0s autopkgtest [03:48:10]: starting date: 2024-03-11
  0s autopkgtest [03:48:10]: git checkout: d9c0295 adt_testbed.py: supress warnings from apt using a shell pipeline
  0s autopkgtest [03:48:10]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.hk8zkxxg/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:perl,src:db5.3,src:gdbm,src:mmdebstrap --apt-upgrade roary --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=perl/5.38.2-3.2 db5.3/5.3.28+dfsg2-5 gdbm/1.23-5.1 mmdebstrap/1.4.3-6' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos03-arm64-6.secgroup --name adt-noble-arm64-roary-20240311-034810-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --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/
116s autopkgtest [03:50:06]: @@@@@@@@@@@@@@@@@@@@ test bed setup
117s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
117s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [37.3 kB]
117s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [434 kB]
118s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [2615 kB]
118s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [3976 B]
118s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [581 kB]
118s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B]
118s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [20.3 kB]
118s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B]
118s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [2990 kB]
118s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B]
118s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [39.6 kB]
118s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B]
120s Fetched 6850 kB in 2s (3780 kB/s)
120s Reading package lists...
124s Reading package lists...
126s Building dependency tree...
126s Reading state information...
127s Calculating upgrade...
127s The following packages were automatically installed and are no longer required:
127s   libgdbm-compat4t64 libperl5.38 lto-disabled-list make perl-modules-5.38
127s Use 'sudo apt autoremove' to remove them.
127s The following packages will be REMOVED:
127s   dpkg-dev libdpkg-perl libgdbm-compat4 libgdbm6 perl
127s The following NEW packages will be installed:
127s   libgdbm-compat4t64 libgdbm6t64
127s The following packages have been kept back:
127s   libperl5.38
127s The following packages will be upgraded:
127s   perl-base perl-modules-5.38
128s 2 upgraded, 2 newly installed, 5 to remove and 1 not upgraded.
128s Need to get 4928 kB of archives.
128s After this operation, 4158 kB disk space will be freed.
128s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl-base arm64 5.38.2-3.2 [1777 kB]
129s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgdbm6t64 arm64 1.23-5.1 [34.3 kB]
129s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgdbm-compat4t64 arm64 1.23-5.1 [6576 B]
129s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl-modules-5.38 all 5.38.2-3.2 [3110 kB]
134s Fetched 4928 kB in 1s (3598 kB/s)
134s (Reading database ... 
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134s Removing dpkg-dev (1.22.4ubuntu5) ...
134s Removing libdpkg-perl (1.22.4ubuntu5) ...
134s Removing perl (5.38.2-3) ...
134s (Reading database ... 
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(Reading database ... 74167 files and directories currently installed.)
134s Preparing to unpack .../perl-base_5.38.2-3.2_arm64.deb ...
134s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ...
135s Setting up perl-base (5.38.2-3.2) ...
135s dpkg: libgdbm6:arm64: dependency problems, but removing anyway as you requested:
135s  python3-gdbm:arm64 depends on libgdbm6 (>= 1.16).
135s  man-db depends on libgdbm6 (>= 1.16).
135s  libperl5.38:arm64 depends on libgdbm6 (>= 1.21).
135s  libgdbm-compat4:arm64 depends on libgdbm6 (>= 1.16).
135s 
135s (Reading database ... 
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 74167 files and directories currently installed.)
135s Removing libgdbm6:arm64 (1.23-5) ...
135s Selecting previously unselected package libgdbm6t64:arm64.
135s (Reading database ... 
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(Reading database ... 100%
(Reading database ... 74162 files and directories currently installed.)
135s Preparing to unpack .../libgdbm6t64_1.23-5.1_arm64.deb ...
135s Unpacking libgdbm6t64:arm64 (1.23-5.1) ...
135s dpkg: libgdbm-compat4:arm64: dependency problems, but removing anyway as you requested:
135s  libperl5.38:arm64 depends on libgdbm-compat4 (>= 1.18-3).
135s 
135s (Reading database ... 
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135s Removing libgdbm-compat4:arm64 (1.23-5) ...
135s Selecting previously unselected package libgdbm-compat4t64:arm64.
135s (Reading database ... 
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(Reading database ... 74163 files and directories currently installed.)
135s Preparing to unpack .../libgdbm-compat4t64_1.23-5.1_arm64.deb ...
135s Unpacking libgdbm-compat4t64:arm64 (1.23-5.1) ...
135s Preparing to unpack .../perl-modules-5.38_5.38.2-3.2_all.deb ...
135s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ...
136s Setting up libgdbm6t64:arm64 (1.23-5.1) ...
136s Setting up libgdbm-compat4t64:arm64 (1.23-5.1) ...
136s Setting up perl-modules-5.38 (5.38.2-3.2) ...
136s Processing triggers for man-db (2.12.0-3) ...
137s Processing triggers for libc-bin (2.39-0ubuntu2) ...
138s Reading package lists...
138s Building dependency tree...
138s Reading state information...
139s The following packages will be REMOVED:
139s   libgdbm-compat4t64* libperl5.38* lto-disabled-list* make* perl-modules-5.38*
139s 0 upgraded, 0 newly installed, 5 to remove and 0 not upgraded.
139s After this operation, 52.0 MB disk space will be freed.
139s (Reading database ... 
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(Reading database ... 74169 files and directories currently installed.)
139s Removing libperl5.38:arm64 (5.38.2-3) ...
139s Removing libgdbm-compat4t64:arm64 (1.23-5.1) ...
139s Removing lto-disabled-list (47) ...
139s Removing make (4.3-4.1build1) ...
139s Removing perl-modules-5.38 (5.38.2-3.2) ...
139s Processing triggers for man-db (2.12.0-3) ...
139s Processing triggers for libc-bin (2.39-0ubuntu2) ...
140s sh: Attempting to set up Debian/Ubuntu apt sources automatically
140s sh: Distribution appears to be Ubuntu
141s Reading package lists...
142s Building dependency tree...
142s Reading state information...
142s eatmydata is already the newest version (131-1).
142s dbus is already the newest version (1.14.10-4ubuntu1).
142s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
142s Reading package lists...
142s Building dependency tree...
142s Reading state information...
143s rng-tools-debian is already the newest version (2.4).
143s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
143s Reading package lists...
143s Building dependency tree...
143s Reading state information...
144s haveged is already the newest version (1.9.14-1ubuntu1).
144s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
144s Reading package lists...
144s Building dependency tree...
144s Reading state information...
145s The following additional packages will be installed:
145s   libdb5.3t64 libdpkg-perl libgdbm-compat4t64 libperl5.38t64 lto-disabled-list
145s   make perl perl-modules-5.38
145s Suggested packages:
145s   debian-keyring gcc | c-compiler git bzr make-doc perl-doc
145s   libterm-readline-gnu-perl | libterm-readline-perl-perl
145s   libtap-harness-archive-perl
145s Recommended packages:
145s   build-essential gcc | c-compiler fakeroot libalgorithm-merge-perl
145s   libfile-fcntllock-perl
145s The following packages will be REMOVED:
145s   libdb5.3
145s The following NEW packages will be installed:
145s   dpkg-dev libdb5.3t64 libdpkg-perl libgdbm-compat4t64 libperl5.38t64
145s   lto-disabled-list make perl perl-modules-5.38
145s 0 upgraded, 9 newly installed, 1 to remove and 0 not upgraded.
145s Need to get 7257 kB/10.4 MB of archives.
145s After this operation, 56.1 MB of additional disk space will be used.
145s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-5 [719 kB]
145s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libperl5.38t64 arm64 5.38.2-3.2 [4771 kB]
145s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl arm64 5.38.2-3.2 [231 kB]
145s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 libdpkg-perl all 1.22.4ubuntu5 [268 kB]
145s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 make arm64 4.3-4.1build1 [177 kB]
145s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 lto-disabled-list all 47 [12.4 kB]
145s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 dpkg-dev all 1.22.4ubuntu5 [1078 kB]
146s Fetched 7257 kB in 1s (8989 kB/s)
146s dpkg: libdb5.3:arm64: dependency problems, but removing anyway as you requested:
146s  libsasl2-modules-db:arm64 depends on libdb5.3.
146s  libpython3.12-stdlib:arm64 depends on libdb5.3.
146s  libpam-modules:arm64 depends on libdb5.3.
146s  iproute2 depends on libdb5.3.
146s  apt-utils depends on libdb5.3.
146s 
146s (Reading database ... 
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(Reading database ... 72198 files and directories currently installed.)
146s Removing libdb5.3:arm64 (5.3.28+dfsg2-4) ...
146s Selecting previously unselected package libdb5.3t64:arm64.
146s (Reading database ... 
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(Reading database ... 72192 files and directories currently installed.)
146s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-5_arm64.deb ...
146s Unpacking libdb5.3t64:arm64 (5.3.28+dfsg2-5) ...
146s Setting up libdb5.3t64:arm64 (5.3.28+dfsg2-5) ...
146s Selecting previously unselected package perl-modules-5.38.
146s (Reading database ... 
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(Reading database ... 72198 files and directories currently installed.)
146s Preparing to unpack .../0-perl-modules-5.38_5.38.2-3.2_all.deb ...
146s Unpacking perl-modules-5.38 (5.38.2-3.2) ...
146s Selecting previously unselected package libgdbm-compat4t64:arm64.
146s Preparing to unpack .../1-libgdbm-compat4t64_1.23-5.1_arm64.deb ...
146s Unpacking libgdbm-compat4t64:arm64 (1.23-5.1) ...
147s Selecting previously unselected package libperl5.38t64:arm64.
147s Preparing to unpack .../2-libperl5.38t64_5.38.2-3.2_arm64.deb ...
147s Unpacking libperl5.38t64:arm64 (5.38.2-3.2) ...
147s Selecting previously unselected package perl.
147s Preparing to unpack .../3-perl_5.38.2-3.2_arm64.deb ...
147s Unpacking perl (5.38.2-3.2) ...
147s Selecting previously unselected package libdpkg-perl.
147s Preparing to unpack .../4-libdpkg-perl_1.22.4ubuntu5_all.deb ...
147s Unpacking libdpkg-perl (1.22.4ubuntu5) ...
147s Selecting previously unselected package make.
147s Preparing to unpack .../5-make_4.3-4.1build1_arm64.deb ...
147s Unpacking make (4.3-4.1build1) ...
147s Selecting previously unselected package lto-disabled-list.
147s Preparing to unpack .../6-lto-disabled-list_47_all.deb ...
147s Unpacking lto-disabled-list (47) ...
147s Selecting previously unselected package dpkg-dev.
147s Preparing to unpack .../7-dpkg-dev_1.22.4ubuntu5_all.deb ...
147s Unpacking dpkg-dev (1.22.4ubuntu5) ...
147s Setting up lto-disabled-list (47) ...
147s Setting up libgdbm-compat4t64:arm64 (1.23-5.1) ...
147s Setting up make (4.3-4.1build1) ...
147s Setting up perl-modules-5.38 (5.38.2-3.2) ...
147s Setting up libperl5.38t64:arm64 (5.38.2-3.2) ...
147s Setting up perl (5.38.2-3.2) ...
147s Setting up libdpkg-perl (1.22.4ubuntu5) ...
147s Setting up dpkg-dev (1.22.4ubuntu5) ...
147s Processing triggers for man-db (2.12.0-3) ...
148s Processing triggers for libc-bin (2.39-0ubuntu2) ...
148s Reading package lists...
149s Building dependency tree...
149s Reading state information...
149s The following packages will be REMOVED:
149s   cloud-init* python3-configobj* python3-debconf*
150s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded.
150s After this operation, 3248 kB disk space will be freed.
150s (Reading database ... 
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 74750 files and directories currently installed.)
150s Removing cloud-init (24.1-0ubuntu1) ...
151s Removing python3-configobj (5.0.8-3) ...
151s Removing python3-debconf (1.5.86) ...
151s Processing triggers for man-db (2.12.0-3) ...
151s (Reading database ... 
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(Reading database ... 100%
(Reading database ... 74361 files and directories currently installed.)
151s Purging configuration files for cloud-init (24.1-0ubuntu1) ...
152s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed
152s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
152s Reading package lists...
152s Building dependency tree...
152s Reading state information...
153s linux-generic is already the newest version (6.8.0-11.11+1).
153s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
153s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease
154s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease
154s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease
154s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease
155s Reading package lists...
155s Reading package lists...
155s Building dependency tree...
155s Reading state information...
155s Calculating upgrade...
156s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
156s Reading package lists...
156s Building dependency tree...
156s Reading state information...
157s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
157s autopkgtest [03:50:47]: rebooting testbed after setup commands that affected boot
393s autopkgtest [03:54:43]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024
393s autopkgtest [03:54:43]: testbed dpkg architecture: arm64
395s autopkgtest [03:54:45]: @@@@@@@@@@@@@@@@@@@@ apt-source roary
397s Get:1 http://ftpmaster.internal/ubuntu noble/universe roary 3.13.0+dfsg-1 (dsc) [2501 B]
397s Get:2 http://ftpmaster.internal/ubuntu noble/universe roary 3.13.0+dfsg-1 (tar) [207 kB]
397s Get:3 http://ftpmaster.internal/ubuntu noble/universe roary 3.13.0+dfsg-1 (diff) [6612 B]
398s gpgv: Signature made Fri Nov  8 13:51:49 2019 UTC
398s gpgv:                using RSA key 5B34BA5AAB5507E903426E85E8D37AE2F09F4872
398s gpgv: Can't check signature: No public key
398s dpkg-source: warning: cannot verify inline signature for ./roary_3.13.0+dfsg-1.dsc: no acceptable signature found
398s autopkgtest [03:54:48]: testing package roary version 3.13.0+dfsg-1
398s autopkgtest [03:54:48]: build not needed
399s autopkgtest [03:54:49]: test test-installed: preparing testbed
401s Reading package lists...
401s Building dependency tree...
401s Reading state information...
401s Correcting dependencies...Starting pkgProblemResolver with broken count: 0
402s Starting 2 pkgProblemResolver with broken count: 0
402s Done
402s  Done
402s Starting pkgProblemResolver with broken count: 0
402s Starting 2 pkgProblemResolver with broken count: 0
402s Done
403s The following additional packages will be installed:
403s   bedtools bioperl cd-hit fasttree fontconfig fontconfig-config
403s   fonts-dejavu-core fonts-dejavu-mono libalgorithm-c3-perl
403s   libalgorithm-diff-perl libarray-utils-perl libb-hooks-op-check-perl
403s   libbio-perl-perl libblas3 libcairo2 libcapture-tiny-perl libclass-c3-perl
403s   libclass-data-inheritable-perl libclass-load-perl libclass-load-xs-perl
403s   libclone-perl libdata-optlist-perl libdata-stag-perl libdatrie1 libdeflate0
403s   libdevel-callchecker-perl libdevel-globaldestruction-perl
403s   libdevel-overloadinfo-perl libdevel-stacktrace-perl libdigest-md5-file-perl
403s   libdist-checkconflicts-perl libdynaloader-functions-perl
403s   libencode-locale-perl libenv-path-perl libeval-closure-perl
403s   libexception-class-perl libfile-find-rule-perl libfile-grep-perl
403s   libfile-listing-perl libfile-slurper-perl libfile-which-perl
403s   libfindbin-libs-perl libfontconfig1 libgfortran5 libgomp1 libgraph-perl
403s   libgraph-readwrite-perl libgraphite2-3 libharfbuzz0b libheap-perl
403s   libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl
403s   libhttp-cookies-perl libhttp-date-perl libhttp-message-perl
403s   libhttp-negotiate-perl libice6 libio-all-perl libio-html-perl
403s   libio-socket-ssl-perl libio-string-perl libjbig0 libjpeg-turbo8 libjpeg8
403s   liblapack3 liblerc4 liblog-log4perl-perl liblwp-mediatypes-perl
403s   liblwp-protocol-https-perl libmbedcrypto7 libmbedtls14 libmbedx509-1
403s   libmodule-implementation-perl libmodule-runtime-conflicts-perl
403s   libmodule-runtime-perl libmoose-perl libmro-compat-perl libnet-http-perl
403s   libnet-ssleay-perl libnumber-compare-perl libpackage-deprecationmanager-perl
403s   libpackage-stash-perl libpackage-stash-xs-perl libpango-1.0-0
403s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1
403s   libparams-classify-perl libparams-util-perl libparse-yapp-perl
403s   libperlio-utf8-strict-perl libpixman-1-0 libset-object-perl libsharpyuv0
403s   libsm6 libspiffy-perl libsub-exporter-perl libsub-exporter-progressive-perl
403s   libsub-install-perl libsub-uplevel-perl libtcl8.6 libtest-deep-perl
403s   libtest-differences-perl libtest-exception-perl libtest-file-perl
403s   libtest-files-perl libtest-most-perl libtest-output-perl libtest-warn-perl
403s   libtext-csv-perl libtext-diff-perl libtext-glob-perl libthai-data libthai0
403s   libtiff6 libtimedate-perl libtingea0 libtk8.6 libtry-tiny-perl liburi-perl
403s   libwebp7 libwww-perl libwww-robotrules-perl libxcb-render0 libxcb-shm0
403s   libxft2 libxml-parser-perl libxml-writer-perl libxrender1 libxss1 libxt6
403s   mafft mcl ncbi-blast+ ncbi-data parallel perl-openssl-defaults prank
403s   r-base-core r-cran-cli r-cran-colorspace r-cran-fansi r-cran-farver
403s   r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-isoband r-cran-labeling
403s   r-cran-lattice r-cran-lifecycle r-cran-magrittr r-cran-mass r-cran-matrix
403s   r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pillar r-cran-pkgconfig
403s   r-cran-r6 r-cran-rcolorbrewer r-cran-rlang r-cran-scales r-cran-tibble
403s   r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr roary unzip
403s   x11-common xdg-utils zip
403s Suggested packages:
403s   libxml-sax-expatxs-perl libdata-dump-perl libio-compress-brotli-perl
403s   libdb-file-lock-perl libfile-mimeinfo-perl libfile-readbackwards-perl
403s   libfreezethaw-perl libmldbm-perl libdbd-csv-perl
403s   liblog-dispatch-filerotate-perl librrds-perl libxml-dom-perl
403s   libcrypt-ssleay-perl libscalar-number-perl tcl8.6 tk8.6 libsub-name-perl
403s   libbusiness-isbn-perl libregexp-ipv6-perl libauthen-ntlm-perl mcl-doc csh
403s   fish ksh tcsh zsh debhelper elpa-ess r-doc-info | r-doc-pdf r-mathlib
403s   r-base-html r-cran-kernsmooth r-cran-kernlab r-cran-mvtnorm r-cran-vcd
403s   r-cran-shiny r-cran-shinyjs r-cran-dplyr r-cran-png r-cran-jpeg r-cran-knitr
403s   r-cran-rmarkdown r-cran-viridis r-cran-covr r-cran-magick r-cran-sf
403s   r-cran-bit64 r-cran-dbi r-cran-formattable r-cran-nanotime
403s   r-cran-palmerpenguins r-cran-stringi r-cran-survival r-cran-units
403s   r-cran-vdiffr r-cran-testthat r-cran-bench r-cran-blob r-cran-brio
403s   r-cran-callr r-cran-crayon r-cran-evaluate r-cran-here r-cran-hms
403s   r-cran-htmltools r-cran-pkgbuild r-cran-pkgload r-cran-purrr r-cran-tidyr
403s Recommended packages:
403s   bioperl-run perl-doc libcache-cache-perl libbio-perl-run-perl libdbi-perl
403s   libgd-gd2-perl libapache-dbi-perl libxml-simple-perl libyaml-perl
403s   libace-perl liblist-moreutils-perl libxml-twig-perl libset-scalar-perl
403s   libalgorithm-diff-xs-perl bioperl-run | libbio-perl-run-perl
403s   libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl
403s   libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl
403s   libdbd-pg-perl libgd-perl libgraphviz-perl libhtml-tableextract-perl
403s   libpostscript-perl libsoap-lite-perl libsort-naturally-perl
403s   libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl
403s   libsvg-graph-perl libxml-dom-xpath-perl libxml-sax-perl
403s   libxml-sax-writer-perl libxml-libxml-perl libclass-c3-xs-perl perl-tk
403s   libgd-gd2-perl | libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl
403s   libxml-perl libdevel-lexalias-perl libhtml-format-perl libipc-shareable-perl
403s   liblog-dispatch-perl libdevel-partialdump-perl libtext-csv-xs-perl
403s   libdata-dump-perl libhtml-form-perl libhttp-daemon-perl libmailtools-perl
403s   blast2 lynx ruby r-recommended r-base-dev r-doc-html r-cran-callr
403s   r-cran-covr r-cran-crayon r-cran-digest r-cran-htmltools r-cran-htmlwidgets
403s   r-cran-knitr r-cran-mockery r-cran-processx r-cran-ps r-cran-rmarkdown
403s   r-cran-rprojroot r-cran-rstudioapi r-cran-testthat r-cran-whoami
403s   r-cran-unitizer r-cran-dplyr r-cran-hexbin r-cran-hmisc r-cran-mapproj
403s   r-cran-maps r-cran-multcomp r-cran-profvis r-cran-quantreg r-cran-ragg
403s   r-cran-rpart r-cran-sf r-cran-svglite r-cran-vdiffr r-cran-xml2 r-cran-dbi
403s   r-cran-rsqlite r-cran-waldo r-cran-lintr r-cran-tidyverse r-cran-lubridate
403s   r-cran-fs r-cran-usethis r-cran-bit64 r-cran-dichromat r-cran-hms
403s   r-cran-stringi r-cran-data.table r-cran-mockr r-cran-formattable
403s   r-cran-generics r-cran-pkgdown r-cran-zeallot libfile-mimeinfo-perl
403s   libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils
403s The following NEW packages will be installed:
403s   bedtools bioperl cd-hit fasttree fontconfig fontconfig-config
403s   fonts-dejavu-core fonts-dejavu-mono libalgorithm-c3-perl
403s   libalgorithm-diff-perl libarray-utils-perl libb-hooks-op-check-perl
403s   libbio-perl-perl libblas3 libcairo2 libcapture-tiny-perl libclass-c3-perl
403s   libclass-data-inheritable-perl libclass-load-perl libclass-load-xs-perl
403s   libclone-perl libdata-optlist-perl libdata-stag-perl libdatrie1 libdeflate0
403s   libdevel-callchecker-perl libdevel-globaldestruction-perl
403s   libdevel-overloadinfo-perl libdevel-stacktrace-perl libdigest-md5-file-perl
403s   libdist-checkconflicts-perl libdynaloader-functions-perl
403s   libencode-locale-perl libenv-path-perl libeval-closure-perl
403s   libexception-class-perl libfile-find-rule-perl libfile-grep-perl
403s   libfile-listing-perl libfile-slurper-perl libfile-which-perl
403s   libfindbin-libs-perl libfontconfig1 libgfortran5 libgomp1 libgraph-perl
403s   libgraph-readwrite-perl libgraphite2-3 libharfbuzz0b libheap-perl
403s   libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl
403s   libhttp-cookies-perl libhttp-date-perl libhttp-message-perl
403s   libhttp-negotiate-perl libice6 libio-all-perl libio-html-perl
403s   libio-socket-ssl-perl libio-string-perl libjbig0 libjpeg-turbo8 libjpeg8
403s   liblapack3 liblerc4 liblog-log4perl-perl liblwp-mediatypes-perl
403s   liblwp-protocol-https-perl libmbedcrypto7 libmbedtls14 libmbedx509-1
403s   libmodule-implementation-perl libmodule-runtime-conflicts-perl
403s   libmodule-runtime-perl libmoose-perl libmro-compat-perl libnet-http-perl
403s   libnet-ssleay-perl libnumber-compare-perl libpackage-deprecationmanager-perl
403s   libpackage-stash-perl libpackage-stash-xs-perl libpango-1.0-0
403s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1
403s   libparams-classify-perl libparams-util-perl libparse-yapp-perl
403s   libperlio-utf8-strict-perl libpixman-1-0 libset-object-perl libsharpyuv0
403s   libsm6 libspiffy-perl libsub-exporter-perl libsub-exporter-progressive-perl
403s   libsub-install-perl libsub-uplevel-perl libtcl8.6 libtest-deep-perl
403s   libtest-differences-perl libtest-exception-perl libtest-file-perl
403s   libtest-files-perl libtest-most-perl libtest-output-perl libtest-warn-perl
403s   libtext-csv-perl libtext-diff-perl libtext-glob-perl libthai-data libthai0
403s   libtiff6 libtimedate-perl libtingea0 libtk8.6 libtry-tiny-perl liburi-perl
403s   libwebp7 libwww-perl libwww-robotrules-perl libxcb-render0 libxcb-shm0
403s   libxft2 libxml-parser-perl libxml-writer-perl libxrender1 libxss1 libxt6
403s   mafft mcl ncbi-blast+ ncbi-data parallel perl-openssl-defaults prank
403s   r-base-core r-cran-cli r-cran-colorspace r-cran-fansi r-cran-farver
403s   r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-isoband r-cran-labeling
403s   r-cran-lattice r-cran-lifecycle r-cran-magrittr r-cran-mass r-cran-matrix
403s   r-cran-mgcv r-cran-munsell r-cran-nlme r-cran-pillar r-cran-pkgconfig
403s   r-cran-r6 r-cran-rcolorbrewer r-cran-rlang r-cran-scales r-cran-tibble
403s   r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr roary unzip
403s   x11-common xdg-utils zip
403s 0 upgraded, 174 newly installed, 0 to remove and 0 not upgraded.
403s 1 not fully installed or removed.
403s Need to get 94.0 MB of archives.
403s After this operation, 234 MB of additional disk space will be used.
403s Get:1 http://ftpmaster.internal/ubuntu noble/main arm64 libio-string-perl all 1.08-4 [11.1 kB]
403s Get:2 http://ftpmaster.internal/ubuntu noble/universe arm64 libdata-stag-perl all 0.14-3 [372 kB]
404s Get:3 http://ftpmaster.internal/ubuntu noble/universe arm64 libbio-perl-perl all 1.7.8-1 [2580 kB]
404s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 libclass-data-inheritable-perl all 0.08-3 [8084 B]
404s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 libdevel-stacktrace-perl all 2.0500-1 [22.1 kB]
404s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 libexception-class-perl all 1.45-1 [28.6 kB]
404s Get:7 http://ftpmaster.internal/ubuntu noble/universe arm64 libtest-deep-perl all 1.204-1 [47.1 kB]
404s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 libcapture-tiny-perl all 0.48-2 [20.2 kB]
404s Get:9 http://ftpmaster.internal/ubuntu noble/main arm64 libalgorithm-diff-perl all 1.201-1 [41.8 kB]
404s Get:10 http://ftpmaster.internal/ubuntu noble/universe arm64 libtext-diff-perl all 1.45-2 [25.6 kB]
404s Get:11 http://ftpmaster.internal/ubuntu noble/universe arm64 libtest-differences-perl all 0.71-1 [15.8 kB]
404s Get:12 http://ftpmaster.internal/ubuntu noble/universe arm64 libsub-uplevel-perl all 0.2800-3 [11.6 kB]
404s Get:13 http://ftpmaster.internal/ubuntu noble/universe arm64 libtest-exception-perl all 0.43-3 [13.4 kB]
404s Get:14 http://ftpmaster.internal/ubuntu noble/universe arm64 libtest-warn-perl all 0.37-2 [12.6 kB]
404s Get:15 http://ftpmaster.internal/ubuntu noble/universe arm64 libtest-most-perl all 0.38-1 [21.5 kB]
404s Get:16 http://ftpmaster.internal/ubuntu noble/universe arm64 bioperl all 1.7.8-1 [216 kB]
404s Get:17 http://ftpmaster.internal/ubuntu noble/universe arm64 libarray-utils-perl all 0.5-3 [5862 B]
404s Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 libencode-locale-perl all 1.05-3 [11.6 kB]
404s Get:19 http://ftpmaster.internal/ubuntu noble/main arm64 libtimedate-perl all 2.3300-2 [34.0 kB]
404s Get:20 http://ftpmaster.internal/ubuntu noble/main arm64 libhttp-date-perl all 6.06-1 [10.2 kB]
404s Get:21 http://ftpmaster.internal/ubuntu noble/main arm64 libfile-listing-perl all 6.16-1 [11.3 kB]
404s Get:22 http://ftpmaster.internal/ubuntu noble/main arm64 libhtml-tagset-perl all 3.20-6 [11.3 kB]
404s Get:23 http://ftpmaster.internal/ubuntu noble/main arm64 liburi-perl all 5.27-1 [88.0 kB]
404s Get:24 http://ftpmaster.internal/ubuntu noble/main arm64 libhtml-parser-perl arm64 3.81-1build1 [84.8 kB]
404s Get:25 http://ftpmaster.internal/ubuntu noble/main arm64 libhtml-tree-perl all 5.07-3 [200 kB]
404s Get:26 http://ftpmaster.internal/ubuntu noble/main arm64 libclone-perl arm64 0.46-1build1 [10.4 kB]
404s Get:27 http://ftpmaster.internal/ubuntu noble/main arm64 libio-html-perl all 1.004-3 [15.9 kB]
404s Get:28 http://ftpmaster.internal/ubuntu noble/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.1 kB]
404s Get:29 http://ftpmaster.internal/ubuntu noble/main arm64 libhttp-message-perl all 6.45-1ubuntu1 [78.2 kB]
404s Get:30 http://ftpmaster.internal/ubuntu noble/main arm64 libhttp-cookies-perl all 6.11-1 [18.2 kB]
404s Get:31 http://ftpmaster.internal/ubuntu noble/main arm64 libhttp-negotiate-perl all 6.01-2 [12.4 kB]
404s Get:32 http://ftpmaster.internal/ubuntu noble/main arm64 perl-openssl-defaults arm64 7 [7536 B]
404s Get:33 http://ftpmaster.internal/ubuntu noble/main arm64 libnet-ssleay-perl arm64 1.94-1 [311 kB]
404s Get:34 http://ftpmaster.internal/ubuntu noble/main arm64 libio-socket-ssl-perl all 2.085-1 [195 kB]
404s Get:35 http://ftpmaster.internal/ubuntu noble/main arm64 libnet-http-perl all 6.23-1 [22.3 kB]
404s Get:36 http://ftpmaster.internal/ubuntu noble/main arm64 liblwp-protocol-https-perl all 6.13-1 [9006 B]
404s Get:37 http://ftpmaster.internal/ubuntu noble/main arm64 libtry-tiny-perl all 0.31-2 [20.8 kB]
404s Get:38 http://ftpmaster.internal/ubuntu noble/main arm64 libwww-robotrules-perl all 6.02-1 [12.6 kB]
404s Get:39 http://ftpmaster.internal/ubuntu noble/main arm64 libwww-perl all 6.76-1 [138 kB]
404s Get:40 http://ftpmaster.internal/ubuntu noble/universe arm64 libdigest-md5-file-perl all 0.08-1.1 [8968 B]
404s Get:41 http://ftpmaster.internal/ubuntu noble/universe arm64 libenv-path-perl all 0.19-4 [18.0 kB]
404s Get:42 http://ftpmaster.internal/ubuntu noble/main arm64 libnumber-compare-perl all 0.03-3 [5974 B]
404s Get:43 http://ftpmaster.internal/ubuntu noble/main arm64 libtext-glob-perl all 0.11-3 [6780 B]
404s Get:44 http://ftpmaster.internal/ubuntu noble/main arm64 libfile-find-rule-perl all 0.34-3 [24.4 kB]
404s Get:45 http://ftpmaster.internal/ubuntu noble/universe arm64 libfile-grep-perl all 0.02-3 [8248 B]
404s Get:46 http://ftpmaster.internal/ubuntu noble/main arm64 libfile-slurper-perl all 0.014-1 [7660 B]
404s Get:47 http://ftpmaster.internal/ubuntu noble/main arm64 libfile-which-perl all 1.27-2 [12.5 kB]
404s Get:48 http://ftpmaster.internal/ubuntu noble/universe arm64 libfindbin-libs-perl all 3.0.2-1 [22.3 kB]
404s Get:49 http://ftpmaster.internal/ubuntu noble/universe arm64 libheap-perl all 0.80-5 [33.8 kB]
404s Get:50 http://ftpmaster.internal/ubuntu noble/universe arm64 libset-object-perl arm64 1.42-1build3 [32.8 kB]
404s Get:51 http://ftpmaster.internal/ubuntu noble/universe arm64 libgraph-perl all 1:0.9727-1 [100 kB]
404s Get:52 http://ftpmaster.internal/ubuntu noble/universe arm64 libspiffy-perl all 0.46-1 [23.9 kB]
404s Get:53 http://ftpmaster.internal/ubuntu noble/universe arm64 libio-all-perl all 0.87-2 [61.3 kB]
404s Get:54 http://ftpmaster.internal/ubuntu noble/universe arm64 libparse-yapp-perl all 1.21-3 [38.0 kB]
404s Get:55 http://ftpmaster.internal/ubuntu noble/main arm64 libxml-parser-perl arm64 2.47-1build1 [202 kB]
404s Get:56 http://ftpmaster.internal/ubuntu noble/universe arm64 libxml-writer-perl all 0.900-2 [24.0 kB]
404s Get:57 http://ftpmaster.internal/ubuntu noble/universe arm64 libgraph-readwrite-perl all 2.10-1 [44.0 kB]
404s Get:58 http://ftpmaster.internal/ubuntu noble/universe arm64 liblog-log4perl-perl all 1.57-1 [345 kB]
404s Get:59 http://ftpmaster.internal/ubuntu noble/main arm64 libparams-util-perl arm64 1.102-2build1 [20.5 kB]
404s Get:60 http://ftpmaster.internal/ubuntu noble/main arm64 libsub-install-perl all 0.929-1 [9764 B]
404s Get:61 http://ftpmaster.internal/ubuntu noble/main arm64 libdata-optlist-perl all 0.114-1 [9708 B]
404s Get:62 http://ftpmaster.internal/ubuntu noble/main arm64 libb-hooks-op-check-perl arm64 0.22-2build2 [9220 B]
404s Get:63 http://ftpmaster.internal/ubuntu noble/main arm64 libdynaloader-functions-perl all 0.003-3 [12.1 kB]
404s Get:64 http://ftpmaster.internal/ubuntu noble/main arm64 libdevel-callchecker-perl arm64 0.008-2build1 [13.7 kB]
404s Get:65 http://ftpmaster.internal/ubuntu noble/main arm64 libparams-classify-perl arm64 0.015-2build3 [19.6 kB]
404s Get:66 http://ftpmaster.internal/ubuntu noble/main arm64 libmodule-runtime-perl all 0.016-2 [16.4 kB]
404s Get:67 http://ftpmaster.internal/ubuntu noble/main arm64 libmodule-implementation-perl all 0.09-2 [12.0 kB]
404s Get:68 http://ftpmaster.internal/ubuntu noble/main arm64 libpackage-stash-perl all 0.40-1 [19.5 kB]
404s Get:69 http://ftpmaster.internal/ubuntu noble/universe arm64 libclass-load-perl all 0.25-2 [12.7 kB]
404s Get:70 http://ftpmaster.internal/ubuntu noble/universe arm64 libclass-load-xs-perl arm64 0.10-2build2 [13.4 kB]
404s Get:71 http://ftpmaster.internal/ubuntu noble/main arm64 libsub-exporter-progressive-perl all 0.001013-3 [6718 B]
404s Get:72 http://ftpmaster.internal/ubuntu noble/universe arm64 libdevel-globaldestruction-perl all 0.14-4 [6114 B]
405s Get:73 http://ftpmaster.internal/ubuntu noble/universe arm64 libalgorithm-c3-perl all 0.11-2 [10.2 kB]
405s Get:74 http://ftpmaster.internal/ubuntu noble/universe arm64 libclass-c3-perl all 0.35-2 [18.4 kB]
405s Get:75 http://ftpmaster.internal/ubuntu noble/universe arm64 libmro-compat-perl all 0.15-2 [10.1 kB]
405s Get:76 http://ftpmaster.internal/ubuntu noble/universe arm64 libdevel-overloadinfo-perl all 0.007-1 [7422 B]
405s Get:77 http://ftpmaster.internal/ubuntu noble/main arm64 libsub-exporter-perl all 0.990-1 [49.0 kB]
405s Get:78 http://ftpmaster.internal/ubuntu noble/universe arm64 libeval-closure-perl all 0.14-3 [10.1 kB]
405s Get:79 http://ftpmaster.internal/ubuntu noble/universe arm64 libdist-checkconflicts-perl all 0.11-2 [9942 B]
405s Get:80 http://ftpmaster.internal/ubuntu noble/universe arm64 libmodule-runtime-conflicts-perl all 0.003-2 [6956 B]
405s Get:81 http://ftpmaster.internal/ubuntu noble/universe arm64 libpackage-deprecationmanager-perl all 0.18-1 [16.7 kB]
405s Get:82 http://ftpmaster.internal/ubuntu noble/main arm64 libpackage-stash-xs-perl arm64 0.30-1build2 [18.0 kB]
405s Get:83 http://ftpmaster.internal/ubuntu noble/universe arm64 libmoose-perl arm64 2.2207-1 [717 kB]
405s Get:84 http://ftpmaster.internal/ubuntu noble/main arm64 libperlio-utf8-strict-perl arm64 0.010-1build1 [10.9 kB]
405s Get:85 http://ftpmaster.internal/ubuntu noble/universe arm64 libtest-file-perl all 1.993-1 [20.7 kB]
405s Get:86 http://ftpmaster.internal/ubuntu noble/universe arm64 libtest-files-perl all 0.15-1 [9744 B]
405s Get:87 http://ftpmaster.internal/ubuntu noble/universe arm64 libtest-output-perl all 1.034-1 [14.2 kB]
405s Get:88 http://ftpmaster.internal/ubuntu noble/universe arm64 libtext-csv-perl all 2.04-1 [109 kB]
405s Get:89 http://ftpmaster.internal/ubuntu noble/universe arm64 bedtools arm64 2.31.1+dfsg-2 [636 kB]
405s Get:90 http://ftpmaster.internal/ubuntu noble/main arm64 libgomp1 arm64 14-20240303-1ubuntu1 [144 kB]
405s Get:91 http://ftpmaster.internal/ubuntu noble/universe arm64 cd-hit arm64 4.8.1-4 [522 kB]
405s Get:92 http://ftpmaster.internal/ubuntu noble/universe arm64 ncbi-data all 6.1.20170106+dfsg1-10 [4395 kB]
405s Get:93 http://ftpmaster.internal/ubuntu noble/universe arm64 libmbedcrypto7 arm64 2.28.7-1ubuntu1 [206 kB]
405s Get:94 http://ftpmaster.internal/ubuntu noble/universe arm64 libmbedx509-1 arm64 2.28.7-1ubuntu1 [46.8 kB]
405s Get:95 http://ftpmaster.internal/ubuntu noble/universe arm64 libmbedtls14 arm64 2.28.7-1ubuntu1 [82.0 kB]
405s Get:96 http://ftpmaster.internal/ubuntu noble/universe arm64 ncbi-blast+ arm64 2.12.0+ds-4 [12.1 MB]
405s Get:97 http://ftpmaster.internal/ubuntu noble/universe arm64 libtingea0 arm64 21-361-2 [53.2 kB]
405s Get:98 http://ftpmaster.internal/ubuntu noble/universe arm64 mcl arm64 1:22-282+ds-2 [520 kB]
405s Get:99 http://ftpmaster.internal/ubuntu noble/universe arm64 parallel all 20231122+ds-1 [1944 kB]
405s Get:100 http://ftpmaster.internal/ubuntu noble/universe arm64 prank arm64 0.0.170427+dfsg-3 [325 kB]
405s Get:101 http://ftpmaster.internal/ubuntu noble/main arm64 zip arm64 3.0-13 [172 kB]
405s Get:102 http://ftpmaster.internal/ubuntu noble/main arm64 unzip arm64 6.0-28ubuntu3 [171 kB]
406s Get:103 http://ftpmaster.internal/ubuntu noble/main arm64 libpaper1 arm64 1.1.29 [13.1 kB]
406s Get:104 http://ftpmaster.internal/ubuntu noble/main arm64 libpaper-utils arm64 1.1.29 [8480 B]
406s Get:105 http://ftpmaster.internal/ubuntu noble/main arm64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
406s Get:106 http://ftpmaster.internal/ubuntu noble/main arm64 libblas3 arm64 3.12.0-3 [143 kB]
406s Get:107 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB]
406s Get:108 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-dejavu-core all 2.37-8 [835 kB]
406s Get:109 http://ftpmaster.internal/ubuntu noble/main arm64 fontconfig-config arm64 2.15.0-1ubuntu1 [37.0 kB]
406s Get:110 http://ftpmaster.internal/ubuntu noble/main arm64 libfontconfig1 arm64 2.15.0-1ubuntu1 [142 kB]
406s Get:111 http://ftpmaster.internal/ubuntu noble/main arm64 libpixman-1-0 arm64 0.42.2-1 [193 kB]
406s Get:112 http://ftpmaster.internal/ubuntu noble/main arm64 libxcb-render0 arm64 1.15-1 [16.1 kB]
406s Get:113 http://ftpmaster.internal/ubuntu noble/main arm64 libxcb-shm0 arm64 1.15-1 [5780 B]
406s Get:114 http://ftpmaster.internal/ubuntu noble/main arm64 libxrender1 arm64 1:0.9.10-1.1 [19.1 kB]
406s Get:115 http://ftpmaster.internal/ubuntu noble/main arm64 libcairo2 arm64 1.18.0-1 [550 kB]
406s Get:116 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg-turbo8 arm64 2.1.5-2ubuntu1 [160 kB]
406s Get:117 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B]
406s Get:118 http://ftpmaster.internal/ubuntu noble/main arm64 libgfortran5 arm64 14-20240303-1ubuntu1 [444 kB]
406s Get:119 http://ftpmaster.internal/ubuntu noble/main arm64 liblapack3 arm64 3.12.0-3 [2241 kB]
406s Get:120 http://ftpmaster.internal/ubuntu noble/main arm64 fontconfig arm64 2.15.0-1ubuntu1 [190 kB]
406s Get:121 http://ftpmaster.internal/ubuntu noble/main arm64 libgraphite2-3 arm64 1.3.14-2 [81.5 kB]
406s Get:122 http://ftpmaster.internal/ubuntu noble/main arm64 libharfbuzz0b arm64 8.3.0-2 [463 kB]
406s Get:123 http://ftpmaster.internal/ubuntu noble/main arm64 libthai-data all 0.1.29-2 [158 kB]
406s Get:124 http://ftpmaster.internal/ubuntu noble/main arm64 libdatrie1 arm64 0.2.13-3 [21.7 kB]
406s Get:125 http://ftpmaster.internal/ubuntu noble/main arm64 libthai0 arm64 0.1.29-2 [18.1 kB]
406s Get:126 http://ftpmaster.internal/ubuntu noble/main arm64 libpango-1.0-0 arm64 1.51.0+ds-4 [226 kB]
406s Get:127 http://ftpmaster.internal/ubuntu noble/main arm64 libpangoft2-1.0-0 arm64 1.51.0+ds-4 [41.2 kB]
406s Get:128 http://ftpmaster.internal/ubuntu noble/main arm64 libpangocairo-1.0-0 arm64 1.51.0+ds-4 [27.6 kB]
407s Get:129 http://ftpmaster.internal/ubuntu noble/main arm64 libtcl8.6 arm64 8.6.13+dfsg-2 [980 kB]
407s Get:130 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB]
407s Get:131 http://ftpmaster.internal/ubuntu noble/main arm64 libjbig0 arm64 2.1-6.1ubuntu1 [28.9 kB]
407s Get:132 http://ftpmaster.internal/ubuntu noble/main arm64 liblerc4 arm64 4.0.0+ds-4ubuntu1 [153 kB]
407s Get:133 http://ftpmaster.internal/ubuntu noble/main arm64 libsharpyuv0 arm64 1.3.2-0.4 [14.4 kB]
407s Get:134 http://ftpmaster.internal/ubuntu noble/main arm64 libwebp7 arm64 1.3.2-0.4 [191 kB]
407s Get:135 http://ftpmaster.internal/ubuntu noble/main arm64 libtiff6 arm64 4.5.1+git230720-3ubuntu1 [226 kB]
407s Get:136 http://ftpmaster.internal/ubuntu noble/main arm64 libxft2 arm64 2.3.6-1 [43.3 kB]
407s Get:137 http://ftpmaster.internal/ubuntu noble/main arm64 x11-common all 1:7.7+23ubuntu2 [23.4 kB]
407s Get:138 http://ftpmaster.internal/ubuntu noble/main arm64 libxss1 arm64 1:1.2.3-1build2 [8252 B]
407s Get:139 http://ftpmaster.internal/ubuntu noble/main arm64 libtk8.6 arm64 8.6.13-2 [760 kB]
407s Get:140 http://ftpmaster.internal/ubuntu noble/main arm64 libice6 arm64 2:1.0.10-1build2 [41.7 kB]
407s Get:141 http://ftpmaster.internal/ubuntu noble/main arm64 libsm6 arm64 2:1.2.3-1build2 [16.1 kB]
407s Get:142 http://ftpmaster.internal/ubuntu noble/main arm64 libxt6 arm64 1:1.2.1-1.1 [167 kB]
407s Get:143 http://ftpmaster.internal/ubuntu noble/universe arm64 r-base-core arm64 4.3.2-1build1 [26.8 MB]
407s Get:144 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-cli arm64 3.6.2-1 [1377 kB]
407s Get:145 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-glue arm64 1.7.0-1 [154 kB]
407s Get:146 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rlang arm64 1.1.3-1 [1663 kB]
407s Get:147 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
407s Get:148 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-gtable all 0.3.4+dfsg-1 [191 kB]
407s Get:149 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-isoband arm64 0.2.7-1 [1481 kB]
407s Get:150 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-mass arm64 7.3-60.0.1-1 [1119 kB]
408s Get:151 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-lattice arm64 0.22-5-1 [1342 kB]
408s Get:152 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-nlme arm64 3.1.164-1 [2259 kB]
408s Get:153 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-matrix arm64 1.6-5-1 [3776 kB]
408s Get:154 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-mgcv arm64 1.9-1-1 [3248 kB]
408s Get:155 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-farver arm64 2.1.1-1 [1336 kB]
408s Get:156 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-labeling all 0.4.3-1 [62.1 kB]
408s Get:157 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-colorspace arm64 2.1-0+dfsg-1 [1540 kB]
408s Get:158 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-munsell all 0.5.0-2build1 [208 kB]
408s Get:159 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-r6 all 2.5.1-1 [99.0 kB]
408s Get:160 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB]
408s Get:161 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-viridislite all 0.4.2-2 [1088 kB]
408s Get:162 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-scales all 1.3.0-1 [603 kB]
408s Get:163 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-fansi arm64 1.0.5-1 [616 kB]
408s Get:164 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-magrittr arm64 2.0.3-1 [154 kB]
408s Get:165 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-utf8 arm64 1.2.4-1 [140 kB]
408s Get:166 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-vctrs arm64 0.6.5-1 [1327 kB]
408s Get:167 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-pillar all 1.9.0+dfsg-1 [464 kB]
408s Get:168 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
408s Get:169 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-tibble arm64 3.2.1+dfsg-2 [415 kB]
408s Get:170 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-withr all 2.5.0-1 [225 kB]
408s Get:171 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-ggplot2 all 3.4.4+dfsg-1 [3411 kB]
408s Get:172 http://ftpmaster.internal/ubuntu noble/universe arm64 mafft arm64 7.505-1 [756 kB]
408s Get:173 http://ftpmaster.internal/ubuntu noble/universe arm64 fasttree arm64 2.1.11-2 [164 kB]
408s Get:174 http://ftpmaster.internal/ubuntu noble/universe arm64 roary all 3.13.0+dfsg-1 [172 kB]
409s Preconfiguring packages ...
410s Fetched 94.0 MB in 5s (17.6 MB/s)
410s Selecting previously unselected package libio-string-perl.
410s (Reading database ... 
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 74306 files and directories currently installed.)
410s Preparing to unpack .../000-libio-string-perl_1.08-4_all.deb ...
410s Unpacking libio-string-perl (1.08-4) ...
410s Selecting previously unselected package libdata-stag-perl.
410s Preparing to unpack .../001-libdata-stag-perl_0.14-3_all.deb ...
410s Unpacking libdata-stag-perl (0.14-3) ...
410s Selecting previously unselected package libbio-perl-perl.
410s Preparing to unpack .../002-libbio-perl-perl_1.7.8-1_all.deb ...
410s Unpacking libbio-perl-perl (1.7.8-1) ...
410s Selecting previously unselected package libclass-data-inheritable-perl.
410s Preparing to unpack .../003-libclass-data-inheritable-perl_0.08-3_all.deb ...
410s Unpacking libclass-data-inheritable-perl (0.08-3) ...
410s Selecting previously unselected package libdevel-stacktrace-perl.
410s Preparing to unpack .../004-libdevel-stacktrace-perl_2.0500-1_all.deb ...
410s Unpacking libdevel-stacktrace-perl (2.0500-1) ...
410s Selecting previously unselected package libexception-class-perl.
410s Preparing to unpack .../005-libexception-class-perl_1.45-1_all.deb ...
410s Unpacking libexception-class-perl (1.45-1) ...
410s Selecting previously unselected package libtest-deep-perl.
410s Preparing to unpack .../006-libtest-deep-perl_1.204-1_all.deb ...
410s Unpacking libtest-deep-perl (1.204-1) ...
410s Selecting previously unselected package libcapture-tiny-perl.
410s Preparing to unpack .../007-libcapture-tiny-perl_0.48-2_all.deb ...
410s Unpacking libcapture-tiny-perl (0.48-2) ...
410s Selecting previously unselected package libalgorithm-diff-perl.
411s Preparing to unpack .../008-libalgorithm-diff-perl_1.201-1_all.deb ...
411s Unpacking libalgorithm-diff-perl (1.201-1) ...
411s Selecting previously unselected package libtext-diff-perl.
411s Preparing to unpack .../009-libtext-diff-perl_1.45-2_all.deb ...
411s Unpacking libtext-diff-perl (1.45-2) ...
411s Selecting previously unselected package libtest-differences-perl.
411s Preparing to unpack .../010-libtest-differences-perl_0.71-1_all.deb ...
411s Unpacking libtest-differences-perl (0.71-1) ...
411s Selecting previously unselected package libsub-uplevel-perl.
411s Preparing to unpack .../011-libsub-uplevel-perl_0.2800-3_all.deb ...
411s Unpacking libsub-uplevel-perl (0.2800-3) ...
411s Selecting previously unselected package libtest-exception-perl.
411s Preparing to unpack .../012-libtest-exception-perl_0.43-3_all.deb ...
411s Unpacking libtest-exception-perl (0.43-3) ...
411s Selecting previously unselected package libtest-warn-perl.
412s Preparing to unpack .../013-libtest-warn-perl_0.37-2_all.deb ...
412s Unpacking libtest-warn-perl (0.37-2) ...
412s Selecting previously unselected package libtest-most-perl.
412s Preparing to unpack .../014-libtest-most-perl_0.38-1_all.deb ...
412s Unpacking libtest-most-perl (0.38-1) ...
412s Selecting previously unselected package bioperl.
412s Preparing to unpack .../015-bioperl_1.7.8-1_all.deb ...
412s Unpacking bioperl (1.7.8-1) ...
412s Selecting previously unselected package libarray-utils-perl.
412s Preparing to unpack .../016-libarray-utils-perl_0.5-3_all.deb ...
412s Unpacking libarray-utils-perl (0.5-3) ...
412s Selecting previously unselected package libencode-locale-perl.
412s Preparing to unpack .../017-libencode-locale-perl_1.05-3_all.deb ...
412s Unpacking libencode-locale-perl (1.05-3) ...
412s Selecting previously unselected package libtimedate-perl.
412s Preparing to unpack .../018-libtimedate-perl_2.3300-2_all.deb ...
412s Unpacking libtimedate-perl (2.3300-2) ...
412s Selecting previously unselected package libhttp-date-perl.
412s Preparing to unpack .../019-libhttp-date-perl_6.06-1_all.deb ...
412s Unpacking libhttp-date-perl (6.06-1) ...
412s Selecting previously unselected package libfile-listing-perl.
412s Preparing to unpack .../020-libfile-listing-perl_6.16-1_all.deb ...
412s Unpacking libfile-listing-perl (6.16-1) ...
412s Selecting previously unselected package libhtml-tagset-perl.
412s Preparing to unpack .../021-libhtml-tagset-perl_3.20-6_all.deb ...
412s Unpacking libhtml-tagset-perl (3.20-6) ...
412s Selecting previously unselected package liburi-perl.
412s Preparing to unpack .../022-liburi-perl_5.27-1_all.deb ...
412s Unpacking liburi-perl (5.27-1) ...
412s Selecting previously unselected package libhtml-parser-perl:arm64.
413s Preparing to unpack .../023-libhtml-parser-perl_3.81-1build1_arm64.deb ...
413s Unpacking libhtml-parser-perl:arm64 (3.81-1build1) ...
413s Selecting previously unselected package libhtml-tree-perl.
413s Preparing to unpack .../024-libhtml-tree-perl_5.07-3_all.deb ...
413s Unpacking libhtml-tree-perl (5.07-3) ...
413s Selecting previously unselected package libclone-perl:arm64.
413s Preparing to unpack .../025-libclone-perl_0.46-1build1_arm64.deb ...
413s Unpacking libclone-perl:arm64 (0.46-1build1) ...
413s Selecting previously unselected package libio-html-perl.
413s Preparing to unpack .../026-libio-html-perl_1.004-3_all.deb ...
413s Unpacking libio-html-perl (1.004-3) ...
413s Selecting previously unselected package liblwp-mediatypes-perl.
413s Preparing to unpack .../027-liblwp-mediatypes-perl_6.04-2_all.deb ...
413s Unpacking liblwp-mediatypes-perl (6.04-2) ...
413s Selecting previously unselected package libhttp-message-perl.
413s Preparing to unpack .../028-libhttp-message-perl_6.45-1ubuntu1_all.deb ...
413s Unpacking libhttp-message-perl (6.45-1ubuntu1) ...
413s Selecting previously unselected package libhttp-cookies-perl.
413s Preparing to unpack .../029-libhttp-cookies-perl_6.11-1_all.deb ...
413s Unpacking libhttp-cookies-perl (6.11-1) ...
413s Selecting previously unselected package libhttp-negotiate-perl.
413s Preparing to unpack .../030-libhttp-negotiate-perl_6.01-2_all.deb ...
413s Unpacking libhttp-negotiate-perl (6.01-2) ...
413s Selecting previously unselected package perl-openssl-defaults:arm64.
413s Preparing to unpack .../031-perl-openssl-defaults_7_arm64.deb ...
413s Unpacking perl-openssl-defaults:arm64 (7) ...
413s Selecting previously unselected package libnet-ssleay-perl:arm64.
413s Preparing to unpack .../032-libnet-ssleay-perl_1.94-1_arm64.deb ...
413s Unpacking libnet-ssleay-perl:arm64 (1.94-1) ...
413s Selecting previously unselected package libio-socket-ssl-perl.
413s Preparing to unpack .../033-libio-socket-ssl-perl_2.085-1_all.deb ...
413s Unpacking libio-socket-ssl-perl (2.085-1) ...
413s Selecting previously unselected package libnet-http-perl.
414s Preparing to unpack .../034-libnet-http-perl_6.23-1_all.deb ...
414s Unpacking libnet-http-perl (6.23-1) ...
414s Selecting previously unselected package liblwp-protocol-https-perl.
414s Preparing to unpack .../035-liblwp-protocol-https-perl_6.13-1_all.deb ...
414s Unpacking liblwp-protocol-https-perl (6.13-1) ...
414s Selecting previously unselected package libtry-tiny-perl.
414s Preparing to unpack .../036-libtry-tiny-perl_0.31-2_all.deb ...
414s Unpacking libtry-tiny-perl (0.31-2) ...
414s Selecting previously unselected package libwww-robotrules-perl.
414s Preparing to unpack .../037-libwww-robotrules-perl_6.02-1_all.deb ...
414s Unpacking libwww-robotrules-perl (6.02-1) ...
414s Selecting previously unselected package libwww-perl.
414s Preparing to unpack .../038-libwww-perl_6.76-1_all.deb ...
414s Unpacking libwww-perl (6.76-1) ...
414s Selecting previously unselected package libdigest-md5-file-perl.
414s Preparing to unpack .../039-libdigest-md5-file-perl_0.08-1.1_all.deb ...
414s Unpacking libdigest-md5-file-perl (0.08-1.1) ...
414s Selecting previously unselected package libenv-path-perl.
414s Preparing to unpack .../040-libenv-path-perl_0.19-4_all.deb ...
414s Unpacking libenv-path-perl (0.19-4) ...
414s Selecting previously unselected package libnumber-compare-perl.
414s Preparing to unpack .../041-libnumber-compare-perl_0.03-3_all.deb ...
414s Unpacking libnumber-compare-perl (0.03-3) ...
414s Selecting previously unselected package libtext-glob-perl.
414s Preparing to unpack .../042-libtext-glob-perl_0.11-3_all.deb ...
414s Unpacking libtext-glob-perl (0.11-3) ...
414s Selecting previously unselected package libfile-find-rule-perl.
414s Preparing to unpack .../043-libfile-find-rule-perl_0.34-3_all.deb ...
414s Unpacking libfile-find-rule-perl (0.34-3) ...
414s Selecting previously unselected package libfile-grep-perl.
414s Preparing to unpack .../044-libfile-grep-perl_0.02-3_all.deb ...
414s Unpacking libfile-grep-perl (0.02-3) ...
414s Selecting previously unselected package libfile-slurper-perl.
414s Preparing to unpack .../045-libfile-slurper-perl_0.014-1_all.deb ...
414s Unpacking libfile-slurper-perl (0.014-1) ...
414s Selecting previously unselected package libfile-which-perl.
414s Preparing to unpack .../046-libfile-which-perl_1.27-2_all.deb ...
414s Unpacking libfile-which-perl (1.27-2) ...
414s Selecting previously unselected package libfindbin-libs-perl.
414s Preparing to unpack .../047-libfindbin-libs-perl_3.0.2-1_all.deb ...
414s Unpacking libfindbin-libs-perl (3.0.2-1) ...
414s Selecting previously unselected package libheap-perl.
415s Preparing to unpack .../048-libheap-perl_0.80-5_all.deb ...
415s Unpacking libheap-perl (0.80-5) ...
415s Selecting previously unselected package libset-object-perl.
415s Preparing to unpack .../049-libset-object-perl_1.42-1build3_arm64.deb ...
415s Unpacking libset-object-perl (1.42-1build3) ...
415s Selecting previously unselected package libgraph-perl.
415s Preparing to unpack .../050-libgraph-perl_1%3a0.9727-1_all.deb ...
415s Unpacking libgraph-perl (1:0.9727-1) ...
415s Selecting previously unselected package libspiffy-perl.
415s Preparing to unpack .../051-libspiffy-perl_0.46-1_all.deb ...
415s Unpacking libspiffy-perl (0.46-1) ...
415s Selecting previously unselected package libio-all-perl.
415s Preparing to unpack .../052-libio-all-perl_0.87-2_all.deb ...
415s Unpacking libio-all-perl (0.87-2) ...
415s Selecting previously unselected package libparse-yapp-perl.
415s Preparing to unpack .../053-libparse-yapp-perl_1.21-3_all.deb ...
415s Unpacking libparse-yapp-perl (1.21-3) ...
415s Selecting previously unselected package libxml-parser-perl.
415s Preparing to unpack .../054-libxml-parser-perl_2.47-1build1_arm64.deb ...
415s Unpacking libxml-parser-perl (2.47-1build1) ...
415s Selecting previously unselected package libxml-writer-perl.
415s Preparing to unpack .../055-libxml-writer-perl_0.900-2_all.deb ...
415s Unpacking libxml-writer-perl (0.900-2) ...
415s Selecting previously unselected package libgraph-readwrite-perl.
415s Preparing to unpack .../056-libgraph-readwrite-perl_2.10-1_all.deb ...
415s Unpacking libgraph-readwrite-perl (2.10-1) ...
415s Selecting previously unselected package liblog-log4perl-perl.
415s Preparing to unpack .../057-liblog-log4perl-perl_1.57-1_all.deb ...
415s Unpacking liblog-log4perl-perl (1.57-1) ...
415s Selecting previously unselected package libparams-util-perl.
415s Preparing to unpack .../058-libparams-util-perl_1.102-2build1_arm64.deb ...
415s Unpacking libparams-util-perl (1.102-2build1) ...
415s Selecting previously unselected package libsub-install-perl.
415s Preparing to unpack .../059-libsub-install-perl_0.929-1_all.deb ...
415s Unpacking libsub-install-perl (0.929-1) ...
415s Selecting previously unselected package libdata-optlist-perl.
415s Preparing to unpack .../060-libdata-optlist-perl_0.114-1_all.deb ...
415s Unpacking libdata-optlist-perl (0.114-1) ...
415s Selecting previously unselected package libb-hooks-op-check-perl:arm64.
415s Preparing to unpack .../061-libb-hooks-op-check-perl_0.22-2build2_arm64.deb ...
415s Unpacking libb-hooks-op-check-perl:arm64 (0.22-2build2) ...
415s Selecting previously unselected package libdynaloader-functions-perl.
415s Preparing to unpack .../062-libdynaloader-functions-perl_0.003-3_all.deb ...
415s Unpacking libdynaloader-functions-perl (0.003-3) ...
415s Selecting previously unselected package libdevel-callchecker-perl:arm64.
415s Preparing to unpack .../063-libdevel-callchecker-perl_0.008-2build1_arm64.deb ...
415s Unpacking libdevel-callchecker-perl:arm64 (0.008-2build1) ...
415s Selecting previously unselected package libparams-classify-perl:arm64.
416s Preparing to unpack .../064-libparams-classify-perl_0.015-2build3_arm64.deb ...
416s Unpacking libparams-classify-perl:arm64 (0.015-2build3) ...
416s Selecting previously unselected package libmodule-runtime-perl.
416s Preparing to unpack .../065-libmodule-runtime-perl_0.016-2_all.deb ...
416s Unpacking libmodule-runtime-perl (0.016-2) ...
416s Selecting previously unselected package libmodule-implementation-perl.
416s Preparing to unpack .../066-libmodule-implementation-perl_0.09-2_all.deb ...
416s Unpacking libmodule-implementation-perl (0.09-2) ...
416s Selecting previously unselected package libpackage-stash-perl.
416s Preparing to unpack .../067-libpackage-stash-perl_0.40-1_all.deb ...
416s Unpacking libpackage-stash-perl (0.40-1) ...
416s Selecting previously unselected package libclass-load-perl.
416s Preparing to unpack .../068-libclass-load-perl_0.25-2_all.deb ...
416s Unpacking libclass-load-perl (0.25-2) ...
416s Selecting previously unselected package libclass-load-xs-perl.
417s Preparing to unpack .../069-libclass-load-xs-perl_0.10-2build2_arm64.deb ...
417s Unpacking libclass-load-xs-perl (0.10-2build2) ...
417s Selecting previously unselected package libsub-exporter-progressive-perl.
417s Preparing to unpack .../070-libsub-exporter-progressive-perl_0.001013-3_all.deb ...
417s Unpacking libsub-exporter-progressive-perl (0.001013-3) ...
417s Selecting previously unselected package libdevel-globaldestruction-perl.
417s Preparing to unpack .../071-libdevel-globaldestruction-perl_0.14-4_all.deb ...
417s Unpacking libdevel-globaldestruction-perl (0.14-4) ...
417s Selecting previously unselected package libalgorithm-c3-perl.
417s Preparing to unpack .../072-libalgorithm-c3-perl_0.11-2_all.deb ...
417s Unpacking libalgorithm-c3-perl (0.11-2) ...
418s Selecting previously unselected package libclass-c3-perl.
418s Preparing to unpack .../073-libclass-c3-perl_0.35-2_all.deb ...
418s Unpacking libclass-c3-perl (0.35-2) ...
418s Selecting previously unselected package libmro-compat-perl.
418s Preparing to unpack .../074-libmro-compat-perl_0.15-2_all.deb ...
418s Unpacking libmro-compat-perl (0.15-2) ...
418s Selecting previously unselected package libdevel-overloadinfo-perl.
418s Preparing to unpack .../075-libdevel-overloadinfo-perl_0.007-1_all.deb ...
418s Unpacking libdevel-overloadinfo-perl (0.007-1) ...
418s Selecting previously unselected package libsub-exporter-perl.
418s Preparing to unpack .../076-libsub-exporter-perl_0.990-1_all.deb ...
418s Unpacking libsub-exporter-perl (0.990-1) ...
418s Selecting previously unselected package libeval-closure-perl.
418s Preparing to unpack .../077-libeval-closure-perl_0.14-3_all.deb ...
418s Unpacking libeval-closure-perl (0.14-3) ...
418s Selecting previously unselected package libdist-checkconflicts-perl.
418s Preparing to unpack .../078-libdist-checkconflicts-perl_0.11-2_all.deb ...
418s Unpacking libdist-checkconflicts-perl (0.11-2) ...
418s Selecting previously unselected package libmodule-runtime-conflicts-perl.
418s Preparing to unpack .../079-libmodule-runtime-conflicts-perl_0.003-2_all.deb ...
418s Unpacking libmodule-runtime-conflicts-perl (0.003-2) ...
418s Selecting previously unselected package libpackage-deprecationmanager-perl.
418s Preparing to unpack .../080-libpackage-deprecationmanager-perl_0.18-1_all.deb ...
418s Unpacking libpackage-deprecationmanager-perl (0.18-1) ...
418s Selecting previously unselected package libpackage-stash-xs-perl:arm64.
418s Preparing to unpack .../081-libpackage-stash-xs-perl_0.30-1build2_arm64.deb ...
418s Unpacking libpackage-stash-xs-perl:arm64 (0.30-1build2) ...
418s Selecting previously unselected package libmoose-perl:arm64.
418s Preparing to unpack .../082-libmoose-perl_2.2207-1_arm64.deb ...
418s Unpacking libmoose-perl:arm64 (2.2207-1) ...
418s Selecting previously unselected package libperlio-utf8-strict-perl.
418s Preparing to unpack .../083-libperlio-utf8-strict-perl_0.010-1build1_arm64.deb ...
418s Unpacking libperlio-utf8-strict-perl (0.010-1build1) ...
418s Selecting previously unselected package libtest-file-perl.
419s Preparing to unpack .../084-libtest-file-perl_1.993-1_all.deb ...
419s Unpacking libtest-file-perl (1.993-1) ...
419s Selecting previously unselected package libtest-files-perl.
419s Preparing to unpack .../085-libtest-files-perl_0.15-1_all.deb ...
419s Unpacking libtest-files-perl (0.15-1) ...
419s Selecting previously unselected package libtest-output-perl.
419s Preparing to unpack .../086-libtest-output-perl_1.034-1_all.deb ...
419s Unpacking libtest-output-perl (1.034-1) ...
419s Selecting previously unselected package libtext-csv-perl.
419s Preparing to unpack .../087-libtext-csv-perl_2.04-1_all.deb ...
419s Unpacking libtext-csv-perl (2.04-1) ...
419s Selecting previously unselected package bedtools.
419s Preparing to unpack .../088-bedtools_2.31.1+dfsg-2_arm64.deb ...
419s Unpacking bedtools (2.31.1+dfsg-2) ...
419s Selecting previously unselected package libgomp1:arm64.
419s Preparing to unpack .../089-libgomp1_14-20240303-1ubuntu1_arm64.deb ...
419s Unpacking libgomp1:arm64 (14-20240303-1ubuntu1) ...
419s Selecting previously unselected package cd-hit.
419s Preparing to unpack .../090-cd-hit_4.8.1-4_arm64.deb ...
419s Unpacking cd-hit (4.8.1-4) ...
419s Selecting previously unselected package ncbi-data.
419s Preparing to unpack .../091-ncbi-data_6.1.20170106+dfsg1-10_all.deb ...
419s Unpacking ncbi-data (6.1.20170106+dfsg1-10) ...
419s Selecting previously unselected package libmbedcrypto7:arm64.
419s Preparing to unpack .../092-libmbedcrypto7_2.28.7-1ubuntu1_arm64.deb ...
419s Unpacking libmbedcrypto7:arm64 (2.28.7-1ubuntu1) ...
419s Selecting previously unselected package libmbedx509-1:arm64.
419s Preparing to unpack .../093-libmbedx509-1_2.28.7-1ubuntu1_arm64.deb ...
419s Unpacking libmbedx509-1:arm64 (2.28.7-1ubuntu1) ...
419s Selecting previously unselected package libmbedtls14:arm64.
419s Preparing to unpack .../094-libmbedtls14_2.28.7-1ubuntu1_arm64.deb ...
419s Unpacking libmbedtls14:arm64 (2.28.7-1ubuntu1) ...
419s Selecting previously unselected package ncbi-blast+.
419s Preparing to unpack .../095-ncbi-blast+_2.12.0+ds-4_arm64.deb ...
419s Unpacking ncbi-blast+ (2.12.0+ds-4) ...
420s Selecting previously unselected package libtingea0:arm64.
420s Preparing to unpack .../096-libtingea0_21-361-2_arm64.deb ...
420s Unpacking libtingea0:arm64 (21-361-2) ...
420s Selecting previously unselected package mcl.
420s Preparing to unpack .../097-mcl_1%3a22-282+ds-2_arm64.deb ...
420s Unpacking mcl (1:22-282+ds-2) ...
420s Selecting previously unselected package parallel.
420s Preparing to unpack .../098-parallel_20231122+ds-1_all.deb ...
420s Adding 'diversion of /usr/bin/parallel to /usr/bin/parallel.moreutils by parallel'
420s Adding 'diversion of /usr/share/man/man1/parallel.1.gz to /usr/share/man/man1/parallel.moreutils.1.gz by parallel'
420s Unpacking parallel (20231122+ds-1) ...
420s Selecting previously unselected package prank.
420s Preparing to unpack .../099-prank_0.0.170427+dfsg-3_arm64.deb ...
420s Unpacking prank (0.0.170427+dfsg-3) ...
420s Selecting previously unselected package zip.
420s Preparing to unpack .../100-zip_3.0-13_arm64.deb ...
420s Unpacking zip (3.0-13) ...
420s Selecting previously unselected package unzip.
420s Preparing to unpack .../101-unzip_6.0-28ubuntu3_arm64.deb ...
420s Unpacking unzip (6.0-28ubuntu3) ...
421s Selecting previously unselected package libpaper1:arm64.
421s Preparing to unpack .../102-libpaper1_1.1.29_arm64.deb ...
421s Unpacking libpaper1:arm64 (1.1.29) ...
421s Selecting previously unselected package libpaper-utils.
421s Preparing to unpack .../103-libpaper-utils_1.1.29_arm64.deb ...
421s Unpacking libpaper-utils (1.1.29) ...
421s Selecting previously unselected package xdg-utils.
421s Preparing to unpack .../104-xdg-utils_1.1.3-4.1ubuntu3_all.deb ...
421s Unpacking xdg-utils (1.1.3-4.1ubuntu3) ...
421s Selecting previously unselected package libblas3:arm64.
421s Preparing to unpack .../105-libblas3_3.12.0-3_arm64.deb ...
421s Unpacking libblas3:arm64 (3.12.0-3) ...
421s Selecting previously unselected package fonts-dejavu-mono.
421s Preparing to unpack .../106-fonts-dejavu-mono_2.37-8_all.deb ...
421s Unpacking fonts-dejavu-mono (2.37-8) ...
421s Selecting previously unselected package fonts-dejavu-core.
421s Preparing to unpack .../107-fonts-dejavu-core_2.37-8_all.deb ...
421s Unpacking fonts-dejavu-core (2.37-8) ...
421s Selecting previously unselected package fontconfig-config.
421s Preparing to unpack .../108-fontconfig-config_2.15.0-1ubuntu1_arm64.deb ...
421s Unpacking fontconfig-config (2.15.0-1ubuntu1) ...
421s Selecting previously unselected package libfontconfig1:arm64.
421s Preparing to unpack .../109-libfontconfig1_2.15.0-1ubuntu1_arm64.deb ...
421s Unpacking libfontconfig1:arm64 (2.15.0-1ubuntu1) ...
421s Selecting previously unselected package libpixman-1-0:arm64.
421s Preparing to unpack .../110-libpixman-1-0_0.42.2-1_arm64.deb ...
421s Unpacking libpixman-1-0:arm64 (0.42.2-1) ...
421s Selecting previously unselected package libxcb-render0:arm64.
422s Preparing to unpack .../111-libxcb-render0_1.15-1_arm64.deb ...
422s Unpacking libxcb-render0:arm64 (1.15-1) ...
422s Selecting previously unselected package libxcb-shm0:arm64.
422s Preparing to unpack .../112-libxcb-shm0_1.15-1_arm64.deb ...
422s Unpacking libxcb-shm0:arm64 (1.15-1) ...
422s Selecting previously unselected package libxrender1:arm64.
422s Preparing to unpack .../113-libxrender1_1%3a0.9.10-1.1_arm64.deb ...
422s Unpacking libxrender1:arm64 (1:0.9.10-1.1) ...
422s Selecting previously unselected package libcairo2:arm64.
422s Preparing to unpack .../114-libcairo2_1.18.0-1_arm64.deb ...
422s Unpacking libcairo2:arm64 (1.18.0-1) ...
422s Selecting previously unselected package libjpeg-turbo8:arm64.
422s Preparing to unpack .../115-libjpeg-turbo8_2.1.5-2ubuntu1_arm64.deb ...
422s Unpacking libjpeg-turbo8:arm64 (2.1.5-2ubuntu1) ...
422s Selecting previously unselected package libjpeg8:arm64.
422s Preparing to unpack .../116-libjpeg8_8c-2ubuntu11_arm64.deb ...
422s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ...
422s Selecting previously unselected package libgfortran5:arm64.
422s Preparing to unpack .../117-libgfortran5_14-20240303-1ubuntu1_arm64.deb ...
422s Unpacking libgfortran5:arm64 (14-20240303-1ubuntu1) ...
422s Selecting previously unselected package liblapack3:arm64.
422s Preparing to unpack .../118-liblapack3_3.12.0-3_arm64.deb ...
422s Unpacking liblapack3:arm64 (3.12.0-3) ...
422s Selecting previously unselected package fontconfig.
422s Preparing to unpack .../119-fontconfig_2.15.0-1ubuntu1_arm64.deb ...
422s Unpacking fontconfig (2.15.0-1ubuntu1) ...
422s Selecting previously unselected package libgraphite2-3:arm64.
422s Preparing to unpack .../120-libgraphite2-3_1.3.14-2_arm64.deb ...
422s Unpacking libgraphite2-3:arm64 (1.3.14-2) ...
422s Selecting previously unselected package libharfbuzz0b:arm64.
422s Preparing to unpack .../121-libharfbuzz0b_8.3.0-2_arm64.deb ...
422s Unpacking libharfbuzz0b:arm64 (8.3.0-2) ...
422s Selecting previously unselected package libthai-data.
422s Preparing to unpack .../122-libthai-data_0.1.29-2_all.deb ...
422s Unpacking libthai-data (0.1.29-2) ...
422s Selecting previously unselected package libdatrie1:arm64.
422s Preparing to unpack .../123-libdatrie1_0.2.13-3_arm64.deb ...
422s Unpacking libdatrie1:arm64 (0.2.13-3) ...
422s Selecting previously unselected package libthai0:arm64.
422s Preparing to unpack .../124-libthai0_0.1.29-2_arm64.deb ...
422s Unpacking libthai0:arm64 (0.1.29-2) ...
423s Selecting previously unselected package libpango-1.0-0:arm64.
423s Preparing to unpack .../125-libpango-1.0-0_1.51.0+ds-4_arm64.deb ...
423s Unpacking libpango-1.0-0:arm64 (1.51.0+ds-4) ...
423s Selecting previously unselected package libpangoft2-1.0-0:arm64.
423s Preparing to unpack .../126-libpangoft2-1.0-0_1.51.0+ds-4_arm64.deb ...
423s Unpacking libpangoft2-1.0-0:arm64 (1.51.0+ds-4) ...
423s Selecting previously unselected package libpangocairo-1.0-0:arm64.
423s Preparing to unpack .../127-libpangocairo-1.0-0_1.51.0+ds-4_arm64.deb ...
423s Unpacking libpangocairo-1.0-0:arm64 (1.51.0+ds-4) ...
423s Selecting previously unselected package libtcl8.6:arm64.
423s Preparing to unpack .../128-libtcl8.6_8.6.13+dfsg-2_arm64.deb ...
423s Unpacking libtcl8.6:arm64 (8.6.13+dfsg-2) ...
423s Selecting previously unselected package libdeflate0:arm64.
423s Preparing to unpack .../129-libdeflate0_1.19-1_arm64.deb ...
423s Unpacking libdeflate0:arm64 (1.19-1) ...
423s Selecting previously unselected package libjbig0:arm64.
423s Preparing to unpack .../130-libjbig0_2.1-6.1ubuntu1_arm64.deb ...
423s Unpacking libjbig0:arm64 (2.1-6.1ubuntu1) ...
423s Selecting previously unselected package liblerc4:arm64.
423s Preparing to unpack .../131-liblerc4_4.0.0+ds-4ubuntu1_arm64.deb ...
423s Unpacking liblerc4:arm64 (4.0.0+ds-4ubuntu1) ...
423s Selecting previously unselected package libsharpyuv0:arm64.
423s Preparing to unpack .../132-libsharpyuv0_1.3.2-0.4_arm64.deb ...
423s Unpacking libsharpyuv0:arm64 (1.3.2-0.4) ...
423s Selecting previously unselected package libwebp7:arm64.
423s Preparing to unpack .../133-libwebp7_1.3.2-0.4_arm64.deb ...
423s Unpacking libwebp7:arm64 (1.3.2-0.4) ...
423s Selecting previously unselected package libtiff6:arm64.
423s Preparing to unpack .../134-libtiff6_4.5.1+git230720-3ubuntu1_arm64.deb ...
423s Unpacking libtiff6:arm64 (4.5.1+git230720-3ubuntu1) ...
423s Selecting previously unselected package libxft2:arm64.
423s Preparing to unpack .../135-libxft2_2.3.6-1_arm64.deb ...
423s Unpacking libxft2:arm64 (2.3.6-1) ...
423s Selecting previously unselected package x11-common.
423s Preparing to unpack .../136-x11-common_1%3a7.7+23ubuntu2_all.deb ...
423s Unpacking x11-common (1:7.7+23ubuntu2) ...
423s Selecting previously unselected package libxss1:arm64.
423s Preparing to unpack .../137-libxss1_1%3a1.2.3-1build2_arm64.deb ...
423s Unpacking libxss1:arm64 (1:1.2.3-1build2) ...
423s Selecting previously unselected package libtk8.6:arm64.
423s Preparing to unpack .../138-libtk8.6_8.6.13-2_arm64.deb ...
423s Unpacking libtk8.6:arm64 (8.6.13-2) ...
423s Selecting previously unselected package libice6:arm64.
423s Preparing to unpack .../139-libice6_2%3a1.0.10-1build2_arm64.deb ...
423s Unpacking libice6:arm64 (2:1.0.10-1build2) ...
423s Selecting previously unselected package libsm6:arm64.
423s Preparing to unpack .../140-libsm6_2%3a1.2.3-1build2_arm64.deb ...
423s Unpacking libsm6:arm64 (2:1.2.3-1build2) ...
423s Selecting previously unselected package libxt6:arm64.
423s Preparing to unpack .../141-libxt6_1%3a1.2.1-1.1_arm64.deb ...
423s Unpacking libxt6:arm64 (1:1.2.1-1.1) ...
423s Selecting previously unselected package r-base-core.
423s Preparing to unpack .../142-r-base-core_4.3.2-1build1_arm64.deb ...
423s Unpacking r-base-core (4.3.2-1build1) ...
424s Selecting previously unselected package r-cran-cli.
424s Preparing to unpack .../143-r-cran-cli_3.6.2-1_arm64.deb ...
424s Unpacking r-cran-cli (3.6.2-1) ...
424s Selecting previously unselected package r-cran-glue.
424s Preparing to unpack .../144-r-cran-glue_1.7.0-1_arm64.deb ...
424s Unpacking r-cran-glue (1.7.0-1) ...
424s Selecting previously unselected package r-cran-rlang.
424s Preparing to unpack .../145-r-cran-rlang_1.1.3-1_arm64.deb ...
424s Unpacking r-cran-rlang (1.1.3-1) ...
424s Selecting previously unselected package r-cran-lifecycle.
424s Preparing to unpack .../146-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ...
424s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ...
424s Selecting previously unselected package r-cran-gtable.
424s Preparing to unpack .../147-r-cran-gtable_0.3.4+dfsg-1_all.deb ...
424s Unpacking r-cran-gtable (0.3.4+dfsg-1) ...
424s Selecting previously unselected package r-cran-isoband.
424s Preparing to unpack .../148-r-cran-isoband_0.2.7-1_arm64.deb ...
424s Unpacking r-cran-isoband (0.2.7-1) ...
424s Selecting previously unselected package r-cran-mass.
424s Preparing to unpack .../149-r-cran-mass_7.3-60.0.1-1_arm64.deb ...
424s Unpacking r-cran-mass (7.3-60.0.1-1) ...
424s Selecting previously unselected package r-cran-lattice.
424s Preparing to unpack .../150-r-cran-lattice_0.22-5-1_arm64.deb ...
424s Unpacking r-cran-lattice (0.22-5-1) ...
424s Selecting previously unselected package r-cran-nlme.
424s Preparing to unpack .../151-r-cran-nlme_3.1.164-1_arm64.deb ...
424s Unpacking r-cran-nlme (3.1.164-1) ...
424s Selecting previously unselected package r-cran-matrix.
424s Preparing to unpack .../152-r-cran-matrix_1.6-5-1_arm64.deb ...
424s Unpacking r-cran-matrix (1.6-5-1) ...
425s Selecting previously unselected package r-cran-mgcv.
425s Preparing to unpack .../153-r-cran-mgcv_1.9-1-1_arm64.deb ...
425s Unpacking r-cran-mgcv (1.9-1-1) ...
425s Selecting previously unselected package r-cran-farver.
425s Preparing to unpack .../154-r-cran-farver_2.1.1-1_arm64.deb ...
425s Unpacking r-cran-farver (2.1.1-1) ...
425s Selecting previously unselected package r-cran-labeling.
425s Preparing to unpack .../155-r-cran-labeling_0.4.3-1_all.deb ...
425s Unpacking r-cran-labeling (0.4.3-1) ...
425s Selecting previously unselected package r-cran-colorspace.
425s Preparing to unpack .../156-r-cran-colorspace_2.1-0+dfsg-1_arm64.deb ...
425s Unpacking r-cran-colorspace (2.1-0+dfsg-1) ...
425s Selecting previously unselected package r-cran-munsell.
425s Preparing to unpack .../157-r-cran-munsell_0.5.0-2build1_all.deb ...
425s Unpacking r-cran-munsell (0.5.0-2build1) ...
425s Selecting previously unselected package r-cran-r6.
425s Preparing to unpack .../158-r-cran-r6_2.5.1-1_all.deb ...
425s Unpacking r-cran-r6 (2.5.1-1) ...
425s Selecting previously unselected package r-cran-rcolorbrewer.
425s Preparing to unpack .../159-r-cran-rcolorbrewer_1.1-3-1build1_all.deb ...
425s Unpacking r-cran-rcolorbrewer (1.1-3-1build1) ...
425s Selecting previously unselected package r-cran-viridislite.
425s Preparing to unpack .../160-r-cran-viridislite_0.4.2-2_all.deb ...
425s Unpacking r-cran-viridislite (0.4.2-2) ...
425s Selecting previously unselected package r-cran-scales.
425s Preparing to unpack .../161-r-cran-scales_1.3.0-1_all.deb ...
425s Unpacking r-cran-scales (1.3.0-1) ...
425s Selecting previously unselected package r-cran-fansi.
425s Preparing to unpack .../162-r-cran-fansi_1.0.5-1_arm64.deb ...
425s Unpacking r-cran-fansi (1.0.5-1) ...
425s Selecting previously unselected package r-cran-magrittr.
425s Preparing to unpack .../163-r-cran-magrittr_2.0.3-1_arm64.deb ...
425s Unpacking r-cran-magrittr (2.0.3-1) ...
425s Selecting previously unselected package r-cran-utf8.
425s Preparing to unpack .../164-r-cran-utf8_1.2.4-1_arm64.deb ...
425s Unpacking r-cran-utf8 (1.2.4-1) ...
425s Selecting previously unselected package r-cran-vctrs.
425s Preparing to unpack .../165-r-cran-vctrs_0.6.5-1_arm64.deb ...
425s Unpacking r-cran-vctrs (0.6.5-1) ...
425s Selecting previously unselected package r-cran-pillar.
425s Preparing to unpack .../166-r-cran-pillar_1.9.0+dfsg-1_all.deb ...
425s Unpacking r-cran-pillar (1.9.0+dfsg-1) ...
425s Selecting previously unselected package r-cran-pkgconfig.
425s Preparing to unpack .../167-r-cran-pkgconfig_2.0.3-2build1_all.deb ...
425s Unpacking r-cran-pkgconfig (2.0.3-2build1) ...
425s Selecting previously unselected package r-cran-tibble.
425s Preparing to unpack .../168-r-cran-tibble_3.2.1+dfsg-2_arm64.deb ...
425s Unpacking r-cran-tibble (3.2.1+dfsg-2) ...
425s Selecting previously unselected package r-cran-withr.
425s Preparing to unpack .../169-r-cran-withr_2.5.0-1_all.deb ...
425s Unpacking r-cran-withr (2.5.0-1) ...
425s Selecting previously unselected package r-cran-ggplot2.
425s Preparing to unpack .../170-r-cran-ggplot2_3.4.4+dfsg-1_all.deb ...
425s Unpacking r-cran-ggplot2 (3.4.4+dfsg-1) ...
425s Selecting previously unselected package mafft.
425s Preparing to unpack .../171-mafft_7.505-1_arm64.deb ...
425s Unpacking mafft (7.505-1) ...
426s Selecting previously unselected package fasttree.
426s Preparing to unpack .../172-fasttree_2.1.11-2_arm64.deb ...
426s Unpacking fasttree (2.1.11-2) ...
426s Selecting previously unselected package roary.
426s Preparing to unpack .../173-roary_3.13.0+dfsg-1_all.deb ...
426s Unpacking roary (3.13.0+dfsg-1) ...
426s Setting up libarray-utils-perl (0.5-3) ...
426s Setting up libgraphite2-3:arm64 (1.3.14-2) ...
426s Setting up ncbi-data (6.1.20170106+dfsg1-10) ...
426s Setting up libpixman-1-0:arm64 (0.42.2-1) ...
426s Setting up libsharpyuv0:arm64 (1.3.2-0.4) ...
426s Setting up libpaper1:arm64 (1.1.29) ...
426s 
426s Creating config file /etc/papersize with new version
426s Setting up libfile-slurper-perl (0.014-1) ...
426s Setting up libfile-which-perl (1.27-2) ...
426s Setting up liblerc4:arm64 (4.0.0+ds-4ubuntu1) ...
426s Setting up libparse-yapp-perl (1.21-3) ...
426s Setting up libxrender1:arm64 (1:0.9.10-1.1) ...
426s Setting up libdynaloader-functions-perl (0.003-3) ...
426s Setting up libdatrie1:arm64 (0.2.13-3) ...
426s Setting up libtext-glob-perl (0.11-3) ...
426s Setting up libtest-deep-perl (1.204-1) ...
426s Setting up libxcb-render0:arm64 (1.15-1) ...
426s Setting up mafft (7.505-1) ...
426s Setting up libclone-perl:arm64 (0.46-1build1) ...
426s Setting up libalgorithm-diff-perl (1.201-1) ...
426s Setting up libhtml-tagset-perl (3.20-6) ...
426s Setting up libtest-file-perl (1.993-1) ...
426s Setting up unzip (6.0-28ubuntu3) ...
426s Setting up libheap-perl (0.80-5) ...
426s Setting up liblwp-mediatypes-perl (6.04-2) ...
426s Setting up x11-common (1:7.7+23ubuntu2) ...
426s Setting up libtry-tiny-perl (0.31-2) ...
426s Setting up libdeflate0:arm64 (1.19-1) ...
426s Setting up perl-openssl-defaults:arm64 (7) ...
426s Setting up libencode-locale-perl (1.05-3) ...
426s Setting up libxcb-shm0:arm64 (1.15-1) ...
426s Setting up libfindbin-libs-perl (3.0.2-1) ...
426s Setting up libpaper-utils (1.1.29) ...
426s Setting up libgomp1:arm64 (14-20240303-1ubuntu1) ...
426s Setting up libjbig0:arm64 (2.1-6.1ubuntu1) ...
426s Setting up libsub-install-perl (0.929-1) ...
426s Setting up libnumber-compare-perl (0.03-3) ...
426s Setting up libio-string-perl (1.08-4) ...
426s Setting up zip (3.0-13) ...
426s Setting up libpackage-stash-xs-perl:arm64 (0.30-1build2) ...
426s Setting up libblas3:arm64 (3.12.0-3) ...
426s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode
426s Setting up libclass-data-inheritable-perl (0.08-3) ...
426s Setting up libalgorithm-c3-perl (0.11-2) ...
426s Setting up libset-object-perl (1.42-1build3) ...
426s Setting up liblog-log4perl-perl (1.57-1) ...
426s Setting up libmbedcrypto7:arm64 (2.28.7-1ubuntu1) ...
426s Setting up libtext-diff-perl (1.45-2) ...
426s Setting up libfile-find-rule-perl (0.34-3) ...
426s Setting up libperlio-utf8-strict-perl (0.010-1build1) ...
426s Setting up libxml-writer-perl (0.900-2) ...
426s Setting up libenv-path-perl (0.19-4) ...
426s Setting up fonts-dejavu-mono (2.37-8) ...
426s Setting up libio-html-perl (1.004-3) ...
426s Setting up libtcl8.6:arm64 (8.6.13+dfsg-2) ...
426s Setting up libb-hooks-op-check-perl:arm64 (0.22-2build2) ...
426s Setting up libfile-grep-perl (0.02-3) ...
426s Setting up fonts-dejavu-core (2.37-8) ...
427s Setting up libjpeg-turbo8:arm64 (2.1.5-2ubuntu1) ...
427s Setting up libparams-util-perl (1.102-2build1) ...
427s Setting up parallel (20231122+ds-1) ...
427s Setting up libspiffy-perl (0.46-1) ...
427s Setting up libgfortran5:arm64 (14-20240303-1ubuntu1) ...
427s Setting up libsub-exporter-progressive-perl (0.001013-3) ...
427s Setting up libwebp7:arm64 (1.3.2-0.4) ...
427s Setting up libcapture-tiny-perl (0.48-2) ...
427s Setting up libtimedate-perl (2.3300-2) ...
427s Setting up libdata-stag-perl (0.14-3) ...
427s Setting up libtingea0:arm64 (21-361-2) ...
427s Setting up libsub-uplevel-perl (0.2800-3) ...
427s Setting up libharfbuzz0b:arm64 (8.3.0-2) ...
427s Setting up libthai-data (0.1.29-2) ...
427s Setting up libdevel-globaldestruction-perl (0.14-4) ...
427s Setting up fasttree (2.1.11-2) ...
427s Setting up libdevel-stacktrace-perl (2.0500-1) ...
427s Setting up libbio-perl-perl (1.7.8-1) ...
427s Setting up libxss1:arm64 (1:1.2.3-1build2) ...
427s Setting up xdg-utils (1.1.3-4.1ubuntu3) ...
427s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
427s Setting up bedtools (2.31.1+dfsg-2) ...
427s Setting up liburi-perl (5.27-1) ...
427s Setting up prank (0.0.170427+dfsg-3) ...
427s Setting up libtext-csv-perl (2.04-1) ...
427s Setting up libnet-ssleay-perl:arm64 (1.94-1) ...
427s Setting up cd-hit (4.8.1-4) ...
427s Setting up libjpeg8:arm64 (8c-2ubuntu11) ...
427s Setting up libice6:arm64 (2:1.0.10-1build2) ...
427s Setting up libhttp-date-perl (6.06-1) ...
427s Setting up liblapack3:arm64 (3.12.0-3) ...
427s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode
427s Setting up libfile-listing-perl (6.16-1) ...
427s Setting up libmbedx509-1:arm64 (2.28.7-1ubuntu1) ...
427s Setting up libmbedtls14:arm64 (2.28.7-1ubuntu1) ...
427s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
427s Setting up libtest-warn-perl (0.37-2) ...
427s Setting up libtest-differences-perl (0.71-1) ...
427s Setting up libnet-http-perl (6.23-1) ...
427s Setting up libexception-class-perl (1.45-1) ...
427s Setting up libio-all-perl (0.87-2) ...
427s Setting up libclass-c3-perl (0.35-2) ...
427s Setting up libgraph-perl (1:0.9727-1) ...
427s Setting up libdevel-callchecker-perl:arm64 (0.008-2build1) ...
427s Setting up libtest-files-perl (0.15-1) ...
427s Setting up ncbi-blast+ (2.12.0+ds-4) ...
427s Setting up libthai0:arm64 (0.1.29-2) ...
427s Setting up libtest-exception-perl (0.43-3) ...
427s Setting up mcl (1:22-282+ds-2) ...
427s Setting up libdata-optlist-perl (0.114-1) ...
427s Setting up libtest-output-perl (1.034-1) ...
427s Setting up libwww-robotrules-perl (6.02-1) ...
427s Setting up libtiff6:arm64 (4.5.1+git230720-3ubuntu1) ...
427s Setting up libhtml-parser-perl:arm64 (3.81-1build1) ...
427s Setting up libfontconfig1:arm64 (2.15.0-1ubuntu1) ...
427s Setting up libmro-compat-perl (0.15-2) ...
427s Setting up libsm6:arm64 (2:1.2.3-1build2) ...
427s Setting up libio-socket-ssl-perl (2.085-1) ...
427s Setting up libsub-exporter-perl (0.990-1) ...
427s Setting up libhttp-message-perl (6.45-1ubuntu1) ...
427s Setting up libeval-closure-perl (0.14-3) ...
427s Setting up libhttp-negotiate-perl (6.01-2) ...
427s Setting up fontconfig (2.15.0-1ubuntu1) ...
429s Regenerating fonts cache... done.
429s Setting up libxft2:arm64 (2.3.6-1) ...
429s Setting up libhttp-cookies-perl (6.11-1) ...
429s Setting up libtest-most-perl (0.38-1) ...
429s Setting up libhtml-tree-perl (5.07-3) ...
429s Setting up libtk8.6:arm64 (8.6.13-2) ...
429s Setting up libparams-classify-perl:arm64 (0.015-2build3) ...
429s Setting up libpango-1.0-0:arm64 (1.51.0+ds-4) ...
429s Setting up libcairo2:arm64 (1.18.0-1) ...
429s Setting up libmodule-runtime-perl (0.016-2) ...
429s Setting up libdist-checkconflicts-perl (0.11-2) ...
429s Setting up libxt6:arm64 (1:1.2.1-1.1) ...
429s Setting up libpangoft2-1.0-0:arm64 (1.51.0+ds-4) ...
429s Setting up libpangocairo-1.0-0:arm64 (1.51.0+ds-4) ...
429s Setting up bioperl (1.7.8-1) ...
429s Setting up libmodule-implementation-perl (0.09-2) ...
429s Setting up libpackage-stash-perl (0.40-1) ...
429s Setting up libmodule-runtime-conflicts-perl (0.003-2) ...
429s Setting up libclass-load-perl (0.25-2) ...
429s Setting up r-base-core (4.3.2-1build1) ...
429s 
429s Creating config file /etc/R/Renviron with new version
429s Setting up r-cran-labeling (0.4.3-1) ...
429s Setting up r-cran-lattice (0.22-5-1) ...
429s Setting up r-cran-nlme (3.1.164-1) ...
430s Setting up r-cran-farver (2.1.1-1) ...
430s Setting up libpackage-deprecationmanager-perl (0.18-1) ...
430s Setting up r-cran-viridislite (0.4.2-2) ...
430s Setting up libdevel-overloadinfo-perl (0.007-1) ...
430s Setting up libclass-load-xs-perl (0.10-2build2) ...
430s Setting up r-cran-r6 (2.5.1-1) ...
430s Setting up r-cran-magrittr (2.0.3-1) ...
430s Setting up r-cran-rlang (1.1.3-1) ...
430s Setting up r-cran-withr (2.5.0-1) ...
430s Setting up libmoose-perl:arm64 (2.2207-1) ...
430s Setting up r-cran-fansi (1.0.5-1) ...
430s Setting up r-cran-mass (7.3-60.0.1-1) ...
430s Setting up r-cran-glue (1.7.0-1) ...
430s Setting up r-cran-cli (3.6.2-1) ...
430s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
430s Setting up r-cran-pkgconfig (2.0.3-2build1) ...
430s Setting up r-cran-utf8 (1.2.4-1) ...
430s Setting up r-cran-colorspace (2.1-0+dfsg-1) ...
430s Setting up r-cran-rcolorbrewer (1.1-3-1build1) ...
430s Setting up r-cran-isoband (0.2.7-1) ...
430s Setting up r-cran-gtable (0.3.4+dfsg-1) ...
430s Setting up r-cran-matrix (1.6-5-1) ...
430s Setting up r-cran-mgcv (1.9-1-1) ...
430s Setting up r-cran-vctrs (0.6.5-1) ...
430s Setting up r-cran-pillar (1.9.0+dfsg-1) ...
430s Setting up r-cran-munsell (0.5.0-2build1) ...
430s Setting up r-cran-tibble (3.2.1+dfsg-2) ...
430s Setting up r-cran-scales (1.3.0-1) ...
430s Setting up r-cran-ggplot2 (3.4.4+dfsg-1) ...
430s Setting up liblwp-protocol-https-perl (6.13-1) ...
430s Setting up libwww-perl (6.76-1) ...
430s Setting up libdigest-md5-file-perl (0.08-1.1) ...
430s Setting up libxml-parser-perl (2.47-1build1) ...
430s Setting up libgraph-readwrite-perl (2.10-1) ...
430s Setting up roary (3.13.0+dfsg-1) ...
430s Setting up autopkgtest-satdep (0) ...
430s Processing triggers for libc-bin (2.39-0ubuntu2) ...
430s Processing triggers for man-db (2.12.0-3) ...
431s Processing triggers for install-info (7.1-3) ...
441s (Reading database ... 83392 files and directories currently installed.)
441s Removing autopkgtest-satdep (0) ...
442s autopkgtest [03:55:32]: test test-installed: [-----------------------
443s 
443s Please cite Roary if you use any of the results it produces:
443s     Andrew J. Page, Carla A. Cummins, Martin Hunt, Vanessa K. Wong, Sandra Reuter, Matthew T. G. Holden, Maria Fookes, Daniel Falush, Jacqueline A. Keane, Julian Parkhill,
443s 	"Roary: Rapid large-scale prokaryote pan genome analysis", Bioinformatics, 2015 Nov 15;31(22):3691-3693
443s     doi: http://doi.org/10.1093/bioinformatics/btv421
443s 	Pubmed: 26198102
443s 
447s autopkgtest [03:55:37]: test test-installed: -----------------------]
447s test-installed       PASS
447s autopkgtest [03:55:37]: test test-installed:  - - - - - - - - - - results - - - - - - - - - -
448s autopkgtest [03:55:38]: @@@@@@@@@@@@@@@@@@@@ summary
448s test-installed       PASS
459s Creating nova instance adt-noble-arm64-roary-20240311-034810-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-arm64-server-20240311.img (UUID 900cfff9-7f1a-42c7-81a7-22635cd2a5f9)...