selecting previously unselected package r-cran-labeling. 162s Preparing to unpack .../107-r-cran-labeling_0.4.3-1_all.deb ... 162s Unpacking r-cran-labeling (0.4.3-1) ... 162s Selecting previously unselected package r-cran-munsell. 162s Preparing to unpack .../108-r-cran-munsell_0.5.0-2build1_all.deb ... 162s Unpacking r-cran-munsell (0.5.0-2build1) ... 162s Selecting previously unselected package r-cran-r6. 162s Preparing to unpack .../109-r-cran-r6_2.5.1-1_all.deb ... 162s Unpacking r-cran-r6 (2.5.1-1) ... 162s Selecting previously unselected package r-cran-rcolorbrewer. 162s Preparing to unpack .../110-r-cran-rcolorbrewer_1.1-3-1build1_all.deb ... 162s Unpacking r-cran-rcolorbrewer (1.1-3-1build1) ... 162s Selecting previously unselected package r-cran-viridislite. 162s Preparing to unpack .../111-r-cran-viridislite_0.4.2-2_all.deb ... 162s Unpacking r-cran-viridislite (0.4.2-2) ... 162s Selecting previously unselected package r-cran-scales. 162s Preparing to unpack .../112-r-cran-scales_1.3.0-1_all.deb ... 162s Unpacking r-cran-scales (1.3.0-1) ... 162s Selecting previously unselected package r-cran-fansi. 162s Preparing to unpack .../113-r-cran-fansi_1.0.5-1_s390x.deb ... 162s Unpacking r-cran-fansi (1.0.5-1) ... 162s Selecting previously unselected package r-cran-magrittr. 162s Preparing to unpack .../114-r-cran-magrittr_2.0.3-1_s390x.deb ... 162s Unpacking r-cran-magrittr (2.0.3-1) ... 162s Selecting previously unselected package r-cran-utf8. 162s Preparing to unpack .../115-r-cran-utf8_1.2.4-1_s390x.deb ... 162s Unpacking r-cran-utf8 (1.2.4-1) ... 162s Selecting previously unselected package r-cran-vctrs. 162s Preparing to unpack .../116-r-cran-vctrs_0.6.5-1_s390x.deb ... 162s Unpacking r-cran-vctrs (0.6.5-1) ... 162s Selecting previously unselected package r-cran-pillar. 162s Preparing to unpack .../117-r-cran-pillar_1.9.0+dfsg-1_all.deb ... 162s Unpacking r-cran-pillar (1.9.0+dfsg-1) ... 162s Selecting previously unselected package r-cran-pkgconfig. 162s Preparing to unpack .../118-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 162s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 162s Selecting previously unselected package r-cran-tibble. 162s Preparing to unpack .../119-r-cran-tibble_3.2.1+dfsg-2_s390x.deb ... 162s Unpacking r-cran-tibble (3.2.1+dfsg-2) ... 162s Selecting previously unselected package r-cran-withr. 162s Preparing to unpack .../120-r-cran-withr_2.5.0-1_all.deb ... 162s Unpacking r-cran-withr (2.5.0-1) ... 162s Selecting previously unselected package r-cran-ggplot2. 162s Preparing to unpack .../121-r-cran-ggplot2_3.4.4+dfsg-1_all.deb ... 162s Unpacking r-cran-ggplot2 (3.4.4+dfsg-1) ... 163s Selecting previously unselected package r-cran-zoo. 163s Preparing to unpack .../122-r-cran-zoo_1.8-12-2_s390x.deb ... 163s Unpacking r-cran-zoo (1.8-12-2) ... 163s Selecting previously unselected package r-cran-lmtest. 163s Preparing to unpack .../123-r-cran-lmtest_0.9.40-1_s390x.deb ... 163s Unpacking r-cran-lmtest (0.9.40-1) ... 163s Selecting previously unselected package r-cran-nnet. 163s Preparing to unpack .../124-r-cran-nnet_7.3-19-2_s390x.deb ... 163s Unpacking r-cran-nnet (7.3-19-2) ... 163s Selecting previously unselected package r-cran-pkgkitten. 163s Preparing to unpack .../125-r-cran-pkgkitten_0.2.3-1_all.deb ... 163s Unpacking r-cran-pkgkitten (0.2.3-1) ... 163s Selecting previously unselected package r-cran-rcpp. 163s Preparing to unpack .../126-r-cran-rcpp_1.0.12-1_s390x.deb ... 163s Unpacking r-cran-rcpp (1.0.12-1) ... 163s Selecting previously unselected package r-cran-timedate. 163s Preparing to unpack .../127-r-cran-timedate_4032.109-1_s390x.deb ... 163s Unpacking r-cran-timedate (4032.109-1) ... 163s Selecting previously unselected package r-cran-quadprog. 163s Preparing to unpack .../128-r-cran-quadprog_1.5-8-1build1_s390x.deb ... 163s Unpacking r-cran-quadprog (1.5-8-1build1) ... 163s Selecting previously unselected package r-cran-xts. 163s Preparing to unpack .../129-r-cran-xts_0.13.2-1_s390x.deb ... 163s Unpacking r-cran-xts (0.13.2-1) ... 163s Selecting previously unselected package r-cran-curl. 163s Preparing to unpack .../130-r-cran-curl_5.2.0+dfsg-1_s390x.deb ... 163s Unpacking r-cran-curl (5.2.0+dfsg-1) ... 163s Selecting previously unselected package r-cran-ttr. 163s Preparing to unpack .../131-r-cran-ttr_0.24.4-1_s390x.deb ... 163s Unpacking r-cran-ttr (0.24.4-1) ... 163s Selecting previously unselected package r-cran-jsonlite. 163s Preparing to unpack .../132-r-cran-jsonlite_1.8.8+dfsg-1_s390x.deb ... 163s Unpacking r-cran-jsonlite (1.8.8+dfsg-1) ... 163s Selecting previously unselected package r-cran-quantmod. 163s Preparing to unpack .../133-r-cran-quantmod_0.4.26-1_all.deb ... 163s Unpacking r-cran-quantmod (0.4.26-1) ... 163s Selecting previously unselected package r-cran-tseries. 163s Preparing to unpack .../134-r-cran-tseries_0.10-55-1_s390x.deb ... 163s Unpacking r-cran-tseries (0.10-55-1) ... 163s Selecting previously unselected package r-cran-urca. 163s Preparing to unpack .../135-r-cran-urca_1.3-3-1_s390x.deb ... 163s Unpacking r-cran-urca (1.3-3-1) ... 163s Selecting previously unselected package r-cran-rcpparmadillo. 163s Preparing to unpack .../136-r-cran-rcpparmadillo_0.12.8.0.0-1_s390x.deb ... 163s Unpacking r-cran-rcpparmadillo (0.12.8.0.0-1) ... 163s Selecting previously unselected package r-cran-forecast. 163s Preparing to unpack .../137-r-cran-forecast_8.21.1-1_s390x.deb ... 163s Unpacking r-cran-forecast (8.21.1-1) ... 163s Selecting previously unselected package r-bioc-biocgenerics. 163s Preparing to unpack .../138-r-bioc-biocgenerics_0.48.1-2_all.deb ... 163s Unpacking r-bioc-biocgenerics (0.48.1-2) ... 163s Selecting previously unselected package r-bioc-biobase. 163s Preparing to unpack .../139-r-bioc-biobase_2.62.0-1_s390x.deb ... 163s Unpacking r-bioc-biobase (2.62.0-1) ... 163s Selecting previously unselected package r-cran-survival. 163s Preparing to unpack .../140-r-cran-survival_3.5-8-1_s390x.deb ... 163s Unpacking r-cran-survival (3.5-8-1) ... 163s Selecting previously unselected package r-bioc-multtest. 163s Preparing to unpack .../141-r-bioc-multtest_2.58.0-1_s390x.deb ... 163s Unpacking r-bioc-multtest (2.58.0-1) ... 163s Selecting previously unselected package r-cran-optparse. 163s Preparing to unpack .../142-r-cran-optparse_1.7.4-1_all.deb ... 163s Unpacking r-cran-optparse (1.7.4-1) ... 163s Selecting previously unselected package r-cran-uroot. 163s Preparing to unpack .../143-r-cran-uroot_2.1-3-1_all.deb ... 163s Unpacking r-cran-uroot (2.1-3-1) ... 163s Selecting previously unselected package pique. 163s Preparing to unpack .../144-pique_1.0-7_all.deb ... 163s Unpacking pique (1.0-7) ... 163s Selecting previously unselected package pique-doc. 163s Preparing to unpack .../145-pique-doc_1.0-7_all.deb ... 163s Unpacking pique-doc (1.0-7) ... 163s Selecting previously unselected package r-cran-acepack. 163s Preparing to unpack .../146-r-cran-acepack_1.4.2-1_s390x.deb ... 163s Unpacking r-cran-acepack (1.4.2-1) ... 163s Selecting previously unselected package r-cran-backports. 163s Preparing to unpack .../147-r-cran-backports_1.4.1-1_s390x.deb ... 163s Unpacking r-cran-backports (1.4.1-1) ... 163s Selecting previously unselected package r-cran-base64enc. 163s Preparing to unpack .../148-r-cran-base64enc_0.1-3-3_s390x.deb ... 163s Unpacking r-cran-base64enc (0.1-3-3) ... 163s Selecting previously unselected package r-cran-fastmap. 163s Preparing to unpack .../149-r-cran-fastmap_1.1.1-1_s390x.deb ... 163s Unpacking r-cran-fastmap (1.1.1-1) ... 163s Selecting previously unselected package r-cran-cachem. 163s Preparing to unpack .../150-r-cran-cachem_1.0.8-1_s390x.deb ... 163s Unpacking r-cran-cachem (1.0.8-1) ... 163s Selecting previously unselected package r-cran-digest. 163s Preparing to unpack .../151-r-cran-digest_0.6.34-1_s390x.deb ... 163s Unpacking r-cran-digest (0.6.34-1) ... 163s Selecting previously unselected package r-cran-ellipsis. 163s Preparing to unpack .../152-r-cran-ellipsis_0.3.2-2_s390x.deb ... 163s Unpacking r-cran-ellipsis (0.3.2-2) ... 163s Selecting previously unselected package r-cran-htmltools. 163s Preparing to unpack .../153-r-cran-htmltools_0.5.7-1_s390x.deb ... 163s Unpacking r-cran-htmltools (0.5.7-1) ... 163s Selecting previously unselected package r-cran-jquerylib. 163s Preparing to unpack .../154-r-cran-jquerylib_0.1.4+dfsg-4_all.deb ... 163s Unpacking r-cran-jquerylib (0.1.4+dfsg-4) ... 163s Selecting previously unselected package r-cran-memoise. 163s Preparing to unpack .../155-r-cran-memoise_2.0.1-1_all.deb ... 163s Unpacking r-cran-memoise (2.0.1-1) ... 163s Selecting previously unselected package r-cran-mime. 163s Preparing to unpack .../156-r-cran-mime_0.12-1_s390x.deb ... 163s Unpacking r-cran-mime (0.12-1) ... 164s Selecting previously unselected package r-cran-fs. 164s Preparing to unpack .../157-r-cran-fs_1.6.3+dfsg-1_s390x.deb ... 164s Unpacking r-cran-fs (1.6.3+dfsg-1) ... 164s Selecting previously unselected package r-cran-rappdirs. 164s Preparing to unpack .../158-r-cran-rappdirs_0.3.3-1_s390x.deb ... 164s Unpacking r-cran-rappdirs (0.3.3-1) ... 164s Selecting previously unselected package r-cran-sass. 164s Preparing to unpack .../159-r-cran-sass_0.4.8+dfsg-1_s390x.deb ... 164s Unpacking r-cran-sass (0.4.8+dfsg-1) ... 164s Selecting previously unselected package r-cran-bslib. 164s Preparing to unpack .../160-r-cran-bslib_0.6.1+dfsg-1_all.deb ... 164s Unpacking r-cran-bslib (0.6.1+dfsg-1) ... 164s Selecting previously unselected package r-cran-checkmate. 164s Preparing to unpack .../161-r-cran-checkmate_2.3.1-1_s390x.deb ... 164s Unpacking r-cran-checkmate (2.3.1-1) ... 164s Selecting previously unselected package r-cran-chron. 164s Preparing to unpack .../162-r-cran-chron_2.3-61-2_s390x.deb ... 164s Unpacking r-cran-chron (2.3-61-2) ... 164s Selecting previously unselected package r-cran-cluster. 164s Preparing to unpack .../163-r-cran-cluster_2.1.6-1_s390x.deb ... 164s Unpacking r-cran-cluster (2.1.6-1) ... 164s Selecting previously unselected package r-cran-commonmark. 164s Preparing to unpack .../164-r-cran-commonmark_1.9.1-1_s390x.deb ... 164s Unpacking r-cran-commonmark (1.9.1-1) ... 164s Selecting previously unselected package r-cran-cpp11. 164s Preparing to unpack .../165-r-cran-cpp11_0.4.7-1_all.deb ... 164s Unpacking r-cran-cpp11 (0.4.7-1) ... 164s Selecting previously unselected package r-cran-crayon. 164s Preparing to unpack .../166-r-cran-crayon_1.5.2-1_all.deb ... 164s Unpacking r-cran-crayon (1.5.2-1) ... 164s Selecting previously unselected package r-cran-data.table. 164s Preparing to unpack .../167-r-cran-data.table_1.14.10+dfsg-1_s390x.deb ... 164s Unpacking r-cran-data.table (1.14.10+dfsg-1) ... 164s Selecting previously unselected package r-cran-deldir. 164s Preparing to unpack .../168-r-cran-deldir_2.0-4-1_s390x.deb ... 164s Unpacking r-cran-deldir (2.0-4-1) ... 164s Selecting previously unselected package r-cran-tidyselect. 164s Preparing to unpack .../169-r-cran-tidyselect_1.2.0+dfsg-1_s390x.deb ... 164s Unpacking r-cran-tidyselect (1.2.0+dfsg-1) ... 164s Selecting previously unselected package r-cran-dplyr. 164s Preparing to unpack .../170-r-cran-dplyr_1.1.4-1_s390x.deb ... 164s Unpacking r-cran-dplyr (1.1.4-1) ... 164s Selecting previously unselected package r-cran-evaluate. 164s Preparing to unpack .../171-r-cran-evaluate_0.23-1_all.deb ... 164s Unpacking r-cran-evaluate (0.23-1) ... 164s Selecting previously unselected package r-cran-fontawesome. 164s Preparing to unpack .../172-r-cran-fontawesome_0.5.2-1_all.deb ... 164s Unpacking r-cran-fontawesome (0.5.2-1) ... 164s Selecting previously unselected package r-cran-foreign. 164s Preparing to unpack .../173-r-cran-foreign_0.8.86-1_s390x.deb ... 164s Unpacking r-cran-foreign (0.8.86-1) ... 164s Selecting previously unselected package r-cran-formula. 164s Preparing to unpack .../174-r-cran-formula_1.2-5-1_all.deb ... 164s Unpacking r-cran-formula (1.2-5-1) ... 164s Selecting previously unselected package r-cran-gridextra. 164s Preparing to unpack .../175-r-cran-gridextra_2.3-3build1_all.deb ... 164s Unpacking r-cran-gridextra (2.3-3build1) ... 164s Selecting previously unselected package r-cran-xfun. 164s Preparing to unpack .../176-r-cran-xfun_0.41+dfsg-1_s390x.deb ... 164s Unpacking r-cran-xfun (0.41+dfsg-1) ... 164s Selecting previously unselected package r-cran-highr. 164s Preparing to unpack .../177-r-cran-highr_0.10+dfsg-1_all.deb ... 164s Unpacking r-cran-highr (0.10+dfsg-1) ... 164s Selecting previously unselected package r-cran-rpart. 164s Preparing to unpack .../178-r-cran-rpart_4.1.23-1_s390x.deb ... 164s Unpacking r-cran-rpart (4.1.23-1) ... 164s Selecting previously unselected package r-cran-stringi. 164s Preparing to unpack .../179-r-cran-stringi_1.8.3-1_s390x.deb ... 164s Unpacking r-cran-stringi (1.8.3-1) ... 164s Selecting previously unselected package r-cran-stringr. 164s Preparing to unpack .../180-r-cran-stringr_1.5.1-1_all.deb ... 164s Unpacking r-cran-stringr (1.5.1-1) ... 164s Selecting previously unselected package r-cran-yaml. 164s Preparing to unpack .../181-r-cran-yaml_2.3.8-1_s390x.deb ... 164s Unpacking r-cran-yaml (2.3.8-1) ... 164s Selecting previously unselected package libjs-mathjax. 164s Preparing to unpack .../182-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 164s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 166s Selecting previously unselected package r-cran-knitr. 166s Preparing to unpack .../183-r-cran-knitr_1.45+dfsg-1_all.deb ... 166s Unpacking r-cran-knitr (1.45+dfsg-1) ... 166s Selecting previously unselected package r-cran-tinytex. 166s Preparing to unpack .../184-r-cran-tinytex_0.49-1_all.deb ... 166s Unpacking r-cran-tinytex (0.49-1) ... 166s Selecting previously unselected package libjs-modernizr. 166s Preparing to unpack .../185-libjs-modernizr_2.6.2+ds1-5_all.deb ... 166s Unpacking libjs-modernizr (2.6.2+ds1-5) ... 166s Selecting previously unselected package r-cran-later. 166s Preparing to unpack .../186-r-cran-later_1.3.2+dfsg-1_s390x.deb ... 166s Unpacking r-cran-later (1.3.2+dfsg-1) ... 166s Selecting previously unselected package r-cran-promises. 166s Preparing to unpack .../187-r-cran-promises_1.2.1+dfsg-1_s390x.deb ... 166s Unpacking r-cran-promises (1.2.1+dfsg-1) ... 166s Selecting previously unselected package r-cran-httpuv. 166s Preparing to unpack .../188-r-cran-httpuv_1.6.14+dfsg-1_s390x.deb ... 166s Unpacking r-cran-httpuv (1.6.14+dfsg-1) ... 166s Selecting previously unselected package r-cran-xtable. 166s Preparing to unpack .../189-r-cran-xtable_1%3a1.8-4-2_all.deb ... 166s Unpacking r-cran-xtable (1:1.8-4-2) ... 166s Selecting previously unselected package r-cran-sourcetools. 166s Preparing to unpack .../190-r-cran-sourcetools_0.1.7-1-1_s390x.deb ... 166s Unpacking r-cran-sourcetools (0.1.7-1-1) ... 166s Selecting previously unselected package libjs-twitter-bootstrap-datepicker. 166s Preparing to unpack .../191-libjs-twitter-bootstrap-datepicker_1.3.1+dfsg1-4.1_all.deb ... 166s Unpacking libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 166s Selecting previously unselected package r-cran-shiny. 166s Preparing to unpack .../192-r-cran-shiny_1.8.0+dfsg-1_all.deb ... 166s Unpacking r-cran-shiny (1.8.0+dfsg-1) ... 166s Selecting previously unselected package r-cran-rmarkdown. 166s Preparing to unpack .../193-r-cran-rmarkdown_2.25+dfsg-3_all.deb ... 166s Unpacking r-cran-rmarkdown (2.25+dfsg-3) ... 166s Selecting previously unselected package r-cran-htmlwidgets. 166s Preparing to unpack .../194-r-cran-htmlwidgets_1.6.4+dfsg-1_all.deb ... 166s Unpacking r-cran-htmlwidgets (1.6.4+dfsg-1) ... 166s Selecting previously unselected package r-cran-rstudioapi. 166s Preparing to unpack .../195-r-cran-rstudioapi_0.15.0-1_all.deb ... 166s Unpacking r-cran-rstudioapi (0.15.0-1) ... 166s Selecting previously unselected package r-cran-purrr. 166s Preparing to unpack .../196-r-cran-purrr_1.0.2-1_s390x.deb ... 166s Unpacking r-cran-purrr (1.0.2-1) ... 166s Selecting previously unselected package r-cran-tidyr. 166s Preparing to unpack .../197-r-cran-tidyr_1.3.1-1_s390x.deb ... 166s Unpacking r-cran-tidyr (1.3.1-1) ... 166s Selecting previously unselected package r-cran-htmltable. 166s Preparing to unpack .../198-r-cran-htmltable_2.4.2-1_all.deb ... 166s Unpacking r-cran-htmltable (2.4.2-1) ... 166s Selecting previously unselected package r-cran-viridis. 166s Preparing to unpack .../199-r-cran-viridis_0.6.5-1_all.deb ... 166s Unpacking r-cran-viridis (0.6.5-1) ... 166s Selecting previously unselected package r-cran-png. 166s Preparing to unpack .../200-r-cran-png_0.1-8-1_s390x.deb ... 166s Unpacking r-cran-png (0.1-8-1) ... 166s Selecting previously unselected package r-cran-jpeg. 166s Preparing to unpack .../201-r-cran-jpeg_0.1-10-1_s390x.deb ... 166s Unpacking r-cran-jpeg (0.1-10-1) ... 166s Selecting previously unselected package r-cran-rcppeigen. 166s Preparing to unpack .../202-r-cran-rcppeigen_0.3.3.9.4-1_s390x.deb ... 166s Unpacking r-cran-rcppeigen (0.3.3.9.4-1) ... 166s Selecting previously unselected package r-cran-interp. 166s Preparing to unpack .../203-r-cran-interp_1.1-6-1_s390x.deb ... 166s Unpacking r-cran-interp (1.1-6-1) ... 166s Selecting previously unselected package r-cran-latticeextra. 166s Preparing to unpack .../204-r-cran-latticeextra_0.6-30-1_all.deb ... 166s Unpacking r-cran-latticeextra (0.6-30-1) ... 166s Selecting previously unselected package r-cran-hmisc. 166s Preparing to unpack .../205-r-cran-hmisc_5.1-1-1_s390x.deb ... 166s Unpacking r-cran-hmisc (5.1-1-1) ... 166s Selecting previously unselected package autopkgtest-satdep. 166s Preparing to unpack .../206-2-autopkgtest-satdep.deb ... 166s Unpacking autopkgtest-satdep (0) ... 166s Setting up libjs-json (0~20221030+~1.0.8-1) ... 166s Setting up javascript-common (11+nmu1) ... 167s Setting up libgraphite2-3:s390x (1.3.14-2) ... 167s Setting up libpixman-1-0:s390x (0.42.2-1) ... 167s Setting up libsharpyuv0:s390x (1.3.2-0.4) ... 167s Setting up libpaper1:s390x (1.1.29) ... 167s 167s Creating config file /etc/papersize with new version 167s Setting up libfile-slurp-perl (9999.32-2) ... 167s Setting up fonts-mathjax (2.7.9+dfsg-1) ... 167s Setting up libjs-mathjax (2.7.9+dfsg-1) ... 167s Setting up pique-doc (1.0-7) ... 167s Setting up libxrender1:s390x (1:0.9.10-1.1) ... 167s Setting up libdynaloader-functions-perl (0.003-3) ... 167s Setting up libdatrie1:s390x (0.2.13-3) ... 167s Setting up libgslcblas0:s390x (2.7.1+dfsg-6ubuntu1) ... 167s Setting up libclass-method-modifiers-perl (2.15-1) ... 167s Setting up libjs-popper.js (1.16.1+ds-6) ... 167s Setting up libxcb-render0:s390x (1.15-1) ... 167s Setting up libjs-sifter.js (0.6.0+dfsg-3) ... 167s Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 167s Setting up unzip (6.0-28ubuntu3) ... 167s Setting up x11-common (1:7.7+23ubuntu2) ... 167s Setting up node-html5shiv (3.7.3+dfsg-5) ... 167s Setting up libdeflate0:s390x (1.19-1) ... 167s Setting up libgsl27:s390x (2.7.1+dfsg-6ubuntu1) ... 167s Setting up libjs-microplugin.js (0.0.3+dfsg-1.1) ... 167s Setting up libxcb-shm0:s390x (1.15-1) ... 167s Setting up libpaper-utils (1.1.29) ... 167s Setting up libgomp1:s390x (14-20240303-1ubuntu1) ... 167s Setting up libjs-modernizr (2.6.2+ds1-5) ... 167s Setting up libjbig0:s390x (2.1-6.1ubuntu1) ... 167s Setting up libjs-es5-shim (4.6.7-2) ... 167s Setting up libreadonly-perl (2.050-3) ... 167s Setting up zip (3.0-13) ... 167s Setting up libblas3:s390x (3.12.0-3) ... 167s 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 167s Setting up libfreetype6:s390x (2.13.2+dfsg-1) ... 167s Setting up libjs-d3 (3.5.17-4) ... 167s Setting up fonts-dejavu-mono (2.37-8) ... 167s Setting up libtcl8.6:s390x (8.6.13+dfsg-2) ... 167s Setting up libb-hooks-op-check-perl:s390x (0.22-2build2) ... 167s Setting up fonts-dejavu-core (2.37-8) ... 167s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 167s Setting up libgfortran5:s390x (14-20240303-1ubuntu1) ... 167s Setting up libwebp7:s390x (1.3.2-0.4) ... 167s Setting up plink (1.07+dfsg-4) ... 167s Setting up libjs-highlight.js (9.18.5+dfsg1-2) ... 167s Setting up librole-tiny-perl (2.002004-1) ... 167s Setting up liblua5.4-0:s390x (5.4.6-3) ... 167s Setting up libharfbuzz0b:s390x (8.3.0-2) ... 167s Setting up libthai-data (0.1.29-2) ... 167s Setting up node-bootstrap-sass (3.4.3-2) ... 167s Setting up libsub-quote-perl (2.006008-1ubuntu1) ... 167s Setting up libjs-prettify (2015.12.04+dfsg-1.1) ... 167s Setting up libclass-xsaccessor-perl (1.19-4build2) ... 167s Setting up libxss1:s390x (1:1.2.3-1build2) ... 167s Setting up libjs-bootstrap4 (4.6.1+dfsg1-4) ... 167s Setting up pandoc-data (3.1.3-1) ... 167s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 167s Setting up node-normalize.css (8.0.1-5) ... 167s Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 167s Setting up xdg-utils (1.1.3-4.1ubuntu3) ... 167s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 167s Setting up libjs-bootstrap (3.4.1+dfsg-3) ... 167s Setting up libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... 167s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 167s Setting up libice6:s390x (2:1.0.10-1build2) ... 167s Setting up liblapack3:s390x (3.12.0-3) ... 167s 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 167s Setting up fontconfig-config (2.15.0-1ubuntu1) ... 167s Setting up libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 167s Setting up libdevel-callchecker-perl:s390x (0.008-2build1) ... 167s Setting up libjs-jquery-datatables (1.11.5+dfsg-2) ... 167s Setting up libthai0:s390x (0.1.29-2) ... 167s Setting up libtmglib3:s390x (3.12.0-3) ... 167s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 167s Setting up pandoc (3.1.3+ds-2) ... 167s Setting up liblapacke:s390x (3.12.0-3) ... 167s Setting up libtiff6:s390x (4.5.1+git230720-3ubuntu1) ... 167s Setting up libfontconfig1:s390x (2.15.0-1ubuntu1) ... 167s Setting up eigensoft (8.0.0+dfsg-2) ... 167s Setting up libsm6:s390x (2:1.2.3-1build2) ... 167s Setting up fontconfig (2.15.0-1ubuntu1) ... 169s Regenerating fonts cache... done. 169s Setting up libxft2:s390x (2.3.6-1) ... 169s Setting up libtk8.6:s390x (8.6.13-2) ... 169s Setting up libparams-classify-perl:s390x (0.015-2build3) ... 169s Setting up libpango-1.0-0:s390x (1.51.0+ds-4) ... 169s Setting up libcairo2:s390x (1.18.0-1) ... 169s Setting up libmodule-runtime-perl (0.016-2) ... 169s Setting up libxt6:s390x (1:1.2.1-1.1) ... 169s Setting up emmax (0~beta.20100307-5) ... 169s Setting up libpangoft2-1.0-0:s390x (1.51.0+ds-4) ... 169s Setting up libpangocairo-1.0-0:s390x (1.51.0+ds-4) ... 169s Setting up libimport-into-perl (1.002005-2) ... 169s Setting up libmoo-perl (2.005005-1) ... 169s Setting up r-base-core (4.3.2-1build1) ... 169s 169s Creating config file /etc/R/Renviron with new version 169s Setting up r-cran-crayon (1.5.2-1) ... 169s Setting up libparallel-forkmanager-perl (2.02-1) ... 169s Setting up r-cran-labeling (0.4.3-1) ... 169s Setting up r-cran-sourcetools (0.1.7-1-1) ... 169s Setting up r-cran-lattice (0.22-5-1) ... 169s Setting up r-cran-nlme (3.1.164-1) ... 169s Setting up r-cran-farver (2.1.1-1) ... 169s Setting up r-cran-formula (1.2-5-1) ... 169s Setting up r-cran-viridislite (0.4.2-2) ... 169s Setting up r-cran-cluster (2.1.6-1) ... 169s Setting up r-cran-nnet (7.3-19-2) ... 169s Setting up r-cran-commonmark (1.9.1-1) ... 169s Setting up r-cran-r6 (2.5.1-1) ... 169s Setting up r-cran-pkgkitten (0.2.3-1) ... 169s Setting up r-cran-jpeg (0.1-10-1) ... 169s Setting up r-cran-chron (2.3-61-2) ... 170s Setting up r-cran-magrittr (2.0.3-1) ... 170s Setting up r-cran-rappdirs (0.3.3-1) ... 170s Setting up r-cran-quadprog (1.5-8-1build1) ... 170s Setting up r-cran-littler (0.3.19-1) ... 170s Setting up r-cran-fs (1.6.3+dfsg-1) ... 170s Setting up r-cran-rcpp (1.0.12-1) ... 170s Setting up r-cran-curl (5.2.0+dfsg-1) ... 170s Setting up r-bioc-biocgenerics (0.48.1-2) ... 170s Setting up r-cran-rlang (1.1.3-1) ... 170s Setting up littler (0.3.19-1) ... 170s Setting up r-cran-uroot (2.1-3-1) ... 170s Setting up r-cran-xfun (0.41+dfsg-1) ... 170s Setting up r-cran-urca (1.3-3-1) ... 170s Setting up r-cran-withr (2.5.0-1) ... 170s Setting up r-cran-backports (1.4.1-1) ... 170s Setting up r-cran-mime (0.12-1) ... 170s Setting up r-cran-generics (0.1.3-1) ... 170s Setting up r-cran-base64enc (0.1-3-3) ... 170s Setting up r-cran-digest (0.6.34-1) ... 170s Setting up r-cran-yaml (2.3.8-1) ... 170s Setting up r-cran-evaluate (0.23-1) ... 170s Setting up r-cran-timedate (4032.109-1) ... 170s Setting up r-cran-highr (0.10+dfsg-1) ... 170s Setting up r-cran-fansi (1.0.5-1) ... 170s Setting up r-cran-mass (7.3-60.0.1-1) ... 170s Setting up r-cran-checkmate (2.3.1-1) ... 170s Setting up r-cran-acepack (1.4.2-1) ... 170s Setting up r-cran-data.table (1.14.10+dfsg-1) ... 170s Setting up r-cran-glue (1.7.0-1) ... 170s Setting up r-cran-foreign (0.8.86-1) ... 170s Setting up r-cran-fracdiff (1.5-3-1) ... 170s Setting up r-cran-xtable (1:1.8-4-2) ... 170s Setting up r-cran-cli (3.6.2-1) ... 170s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ... 170s Setting up r-cran-deldir (2.0-4-1) ... 170s Setting up r-cran-fastmap (1.1.1-1) ... 170s Setting up r-cran-png (0.1-8-1) ... 170s Setting up r-bioc-biobase (2.62.0-1) ... 170s Setting up r-cran-jsonlite (1.8.8+dfsg-1) ... 170s Setting up r-cran-rstudioapi (0.15.0-1) ... 170s Setting up r-cran-pkgconfig (2.0.3-2build1) ... 170s Setting up r-cran-getopt (1.20.4-1) ... 170s Setting up r-cran-utf8 (1.2.4-1) ... 170s Setting up r-cran-colorspace (2.1-0+dfsg-1) ... 170s Setting up r-cran-stringi (1.8.3-1) ... 170s Setting up r-cran-cpp11 (0.4.7-1) ... 170s Setting up r-cran-rcolorbrewer (1.1-3-1build1) ... 170s Setting up r-cran-isoband (0.2.7-1) ... 170s Setting up r-cran-gtable (0.3.4+dfsg-1) ... 170s Setting up r-cran-zoo (1.8-12-2) ... 170s Setting up r-cran-later (1.3.2+dfsg-1) ... 170s Setting up r-cran-matrix (1.6-5-1) ... 170s Setting up r-cran-tinytex (0.49-1) ... 170s Setting up r-cran-knitr (1.45+dfsg-1) ... 170s Setting up r-cran-mgcv (1.9-1-1) ... 170s Setting up r-cran-cachem (1.0.8-1) ... 170s Setting up r-cran-lmtest (0.9.40-1) ... 170s Setting up r-cran-rcpparmadillo (0.12.8.0.0-1) ... 170s Setting up r-cran-optparse (1.7.4-1) ... 170s Setting up r-cran-vctrs (0.6.5-1) ... 170s Setting up r-cran-rcppeigen (0.3.3.9.4-1) ... 170s Setting up r-cran-pillar (1.9.0+dfsg-1) ... 170s Setting up r-cran-ellipsis (0.3.2-2) ... 170s Setting up r-cran-stringr (1.5.1-1) ... 170s Setting up r-cran-munsell (0.5.0-2build1) ... 170s Setting up r-cran-tibble (3.2.1+dfsg-2) ... 170s Setting up r-cran-survival (3.5-8-1) ... 170s Setting up r-cran-xts (0.13.2-1) ... 170s Setting up r-cran-tidyselect (1.2.0+dfsg-1) ... 170s Setting up r-cran-interp (1.1-6-1) ... 170s Setting up r-cran-gridextra (2.3-3build1) ... 170s Setting up r-cran-scales (1.3.0-1) ... 170s Setting up r-cran-memoise (2.0.1-1) ... 170s Setting up r-cran-promises (1.2.1+dfsg-1) ... 170s Setting up r-cran-purrr (1.0.2-1) ... 170s Setting up r-cran-htmltools (0.5.7-1) ... 170s Setting up 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(5.1-1-1) ... 170s Setting up autopkgtest-satdep (0) ... 170s Processing triggers for man-db (2.12.0-3) ... 170s Processing triggers for install-info (7.1-3) ... 170s Processing triggers for libc-bin (2.39-0ubuntu2) ... 177s (Reading database ... 72074 files and directories currently installed.) 177s Removing autopkgtest-satdep (0) ... 178s autopkgtest [08:45:40]: test run-unit-test: [----------------------- 178s wget --no-check-certificate http://ricediversity.org/data/sets/44kgwas/RiceDiversity.44K.MSU6.Genotypes_PLINK.zip 178s --2024-03-20 08:45:40-- http://ricediversity.org/data/sets/44kgwas/RiceDiversity.44K.MSU6.Genotypes_PLINK.zip 178s Resolving squid.internal (squid.internal)... 185.125.188.86, 185.125.188.85 178s Connecting to squid.internal (squid.internal)|185.125.188.86|:3128... connected. 179s Proxy request sent, awaiting response... 200 OK 179s Length: 7107854 (6.8M) [application/zip] 179s Saving to: ‘RiceDiversity.44K.MSU6.Genotypes_PLINK.zip’ 179s 179s 0K .......... 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__MACOSX/RiceDiversity_44K_Genotypes_PLINK/ 180s inflating: __MACOSX/RiceDiversity_44K_Genotypes_PLINK/._sativas413.fam 180s inflating: RiceDiversity_44K_Genotypes_PLINK/sativas413.map 180s 6150K .......... .......... .......... .......... .......... 89% 4.26M 0s 180s 6200K .......... .......... .......... .......... .......... 90% 2.37M 0s 180s 6250K .......... .......... .......... .......... .......... 90% 48.9M 0s 180s 6300K .......... .......... .......... .......... .......... 91% 25.4M 0s 180s 6350K .......... .......... .......... .......... .......... 92% 84.7M 0s 180s 6400K .......... .......... .......... .......... .......... 92% 51.0M 0s 180s 6450K .......... .......... .......... .......... .......... 93% 37.2M 0s 180s 6500K .......... .......... .......... .......... .......... 94% 29.4M 0s 180s 6550K .......... .......... .......... .......... .......... 95% 43.4M 0s 180s 6600K .......... .......... .......... .......... .......... 95% 92.3M 0s 180s 6650K .......... .......... .......... .......... .......... 96% 45.8M 0s 180s 6700K .......... .......... .......... .......... .......... 97% 117M 0s 180s 6750K .......... .......... .......... .......... .......... 97% 86.6M 0s 180s 6800K .......... .......... .......... .......... .......... 98% 38.3M 0s 180s 6850K .......... .......... .......... .......... .......... 99% 104M 0s 180s 6900K .......... .......... .......... .......... . 100% 77.0M=0.8s 180s 180s 2024-03-20 08:45:42 (8.73 MB/s) - ‘RiceDiversity.44K.MSU6.Genotypes_PLINK.zip’ saved [7107854/7107854] 180s 180s 180s inflating: __MACOSX/RiceDiversity_44K_Genotypes_PLINK/._sativas413.map 180s inflating: RiceDiversity_44K_Genotypes_PLINK/sativas413.ped 180s inflating: __MACOSX/RiceDiversity_44K_Genotypes_PLINK/._sativas413.ped 180s mv -i ./RiceDiversity_44K_Genotypes_PLINK/sativas* . 180s rmdir RiceDiversity_44K_Genotypes_PLINK 180s rm RiceDiversity.44K.MSU6.Genotypes_PLINK.zip 180s pique-input -d -v -i sativas413 -o sativas_GWAS -p rice_phenotype.txt -k -c -e 5 180s Pre-process input data... 180s /usr/bin/p-link --missing-genotype 0 --recode12 --file sativas413 --out sativas413_recode12 180s 180s @----------------------------------------------------------@ 180s | PLINK! | v1.07 | 10/Aug/2009 | 180s |----------------------------------------------------------| 180s | (C) 2009 Shaun Purcell, GNU General Public License, v2 | 180s |----------------------------------------------------------| 180s | For documentation, citation & bug-report instructions: | 180s | http://pngu.mgh.harvard.edu/purcell/plink/ | 180s @----------------------------------------------------------@ 180s 180s Web-based version check ( --noweb to skip ) 317s Connecting to web... failed connection 317s 317s Problem connecting to web 317s 317s Writing this text to log file [ sativas413_recode12.log ] 317s Analysis started: Wed Mar 20 08:47:59 2024 317s 317s Options in effect: 317s --missing-genotype 0 317s --recode12 317s --file sativas413 317s --out sativas413_recode12 317s 317s 36901 (of 36901) markers to be included from [ sativas413.map ] 319s Warning, found 413 individuals with ambiguous sex codes 319s Writing list of these individuals to [ sativas413_recode12.nosex ] 319s 413 individuals read from [ sativas413.ped ] 319s 0 individuals with nonmissing phenotypes 319s Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) 319s Missing phenotype value is also -9 319s 0 cases, 0 controls and 413 missing 319s 0 males, 0 females, and 413 of unspecified sex 319s Before frequency and genotyping pruning, there are 36901 SNPs 319s 413 founders and 0 non-founders found 319s Total genotyping rate in remaining individuals is 0.956644 319s 0 SNPs failed missingness test ( GENO > 1 ) 319s 0 SNPs failed frequency test ( MAF < 0 ) 319s After frequency and genotyping pruning, there are 36901 SNPs 319s After filtering, 0 cases, 0 controls and 413 missing 319s After filtering, 0 males, 0 females, and 413 of unspecified sex 319s Writing recoded ped file to [ sativas413_recode12.ped ] 320s Writing new map file to [ sativas413_recode12.map ] 320s 320s Analysis finished: Wed Mar 20 08:48:02 2024 320s 320s Store phenotype data indexed by genotype... 320s cd sativas_GWAS 320s Filter accessions for phenotype from ../sativas413_recode12... 320s Checking concurrence of id's in .ped and .pheno input files... 320s 320s Total number of accession ids in ../sativas413_recode12.ped: 413 320s Number of accession id's in ../sativas413_recode12.ped not present in rice_phenotype.txt: 35 320s '398' '399' '400' '616' '619' '621' '622' '628' '635' '636' '637' '638' '639' '640' '641' '642' '643' '644' '645' '647' '651' '652' '648' '620' '623' '624' '625' '626' '627' '630' '632' '633' '634' '629' '618' 320s Total number of accession id's in rice_phenotype.txt: 378 320s Number of accession id's in rice_phenotype.txt not present in ../sativas413_recode12.ped: 0 320s 320s Quality control sativas_GWAS... 320s 320s Calculating MAF... 320s /usr/bin/p-link --missing-genotype 0 --freq --file sativas_GWAS --out sativas_GWAS 320s 320s @----------------------------------------------------------@ 320s | PLINK! | v1.07 | 10/Aug/2009 | 320s |----------------------------------------------------------| 320s | (C) 2009 Shaun Purcell, GNU General Public License, v2 | 320s |----------------------------------------------------------| 320s | For documentation, citation & bug-report instructions: | 320s | http://pngu.mgh.harvard.edu/purcell/plink/ | 320s @----------------------------------------------------------@ 320s 320s Web-based version check ( --noweb to skip ) 455s Connecting to web... failed connection 455s 455s Problem connecting to web 455s 455s Writing this text to log file [ sativas_GWAS.log ] 455s Analysis started: Wed Mar 20 08:50:17 2024 455s 455s Options in effect: 455s --missing-genotype 0 455s --freq 455s --file sativas_GWAS 455s --out sativas_GWAS 455s 455s 36901 (of 36901) markers to be included from [ sativas_GWAS.map ] 457s Warning, found 378 individuals with ambiguous sex codes 457s These individuals will be set to missing ( or use --allow-no-sex ) 457s Writing list of these individuals to [ sativas_GWAS.nosex ] 457s 378 individuals read from [ sativas_GWAS.ped ] 457s 0 individuals with nonmissing phenotypes 457s Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) 457s Missing phenotype value is also -9 457s 0 cases, 0 controls and 378 missing 457s 0 males, 0 females, and 378 of unspecified sex 457s Before frequency and genotyping pruning, there are 36901 SNPs 457s 378 founders and 0 non-founders found 457s Writing allele frequencies (founders-only) to [ sativas_GWAS.frq ] 457s 457s Analysis finished: Wed Mar 20 08:50:19 2024 457s 457s Create sativas_GWAS.covar file... 457s /usr/lib/eigensoft/smartpca -p sativas_GWAS.par > sativas_GWAS-smartpca.log 466s Transpose sativas_GWAS... 466s /usr/bin/p-link --missing-genotype 0 --recode --transpose --file sativas_GWAS --out sativas_GWAS 466s 466s @----------------------------------------------------------@ 466s | PLINK! | v1.07 | 10/Aug/2009 | 466s |----------------------------------------------------------| 466s | (C) 2009 Shaun Purcell, GNU General Public License, v2 | 466s |----------------------------------------------------------| 466s | For documentation, citation & bug-report instructions: | 466s | http://pngu.mgh.harvard.edu/purcell/plink/ | 466s @----------------------------------------------------------@ 466s 466s Web-based version check ( --noweb to skip ) 466s Recent cached web-check found...Problem connecting to web 466s 466s Writing this text to log file [ sativas_GWAS.log ] 466s Analysis started: Wed Mar 20 08:50:28 2024 466s 466s Options in effect: 466s --missing-genotype 0 466s --recode 466s --transpose 466s --file sativas_GWAS 466s --out sativas_GWAS 466s 466s 36901 (of 36901) markers to be included from [ sativas_GWAS.map ] 468s Warning, found 378 individuals with ambiguous sex codes 468s Writing list of these individuals to [ sativas_GWAS.nosex ] 468s 378 individuals read from [ sativas_GWAS.ped ] 468s 0 individuals with nonmissing phenotypes 468s Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) 468s Missing phenotype value is also -9 468s 0 cases, 0 controls and 378 missing 468s 0 males, 0 females, and 378 of unspecified sex 468s Before frequency and genotyping pruning, there are 36901 SNPs 468s 378 founders and 0 non-founders found 468s Total genotyping rate in remaining individuals is 0.956642 468s 0 SNPs failed missingness test ( GENO > 1 ) 468s 0 SNPs failed frequency test ( MAF < 0 ) 468s After frequency and genotyping pruning, there are 36901 SNPs 468s After filtering, 0 cases, 0 controls and 378 missing 468s After filtering, 0 males, 0 females, and 378 of unspecified sex 468s Writing transposed ped file to [ sativas_GWAS.tped ] 469s Writing family information to [ sativas_GWAS.tfam ] 469s 469s Analysis finished: Wed Mar 20 08:50:31 2024 469s 469s Creating sativas_GWAS.hIBS.kin kinship file using IBS method... 469s /usr/bin/emmax-kin -v -h -s -d 10 sativas_GWAS 469s 469s Reading TFAM file sativas_GWAS.tfam .... 469s 469s Reading TPED file sativas_GWAS.tped .... 469s Reading 0 SNPs 469s Reading 1000 SNPs 470s Reading 2000 SNPs 470s Reading 3000 SNPs 470s Reading 4000 SNPs 470s Reading 5000 SNPs 470s Reading 6000 SNPs 471s Reading 7000 SNPs 471s Reading 8000 SNPs 471s Reading 9000 SNPs 471s Reading 10000 SNPs 471s Reading 11000 SNPs 471s Reading 12000 SNPs 472s Reading 13000 SNPs 472s Reading 14000 SNPs 472s Reading 15000 SNPs 472s Reading 16000 SNPs 472s Reading 17000 SNPs 473s Reading 18000 SNPs 473s Reading 19000 SNPs 473s Reading 20000 SNPs 473s Reading 21000 SNPs 473s Reading 22000 SNPs 474s Reading 23000 SNPs 474s Reading 24000 SNPs 474s Reading 25000 SNPs 474s Reading 26000 SNPs 475s Reading 27000 SNPs 475s Reading 28000 SNPs 475s Reading 29000 SNPs 475s Reading 30000 SNPs 475s Reading 31000 SNPs 476s Reading 32000 SNPs 476s Reading 33000 SNPs 476s Reading 34000 SNPs 476s Reading 35000 SNPs 476s Reading 36000 SNPs 476s Printing the kinship matrix to file 477s Creating phenotype files in sub-directory sativas_GWAS... 477s 477s cd .. 477s removing temp files... 477s pique-run -d -v -i sativas_GWAS -k IBS -c sativas_GWAS.covar -n 16 477s Warning can't run 16 threads on this system - default to max = 1 threads 477s cd sativas_GWAS 477s cd F_As_TF 477s processing phenotype F_As_TF... 477s 477s nice emmax -d 10 -t ../sativas_GWAS -p F_As_TF.pheno -k ../sativas_GWAS.hIBS.kinf -o F_As_TF_sativas_GWAS -c ../sativas_GWAS.covar 477s nmiss = 75 , mphenoflag = 1 477s evals[0] = -0.000000, evals[1] = 0.000000, evals[n-1] = 2.455247 477s k = 297, n-q = 297 483s 483s number of SNP ids in F_As_TF_sativas_GWAS.ps for 'F_As_TF' phenotype: 36901 483s number of SNP ids in F_As_TF_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_As_TF' phenotype: 0 483s 483s number of SNP ids in sativas_GWAS.tped: 36901 483s number of SNP ids in sativas_GWAS.tped not present in F_As_TF_sativas_GWAS.ps: 0 483s 484s Error in file(filename, "r", encoding = encoding) : 484s cannot open the connection 484s Calls: source -> file 484s In addition: Warning message: 484s In file(filename, "r", encoding = encoding) : 484s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 484s Execution halted 484s cd .. 484s cd A_Seed_length 484s processing phenotype A_Seed_length... 484s 484s nice emmax -d 10 -t ../sativas_GWAS -p A_Seed_length.pheno -k ../sativas_GWAS.hIBS.kinf -o A_Seed_length_sativas_GWAS -c ../sativas_GWAS.covar 484s nmiss = 20 , mphenoflag = 1 484s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.577637 484s k = 352, n-q = 352 493s 493s number of SNP ids in A_Seed_length_sativas_GWAS.ps for 'A_Seed_length' phenotype: 36901 493s number of SNP ids in A_Seed_length_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_Seed_length' phenotype: 0 493s 493s number of SNP ids in sativas_GWAS.tped: 36901 493s number of SNP ids in sativas_GWAS.tped not present in A_Seed_length_sativas_GWAS.ps: 0 493s 493s Error in file(filename, "r", encoding = encoding) : 493s cannot open the connection 493s Calls: source -> file 493s In addition: Warning message: 493s In file(filename, "r", encoding = encoding) : 493s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 493s Execution halted 493s cd .. 493s cd India_grain_As 493s processing phenotype India_grain_As... 493s 493s nice emmax -d 10 -t ../sativas_GWAS -p India_grain_As.pheno -k ../sativas_GWAS.hIBS.kinf -o India_grain_As_sativas_GWAS -c ../sativas_GWAS.covar 493s nmiss = 280 , mphenoflag = 1 493s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.487105 493s k = 92, n-q = 92 495s 495s number of SNP ids in India_grain_As_sativas_GWAS.ps for 'India_grain_As' phenotype: 36901 495s number of SNP ids in India_grain_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'India_grain_As' phenotype: 0 495s 495s number of SNP ids in sativas_GWAS.tped: 36901 495s number of SNP ids in sativas_GWAS.tped not present in India_grain_As_sativas_GWAS.ps: 0 495s 495s Error in file(filename, "r", encoding = encoding) : 495s cannot open the connection 495s Calls: source -> file 495s In addition: Warning message: 495s In file(filename, "r", encoding = encoding) : 495s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 495s Execution halted 495s cd .. 495s cd H_Shoot_length_27 495s processing phenotype H_Shoot_length_27... 495s 495s nice emmax -d 10 -t ../sativas_GWAS -p H_Shoot_length_27.pheno -k ../sativas_GWAS.hIBS.kinf -o H_Shoot_length_27_sativas_GWAS -c ../sativas_GWAS.covar 495s nmiss = 260 , mphenoflag = 1 495s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 495s k = 112, n-q = 112 496s 496s number of SNP ids in H_Shoot_length_27_sativas_GWAS.ps for 'H_Shoot_length_27' phenotype: 36901 496s number of SNP ids in H_Shoot_length_27_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_Shoot_length_27' phenotype: 0 496s 496s number of SNP ids in sativas_GWAS.tped: 36901 496s number of SNP ids in sativas_GWAS.tped not present in H_Shoot_length_27_sativas_GWAS.ps: 0 496s 497s Error in file(filename, "r", encoding = encoding) : 497s cannot open the connection 497s Calls: source -> file 497s In addition: Warning message: 497s In file(filename, "r", encoding = encoding) : 497s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 497s Execution halted 497s cd .. 497s cd Q_grain_Co 497s processing phenotype Q_grain_Co... 497s 497s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_Co.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_Co_sativas_GWAS -c ../sativas_GWAS.covar 497s nmiss = 90 , mphenoflag = 1 497s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 497s k = 282, n-q = 282 503s 503s number of SNP ids in Q_grain_Co_sativas_GWAS.ps for 'Q_grain_Co' phenotype: 36901 503s number of SNP ids in Q_grain_Co_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_Co' phenotype: 0 503s 503s number of SNP ids in sativas_GWAS.tped: 36901 503s number of SNP ids in sativas_GWAS.tped not present in Q_grain_Co_sativas_GWAS.ps: 0 503s 503s Error in file(filename, "r", encoding = encoding) : 503s cannot open the connection 503s Calls: source -> file 503s In addition: Warning message: 503s In file(filename, "r", encoding = encoding) : 503s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 503s Execution halted 503s cd .. 503s cd A_grain_yield 503s processing phenotype A_grain_yield... 503s 503s nice emmax -d 10 -t ../sativas_GWAS -p A_grain_yield.pheno -k ../sativas_GWAS.hIBS.kinf -o A_grain_yield_sativas_GWAS -c ../sativas_GWAS.covar 503s nmiss = 49 , mphenoflag = 1 503s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.520537 503s k = 323, n-q = 323 511s 511s number of SNP ids in A_grain_yield_sativas_GWAS.ps for 'A_grain_yield' phenotype: 36901 511s number of SNP ids in A_grain_yield_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_grain_yield' phenotype: 0 511s 511s number of SNP ids in sativas_GWAS.tped: 36901 511s number of SNP ids in sativas_GWAS.tped not present in A_grain_yield_sativas_GWAS.ps: 0 511s 511s Error in file(filename, "r", encoding = encoding) : 511s cannot open the connection 511s Calls: source -> file 511s In addition: Warning message: 511s In file(filename, "r", encoding = encoding) : 511s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 511s Execution halted 511s cd .. 511s cd F_grain_Mo 511s processing phenotype F_grain_Mo... 511s 511s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_Mo.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_Mo_sativas_GWAS -c ../sativas_GWAS.covar 511s nmiss = 73 , mphenoflag = 1 511s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.476843 511s k = 299, n-q = 299 518s 518s number of SNP ids in F_grain_Mo_sativas_GWAS.ps for 'F_grain_Mo' phenotype: 36901 518s number of SNP ids in F_grain_Mo_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_Mo' phenotype: 0 518s 518s number of SNP ids in sativas_GWAS.tped: 36901 518s number of SNP ids in sativas_GWAS.tped not present in F_grain_Mo_sativas_GWAS.ps: 0 518s 518s Error in file(filename, "r", encoding = encoding) : 518s cannot open the connection 518s Calls: source -> file 518s In addition: Warning message: 518s In file(filename, "r", encoding = encoding) : 518s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 518s Execution halted 518s cd .. 518s cd H_R_S 518s processing phenotype H_R_S... 518s 518s nice emmax -d 10 -t ../sativas_GWAS -p H_R_S.pheno -k ../sativas_GWAS.hIBS.kinf -o H_R_S_sativas_GWAS -c ../sativas_GWAS.covar 518s nmiss = 260 , mphenoflag = 1 518s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 518s k = 112, n-q = 112 520s 520s number of SNP ids in H_R_S_sativas_GWAS.ps for 'H_R_S' phenotype: 36901 520s number of SNP ids in H_R_S_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_R_S' phenotype: 0 520s 520s number of SNP ids in sativas_GWAS.tped: 36901 520s number of SNP ids in sativas_GWAS.tped not present in H_R_S_sativas_GWAS.ps: 0 520s 520s Error in file(filename, "r", encoding = encoding) : 520s cannot open the connection 520s Calls: source -> file 520s In addition: Warning message: 520s In file(filename, "r", encoding = encoding) : 520s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 520s Execution halted 520s cd .. 520s cd HULLED_SEED_LENGTH 520s processing phenotype HULLED_SEED_LENGTH... 520s 520s nice emmax -d 10 -t ../sativas_GWAS -p HULLED_SEED_LENGTH.pheno -k ../sativas_GWAS.hIBS.kinf -o HULLED_SEED_LENGTH_sativas_GWAS -c ../sativas_GWAS.covar 520s nmiss = 34 , mphenoflag = 1 520s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.481982 520s k = 338, n-q = 338 528s 528s number of SNP ids in HULLED_SEED_LENGTH_sativas_GWAS.ps for 'HULLED_SEED_LENGTH' phenotype: 36901 528s number of SNP ids in HULLED_SEED_LENGTH_sativas_GWAS.ps not present in sativas_GWAS.tped for 'HULLED_SEED_LENGTH' phenotype: 0 528s 528s number of SNP ids in sativas_GWAS.tped: 36901 528s number of SNP ids in sativas_GWAS.tped not present in HULLED_SEED_LENGTH_sativas_GWAS.ps: 0 528s 528s Error in file(filename, "r", encoding = encoding) : 528s cannot open the connection 528s Calls: source -> file 528s In addition: Warning message: 528s In file(filename, "r", encoding = encoding) : 528s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 528s Execution halted 528s cd .. 528s cd Q_grain_Zn 528s processing phenotype Q_grain_Zn... 528s 528s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_Zn.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_Zn_sativas_GWAS -c ../sativas_GWAS.covar 528s nmiss = 90 , mphenoflag = 1 528s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 528s k = 282, n-q = 282 534s 534s number of SNP ids in Q_grain_Zn_sativas_GWAS.ps for 'Q_grain_Zn' phenotype: 36901 534s number of SNP ids in Q_grain_Zn_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_Zn' phenotype: 0 534s 534s number of SNP ids in sativas_GWAS.tped: 36901 534s number of SNP ids in sativas_GWAS.tped not present in Q_grain_Zn_sativas_GWAS.ps: 0 534s 535s Error in file(filename, "r", encoding = encoding) : 535s cannot open the connection 535s Calls: source -> file 535s In addition: Warning message: 535s In file(filename, "r", encoding = encoding) : 535s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 535s Execution halted 535s cd .. 535s cd A_FT 535s processing phenotype A_FT... 535s 535s nice emmax -d 10 -t ../sativas_GWAS -p A_FT.pheno -k ../sativas_GWAS.hIBS.kinf -o A_FT_sativas_GWAS -c ../sativas_GWAS.covar 535s nmiss = 19 , mphenoflag = 1 535s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.578644 535s k = 353, n-q = 353 544s 544s number of SNP ids in A_FT_sativas_GWAS.ps for 'A_FT' phenotype: 36901 544s number of SNP ids in A_FT_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_FT' phenotype: 0 544s 544s number of SNP ids in sativas_GWAS.tped: 36901 544s number of SNP ids in sativas_GWAS.tped not present in A_FT_sativas_GWAS.ps: 0 544s 544s Error in file(filename, "r", encoding = encoding) : 544s cannot open the connection 544s Calls: source -> file 544s In addition: Warning message: 544s In file(filename, "r", encoding = encoding) : 544s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 544s Execution halted 544s cd .. 544s cd F_grain_Zn 544s processing phenotype F_grain_Zn... 544s 544s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_Zn.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_Zn_sativas_GWAS -c ../sativas_GWAS.covar 544s nmiss = 73 , mphenoflag = 1 544s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.476843 544s k = 299, n-q = 299 551s 551s number of SNP ids in F_grain_Zn_sativas_GWAS.ps for 'F_grain_Zn' phenotype: 36901 551s number of SNP ids in F_grain_Zn_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_Zn' phenotype: 0 551s 551s number of SNP ids in sativas_GWAS.tped: 36901 551s number of SNP ids in sativas_GWAS.tped not present in F_grain_Zn_sativas_GWAS.ps: 0 551s 551s Error in file(filename, "r", encoding = encoding) : 551s cannot open the connection 551s Calls: source -> file 551s In addition: Warning message: 551s In file(filename, "r", encoding = encoding) : 551s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 551s Execution halted 551s cd .. 551s cd Amylose_Content 551s processing phenotype Amylose_Content... 551s 551s nice emmax -d 10 -t ../sativas_GWAS -p Amylose_Content.pheno -k ../sativas_GWAS.hIBS.kinf -o Amylose_Content_sativas_GWAS -c ../sativas_GWAS.covar 551s nmiss = 50 , mphenoflag = 1 551s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.447865 551s k = 322, n-q = 322 558s 558s number of SNP ids in Amylose_Content_sativas_GWAS.ps for 'Amylose_Content' phenotype: 36901 558s number of SNP ids in Amylose_Content_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Amylose_Content' phenotype: 0 558s 558s number of SNP ids in sativas_GWAS.tped: 36901 558s number of SNP ids in sativas_GWAS.tped not present in Amylose_Content_sativas_GWAS.ps: 0 558s 559s Error in file(filename, "r", encoding = encoding) : 559s cannot open the connection 559s Calls: source -> file 559s In addition: Warning message: 559s In file(filename, "r", encoding = encoding) : 559s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 559s Execution halted 559s cd .. 559s cd H_Root_Length_27 559s processing phenotype H_Root_Length_27... 559s 559s nice emmax -d 10 -t ../sativas_GWAS -p H_Root_Length_27.pheno -k ../sativas_GWAS.hIBS.kinf -o H_Root_Length_27_sativas_GWAS -c ../sativas_GWAS.covar 559s nmiss = 260 , mphenoflag = 1 559s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 559s k = 112, n-q = 112 561s 561s number of SNP ids in H_Root_Length_27_sativas_GWAS.ps for 'H_Root_Length_27' phenotype: 36901 561s number of SNP ids in H_Root_Length_27_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_Root_Length_27' phenotype: 0 561s 561s number of SNP ids in sativas_GWAS.tped: 36901 561s number of SNP ids in sativas_GWAS.tped not present in H_Root_Length_27_sativas_GWAS.ps: 0 561s 561s Error in file(filename, "r", encoding = encoding) : 561s cannot open the connection 561s Calls: source -> file 561s In addition: Warning message: 561s cd .. 561s cd F_grain_yield 561s processing phenotype F_grain_yield... 561s 561s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_yield.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_yield_sativas_GWAS -c ../sativas_GWAS.covar 561s In file(filename, "r", encoding = encoding) : 561s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 561s Execution halted 561s nmiss = 73 , mphenoflag = 1 561s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.476843 561s k = 299, n-q = 299 567s 567s number of SNP ids in F_grain_yield_sativas_GWAS.ps for 'F_grain_yield' phenotype: 36901 567s number of SNP ids in F_grain_yield_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_yield' phenotype: 0 567s 567s number of SNP ids in sativas_GWAS.tped: 36901 567s number of SNP ids in sativas_GWAS.tped not present in F_grain_yield_sativas_GWAS.ps: 0 567s 568s Error in file(filename, "r", encoding = encoding) : 568s cannot open the connection 568s Calls: source -> file 568s In addition: Warning message: 568s In file(filename, "r", encoding = encoding) : 568s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 568s Execution halted 568s cd .. 568s cd Q_shoot_mass 568s processing phenotype Q_shoot_mass... 568s 568s nice emmax -d 10 -t ../sativas_GWAS -p Q_shoot_mass.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_shoot_mass_sativas_GWAS -c ../sativas_GWAS.covar 568s nmiss = 87 , mphenoflag = 1 568s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.413538 568s k = 285, n-q = 285 574s 574s number of SNP ids in Q_shoot_mass_sativas_GWAS.ps for 'Q_shoot_mass' phenotype: 36901 574s number of SNP ids in Q_shoot_mass_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_shoot_mass' phenotype: 0 574s 574s number of SNP ids in sativas_GWAS.tped: 36901 574s number of SNP ids in sativas_GWAS.tped not present in Q_shoot_mass_sativas_GWAS.ps: 0 574s 574s Error in file(filename, "r", encoding = encoding) : 574s cannot open the connection 574s Calls: source -> file 574s In addition: Warning message: 574s In file(filename, "r", encoding = encoding) : 574s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 574s Execution halted 574s cd .. 574s cd F_FT 574s processing phenotype F_FT... 574s 574s nice emmax -d 10 -t ../sativas_GWAS -p F_FT.pheno -k ../sativas_GWAS.hIBS.kinf -o F_FT_sativas_GWAS -c ../sativas_GWAS.covar 574s nmiss = 73 , mphenoflag = 1 574s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.476843 574s k = 299, n-q = 299 581s 581s number of SNP ids in F_FT_sativas_GWAS.ps for 'F_FT' phenotype: 36901 581s number of SNP ids in F_FT_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_FT' phenotype: 0 581s 581s number of SNP ids in sativas_GWAS.tped: 36901 581s number of SNP ids in sativas_GWAS.tped not present in F_FT_sativas_GWAS.ps: 0 581s 581s Error in file(filename, "r", encoding = encoding) : 581s cannot open the connection 581s Calls: source -> file 581s In addition: Warning message: 581s In file(filename, "r", encoding = encoding) : 581s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 581s Execution halted 581s cd .. 581s cd H_Root_dry_weight 581s processing phenotype H_Root_dry_weight... 581s 581s nice emmax -d 10 -t ../sativas_GWAS -p H_Root_dry_weight.pheno -k ../sativas_GWAS.hIBS.kinf -o H_Root_dry_weight_sativas_GWAS -c ../sativas_GWAS.covar 581s nmiss = 260 , mphenoflag = 1 581s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 581s k = 112, n-q = 112 583s 583s number of SNP ids in H_Root_dry_weight_sativas_GWAS.ps for 'H_Root_dry_weight' phenotype: 36901 583s number of SNP ids in H_Root_dry_weight_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_Root_dry_weight' phenotype: 0 583s 583s number of SNP ids in sativas_GWAS.tped: 36901 583s number of SNP ids in sativas_GWAS.tped not present in H_Root_dry_weight_sativas_GWAS.ps: 0 583s 583s Error in file(filename, "r", encoding = encoding) : 583s cannot open the connection 583s Calls: source -> file 583s In addition: Warning message: 583s In file(filename, "r", encoding = encoding) : 583s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 583s Execution halted 583s cd .. 583s cd Q_grain_As 583s processing phenotype Q_grain_As... 583s 583s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_As.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_As_sativas_GWAS -c ../sativas_GWAS.covar 583s nmiss = 90 , mphenoflag = 1 583s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 583s k = 282, n-q = 282 589s 589s number of SNP ids in Q_grain_As_sativas_GWAS.ps for 'Q_grain_As' phenotype: 36901 589s number of SNP ids in Q_grain_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_As' phenotype: 0 589s 589s number of SNP ids in sativas_GWAS.tped: 36901 589s number of SNP ids in sativas_GWAS.tped not present in Q_grain_As_sativas_GWAS.ps: 0 589s 589s Error in file(filename, "r", encoding = encoding) : 589s cannot open the connection 589s Calls: source -> file 589s In addition: Warning message: 589s In file(filename, "r", encoding = encoding) : 589s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 589s Execution halted 589s cd .. 589s cd Q_FT 589s processing phenotype Q_FT... 589s 589s nice emmax -d 10 -t ../sativas_GWAS -p Q_FT.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_FT_sativas_GWAS -c ../sativas_GWAS.covar 589s nmiss = 85 , mphenoflag = 1 590s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.399886 590s k = 287, n-q = 287 596s 596s number of SNP ids in Q_FT_sativas_GWAS.ps for 'Q_FT' phenotype: 36901 596s number of SNP ids in Q_FT_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_FT' phenotype: 0 596s 596s number of SNP ids in sativas_GWAS.tped: 36901 596s number of SNP ids in sativas_GWAS.tped not present in Q_FT_sativas_GWAS.ps: 0 596s 596s Error in file(filename, "r", encoding = encoding) : 596s cannot open the connection 596s Calls: source -> file 596s In addition: Warning message: 596s In file(filename, "r", encoding = encoding) : 596s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 596s Execution halted 596s cd .. 596s cd A_Stem_thickness 596s processing phenotype A_Stem_thickness... 596s 596s nice emmax -d 10 -t ../sativas_GWAS -p A_Stem_thickness.pheno -k ../sativas_GWAS.hIBS.kinf -o A_Stem_thickness_sativas_GWAS -c ../sativas_GWAS.covar 596s nmiss = 49 , mphenoflag = 1 596s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.474006 596s k = 323, n-q = 323 604s 604s number of SNP ids in A_Stem_thickness_sativas_GWAS.ps for 'A_Stem_thickness' phenotype: 36901 604s number of SNP ids in A_Stem_thickness_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_Stem_thickness' phenotype: 0 604s 604s number of SNP ids in sativas_GWAS.tped: 36901 604s number of SNP ids in sativas_GWAS.tped not present in A_Stem_thickness_sativas_GWAS.ps: 0 604s 604s Error in file(filename, "r", encoding = encoding) : 604s cannot open the connection 604s Calls: source -> file 604s In addition: Warning message: 604s In file(filename, "r", encoding = encoding) : 604s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 604s Execution halted 604s cd .. 604s cd Q_grain_yield 604s processing phenotype Q_grain_yield... 604s 604s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_yield.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_yield_sativas_GWAS -c ../sativas_GWAS.covar 604s nmiss = 91 , mphenoflag = 1 604s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.399146 604s k = 281, n-q = 281 610s 610s number of SNP ids in Q_grain_yield_sativas_GWAS.ps for 'Q_grain_yield' phenotype: 36901 610s number of SNP ids in Q_grain_yield_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_yield' phenotype: 0 610s 610s number of SNP ids in sativas_GWAS.tped: 36901 610s number of SNP ids in sativas_GWAS.tped not present in Q_grain_yield_sativas_GWAS.ps: 0 610s 610s Error in file(filename, "r", encoding = encoding) : 610s cannot open the connection 610s Calls: source -> file 610s In addition: Warning message: 610s In file(filename, "r", encoding = encoding) : 610s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 610s Execution halted 610s cd .. 610s cd Q_grain_Cu 610s processing phenotype Q_grain_Cu... 610s 610s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_Cu.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_Cu_sativas_GWAS -c ../sativas_GWAS.covar 610s nmiss = 90 , mphenoflag = 1 610s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 610s k = 282, n-q = 282 616s 616s number of SNP ids in Q_grain_Cu_sativas_GWAS.ps for 'Q_grain_Cu' phenotype: 36901 616s number of SNP ids in Q_grain_Cu_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_Cu' phenotype: 0 616s 616s number of SNP ids in sativas_GWAS.tped: 36901 616s number of SNP ids in sativas_GWAS.tped not present in Q_grain_Cu_sativas_GWAS.ps: 0 616s 616s Error in file(filename, "r", encoding = encoding) : 616s cannot open the connection 616s Calls: source -> file 616s In addition: Warning message: 616s In file(filename, "r", encoding = encoding) : 616s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 616s Execution halted 616s cd .. 616s cd Q_grain_Mo 616s processing phenotype Q_grain_Mo... 616s 616s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_Mo.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_Mo_sativas_GWAS -c ../sativas_GWAS.covar 617s nmiss = 90 , mphenoflag = 1 617s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 617s k = 282, n-q = 282 623s 623s number of SNP ids in Q_grain_Mo_sativas_GWAS.ps for 'Q_grain_Mo' phenotype: 36901 623s number of SNP ids in Q_grain_Mo_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_Mo' phenotype: 0 623s 623s number of SNP ids in sativas_GWAS.tped: 36901 623s number of SNP ids in sativas_GWAS.tped not present in Q_grain_Mo_sativas_GWAS.ps: 0 623s 623s Error in file(filename, "r", encoding = encoding) : 623s cannot open the connection 623s Calls: source -> file 623s In addition: Warning message: 623s In file(filename, "r", encoding = encoding) : 623s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 623s Execution halted 623s cd .. 623s cd A_Seed_weight 623s processing phenotype A_Seed_weight... 623s 623s nice emmax -d 10 -t ../sativas_GWAS -p A_Seed_weight.pheno -k ../sativas_GWAS.hIBS.kinf -o A_Seed_weight_sativas_GWAS -c ../sativas_GWAS.covar 623s nmiss = 21 , mphenoflag = 1 623s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.575045 623s k = 351, n-q = 351 632s 632s number of SNP ids in A_Seed_weight_sativas_GWAS.ps for 'A_Seed_weight' phenotype: 36901 632s number of SNP ids in A_Seed_weight_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_Seed_weight' phenotype: 0 632s 632s number of SNP ids in sativas_GWAS.tped: 36901 632s number of SNP ids in sativas_GWAS.tped not present in A_Seed_weight_sativas_GWAS.ps: 0 632s 632s Error in file(filename, "r", encoding = encoding) : 632s cannot open the connection 632s Calls: source -> file 632s In addition: Warning message: 632s In file(filename, "r", encoding = encoding) : 632s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 632s Execution halted 632s cd .. 632s cd F_grain_As 632s processing phenotype F_grain_As... 632s 632s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_As.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_As_sativas_GWAS -c ../sativas_GWAS.covar 632s nmiss = 73 , mphenoflag = 1 632s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.476843 632s k = 299, n-q = 299 639s 639s number of SNP ids in F_grain_As_sativas_GWAS.ps for 'F_grain_As' phenotype: 36901 639s number of SNP ids in F_grain_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_As' phenotype: 0 639s 639s number of SNP ids in sativas_GWAS.tped: 36901 639s number of SNP ids in sativas_GWAS.tped not present in F_grain_As_sativas_GWAS.ps: 0 639s 639s Error in file(filename, "r", encoding = encoding) : 639s cannot open the connection 639s Calls: source -> file 639s In addition: Warning message: 639s In file(filename, "r", encoding = encoding) : 639s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 639s Execution halted 639s cd .. 639s cd A_PH 639s processing phenotype A_PH... 639s 639s nice emmax -d 10 -t ../sativas_GWAS -p A_PH.pheno -k ../sativas_GWAS.hIBS.kinf -o A_PH_sativas_GWAS -c ../sativas_GWAS.covar 639s nmiss = 29 , mphenoflag = 1 639s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.570052 639s k = 343, n-q = 343 647s 647s number of SNP ids in A_PH_sativas_GWAS.ps for 'A_PH' phenotype: 36901 647s number of SNP ids in A_PH_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_PH' phenotype: 0 647s 647s number of SNP ids in sativas_GWAS.tped: 36901 647s number of SNP ids in sativas_GWAS.tped not present in A_PH_sativas_GWAS.ps: 0 647s 647s Error in file(filename, "r", encoding = encoding) : 647s cannot open the connection 647s Calls: source -> file 647s In addition: Warning message: 647s In file(filename, "r", encoding = encoding) : 647s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 647s Execution halted 647s cd .. 647s cd Daniel_shoot_As 647s processing phenotype Daniel_shoot_As... 647s 647s nice emmax -d 10 -t ../sativas_GWAS -p Daniel_shoot_As.pheno -k ../sativas_GWAS.hIBS.kinf -o Daniel_shoot_As_sativas_GWAS -c ../sativas_GWAS.covar 647s nmiss = 40 , mphenoflag = 1 648s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.552770 648s k = 332, n-q = 332 655s 655s number of SNP ids in Daniel_shoot_As_sativas_GWAS.ps for 'Daniel_shoot_As' phenotype: 36901 655s number of SNP ids in Daniel_shoot_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Daniel_shoot_As' phenotype: 0 655s 655s number of SNP ids in sativas_GWAS.tped: 36901 655s number of SNP ids in sativas_GWAS.tped not present in Daniel_shoot_As_sativas_GWAS.ps: 0 655s 656s Error in file(filename, "r", encoding = encoding) : 656s cannot open the connection 656s Calls: source -> file 656s In addition: Warning message: 656s In file(filename, "r", encoding = encoding) : 656s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 656s Execution halted 656s cd .. 656s cd Q_PH 656s processing phenotype Q_PH... 656s 656s nice emmax -d 10 -t ../sativas_GWAS -p Q_PH.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_PH_sativas_GWAS -c ../sativas_GWAS.covar 656s nmiss = 87 , mphenoflag = 1 656s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.413538 656s k = 285, n-q = 285 662s 662s number of SNP ids in Q_PH_sativas_GWAS.ps for 'Q_PH' phenotype: 36901 662s number of SNP ids in Q_PH_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_PH' phenotype: 0 662s 662s number of SNP ids in sativas_GWAS.tped: 36901 662s number of SNP ids in sativas_GWAS.tped not present in Q_PH_sativas_GWAS.ps: 0 662s 662s Error in file(filename, "r", encoding = encoding) : 662s cannot open the connection 662s Calls: source -> file 662s In addition: Warning message: 662s In file(filename, "r", encoding = encoding) : 662s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 662s Execution halted 662s cd .. 662s cd F_shoot_As 662s processing phenotype F_shoot_As... 662s 662s nice emmax -d 10 -t ../sativas_GWAS -p F_shoot_As.pheno -k ../sativas_GWAS.hIBS.kinf -o F_shoot_As_sativas_GWAS -c ../sativas_GWAS.covar 662s nmiss = 73 , mphenoflag = 1 662s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.459771 662s k = 299, n-q = 299 669s 669s number of SNP ids in F_shoot_As_sativas_GWAS.ps for 'F_shoot_As' phenotype: 36901 669s number of SNP ids in F_shoot_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_shoot_As' phenotype: 0 669s 669s number of SNP ids in sativas_GWAS.tped: 36901 669s number of SNP ids in sativas_GWAS.tped not present in F_shoot_As_sativas_GWAS.ps: 0 669s 669s Error in file(filename, "r", encoding = encoding) : 669s cannot open the connection 669s Calls: source -> file 669s In addition: Warning message: 669s In file(filename, "r", encoding = encoding) : 669s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 669s Execution halted 669s cd .. 669s cd A_Tiller_no. 669s processing phenotype A_Tiller_no.... 669s 669s nice emmax -d 10 -t ../sativas_GWAS -p A_Tiller_no..pheno -k ../sativas_GWAS.hIBS.kinf -o A_Tiller_no._sativas_GWAS -c ../sativas_GWAS.covar 669s nmiss = 46 , mphenoflag = 1 669s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.524438 669s k = 326, n-q = 326 677s 677s number of SNP ids in A_Tiller_no._sativas_GWAS.ps for 'A_Tiller_no.' phenotype: 36901 677s number of SNP ids in A_Tiller_no._sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_Tiller_no.' phenotype: 0 677s 677s number of SNP ids in sativas_GWAS.tped: 36901 677s number of SNP ids in sativas_GWAS.tped not present in A_Tiller_no._sativas_GWAS.ps: 0 677s 677s Error in file(filename, "r", encoding = encoding) : 677s cannot open the connection 677s Calls: source -> file 677s In addition: Warning message: 677s In file(filename, "r", encoding = encoding) : 677s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 677s Execution halted 677s cd .. 677s cd H_Shoot_dry_weight 677s processing phenotype H_Shoot_dry_weight... 677s 677s nice emmax -d 10 -t ../sativas_GWAS -p H_Shoot_dry_weight.pheno -k ../sativas_GWAS.hIBS.kinf -o H_Shoot_dry_weight_sativas_GWAS -c ../sativas_GWAS.covar 677s nmiss = 260 , mphenoflag = 1 677s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 677s k = 112, n-q = 112 679s 679s number of SNP ids in H_Shoot_dry_weight_sativas_GWAS.ps for 'H_Shoot_dry_weight' phenotype: 36901 679s number of SNP ids in H_Shoot_dry_weight_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_Shoot_dry_weight' phenotype: 0 679s 679s number of SNP ids in sativas_GWAS.tped: 36901 679s number of SNP ids in sativas_GWAS.tped not present in H_Shoot_dry_weight_sativas_GWAS.ps: 0 679s 679s Error in file(filename, "r", encoding = encoding) : 679s cannot open the connection 679s Calls: source -> file 679s In addition: Warning message: 679s In file(filename, "r", encoding = encoding) : 679s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 679s Execution halted 679s cd .. 679s cd F_grain_Cu 679s processing phenotype F_grain_Cu... 679s 679s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_Cu.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_Cu_sativas_GWAS -c ../sativas_GWAS.covar 679s nmiss = 73 , mphenoflag = 1 679s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.476843 679s k = 299, n-q = 299 686s 686s number of SNP ids in F_grain_Cu_sativas_GWAS.ps for 'F_grain_Cu' phenotype: 36901 686s number of SNP ids in F_grain_Cu_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_Cu' phenotype: 0 686s 686s number of SNP ids in sativas_GWAS.tped: 36901 686s number of SNP ids in sativas_GWAS.tped not present in F_grain_Cu_sativas_GWAS.ps: 0 686s 686s Error in file(filename, "r", encoding = encoding) : 686s cannot open the connection 686s Calls: source -> file 686s In addition: Warning message: 686s In file(filename, "r", encoding = encoding) : 686s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 686s Execution halted 686s cd .. 686s Analysis complete 686s 686s autopkgtest [08:54:08]: test run-unit-test: -----------------------] 687s autopkgtest [08:54:09]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 687s run-unit-test PASS 687s autopkgtest [08:54:09]: @@@@@@@@@@@@@@@@@@@@ summary 687s run-unit-test PASS 700s Creating nova instance adt-noble-s390x-pique-20240320-084242-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240320.img (UUID 6569a0ff-4984-4a4c-a4d0-b93f21cb5de9)...