Sun May 28 15:56:42 UTC 2023 I: starting to build roary/bookworm/armhf on jenkins on '2023-05-28 15:56' Sun May 28 15:56:42 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_36/3289/console.log Sun May 28 15:56:42 UTC 2023 I: Downloading source for bookworm/roary=3.13.0+dfsg-1 --2023-05-28 15:56:42-- http://cdn-fastly.deb.debian.org/debian/pool/main/r/roary/roary_3.13.0%2bdfsg-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2501 (2.4K) [text/prs.lines.tag] Saving to: ‘roary_3.13.0+dfsg-1.dsc’ 0K .. 100% 245M=0s 2023-05-28 15:56:42 (245 MB/s) - ‘roary_3.13.0+dfsg-1.dsc’ saved [2501/2501] Sun May 28 15:56:42 UTC 2023 I: roary_3.13.0+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: roary Binary: roary Architecture: all Version: 3.13.0+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Sascha Steinbiss Homepage: http://sanger-pathogens.github.io/Roary/ Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/roary Vcs-Git: https://salsa.debian.org/med-team/roary.git Testsuite: autopkgtest Build-Depends: debhelper (>= 12~), dh-dist-zilla, libdist-zilla-plugin-podweaver-perl, bioperl (>= 1.7.4), libarray-utils-perl, libenv-path-perl, libexception-class-perl, libfile-find-rule-perl, libfile-grep-perl, libfile-slurper-perl, libfile-which-perl, libfindbin-libs-perl, libgraph-perl, libgraph-readwrite-perl, liblog-log4perl-perl, libmoose-perl, libperlio-utf8-strict-perl, libtest-most-perl, libtest-file-perl, libtest-files-perl, libtest-output-perl, libtext-csv-perl, bedtools, cd-hit, ncbi-blast+, mcl, parallel, prank, r-base-core, mafft, fasttree Build-Depends-Indep: perl Package-List: roary deb science optional arch=all Checksums-Sha1: ec41e9813412b1e168328131cabc91ae1ea06162 207348 roary_3.13.0+dfsg.orig.tar.xz 00f683879e2465a2f91d2214d806d3209ace2dcd 6612 roary_3.13.0+dfsg-1.debian.tar.xz Checksums-Sha256: 5450fe6f4bab8b27829d2ec6836c0a8c9a38d42b3891fab29b10a9587dee2fd1 207348 roary_3.13.0+dfsg.orig.tar.xz f316c055c6c368084b80133c39749d78c70f229ecb1e5a8134ee35c4e7d1e830 6612 roary_3.13.0+dfsg-1.debian.tar.xz Files: fe3935332843c9d4dfb4d4c5cb9080a6 207348 roary_3.13.0+dfsg.orig.tar.xz 5e189111d062819d48d66eff830c7c36 6612 roary_3.13.0+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEWzS6WqtVB+kDQm6F6NN64vCfSHIFAl3FcvUACgkQ6NN64vCf SHIkCw//bXPQle1oBgKz8vCLiooiAPBtRcz6YLBaHWO3ZdkMiGa2H/05t98nAaxE luasIS44vFXJggCWEce7DvGAhu6VPlLjhZirZfHlGl/PISyJsYvH2/chaYbaslVF Ql/KG0lx5NUDp1aaPtoRrv2KDcqeJsTNXRmyel3yuSwsHJvtPee4f1aBIV0QjVDB 3NJu5hUCTKtC9P42Qaz/YrXJKoWIEI2jl8oaj8PygRSvL+238bnowDPTJNyQmS/j FiubtiuwsDNiKglVNHO8nyLJG7+0MinpKYl5jGtT3sqrASZsLgE01YXY0kS/05el KSEGIIa7yAl0d/k/x9YPx7svWwX0UfomWlrmSI++09r8OAqFbswi0wzXS75hnO7w 7hkKL9VfddKkSDol+ILRKJM6qQuy+fTlQz8HOWNXpXYsEqnOMQ0nHNW9d7nNa38f pjkoPbbqtrMZL6YOuygb3aIuTXfGjZMa3j8pemnx7K8fm2epiefFVYFia46u+bsJ KEtx8vwfYp+voak/r6Edjob/J7EeFI46oYfy5o2u3TGnQ3XOQM00m8pv3os/+g7P dn6NprfUztjCEpzpYfQAFSxqpC/yuPfnbLpy5+y1iqqy3BGXdMBee+Ej9M0p0hRq UD+PbkpQTLTqGjHEymTL8bwTsYARC7V/LQhbyalFKCPBm6fc+Vc= =4hyZ -----END PGP SIGNATURE----- Sun May 28 15:56:42 UTC 2023 I: Checking whether the package is not for us Sun May 28 15:56:42 UTC 2023 I: Starting 1st build on remote node jtx1b-armhf-rb.debian.net. Sun May 28 15:56:42 UTC 2023 I: Preparing to do remote build '1' on jtx1b-armhf-rb.debian.net. Sun May 28 16:03:40 UTC 2023 I: Deleting $TMPDIR on jtx1b-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun May 28 03:56:51 -12 2023 I: pbuilder-time-stamp: 1685289411 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [roary_3.13.0+dfsg-1.dsc] I: copying [./roary_3.13.0+dfsg.orig.tar.xz] I: copying [./roary_3.13.0+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Nov 8 01:51:49 2019 -12 gpgv: using RSA key 5B34BA5AAB5507E903426E85E8D37AE2F09F4872 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./roary_3.13.0+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting roary in roary-3.13.0+dfsg dpkg-source: info: unpacking roary_3.13.0+dfsg.orig.tar.xz dpkg-source: info: unpacking roary_3.13.0+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying rename_R_script.patch dpkg-source: info: applying use-dz-starter.patch dpkg-source: info: applying use-debian-perl-path.patch dpkg-source: info: applying new-bioperl-require.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/20863/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='8f40b41abc2343328df451ca3b913e36' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='20863' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.hjOENBnI/pbuilderrc_yMub --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.hjOENBnI/b1 --logfile b1/build.log roary_3.13.0+dfsg-1.dsc' SUDO_GID='114' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux jtx1b 5.10.0-23-arm64 #1 SMP Debian 5.10.179-1 (2023-05-12) aarch64 GNU/Linux I: ls -l /bin total 5072 -rwxr-xr-x 1 root root 838488 Apr 23 09:24 bash -rwxr-xr-x 3 root root 67144 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 67112 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 67632 Sep 20 2022 cat -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp -rwxr-xr-x 1 root root 132868 Jan 5 01:20 dash -rwxr-xr-x 1 root root 133220 Sep 20 2022 date -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd -rwxr-xr-x 1 root root 68104 Sep 20 2022 df -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir -rwxr-xr-x 1 root root 59128 Mar 22 21:02 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 67560 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 67548 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 55748 Mar 22 21:02 findmnt -rwsr-xr-x 1 root root 26208 Mar 22 20:15 fusermount -rwxr-xr-x 1 root root 128608 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 64220 Apr 9 2022 gzip -rwxr-xr-x 1 root root 67032 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln -rwxr-xr-x 1 root root 35132 Mar 22 21:51 login -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls -rwxr-xr-x 1 root root 136808 Mar 22 21:02 lsblk -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 38504 Mar 22 21:02 more -rwsr-xr-x 1 root root 38496 Mar 22 21:02 mount -rwxr-xr-x 1 root root 9824 Mar 22 21:02 mountpoint -rwxr-xr-x 1 root root 133532 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 67608 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 67400 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 133372 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty -rwsr-xr-x 1 root root 50800 Mar 22 21:02 su -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync -rwxr-xr-x 1 root root 336764 Apr 6 02:25 tar -rwxr-xr-x 1 root root 67144 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch -rwxr-xr-x 1 root root 67548 Sep 20 2022 true -rwxr-xr-x 1 root root 9768 Mar 22 20:15 ulockmgr_server -rwsr-xr-x 1 root root 22108 Mar 22 21:02 umount -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir -rwxr-xr-x 1 root root 42608 Mar 22 21:02 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/20863/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 12~), dh-dist-zilla, libdist-zilla-plugin-podweaver-perl, bioperl (>= 1.7.4), libarray-utils-perl, libenv-path-perl, libexception-class-perl, libfile-find-rule-perl, libfile-grep-perl, libfile-slurper-perl, libfile-which-perl, libfindbin-libs-perl, libgraph-perl, libgraph-readwrite-perl, liblog-log4perl-perl, libmoose-perl, libperlio-utf8-strict-perl, libtest-most-perl, libtest-file-perl, libtest-files-perl, libtest-output-perl, libtext-csv-perl, bedtools, cd-hit, ncbi-blast+, mcl, parallel, prank, r-base-core, mafft, fasttree, perl dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19324 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 12~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on dh-dist-zilla; however: Package dh-dist-zilla is not installed. pbuilder-satisfydepends-dummy depends on libdist-zilla-plugin-podweaver-perl; however: Package libdist-zilla-plugin-podweaver-perl is not installed. pbuilder-satisfydepends-dummy depends on bioperl (>= 1.7.4); however: Package bioperl is not installed. pbuilder-satisfydepends-dummy depends on libarray-utils-perl; however: Package libarray-utils-perl is not installed. pbuilder-satisfydepends-dummy depends on libenv-path-perl; however: Package libenv-path-perl is not installed. pbuilder-satisfydepends-dummy depends on libexception-class-perl; however: Package libexception-class-perl is not installed. pbuilder-satisfydepends-dummy depends on libfile-grep-perl; however: Package libfile-grep-perl is not installed. pbuilder-satisfydepends-dummy depends on libfile-slurper-perl; however: Package libfile-slurper-perl is not installed. pbuilder-satisfydepends-dummy depends on libfile-which-perl; however: Package libfile-which-perl is not installed. pbuilder-satisfydepends-dummy depends on libfindbin-libs-perl; however: Package libfindbin-libs-perl is not installed. pbuilder-satisfydepends-dummy depends on libgraph-perl; however: Package libgraph-perl is not installed. pbuilder-satisfydepends-dummy depends on libgraph-readwrite-perl; however: Package libgraph-readwrite-perl is not installed. pbuilder-satisfydepends-dummy depends on liblog-log4perl-perl; however: Package liblog-log4perl-perl is not installed. pbuilder-satisfydepends-dummy depends on libmoose-perl; however: Package libmoose-perl is not installed. pbuilder-satisfydepends-dummy depends on libperlio-utf8-strict-perl; however: Package libperlio-utf8-strict-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-most-perl; however: Package libtest-most-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-file-perl; however: Package libtest-file-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-files-perl; however: Package libtest-files-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-output-perl; however: Package libtest-output-perl is not installed. pbuilder-satisfydepends-dummy depends on libtext-csv-perl; however: Package libtext-csv-perl is not installed. pbuilder-satisfydepends-dummy depends on bedtools; however: Package bedtools is not installed. pbuilder-satisfydepends-dummy depends on cd-hit; however: Package cd-hit is not installed. pbuilder-satisfydepends-dummy depends on ncbi-blast+; however: Package ncbi-blast+ is not installed. pbuilder-satisfydepends-dummy depends on mcl; however: Package mcl is not installed. pbuilder-satisfydepends-dummy depends on parallel; however: Package parallel is not installed. pbuilder-satisfydepends-dummy depends on prank; however: Package prank is not installed. pbuilder-satisfydepends-dummy depends on r-base-core; however: Package r-base-core is not installed. pbuilder-satisfydepends-dummy depends on mafft; however: Package mafft is not installed. pbuilder-satisfydepends-dummy depends on fasttree; however: Package fasttree is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bedtools{a} bioperl{a} bsdextrautils{a} ca-certificates{a} cd-hit{a} debhelper{a} dh-autoreconf{a} dh-dist-zilla{a} dh-strip-nondeterminism{a} dwz{a} fasttree{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libalgorithm-c3-perl{a} libalgorithm-diff-perl{a} libaliased-perl{a} libapp-cmd-perl{a} libarchive-zip-perl{a} libarray-utils-perl{a} libautobox-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libbio-perl-perl{a} libblas3{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcapture-tiny-perl{a} libcarp-clan-perl{a} libclass-c3-perl{a} libclass-data-inheritable-perl{a} libclass-inspector-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclass-method-modifiers-perl{a} libclass-singleton-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libconfig-ini-perl{a} libconfig-mvp-perl{a} libconfig-mvp-reader-ini-perl{a} libcpan-uploader-perl{a} libcpanel-json-xs-perl{a} libcurl4{a} libdata-optlist-perl{a} libdata-section-perl{a} libdata-stag-perl{a} libdatetime-locale-perl{a} libdatetime-perl{a} libdatetime-timezone-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdist-zilla-perl{a} libdist-zilla-plugin-podweaver-perl{a} libdynaloader-functions-perl{a} libelf1{a} libencode-locale-perl{a} libenv-path-perl{a} libeval-closure-perl{a} libexception-class-perl{a} libexpat1{a} libexporter-tiny-perl{a} libfile-copy-recursive-perl{a} libfile-grep-perl{a} libfile-listing-perl{a} libfile-pushd-perl{a} libfile-sharedir-install-perl{a} libfile-sharedir-perl{a} libfile-slurp-tiny-perl{a} libfile-slurper-perl{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfindbin-libs-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgetopt-long-descriptive-perl{a} libgfortran5{a} libglib2.0-0{a} libgraph-perl{a} libgraph-readwrite-perl{a} libgraphite2-3{a} libharfbuzz0b{a} libhash-merge-simple-perl{a} libheap-perl{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libice6{a} libicu72{a} libimport-into-perl{a} libio-all-perl{a} libio-html-perl{a} libio-socket-ssl-perl{a} libio-string-perl{a} libio-stringy-perl{a} libio-tiecombine-perl{a} libjbig0{a} libjpeg62-turbo{a} libjson-maybexs-perl{a} libjson-perl{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblist-moreutils-perl{a} liblist-moreutils-xs-perl{a} liblmdb0{a} liblog-dispatch-array-perl{a} liblog-dispatch-perl{a} liblog-dispatchouli-perl{a} liblog-log4perl-perl{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} libmagic-mgc{a} libmagic1{a} libmbedcrypto7{a} libmbedtls14{a} libmbedx509-1{a} libmixin-linewise-perl{a} libmodule-implementation-perl{a} libmodule-path-perl{a} libmodule-pluggable-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoo-perl{a} libmoose-autobox-perl{a} libmoose-perl{a} libmoosex-lazyrequire-perl{a} libmoosex-oneargnew-perl{a} libmoosex-role-parameterized-perl{a} libmoosex-setonce-perl{a} libmoosex-types-perl{a} libmoosex-types-perl-perl{a} libmro-compat-perl{a} libnamespace-autoclean-perl{a} libnamespace-clean-perl{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libparams-validate-perl{a} libparams-validationcompiler-perl{a} libparse-yapp-perl{a} libpath-tiny-perl{a} libpcre3{a} libperl-prereqscanner-perl{a} libperl-version-perl{a} libperlio-utf8-strict-perl{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libpod-elemental-perl{a} libpod-elemental-perlmunger-perl{a} libpod-eventual-perl{a} libpod-weaver-perl{a} libppi-perl{a} libproc2-0{a} libpsl5{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8{a} libregexp-ipv6-perl{a} librole-hasmessage-perl{a} librole-identifiable-perl{a} librole-tiny-perl{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libscope-guard-perl{a} libsensors-config{a} libsensors5{a} libset-object-perl{a} libsm6{a} libsoftware-license-perl{a} libspecio-perl{a} libspiffy-perl{a} libssh2-1{a} libstring-errf-perl{a} libstring-flogger-perl{a} libstring-formatter-perl{a} libstring-rewriteprefix-perl{a} libstring-truncate-perl{a} libsub-exporter-formethods-perl{a} libsub-exporter-globexporter-perl{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libsub-override-perl{a} libsub-quote-perl{a} libsub-uplevel-perl{a} libsyntax-keyword-junction-perl{a} libsyntax-perl{a} libtask-weaken-perl{a} libtcl8.6{a} libterm-encoding-perl{a} libterm-readkey-perl{a} libtest-deep-perl{a} libtest-differences-perl{a} libtest-exception-perl{a} libtest-file-perl{a} libtest-files-perl{a} libtest-most-perl{a} libtest-output-perl{a} libtest-warn-perl{a} libtext-csv-perl{a} libtext-diff-perl{a} libtext-template-perl{a} libthai-data{a} libthai0{a} libthrowable-perl{a} libtie-ixhash-perl{a} libtiff6{a} libtimedate-perl{a} libtingea0{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml-parser-perl{a} libxml-writer-perl{a} libxml2{a} libxrender1{a} libxss1{a} libxstring-perl{a} libxt6{a} libyaml-tiny-perl{a} m4{a} mafft{a} man-db{a} mcl{a} media-types{a} ncbi-blast+{a} ncbi-data{a} netbase{a} openssl{a} parallel{a} perl-openssl-defaults{a} po-debconf{a} prank{a} procps{a} python3{a} python3-minimal{a} python3.11{a} python3.11-minimal{a} r-base-core{a} readline-common{a} sensible-utils{a} sysstat{a} ucf{a} unzip{a} x11-common{a} xdg-utils{a} zip{a} The following packages are RECOMMENDED but will NOT be installed: bash-completion bcron bioperl-run cpanminus cron curl devscripts libace-perl libalgorithm-diff-xs-perl libalgorithm-munkres-perl libapache-dbi-perl libarchive-cpio-perl libarchive-tar-wrapper-perl libarray-compare-perl libbio-asn1-entrezgene-perl libbio-perl-run-perl libcache-cache-perl libclass-c3-xs-perl libconvert-binary-c-perl libdata-dump-perl libdbd-mysql-perl libdbd-pg-perl libdbd-sqlite3-perl libdbi-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libgd-perl libglib2.0-data libgraphviz-perl libhtml-form-perl libhtml-format-perl libhtml-tableextract-perl libhttp-daemon-perl libipc-shareable-perl libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libmailtools-perl libmime-lite-perl libmldbm-perl libnet-dbus-perl libpod-coverage-trustpod-perl libpostscript-perl libref-util-perl libsasl2-modules libset-scalar-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-graph-perl libsvg-perl libterm-readline-gnu-perl libterm-ui-perl libtest-cpan-meta-perl libtest-pod-coverage-perl libtest-pod-perl libtext-csv-xs-perl libunicode-utf8-perl libx11-protocol-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-libxslt-perl libxml-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libyaml-perl lynx perl-doc perl-tk psmisc publicsuffix r-base-dev r-doc-html r-recommended ruby shared-mime-info systemd systemd-cron wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 299 newly installed, 0 to remove and 0 not upgraded. Need to get 101 MB of archives. After unpacking 310 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf libpython3.11-minimal armhf 3.11.2-6 [798 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf libexpat1 armhf 2.5.0-1 [79.9 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf python3.11-minimal armhf 3.11.2-6 [1714 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf python3-minimal armhf 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf readline-common all 8.2-1.3 [69.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf libreadline8 armhf 8.2-1.3 [144 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf libpython3.11-stdlib armhf 3.11.2-6 [1678 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf python3.11 armhf 3.11.2-6 [572 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf libpython3-stdlib armhf 3.11.2-1+b1 [9296 B] Get: 11 http://deb.debian.org/debian bookworm/main armhf python3 armhf 3.11.2-1+b1 [26.3 kB] Get: 12 http://deb.debian.org/debian bookworm/main armhf netbase all 6.4 [12.8 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf libproc2-0 armhf 2:4.0.2-3 [54.2 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf procps armhf 2:4.0.2-3 [695 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf openssl armhf 3.0.8-1 [1373 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf ca-certificates all 20230311 [153 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 22 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 24 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 26 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf ucf all 3.0043+nmu1 [55.2 kB] Get: 28 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 32 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf bedtools armhf 2.30.0+dfsg-3 [567 kB] Get: 34 http://deb.debian.org/debian bookworm/main armhf libio-string-perl all 1.08-4 [12.1 kB] Get: 35 http://deb.debian.org/debian bookworm/main armhf libdata-stag-perl all 0.14-3 [448 kB] Get: 36 http://deb.debian.org/debian bookworm/main armhf libbio-perl-perl all 1.7.8-1 [2603 kB] Get: 37 http://deb.debian.org/debian bookworm/main armhf libclass-data-inheritable-perl all 0.08-3 [8588 B] Get: 38 http://deb.debian.org/debian bookworm/main armhf libdevel-stacktrace-perl all 2.0400-2 [26.8 kB] Get: 39 http://deb.debian.org/debian bookworm/main armhf libexception-class-perl all 1.45-1 [34.6 kB] Get: 40 http://deb.debian.org/debian bookworm/main armhf libtest-deep-perl all 1.204-1 [52.9 kB] Get: 41 http://deb.debian.org/debian bookworm/main armhf libcapture-tiny-perl all 0.48-2 [24.6 kB] Get: 42 http://deb.debian.org/debian bookworm/main armhf libalgorithm-diff-perl all 1.201-1 [43.3 kB] Get: 43 http://deb.debian.org/debian bookworm/main armhf libtext-diff-perl all 1.45-2 [27.2 kB] Get: 44 http://deb.debian.org/debian bookworm/main armhf libtest-differences-perl all 0.69-1 [18.9 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf libsub-uplevel-perl all 0.2800-3 [14.0 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf libtest-exception-perl all 0.43-3 [16.9 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf libtest-warn-perl all 0.37-2 [14.5 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf libtest-most-perl all 0.38-1 [25.1 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf bioperl all 1.7.8-1 [246 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf cd-hit armhf 4.8.1-4 [499 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 52 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 53 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 54 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 56 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 58 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 59 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 61 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB] Get: 62 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 63 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 64 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 65 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 66 http://deb.debian.org/debian bookworm/main armhf libparams-util-perl armhf 1.102-2+b1 [23.8 kB] Get: 67 http://deb.debian.org/debian bookworm/main armhf libsub-install-perl all 0.929-1 [10.5 kB] Get: 68 http://deb.debian.org/debian bookworm/main armhf libdata-optlist-perl all 0.113-1 [10.6 kB] Get: 69 http://deb.debian.org/debian bookworm/main armhf libb-hooks-op-check-perl armhf 0.22-2+b1 [10.3 kB] Get: 70 http://deb.debian.org/debian bookworm/main armhf libdynaloader-functions-perl all 0.003-3 [12.7 kB] Get: 71 http://deb.debian.org/debian bookworm/main armhf libdevel-callchecker-perl armhf 0.008-2 [15.7 kB] Get: 72 http://deb.debian.org/debian bookworm/main armhf libparams-classify-perl armhf 0.015-2+b1 [21.9 kB] Get: 73 http://deb.debian.org/debian bookworm/main armhf libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 74 http://deb.debian.org/debian bookworm/main armhf libtry-tiny-perl all 0.31-2 [22.6 kB] Get: 75 http://deb.debian.org/debian bookworm/main armhf libmodule-implementation-perl all 0.09-2 [12.6 kB] Get: 76 http://deb.debian.org/debian bookworm/main armhf libpackage-stash-perl all 0.40-1 [22.0 kB] Get: 77 http://deb.debian.org/debian bookworm/main armhf libclass-load-perl all 0.25-2 [15.3 kB] Get: 78 http://deb.debian.org/debian bookworm/main armhf libio-stringy-perl all 2.111-3 [56.5 kB] Get: 79 http://deb.debian.org/debian bookworm/main armhf libparams-validate-perl armhf 1.31-1 [63.0 kB] Get: 80 http://deb.debian.org/debian bookworm/main armhf libsub-exporter-perl all 0.989-1 [50.5 kB] Get: 81 http://deb.debian.org/debian bookworm/main armhf libgetopt-long-descriptive-perl all 0.111-1 [27.8 kB] Get: 82 http://deb.debian.org/debian bookworm/main armhf libio-tiecombine-perl all 1.005-3 [10.8 kB] Get: 83 http://deb.debian.org/debian bookworm/main armhf libmodule-pluggable-perl all 5.2-4 [23.6 kB] Get: 84 http://deb.debian.org/debian bookworm/main armhf libstring-rewriteprefix-perl all 0.009-1 [7140 B] Get: 85 http://deb.debian.org/debian bookworm/main armhf libapp-cmd-perl all 0.335-1 [65.3 kB] Get: 86 http://deb.debian.org/debian bookworm/main armhf libscope-guard-perl all 0.21-2 [8212 B] Get: 87 http://deb.debian.org/debian bookworm/main armhf libautobox-perl armhf 3.0.1-2+b1 [32.7 kB] Get: 88 http://deb.debian.org/debian bookworm/main armhf libperlio-utf8-strict-perl armhf 0.010-1 [10.9 kB] Get: 89 http://deb.debian.org/debian bookworm/main armhf libmixin-linewise-perl all 0.111-1 [14.4 kB] Get: 90 http://deb.debian.org/debian bookworm/main armhf libconfig-ini-perl all 1:0.029-1 [23.7 kB] Get: 91 http://deb.debian.org/debian bookworm/main armhf libclass-load-xs-perl armhf 0.10-2+b1 [13.7 kB] Get: 92 http://deb.debian.org/debian bookworm/main armhf libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get: 93 http://deb.debian.org/debian bookworm/main armhf libdevel-globaldestruction-perl all 0.14-4 [7144 B] Get: 94 http://deb.debian.org/debian bookworm/main armhf libalgorithm-c3-perl all 0.11-2 [10.8 kB] Get: 95 http://deb.debian.org/debian bookworm/main armhf libclass-c3-perl all 0.35-2 [21.0 kB] Get: 96 http://deb.debian.org/debian bookworm/main armhf libmro-compat-perl all 0.15-2 [11.8 kB] Get: 97 http://deb.debian.org/debian bookworm/main armhf libdevel-overloadinfo-perl all 0.007-1 [7896 B] Get: 98 http://deb.debian.org/debian bookworm/main armhf libeval-closure-perl all 0.14-3 [11.2 kB] Get: 99 http://deb.debian.org/debian bookworm/main armhf libdist-checkconflicts-perl all 0.11-2 [10.5 kB] Get: 100 http://deb.debian.org/debian bookworm/main armhf libmodule-runtime-conflicts-perl all 0.003-2 [7356 B] Get: 101 http://deb.debian.org/debian bookworm/main armhf libpackage-deprecationmanager-perl all 0.18-1 [17.6 kB] Get: 102 http://deb.debian.org/debian bookworm/main armhf libpackage-stash-xs-perl armhf 0.30-1+b1 [18.2 kB] Get: 103 http://deb.debian.org/debian bookworm/main armhf libmoose-perl armhf 2.2203-1 [793 kB] Get: 104 http://deb.debian.org/debian bookworm/main armhf libvariable-magic-perl armhf 0.63-1+b1 [41.5 kB] Get: 105 http://deb.debian.org/debian bookworm/main armhf libb-hooks-endofscope-perl all 0.26-1 [19.6 kB] Get: 106 http://deb.debian.org/debian bookworm/main armhf libsub-identify-perl armhf 0.14-3 [10.5 kB] Get: 107 http://deb.debian.org/debian bookworm/main armhf libsub-name-perl armhf 0.26-2+b1 [12.2 kB] Get: 108 http://deb.debian.org/debian bookworm/main armhf libnamespace-clean-perl all 0.27-2 [17.8 kB] Get: 109 http://deb.debian.org/debian bookworm/main armhf libnamespace-autoclean-perl all 0.29-2 [13.5 kB] Get: 110 http://deb.debian.org/debian bookworm/main armhf libmoosex-role-parameterized-perl all 1.11-2 [41.9 kB] Get: 111 http://deb.debian.org/debian bookworm/main armhf libmoosex-oneargnew-perl all 0.007-1 [8180 B] Get: 112 http://deb.debian.org/debian bookworm/main armhf libcpanel-json-xs-perl armhf 4.35-1 [129 kB] Get: 113 http://deb.debian.org/debian bookworm/main armhf libjson-maybexs-perl all 1.004004-1 [13.3 kB] Get: 114 http://deb.debian.org/debian bookworm/main armhf libstring-formatter-perl all 1.235-1 [22.1 kB] Get: 115 http://deb.debian.org/debian bookworm/main armhf libtimedate-perl all 2.3300-2 [39.3 kB] Get: 116 http://deb.debian.org/debian bookworm/main armhf libstring-errf-perl all 0.009-1 [12.9 kB] Get: 117 http://deb.debian.org/debian bookworm/main armhf librole-hasmessage-perl all 0.007-1 [9112 B] Get: 118 http://deb.debian.org/debian bookworm/main armhf librole-identifiable-perl all 0.009-1 [10.4 kB] Get: 119 http://deb.debian.org/debian bookworm/main armhf libclass-method-modifiers-perl all 2.14-1 [18.1 kB] Get: 120 http://deb.debian.org/debian bookworm/main armhf libclass-xsaccessor-perl armhf 1.19-4+b1 [35.5 kB] Get: 121 http://deb.debian.org/debian bookworm/main armhf libimport-into-perl all 1.002005-2 [11.3 kB] Get: 122 http://deb.debian.org/debian bookworm/main armhf librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 123 http://deb.debian.org/debian bookworm/main armhf libsub-quote-perl all 2.006008-1 [21.8 kB] Get: 124 http://deb.debian.org/debian bookworm/main armhf libmoo-perl all 2.005005-1 [58.0 kB] Get: 125 http://deb.debian.org/debian bookworm/main armhf libthrowable-perl all 1.001-1 [15.7 kB] Get: 126 http://deb.debian.org/debian bookworm/main armhf libtie-ixhash-perl all 1.23-4 [11.7 kB] Get: 127 http://deb.debian.org/debian bookworm/main armhf libconfig-mvp-perl all 2.200013-1 [47.1 kB] Get: 128 http://deb.debian.org/debian bookworm/main armhf libconfig-mvp-reader-ini-perl all 2.101465-1 [6900 B] Get: 129 http://deb.debian.org/debian bookworm/main armhf perl-openssl-defaults armhf 7+b1 [7916 B] Get: 130 http://deb.debian.org/debian bookworm/main armhf libnet-ssleay-perl armhf 1.92-2+b1 [298 kB] Get: 131 http://deb.debian.org/debian bookworm/main armhf libio-socket-ssl-perl all 2.081-2 [219 kB] Get: 132 http://deb.debian.org/debian bookworm/main armhf libregexp-ipv6-perl all 0.03-3 [5212 B] Get: 133 http://deb.debian.org/debian bookworm/main armhf liburi-perl all 5.17-1 [90.4 kB] Get: 134 http://deb.debian.org/debian bookworm/main armhf libnet-http-perl all 6.22-1 [25.3 kB] Get: 135 http://deb.debian.org/debian bookworm/main armhf libencode-locale-perl all 1.05-3 [12.9 kB] Get: 136 http://deb.debian.org/debian bookworm/main armhf libhttp-date-perl all 6.05-2 [10.5 kB] Get: 137 http://deb.debian.org/debian bookworm/main armhf libfile-listing-perl all 6.15-1 [12.6 kB] Get: 138 http://deb.debian.org/debian bookworm/main armhf libhtml-tagset-perl all 3.20-6 [11.7 kB] Get: 139 http://deb.debian.org/debian bookworm/main armhf libhtml-parser-perl armhf 3.81-1 [97.4 kB] Get: 140 http://deb.debian.org/debian bookworm/main armhf libhtml-tree-perl all 5.07-3 [211 kB] Get: 141 http://deb.debian.org/debian bookworm/main armhf libclone-perl armhf 0.46-1 [13.1 kB] Get: 142 http://deb.debian.org/debian bookworm/main armhf libio-html-perl all 1.004-3 [16.2 kB] Get: 143 http://deb.debian.org/debian bookworm/main armhf liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 144 http://deb.debian.org/debian bookworm/main armhf libhttp-message-perl all 6.44-1 [81.7 kB] Get: 145 http://deb.debian.org/debian bookworm/main armhf libhttp-cookies-perl all 6.10-1 [19.6 kB] Get: 146 http://deb.debian.org/debian bookworm/main armhf libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 147 http://deb.debian.org/debian bookworm/main armhf libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 148 http://deb.debian.org/debian bookworm/main armhf libwww-perl all 6.68-1 [186 kB] Get: 149 http://deb.debian.org/debian bookworm/main armhf liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get: 150 http://deb.debian.org/debian bookworm/main armhf libterm-readkey-perl armhf 2.38-2+b1 [23.4 kB] Get: 151 http://deb.debian.org/debian bookworm/main armhf libcpan-uploader-perl all 0.103018-1 [16.3 kB] Get: 152 http://deb.debian.org/debian bookworm/main armhf libdata-section-perl all 0.200008-1 [13.1 kB] Get: 153 http://deb.debian.org/debian bookworm/main armhf libclass-inspector-perl all 1.36-3 [17.5 kB] Get: 154 http://deb.debian.org/debian bookworm/main armhf libfile-sharedir-perl all 1.118-3 [16.0 kB] Get: 155 http://deb.debian.org/debian bookworm/main armhf libparams-validationcompiler-perl all 0.31-1 [30.9 kB] Get: 156 http://deb.debian.org/debian bookworm/main armhf libxstring-perl armhf 0.005-2+b1 [8160 B] Get: 157 http://deb.debian.org/debian bookworm/main armhf libspecio-perl all 0.48-1 [142 kB] Get: 158 http://deb.debian.org/debian bookworm/main armhf libdatetime-locale-perl all 1:1.37-1 [2776 kB] Get: 159 http://deb.debian.org/debian bookworm/main armhf libclass-singleton-perl all 1.6-2 [12.5 kB] Get: 160 http://deb.debian.org/debian bookworm/main armhf libdatetime-timezone-perl all 1:2.60-1+2023c [264 kB] Get: 161 http://deb.debian.org/debian bookworm/main armhf libdatetime-perl armhf 2:1.59-1 [119 kB] Get: 162 http://deb.debian.org/debian bookworm/main armhf libfile-copy-recursive-perl all 0.45-4 [20.0 kB] Get: 163 http://deb.debian.org/debian bookworm/main armhf libfile-pushd-perl all 1.016-2 [13.5 kB] Get: 164 http://deb.debian.org/debian bookworm/main armhf libfile-sharedir-install-perl all 0.14-2 [11.6 kB] Get: 165 http://deb.debian.org/debian bookworm/main armhf libhash-merge-simple-perl all 0.051-3 [7404 B] Get: 166 http://deb.debian.org/debian bookworm/main armhf libjson-perl all 4.10000-1 [87.5 kB] Get: 167 http://deb.debian.org/debian bookworm/main armhf liblog-dispatch-perl all 2.70-1 [78.4 kB] Get: 168 http://deb.debian.org/debian bookworm/main armhf liblog-dispatch-array-perl all 1.005-1 [6700 B] Get: 169 http://deb.debian.org/debian bookworm/main armhf libstring-flogger-perl all 1.101246-1 [7380 B] Get: 170 http://deb.debian.org/debian bookworm/main armhf libsub-exporter-globexporter-perl all 0.006-1 [8024 B] Get: 171 http://deb.debian.org/debian bookworm/main armhf liblog-dispatchouli-perl all 3.002-1 [33.9 kB] Get: 172 http://deb.debian.org/debian bookworm/main armhf libexporter-tiny-perl all 1.006000-1 [38.6 kB] Get: 173 http://deb.debian.org/debian bookworm/main armhf liblist-moreutils-xs-perl armhf 0.430-3+b1 [36.5 kB] Get: 174 http://deb.debian.org/debian bookworm/main armhf liblist-moreutils-perl all 0.430-2 [46.9 kB] Get: 175 http://deb.debian.org/debian bookworm/main armhf libsyntax-perl all 0.004-1.1 [6548 B] Get: 176 http://deb.debian.org/debian bookworm/main armhf libsyntax-keyword-junction-perl all 0.003008-3 [11.5 kB] Get: 177 http://deb.debian.org/debian bookworm/main armhf libmoose-autobox-perl all 0.16-2 [52.8 kB] Get: 178 http://deb.debian.org/debian bookworm/main armhf libaliased-perl all 0.34-3 [13.5 kB] Get: 179 http://deb.debian.org/debian bookworm/main armhf libmoosex-lazyrequire-perl all 0.11-2 [9212 B] Get: 180 http://deb.debian.org/debian bookworm/main armhf libmoosex-setonce-perl all 0.200002-2 [6632 B] Get: 181 http://deb.debian.org/debian bookworm/main armhf libcarp-clan-perl all 6.08-2 [14.1 kB] Get: 182 http://deb.debian.org/debian bookworm/main armhf libsub-exporter-formethods-perl all 0.100055-1 [8024 B] Get: 183 http://deb.debian.org/debian bookworm/main armhf libmoosex-types-perl all 0.50-2 [54.6 kB] Get: 184 http://deb.debian.org/debian bookworm/main armhf libmoosex-types-perl-perl all 0.101344-1 [8160 B] Get: 185 http://deb.debian.org/debian bookworm/main armhf libpath-tiny-perl all 0.144-1 [56.4 kB] Get: 186 http://deb.debian.org/debian bookworm/main armhf libmodule-path-perl all 0.19-3 [12.3 kB] Get: 187 http://deb.debian.org/debian bookworm/main armhf libtask-weaken-perl all 1.06-2 [9364 B] Get: 188 http://deb.debian.org/debian bookworm/main armhf libppi-perl all 1.276-1 [319 kB] Get: 189 http://deb.debian.org/debian bookworm/main armhf libperl-prereqscanner-perl all 1.025-1 [31.0 kB] Get: 190 http://deb.debian.org/debian bookworm/main armhf libfile-slurp-tiny-perl all 0.004-2 [7592 B] Get: 191 http://deb.debian.org/debian bookworm/main armhf libperl-version-perl all 1.013-2 [28.0 kB] Get: 192 http://deb.debian.org/debian bookworm/main armhf libtext-template-perl all 1.61-1 [54.4 kB] Get: 193 http://deb.debian.org/debian bookworm/main armhf libsoftware-license-perl all 0.104002-1 [118 kB] Get: 194 http://deb.debian.org/debian bookworm/main armhf libterm-encoding-perl all 0.03-2 [4980 B] Get: 195 http://deb.debian.org/debian bookworm/main armhf libyaml-tiny-perl all 1.73-1 [32.3 kB] Get: 196 http://deb.debian.org/debian bookworm/main armhf libdist-zilla-perl all 6.030-1 [376 kB] Get: 197 http://deb.debian.org/debian bookworm/main armhf dh-dist-zilla all 1.4.1 [17.9 kB] Get: 198 http://deb.debian.org/debian bookworm/main armhf fasttree armhf 2.1.11-2 [169 kB] Get: 199 http://deb.debian.org/debian bookworm/main armhf libbrotli1 armhf 1.0.9-2+b6 [271 kB] Get: 200 http://deb.debian.org/debian bookworm/main armhf libpng16-16 armhf 1.6.39-2 [260 kB] Get: 201 http://deb.debian.org/debian bookworm/main armhf libfreetype6 armhf 2.12.1+dfsg-5 [332 kB] Get: 202 http://deb.debian.org/debian bookworm/main armhf fonts-dejavu-core all 2.37-6 [1068 kB] Get: 203 http://deb.debian.org/debian bookworm/main armhf fontconfig-config armhf 2.14.1-4 [315 kB] Get: 204 http://deb.debian.org/debian bookworm/main armhf libfontconfig1 armhf 2.14.1-4 [368 kB] Get: 205 http://deb.debian.org/debian bookworm/main armhf fontconfig armhf 2.14.1-4 [448 kB] Get: 206 http://deb.debian.org/debian bookworm/main armhf libarray-utils-perl all 0.5-3 [6184 B] Get: 207 http://deb.debian.org/debian bookworm/main armhf libblas3 armhf 3.11.0-2 [105 kB] Get: 208 http://deb.debian.org/debian bookworm/main armhf libbsd0 armhf 0.11.7-2 [113 kB] Get: 209 http://deb.debian.org/debian bookworm/main armhf libpixman-1-0 armhf 0.42.2-1 [465 kB] Get: 210 http://deb.debian.org/debian bookworm/main armhf libxau6 armhf 1:1.0.9-1 [19.0 kB] Get: 211 http://deb.debian.org/debian bookworm/main armhf libxdmcp6 armhf 1:1.1.2-3 [24.9 kB] Get: 212 http://deb.debian.org/debian bookworm/main armhf libxcb1 armhf 1.15-1 [140 kB] Get: 213 http://deb.debian.org/debian bookworm/main armhf libx11-data all 2:1.8.4-2 [292 kB] Get: 214 http://deb.debian.org/debian bookworm/main armhf libx11-6 armhf 2:1.8.4-2 [695 kB] Get: 215 http://deb.debian.org/debian bookworm/main armhf libxcb-render0 armhf 1.15-1 [114 kB] Get: 216 http://deb.debian.org/debian bookworm/main armhf libxcb-shm0 armhf 1.15-1 [106 kB] Get: 217 http://deb.debian.org/debian bookworm/main armhf libxext6 armhf 2:1.3.4-1+b1 [47.8 kB] Get: 218 http://deb.debian.org/debian bookworm/main armhf libxrender1 armhf 1:0.9.10-1.1 [30.1 kB] Get: 219 http://deb.debian.org/debian bookworm/main armhf libcairo2 armhf 1.16.0-7 [493 kB] Get: 220 http://deb.debian.org/debian bookworm/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get: 221 http://deb.debian.org/debian bookworm/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get: 222 http://deb.debian.org/debian bookworm/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5 [158 kB] Get: 223 http://deb.debian.org/debian bookworm/main armhf libnghttp2-14 armhf 1.52.0-1 [60.8 kB] Get: 224 http://deb.debian.org/debian bookworm/main armhf libpsl5 armhf 0.21.2-1 [57.5 kB] Get: 225 http://deb.debian.org/debian bookworm/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 226 http://deb.debian.org/debian bookworm/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get: 227 http://deb.debian.org/debian bookworm/main armhf libcurl4 armhf 7.88.1-9 [347 kB] Get: 228 http://deb.debian.org/debian bookworm/main armhf libdatrie1 armhf 0.2.13-2+b1 [39.9 kB] Get: 229 http://deb.debian.org/debian bookworm/main armhf libdeflate0 armhf 1.14-1 [52.2 kB] Get: 230 http://deb.debian.org/debian bookworm/main armhf libpod-eventual-perl all 0.094003-1 [14.2 kB] Get: 231 http://deb.debian.org/debian bookworm/main armhf libstring-truncate-perl all 1.100603-1 [10.2 kB] Get: 232 http://deb.debian.org/debian bookworm/main armhf libpod-elemental-perl all 0.103006-1 [67.2 kB] Get: 233 http://deb.debian.org/debian bookworm/main armhf libpod-elemental-perlmunger-perl all 0.200007-1 [10.5 kB] Get: 234 http://deb.debian.org/debian bookworm/main armhf libpod-weaver-perl all 4.019-1 [77.3 kB] Get: 235 http://deb.debian.org/debian bookworm/main armhf libdist-zilla-plugin-podweaver-perl all 4.010-1 [9580 B] Get: 236 http://deb.debian.org/debian bookworm/main armhf libenv-path-perl all 0.19-4 [19.1 kB] Get: 237 http://deb.debian.org/debian bookworm/main armhf libfile-grep-perl all 0.02-3 [8352 B] Get: 238 http://deb.debian.org/debian bookworm/main armhf libfile-slurper-perl all 0.014-1 [8560 B] Get: 239 http://deb.debian.org/debian bookworm/main armhf libfile-which-perl all 1.27-2 [15.1 kB] Get: 240 http://deb.debian.org/debian bookworm/main armhf libfindbin-libs-perl all 3.0.2-1 [29.7 kB] Get: 241 http://deb.debian.org/debian bookworm/main armhf libfribidi0 armhf 1.0.8-2.1 [63.1 kB] Get: 242 http://deb.debian.org/debian bookworm/main armhf libgfortran5 armhf 12.2.0-14 [246 kB] Get: 243 http://deb.debian.org/debian bookworm/main armhf libglib2.0-0 armhf 2.74.6-2 [1227 kB] Get: 244 http://deb.debian.org/debian bookworm/main armhf libheap-perl all 0.80-5 [34.3 kB] Get: 245 http://deb.debian.org/debian bookworm/main armhf libset-object-perl armhf 1.42-1+b2 [36.1 kB] Get: 246 http://deb.debian.org/debian bookworm/main armhf libgraph-perl all 1:0.9726-1 [110 kB] Get: 247 http://deb.debian.org/debian bookworm/main armhf libspiffy-perl all 0.46-1 [25.7 kB] Get: 248 http://deb.debian.org/debian bookworm/main armhf libio-all-perl all 0.87-2 [67.3 kB] Get: 249 http://deb.debian.org/debian bookworm/main armhf libparse-yapp-perl all 1.21-3 [42.5 kB] Get: 250 http://deb.debian.org/debian bookworm/main armhf libxml-parser-perl armhf 2.46-4 [197 kB] Get: 251 http://deb.debian.org/debian bookworm/main armhf libxml-writer-perl all 0.900-2 [26.8 kB] Get: 252 http://deb.debian.org/debian bookworm/main armhf libgraph-readwrite-perl all 2.10-1 [45.2 kB] Get: 253 http://deb.debian.org/debian bookworm/main armhf libgraphite2-3 armhf 1.3.14-1 [70.5 kB] Get: 254 http://deb.debian.org/debian bookworm/main armhf libharfbuzz0b armhf 6.0.0+dfsg-3 [1893 kB] Get: 255 http://deb.debian.org/debian bookworm/main armhf x11-common all 1:7.7+23 [252 kB] Get: 256 http://deb.debian.org/debian bookworm/main armhf libice6 armhf 2:1.0.10-1 [51.9 kB] Get: 257 http://deb.debian.org/debian bookworm/main armhf libjbig0 armhf 2.1-6.1 [27.1 kB] Get: 258 http://deb.debian.org/debian bookworm/main armhf libjpeg62-turbo armhf 1:2.1.5-2 [143 kB] Get: 259 http://deb.debian.org/debian bookworm/main armhf liblapack3 armhf 3.11.0-2 [1724 kB] Get: 260 http://deb.debian.org/debian bookworm/main armhf liblerc4 armhf 4.0.0+ds-2 [137 kB] Get: 261 http://deb.debian.org/debian bookworm/main armhf liblmdb0 armhf 0.9.24-1 [38.7 kB] Get: 262 http://deb.debian.org/debian bookworm/main armhf liblog-log4perl-perl all 1.57-1 [367 kB] Get: 263 http://deb.debian.org/debian bookworm/main armhf libmbedcrypto7 armhf 2.28.3-1 [245 kB] Get: 264 http://deb.debian.org/debian bookworm/main armhf libmbedx509-1 armhf 2.28.3-1 [124 kB] Get: 265 http://deb.debian.org/debian bookworm/main armhf libmbedtls14 armhf 2.28.3-1 [155 kB] Get: 266 http://deb.debian.org/debian bookworm/main armhf libthai-data all 0.1.29-1 [176 kB] Get: 267 http://deb.debian.org/debian bookworm/main armhf libthai0 armhf 0.1.29-1 [54.3 kB] Get: 268 http://deb.debian.org/debian bookworm/main armhf libpango-1.0-0 armhf 1.50.12+ds-1 [188 kB] Get: 269 http://deb.debian.org/debian bookworm/main armhf libpangoft2-1.0-0 armhf 1.50.12+ds-1 [40.9 kB] Get: 270 http://deb.debian.org/debian bookworm/main armhf libpangocairo-1.0-0 armhf 1.50.12+ds-1 [30.3 kB] Get: 271 http://deb.debian.org/debian bookworm/main armhf libpaper1 armhf 1.1.29 [11.9 kB] Get: 272 http://deb.debian.org/debian bookworm/main armhf libpaper-utils armhf 1.1.29 [8400 B] Get: 273 http://deb.debian.org/debian bookworm/main armhf libpcre3 armhf 2:8.39-15 [315 kB] Get: 274 http://deb.debian.org/debian bookworm/main armhf libsensors-config all 1:3.6.0-7.1 [14.3 kB] Get: 275 http://deb.debian.org/debian bookworm/main armhf libsensors5 armhf 1:3.6.0-7.1 [31.6 kB] Get: 276 http://deb.debian.org/debian bookworm/main armhf libsm6 armhf 2:1.2.3-1 [33.0 kB] Get: 277 http://deb.debian.org/debian bookworm/main armhf libtcl8.6 armhf 8.6.13+dfsg-2 [922 kB] Get: 278 http://deb.debian.org/debian bookworm/main armhf libtest-file-perl all 1.993-1 [24.5 kB] Get: 279 http://deb.debian.org/debian bookworm/main armhf libtest-files-perl all 0.15-1 [12.0 kB] Get: 280 http://deb.debian.org/debian bookworm/main armhf libtest-output-perl all 1.033-2 [16.1 kB] Get: 281 http://deb.debian.org/debian bookworm/main armhf libtext-csv-perl all 2.02-2 [110 kB] Get: 282 http://deb.debian.org/debian bookworm/main armhf libwebp7 armhf 1.2.4-0.2 [242 kB] Get: 283 http://deb.debian.org/debian bookworm/main armhf libtiff6 armhf 4.5.0-6 [295 kB] Get: 284 http://deb.debian.org/debian bookworm/main armhf libtingea0 armhf 21-361-2 [42.6 kB] Get: 285 http://deb.debian.org/debian bookworm/main armhf libxft2 armhf 2.3.6-1 [53.8 kB] Get: 286 http://deb.debian.org/debian bookworm/main armhf libxss1 armhf 1:1.2.3-1 [17.2 kB] Get: 287 http://deb.debian.org/debian bookworm/main armhf libtk8.6 armhf 8.6.13-2 [689 kB] Get: 288 http://deb.debian.org/debian bookworm/main armhf libxt6 armhf 1:1.2.1-1.1 [157 kB] Get: 289 http://deb.debian.org/debian bookworm/main armhf mafft armhf 7.505-1 [784 kB] Get: 290 http://deb.debian.org/debian bookworm/main armhf mcl armhf 1:22-282+ds-2 [405 kB] Get: 291 http://deb.debian.org/debian bookworm/main armhf ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get: 292 http://deb.debian.org/debian bookworm/main armhf ncbi-blast+ armhf 2.12.0+ds-3+b1 [10.3 MB] Get: 293 http://deb.debian.org/debian bookworm/main armhf sysstat armhf 12.6.1-1 [575 kB] Get: 294 http://deb.debian.org/debian bookworm/main armhf parallel all 20221122+ds-2 [1873 kB] Get: 295 http://deb.debian.org/debian bookworm/main armhf prank armhf 0.0.170427+dfsg-3 [342 kB] Get: 296 http://deb.debian.org/debian bookworm/main armhf zip armhf 3.0-13 [218 kB] Get: 297 http://deb.debian.org/debian bookworm/main armhf unzip armhf 6.0-28 [152 kB] Get: 298 http://deb.debian.org/debian bookworm/main armhf xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 299 http://deb.debian.org/debian bookworm/main armhf r-base-core armhf 4.2.2.20221110-2 [25.6 MB] Fetched 101 MB in 12s (8756 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:armhf. (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 ... 19324 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.2-6) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.5.0-1_armhf.deb ... Unpacking libexpat1:armhf (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_armhf.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:armhf (3.11.2-6) ... Setting up libexpat1:armhf (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... Selecting previously unselected package python3-minimal. (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 ... 19640 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_armhf.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package readline-common. Preparing to unpack .../2-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:armhf. Preparing to unpack .../3-libreadline8_8.2-1.3_armhf.deb ... Unpacking libreadline8:armhf (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:armhf. Preparing to unpack .../4-libpython3.11-stdlib_3.11.2-6_armhf.deb ... Unpacking libpython3.11-stdlib:armhf (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../5-python3.11_3.11.2-6_armhf.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../6-libpython3-stdlib_3.11.2-1+b1_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package python3. (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 ... 20074 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_armhf.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package netbase. Preparing to unpack .../001-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package libproc2-0:armhf. Preparing to unpack .../002-libproc2-0_2%3a4.0.2-3_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.2-3_armhf.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.0.8-1_armhf.deb ... Unpacking openssl (3.0.8-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../007-libmagic-mgc_1%3a5.44-3_armhf.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../008-libmagic1_1%3a5.44-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../009-file_1%3a5.44-3_armhf.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../010-gettext-base_0.21-12_armhf.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../011-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../012-groff-base_1.22.4-10_armhf.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../013-bsdextrautils_2.38.1-5+b1_armhf.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../014-libpipeline1_1.5.7-1_armhf.deb ... 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Unpacking libmbedx509-1:armhf (2.28.3-1) ... Selecting previously unselected package libmbedtls14:armhf. Preparing to unpack .../254-libmbedtls14_2.28.3-1_armhf.deb ... Unpacking libmbedtls14:armhf (2.28.3-1) ... Selecting previously unselected package libthai-data. Preparing to unpack .../255-libthai-data_0.1.29-1_all.deb ... Unpacking libthai-data (0.1.29-1) ... Selecting previously unselected package libthai0:armhf. Preparing to unpack .../256-libthai0_0.1.29-1_armhf.deb ... Unpacking libthai0:armhf (0.1.29-1) ... Selecting previously unselected package libpango-1.0-0:armhf. Preparing to unpack .../257-libpango-1.0-0_1.50.12+ds-1_armhf.deb ... Unpacking libpango-1.0-0:armhf (1.50.12+ds-1) ... Selecting previously unselected package libpangoft2-1.0-0:armhf. Preparing to unpack .../258-libpangoft2-1.0-0_1.50.12+ds-1_armhf.deb ... Unpacking libpangoft2-1.0-0:armhf (1.50.12+ds-1) ... Selecting previously unselected package libpangocairo-1.0-0:armhf. 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Selecting previously unselected package libsm6:armhf. Preparing to unpack .../265-libsm6_2%3a1.2.3-1_armhf.deb ... Unpacking libsm6:armhf (2:1.2.3-1) ... Selecting previously unselected package libtcl8.6:armhf. Preparing to unpack .../266-libtcl8.6_8.6.13+dfsg-2_armhf.deb ... Unpacking libtcl8.6:armhf (8.6.13+dfsg-2) ... Selecting previously unselected package libtest-file-perl. Preparing to unpack .../267-libtest-file-perl_1.993-1_all.deb ... Unpacking libtest-file-perl (1.993-1) ... Selecting previously unselected package libtest-files-perl. Preparing to unpack .../268-libtest-files-perl_0.15-1_all.deb ... Unpacking libtest-files-perl (0.15-1) ... Selecting previously unselected package libtest-output-perl. Preparing to unpack .../269-libtest-output-perl_1.033-2_all.deb ... Unpacking libtest-output-perl (1.033-2) ... Selecting previously unselected package libtext-csv-perl. Preparing to unpack .../270-libtext-csv-perl_2.02-2_all.deb ... Unpacking libtext-csv-perl (2.02-2) ... 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Adding 'diversion of /usr/bin/parallel to /usr/bin/parallel.moreutils by parallel' Adding 'diversion of /usr/share/man/man1/parallel.1.gz to /usr/share/man/man1/parallel.moreutils.1.gz by parallel' Unpacking parallel (20221122+ds-2) ... Selecting previously unselected package prank. Preparing to unpack .../284-prank_0.0.170427+dfsg-3_armhf.deb ... Unpacking prank (0.0.170427+dfsg-3) ... Selecting previously unselected package zip. Preparing to unpack .../285-zip_3.0-13_armhf.deb ... Unpacking zip (3.0-13) ... Selecting previously unselected package unzip. Preparing to unpack .../286-unzip_6.0-28_armhf.deb ... Unpacking unzip (6.0-28) ... Selecting previously unselected package xdg-utils. Preparing to unpack .../287-xdg-utils_1.1.3-4.1_all.deb ... Unpacking xdg-utils (1.1.3-4.1) ... Selecting previously unselected package r-base-core. Preparing to unpack .../288-r-base-core_4.2.2.20221110-2_armhf.deb ... Unpacking r-base-core (4.2.2.20221110-2) ... Setting up cd-hit (4.8.1-4) ... Setting up libarray-utils-perl (0.5-3) ... Setting up media-types (10.0.0) ... Setting up libmodule-pluggable-perl (5.2-4) ... Setting up libpipeline1:armhf (1.5.7-1) ... Setting up liblmdb0:armhf (0.9.24-1) ... Setting up libgraphite2-3:armhf (1.3.14-1) ... Setting up libfile-sharedir-install-perl (0.14-2) ... Setting up ncbi-data (6.1.20170106+dfsg1-10) ... Setting up libpixman-1-0:armhf (0.42.2-1) ... Setting up libfile-slurper-perl (0.014-1) ... Setting up libfile-which-perl (1.27-2) ... Setting up libxau6:armhf (1:1.0.9-1) ... Setting up libpsl5:armhf (0.21.2-1) ... Setting up libtie-ixhash-perl (1.23-4) ... Setting up libtask-weaken-perl (1.06-2) ... Setting up libicu72:armhf (72.1-3) ... Setting up liblerc4:armhf (4.0.0+ds-2) ... Setting up libhash-merge-simple-perl (0.051-3) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libparse-yapp-perl (1.21-3) ... Setting up libclass-inspector-perl (1.36-3) ... Setting up libdynaloader-functions-perl (0.003-3) ... Setting up libdatrie1:armhf (0.2.13-2+b1) ... Setting up libtest-deep-perl (1.204-1) ... Setting up libclass-method-modifiers-perl (2.14-1) ... Setting up libfile-pushd-perl (1.016-2) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up mafft (7.505-1) ... Setting up libclone-perl:armhf (0.46-1) ... Setting up libalgorithm-diff-perl (1.201-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libsub-identify-perl (0.14-3) ... Setting up libglib2.0-0:armhf (2.74.6-2) ... No schema files found: doing nothing. Setting up libcpanel-json-xs-perl:armhf (4.35-1) ... Setting up libio-stringy-perl (2.111-3) ... Setting up libhtml-tagset-perl (3.20-6) ... Setting up libtest-file-perl (1.993-1) ... Setting up unzip (6.0-28) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:armhf (1.0.9-2+b6) ... Setting up libfile-slurp-tiny-perl (0.004-2) ... Setting up libheap-perl (0.80-5) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libtry-tiny-perl (0.31-2) ... Setting up libsensors-config (1:3.6.0-7.1) ... Setting up libnghttp2-14:armhf (1.52.0-1) ... Setting up libmagic1:armhf (1:5.44-3) ... Setting up libdeflate0:armhf (1.14-1) ... Setting up perl-openssl-defaults:armhf (7+b1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libclass-singleton-perl (1.6-2) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libfindbin-libs-perl (3.0.2-1) ... Setting up file (1:5.44-3) ... Setting up libxstring-perl:armhf (0.005-2+b1) ... Setting up libyaml-tiny-perl (1.73-1) ... Setting up libjbig0:armhf (2.1-6.1) ... Setting up libsub-install-perl (0.929-1) ... Setting up libterm-encoding-perl (0.03-2) ... Setting up libscope-guard-perl (0.21-2) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Setting up libfile-copy-recursive-perl (0.45-4) ... Setting up libjson-maybexs-perl (1.004004-1) ... Setting up libio-string-perl (1.08-4) ... Setting up libpcre3:armhf (2:8.39-15) ... Setting up zip (3.0-13) ... Setting up libpackage-stash-xs-perl:armhf (0.30-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libclass-data-inheritable-perl (0.08-3) ... Setting up libalgorithm-c3-perl (0.11-2) ... Setting up libset-object-perl (1.42-1+b2) ... Setting up liblog-log4perl-perl (1.57-1) ... Setting up libjpeg62-turbo:armhf (1:2.1.5-2) ... Setting up libmbedcrypto7:armhf (2.28.3-1) ... Setting up libx11-data (2:1.8.4-2) ... Setting up libtext-diff-perl (1.45-2) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libio-tiecombine-perl (1.005-3) ... Setting up libperlio-utf8-strict-perl (0.010-1) ... Setting up libxml-writer-perl (0.900-2) ... Setting up libenv-path-perl (0.19-4) ... Setting up libfribidi0:armhf (1.0.8-2.1) ... Setting up libproc2-0:armhf (2:4.0.2-3) ... Setting up libpng16-16:armhf (1.6.39-2) ... Setting up libvariable-magic-perl (0.63-1+b1) ... Setting up libio-html-perl (1.004-3) ... Setting up libtext-template-perl (1.61-1) ... Setting up libtcl8.6:armhf (8.6.13+dfsg-2) ... Setting up autopoint (0.21-12) ... Setting up libb-hooks-op-check-perl:armhf (0.22-2+b1) ... Setting up libfile-grep-perl (0.02-3) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up liblist-moreutils-xs-perl (0.430-3+b1) ... Setting up libsensors5:armhf (1:3.6.0-7.1) ... Setting up libparams-util-perl (1.102-2+b1) ... Setting up libspiffy-perl (0.46-1) ... Setting up libsasl2-2:armhf (2.1.28+dfsg-10) ... Setting up libgfortran5:armhf (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up libsub-exporter-progressive-perl (0.001013-3) ... Setting up libwebp7:armhf (1.2.4-0.2) ... Setting up libcapture-tiny-perl (0.48-2) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libregexp-ipv6-perl (0.03-3) ... Setting up libsub-name-perl:armhf (0.26-2+b1) ... Setting up libdata-stag-perl (0.14-3) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libtiff6:armhf (4.5.0-6) ... Setting up libpath-tiny-perl (0.144-1) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up procps (2:4.0.2-3) ... Setting up libjson-perl (4.10000-1) ... Setting up libtingea0:armhf (21-361-2) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libfile-sharedir-perl (1.118-3) ... Setting up libsub-uplevel-perl (0.2800-3) ... Setting up libsub-override-perl (0.09-4) ... Setting up libaliased-perl (0.34-3) ... Setting up libthai-data (0.1.29-1) ... Setting up libcarp-clan-perl (6.08-2) ... Setting up libdevel-globaldestruction-perl (0.14-4) ... Setting up libssh2-1:armhf (1.10.0-3+b1) ... Setting up fasttree (2.1.11-2) ... Setting up netbase (6.4) ... Setting up libsub-quote-perl (2.006008-1) ... Setting up libdevel-stacktrace-perl (2.0400-2) ... Setting up libclass-xsaccessor-perl (1.19-4+b1) ... Setting up libmodule-path-perl (0.19-3) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up libexporter-tiny-perl (1.006000-1) ... Setting up libterm-readkey-perl (2.38-2+b1) ... Setting up libperl-version-perl (1.013-2) ... Setting up openssl (3.0.8-1) ... Setting up libbsd0:armhf (0.11.7-2) ... Setting up libautobox-perl (3.0.1-2+b1) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:armhf (2.9.14+dfsg-1.2) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up bedtools (2.30.0+dfsg-3) ... Setting up liburi-perl (5.17-1) ... Setting up prank (0.0.170427+dfsg-3) ... Setting up libtext-csv-perl (2.02-2) ... Setting up libnet-ssleay-perl:armhf (1.92-2+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libice6:armhf (2:1.0.10-1) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libxdmcp6:armhf (1:1.1.2-3) ... Setting up liblapack3:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libxcb1:armhf (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libfile-listing-perl (6.15-1) ... Setting up libmbedx509-1:armhf (2.28.3-1) ... Setting up libmbedtls14:armhf (2.28.3-1) ... Setting up libtool (2.4.7-5) ... Setting up libxcb-render0:armhf (1.15-1) ... Setting up fontconfig-config (2.14.1-4) ... Setting up liblist-moreutils-perl (0.430-2) ... Setting up libtest-warn-perl (0.37-2) ... Setting up libreadline8:armhf (8.2-1.3) ... Setting up libtest-differences-perl (0.69-1) ... Setting up libnet-http-perl (6.22-1) ... Setting up libxcb-shm0:armhf (1.15-1) ... Setting up libexception-class-perl (1.45-1) ... Setting up libio-all-perl (0.87-2) ... Setting up libclass-c3-perl (0.35-2) ... Setting up libgraph-perl (1:0.9726-1) ... Setting up libdevel-callchecker-perl:armhf (0.008-2) ... Setting up libtest-files-perl (0.15-1) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libthai0:armhf (0.1.29-1) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libtest-exception-perl (0.43-3) ... Setting up libfreetype6:armhf (2.12.1+dfsg-5) ... Setting up mcl (1:22-282+ds-2) ... Setting up libppi-perl (1.276-1) ... Setting up libdata-optlist-perl (0.113-1) ... Setting up libtest-output-perl (1.033-2) ... Setting up ucf (3.0043+nmu1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libhtml-parser-perl:armhf (3.81-1) ... Setting up libcurl4:armhf (7.88.1-9) ... Setting up libx11-6:armhf (2:1.8.4-2) ... Setting up libharfbuzz0b:armhf (6.0.0+dfsg-3) ... Setting up libfontconfig1:armhf (2.14.1-4) ... Setting up libmro-compat-perl (0.15-2) ... Setting up libsm6:armhf (2:1.2.3-1) ... Setting up sysstat (12.6.1-1) ... Creating config file /etc/default/sysstat with new version update-alternatives: using /usr/bin/sar.sysstat to provide /usr/bin/sar (sar) in auto mode Setting up libio-socket-ssl-perl (2.081-2) ... Setting up libsub-exporter-perl (0.989-1) ... Setting up libhttp-message-perl (6.44-1) ... Setting up libeval-closure-perl (0.14-3) ... Setting up libstring-truncate-perl (1.100603-1) ... Setting up libpaper1:armhf (1.1.29) ... Creating config file /etc/papersize with new version Setting up libstring-flogger-perl (1.101246-1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libparams-validationcompiler-perl (0.31-1) ... Setting up libxrender1:armhf (1:0.9.10-1.1) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libtest-most-perl (0.38-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libpython3.11-stdlib:armhf (3.11.2-6) ... Setting up libparams-classify-perl:armhf (0.015-2+b1) ... Setting up libpango-1.0-0:armhf (1.50.12+ds-1) ... Setting up libxext6:armhf (2:1.3.4-1+b1) ... Setting up libsub-exporter-formethods-perl (0.100055-1) ... Setting up libpaper-utils (1.1.29) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libmixin-linewise-perl (0.111-1) ... Setting up libcairo2:armhf (1.16.0-7) ... Setting up libconfig-ini-perl (1:0.029-1) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up libdist-checkconflicts-perl (0.11-2) ... Setting up libxt6:armhf (1:1.2.1-1.1) ... Setting up libstring-formatter-perl (1.235-1) ... Setting up parallel (20221122+ds-2) ... Setting up libdata-section-perl (0.200008-1) ... Setting up libxss1:armhf (1:1.2.3-1) ... Setting up libpangoft2-1.0-0:armhf (1.50.12+ds-1) ... Setting up libsub-exporter-globexporter-perl (0.006-1) ... Setting up libstring-rewriteprefix-perl (0.009-1) ... Setting up libpangocairo-1.0-0:armhf (1.50.12+ds-1) ... Setting up libpython3-stdlib:armhf (3.11.2-1+b1) ... Setting up bioperl (1.7.8-1) ... Setting up python3.11 (3.11.2-6) ... Setting up libxft2:armhf (2.3.6-1) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up libtk8.6:armhf (8.6.13-2) ... Setting up debhelper (13.11.4) ... Setting up libpod-eventual-perl (0.094003-1) ... Setting up python3 (3.11.2-1+b1) ... Setting up libmodule-runtime-conflicts-perl (0.003-2) ... Setting up libsoftware-license-perl (0.104002-1) ... Setting up libclass-load-perl (0.25-2) ... Setting up libstring-errf-perl (0.009-1) ... Setting up ncbi-blast+ (2.12.0+ds-3+b1) ... Setting up libspecio-perl (0.48-1) ... Setting up r-base-core (4.2.2.20221110-2) ... Creating config file /etc/R/Renviron with new version Setting up libpackage-deprecationmanager-perl (0.18-1) ... Setting up libdevel-overloadinfo-perl (0.007-1) ... Setting up libclass-load-xs-perl (0.10-2+b1) ... Setting up libparams-validate-perl:armhf (1.31-1) ... Setting up libb-hooks-endofscope-perl (0.26-1) ... Setting up libthrowable-perl (1.001-1) ... Setting up libmoose-perl:armhf (2.2203-1) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up libmoosex-setonce-perl (0.200002-2) ... Setting up libsyntax-perl (0.004-1.1) ... Setting up libgetopt-long-descriptive-perl (0.111-1) ... Setting up librole-identifiable-perl (0.009-1) ... Setting up libnamespace-autoclean-perl (0.29-2) ... Setting up libdatetime-locale-perl (1:1.37-1) ... Setting up libmoosex-role-parameterized-perl (1.11-2) ... Setting up libapp-cmd-perl (0.335-1) ... Setting up librole-hasmessage-perl (0.007-1) ... Setting up libperl-prereqscanner-perl (1.025-1) ... Setting up libdatetime-timezone-perl (1:2.60-1+2023c) ... Setting up libmoosex-types-perl (0.50-2) ... Setting up libmoosex-oneargnew-perl (0.007-1) ... Setting up libmoosex-lazyrequire-perl (0.11-2) ... Setting up libsyntax-keyword-junction-perl (0.003008-3) ... Setting up liblog-dispatch-perl (2.70-1) ... Setting up libconfig-mvp-perl (2.200013-1) ... Setting up libdatetime-perl (2:1.59-1) ... Setting up libpod-elemental-perl (0.103006-1) ... Setting up libmoose-autobox-perl (0.16-2) ... Setting up libmoosex-types-perl-perl (0.101344-1) ... Setting up libconfig-mvp-reader-ini-perl (2.101465-1) ... Setting up liblog-dispatch-array-perl (1.005-1) ... Setting up libpod-elemental-perlmunger-perl (0.200007-1) ... Setting up liblog-dispatchouli-perl (3.002-1) ... Setting up libpod-weaver-perl (4.019-1) ... Setting up libwww-perl (6.68-1) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up libxml-parser-perl (2.46-4) ... Setting up libgraph-readwrite-perl (2.10-1) ... Setting up libcpan-uploader-perl (0.103018-1) ... Setting up libdist-zilla-perl (6.030-1) ... Setting up libdist-zilla-plugin-podweaver-perl (4.010-1) ... Setting up dh-dist-zilla (1.4.1) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.31-1.2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/roary-3.13.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../roary_3.13.0+dfsg-1_source.changes dpkg-buildpackage: info: source package roary dpkg-buildpackage: info: source version 3.13.0+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Sascha Steinbiss dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean dh clean --with dist-zilla dh_dzil_clean dh_clean debian/rules build dh build --with dist-zilla dh_update_autotools_config dh_autoreconf debian/rules override_dh_dzil_build make[1]: Entering directory '/build/roary-3.13.0+dfsg' mv bin/create_pan_genome_plots.R bin/create_pan_genome_plots dh_dzil_build -- [DZ] beginning to build Bio-Roary [DZ] writing Bio-Roary in .build/debian-build [DZ] built in .build/debian-build make[1]: Leaving directory '/build/roary-3.13.0+dfsg' dh_auto_configure -D .build/debian-build cd .build/debian-build && /usr/bin/perl Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -ffile-prefix-map=/build/roary-3.13.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "LD=arm-linux-gnueabihf-gcc -g -O2 -ffile-prefix-map=/build/roary-3.13.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro" Warning: prerequisite Digest::MD5::File 0 not found. Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::Roary Writing MYMETA.yml and MYMETA.json dh_auto_build -D .build/debian-build cd .build/debian-build && make -j3 make[1]: Entering directory '/build/roary-3.13.0+dfsg/.build/debian-build' cp lib/Bio/Roary/CommandLine/RoaryReorderSpreadsheet.pm blib/lib/Bio/Roary/CommandLine/RoaryReorderSpreadsheet.pm cp lib/Bio/Roary/AnnotateGroups.pm blib/lib/Bio/Roary/AnnotateGroups.pm cp lib/Bio/Roary/CommandLine/ExtractProteomeFromGff.pm blib/lib/Bio/Roary/CommandLine/ExtractProteomeFromGff.pm cp lib/Bio/Roary/CommandLine/AssemblyStatistics.pm blib/lib/Bio/Roary/CommandLine/AssemblyStatistics.pm cp lib/Bio/Roary/External/CheckTools.pm blib/lib/Bio/Roary/External/CheckTools.pm cp lib/Bio/Roary/CommandLine/QueryRoary.pm blib/lib/Bio/Roary/CommandLine/QueryRoary.pm cp lib/Bio/Roary/BedFromGFFRole.pm blib/lib/Bio/Roary/BedFromGFFRole.pm cp lib/Bio/Roary/External/Blastp.pm blib/lib/Bio/Roary/External/Blastp.pm cp lib/Bio/Roary/Exceptions.pm blib/lib/Bio/Roary/Exceptions.pm cp lib/Bio/Roary/AccessoryClustering.pm blib/lib/Bio/Roary/AccessoryClustering.pm cp lib/Bio/Roary/CommandLine/Common.pm blib/lib/Bio/Roary/CommandLine/Common.pm cp lib/Bio/Roary/ContigsToGeneIDsFromGFF.pm blib/lib/Bio/Roary/ContigsToGeneIDsFromGFF.pm cp lib/Bio/Roary/CommandLine/UniqueGenesPerSample.pm blib/lib/Bio/Roary/CommandLine/UniqueGenesPerSample.pm cp lib/Bio/Roary/CommandLine/RoaryCoreAlignment.pm blib/lib/Bio/Roary/CommandLine/RoaryCoreAlignment.pm cp lib/Bio/Roary/CommandLine/GeneAlignmentFromNucleotides.pm blib/lib/Bio/Roary/CommandLine/GeneAlignmentFromNucleotides.pm cp lib/Bio/Roary/ClustersRole.pm blib/lib/Bio/Roary/ClustersRole.pm cp lib/Bio/Roary/ChunkFastaFile.pm blib/lib/Bio/Roary/ChunkFastaFile.pm cp lib/Bio/Roary/CommandLine/TransferAnnotationToGroups.pm blib/lib/Bio/Roary/CommandLine/TransferAnnotationToGroups.pm cp lib/Bio/Roary/CommandLine/Roary.pm blib/lib/Bio/Roary/CommandLine/Roary.pm cp lib/Bio/Roary/AssemblyStatistics.pm blib/lib/Bio/Roary/AssemblyStatistics.pm cp lib/Bio/Roary/CommandLine/IterativeCdhit.pm blib/lib/Bio/Roary/CommandLine/IterativeCdhit.pm cp lib/Bio/Roary/AnalyseGroups.pm blib/lib/Bio/Roary/AnalyseGroups.pm cp lib/Bio/Roary/CommandLine/ParallelAllAgainstAllBlastp.pm blib/lib/Bio/Roary/CommandLine/ParallelAllAgainstAllBlastp.pm cp lib/Bio/Roary/External/Cdhit.pm blib/lib/Bio/Roary/External/Cdhit.pm cp lib/Bio/Roary/CommandLine/CreatePanGenome.pm blib/lib/Bio/Roary/CommandLine/CreatePanGenome.pm cp lib/Bio/Roary/AccessoryBinaryFasta.pm blib/lib/Bio/Roary/AccessoryBinaryFasta.pm cp lib/Bio/Roary.pm blib/lib/Bio/Roary.pm cp lib/Bio/Roary/CombinedProteome.pm blib/lib/Bio/Roary/CombinedProteome.pm cp lib/Bio/Roary/CommandLine/RoaryPostAnalysis.pm blib/lib/Bio/Roary/CommandLine/RoaryPostAnalysis.pm cp lib/Bio/Roary/External/PostAnalysis.pm blib/lib/Bio/Roary/External/PostAnalysis.pm cp lib/Bio/Roary/Output/DifferenceBetweenSets.pm blib/lib/Bio/Roary/Output/DifferenceBetweenSets.pm cp lib/Bio/Roary/GroupLabels.pm blib/lib/Bio/Roary/GroupLabels.pm cp lib/Bio/Roary/Output/GroupMultifasta.pm blib/lib/Bio/Roary/Output/GroupMultifasta.pm cp lib/Bio/Roary/LookupGeneFiles.pm blib/lib/Bio/Roary/LookupGeneFiles.pm cp lib/Bio/Roary/ExtractProteomeFromGFF.pm blib/lib/Bio/Roary/ExtractProteomeFromGFF.pm cp lib/Bio/Roary/Output/BlastIdentityFrequency.pm blib/lib/Bio/Roary/Output/BlastIdentityFrequency.pm cp lib/Bio/Roary/Output/CoreGeneAlignmentCoordinatesEMBL.pm blib/lib/Bio/Roary/Output/CoreGeneAlignmentCoordinatesEMBL.pm cp lib/Bio/Roary/IterativeCdhit.pm blib/lib/Bio/Roary/IterativeCdhit.pm cp lib/Bio/Roary/JobRunner/Role.pm blib/lib/Bio/Roary/JobRunner/Role.pm cp lib/Bio/Roary/External/GeneAlignmentFromNucleotides.pm blib/lib/Bio/Roary/External/GeneAlignmentFromNucleotides.pm cp lib/Bio/Roary/InflateClusters.pm blib/lib/Bio/Roary/InflateClusters.pm cp lib/Bio/Roary/FilterUnknownsFromFasta.pm blib/lib/Bio/Roary/FilterUnknownsFromFasta.pm cp lib/Bio/Roary/MergeMultifastaAlignments.pm blib/lib/Bio/Roary/MergeMultifastaAlignments.pm cp lib/Bio/Roary/External/IterativeCdhit.pm blib/lib/Bio/Roary/External/IterativeCdhit.pm cp lib/Bio/Roary/External/Makeblastdb.pm blib/lib/Bio/Roary/External/Makeblastdb.pm cp lib/Bio/Roary/GeneNamesFromGFF.pm blib/lib/Bio/Roary/GeneNamesFromGFF.pm cp lib/Bio/Roary/ExtractCoreGenesFromSpreadsheet.pm blib/lib/Bio/Roary/ExtractCoreGenesFromSpreadsheet.pm cp lib/Bio/Roary/Output/EMBLHeaderCommon.pm blib/lib/Bio/Roary/Output/EMBLHeaderCommon.pm cp lib/Bio/Roary/FilterFullClusters.pm blib/lib/Bio/Roary/FilterFullClusters.pm cp lib/Bio/Roary/External/Prank.pm blib/lib/Bio/Roary/External/Prank.pm cp lib/Bio/Roary/External/Mafft.pm blib/lib/Bio/Roary/External/Mafft.pm cp lib/Bio/Roary/ExtractProteomeFromGFFs.pm blib/lib/Bio/Roary/ExtractProteomeFromGFFs.pm cp lib/Bio/Roary/GroupStatistics.pm blib/lib/Bio/Roary/GroupStatistics.pm cp lib/Bio/Roary/JobRunner/Parallel.pm blib/lib/Bio/Roary/JobRunner/Parallel.pm cp lib/Bio/Roary/External/Mcl.pm blib/lib/Bio/Roary/External/Mcl.pm cp lib/Bio/Roary/External/Fasttree.pm blib/lib/Bio/Roary/External/Fasttree.pm cp lib/Bio/Roary/Output/EmblGroups.pm blib/lib/Bio/Roary/Output/EmblGroups.pm cp lib/Bio/Roary/OrderGenes.pm blib/lib/Bio/Roary/OrderGenes.pm cp lib/Bio/Roary/JobRunner/Local.pm blib/lib/Bio/Roary/JobRunner/Local.pm cp lib/Bio/Roary/ReformatInputGFFs.pm blib/lib/Bio/Roary/ReformatInputGFFs.pm cp lib/Bio/Roary/Output/GroupsMultifastasNucleotide.pm blib/lib/Bio/Roary/Output/GroupsMultifastasNucleotide.pm cp lib/Bio/Roary/ParseGFFAnnotationRole.pm blib/lib/Bio/Roary/ParseGFFAnnotationRole.pm cp lib/Bio/Roary/Output/QueryGroups.pm blib/lib/Bio/Roary/Output/QueryGroups.pm cp lib/Bio/Roary/ReorderSpreadsheet.pm blib/lib/Bio/Roary/ReorderSpreadsheet.pm cp lib/Bio/Roary/Output/GroupsMultifastaProtein.pm blib/lib/Bio/Roary/Output/GroupsMultifastaProtein.pm cp lib/Bio/Roary/PresenceAbsenceMatrix.pm blib/lib/Bio/Roary/PresenceAbsenceMatrix.pm cp lib/Bio/Roary/ParallelAllAgainstAllBlast.pm blib/lib/Bio/Roary/ParallelAllAgainstAllBlast.pm cp lib/Bio/Roary/Output/GroupsMultifastas.pm blib/lib/Bio/Roary/Output/GroupsMultifastas.pm cp lib/Bio/Roary/SplitGroups.pm blib/lib/Bio/Roary/SplitGroups.pm cp lib/Bio/Roary/SpreadsheetRole.pm blib/lib/Bio/Roary/SpreadsheetRole.pm cp lib/Bio/Roary/UniqueGenesPerSample.pm blib/lib/Bio/Roary/UniqueGenesPerSample.pm cp lib/Bio/Roary/Output/NumberOfGroups.pm blib/lib/Bio/Roary/Output/NumberOfGroups.pm cp lib/Bio/Roary/SortFasta.pm blib/lib/Bio/Roary/SortFasta.pm cp lib/Bio/Roary/QC/Report.pm blib/lib/Bio/Roary/QC/Report.pm cp lib/Bio/Roary/PrepareInputFiles.pm blib/lib/Bio/Roary/PrepareInputFiles.pm cp lib/Bio/Roary/SequenceLengths.pm blib/lib/Bio/Roary/SequenceLengths.pm cp lib/Bio/Roary/SampleOrder.pm blib/lib/Bio/Roary/SampleOrder.pm cp lib/Bio/Roary/Output/GroupsMultifastaNucleotide.pm blib/lib/Bio/Roary/Output/GroupsMultifastaNucleotide.pm cp lib/Bio/Roary/PostAnalysis.pm blib/lib/Bio/Roary/PostAnalysis.pm cp bin/create_pan_genome blib/script/create_pan_genome cp bin/create_pan_genome_plots blib/script/create_pan_genome_plots cp bin/extract_proteome_from_gff blib/script/extract_proteome_from_gff "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/create_pan_genome "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/create_pan_genome_plots "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/extract_proteome_from_gff cp bin/iterative_cdhit blib/script/iterative_cdhit cp bin/pan_genome_assembly_statistics blib/script/pan_genome_assembly_statistics cp bin/pan_genome_core_alignment blib/script/pan_genome_core_alignment "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/iterative_cdhit "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/pan_genome_assembly_statistics "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/pan_genome_core_alignment cp bin/pan_genome_post_analysis blib/script/pan_genome_post_analysis cp bin/pan_genome_reorder_spreadsheet blib/script/pan_genome_reorder_spreadsheet cp bin/parallel_all_against_all_blastp blib/script/parallel_all_against_all_blastp "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/pan_genome_post_analysis "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/pan_genome_reorder_spreadsheet "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/parallel_all_against_all_blastp cp bin/protein_alignment_from_nucleotides blib/script/protein_alignment_from_nucleotides cp bin/query_pan_genome blib/script/query_pan_genome cp bin/roary blib/script/roary "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/protein_alignment_from_nucleotides "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/query_pan_genome "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/roary cp bin/roary-create_pan_genome_plots.R blib/script/roary-create_pan_genome_plots.R cp bin/roary-pan_genome_reorder_spreadsheet blib/script/roary-pan_genome_reorder_spreadsheet cp bin/roary-query_pan_genome blib/script/roary-query_pan_genome "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/roary-create_pan_genome_plots.R "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/roary-pan_genome_reorder_spreadsheet "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/roary-query_pan_genome cp bin/roary-unique_genes_per_sample blib/script/roary-unique_genes_per_sample cp bin/transfer_annotation_to_groups blib/script/transfer_annotation_to_groups "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/roary-unique_genes_per_sample "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/transfer_annotation_to_groups Manifying 16 pod documents Manifying 26 pod documents Manifying 28 pod documents Manifying 25 pod documents make[1]: Leaving directory '/build/roary-3.13.0+dfsg/.build/debian-build' debian/rules override_dh_auto_test make[1]: Entering directory '/build/roary-3.13.0+dfsg' # Hmmm, seems the test is not automatically run anyway by the build system dh_auto_test || true make[1]: Leaving directory '/build/roary-3.13.0+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with dist-zilla dh_testroot dh_prep dh_auto_install -D .build/debian-build --destdir=debian/roary/ cd .build/debian-build && make -j3 install DESTDIR=/build/roary-3.13.0\+dfsg/debian/roary AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/roary-3.13.0+dfsg/.build/debian-build' Manifying 16 pod documents Manifying 26 pod documents Manifying 28 pod documents Manifying 25 pod documents Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/PrepareInputFiles.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/PostAnalysis.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/AssemblyStatistics.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ParseGFFAnnotationRole.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/LookupGeneFiles.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/BedFromGFFRole.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/AccessoryClustering.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/FilterFullClusters.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/SpreadsheetRole.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/CombinedProteome.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ParallelAllAgainstAllBlast.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/SequenceLengths.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/InflateClusters.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/PresenceAbsenceMatrix.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ReformatInputGFFs.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ExtractProteomeFromGFFs.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/SplitGroups.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/IterativeCdhit.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/AnnotateGroups.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/AccessoryBinaryFasta.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/UniqueGenesPerSample.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ReorderSpreadsheet.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ClustersRole.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ExtractCoreGenesFromSpreadsheet.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/FilterUnknownsFromFasta.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/GroupStatistics.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/AnalyseGroups.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/SortFasta.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/Exceptions.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/SampleOrder.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/GroupLabels.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/OrderGenes.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ChunkFastaFile.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ExtractProteomeFromGFF.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/GeneNamesFromGFF.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/MergeMultifastaAlignments.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/ContigsToGeneIDsFromGFF.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/Output/NumberOfGroups.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/Output/DifferenceBetweenSets.pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/perl5/Bio/Roary/Output/EMBLHeaderCommon.pm Installing 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Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::GroupLabels.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::GroupStatistics.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::CommandLine::GeneAlignmentFromNucleotides.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::ParallelAllAgainstAllBlast.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::CommandLine::RoaryReorderSpreadsheet.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::Output::CoreGeneAlignmentCoordinatesEMBL.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::ContigsToGeneIDsFromGFF.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::IterativeCdhit.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::Output::NumberOfGroups.3pm 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/build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::PresenceAbsenceMatrix.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::SampleOrder.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::ReformatInputGFFs.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/share/man/man3/Bio::Roary::Output::GroupMultifasta.3pm Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/roary-pan_genome_reorder_spreadsheet Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/create_pan_genome Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/roary-unique_genes_per_sample Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/query_pan_genome Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/roary-create_pan_genome_plots.R Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/pan_genome_core_alignment Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/extract_proteome_from_gff Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/roary Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/pan_genome_assembly_statistics Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/roary-query_pan_genome Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/transfer_annotation_to_groups Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/parallel_all_against_all_blastp Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/pan_genome_reorder_spreadsheet Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/iterative_cdhit Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/pan_genome_post_analysis Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/create_pan_genome_plots Installing /build/roary-3.13.0+dfsg/debian/roary/usr/bin/protein_alignment_from_nucleotides make[1]: Leaving directory '/build/roary-3.13.0+dfsg/.build/debian-build' dh_installdocs dh_installchangelogs dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'roary' in '../roary_3.13.0+dfsg-1_all.deb'. dpkg-genbuildinfo --build=binary -O../roary_3.13.0+dfsg-1_armhf.buildinfo dpkg-genchanges --build=binary -O../roary_3.13.0+dfsg-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/20863 and its subdirectories I: Current time: Sun May 28 04:03:25 -12 2023 I: pbuilder-time-stamp: 1685289805 Sun May 28 16:03:44 UTC 2023 I: 1st build successful. Starting 2nd build on remote node virt32c-armhf-rb.debian.net. Sun May 28 16:03:44 UTC 2023 I: Preparing to do remote build '2' on virt32c-armhf-rb.debian.net. Sun May 28 16:13:04 UTC 2023 I: Deleting $TMPDIR on virt32c-armhf-rb.debian.net. Sun May 28 16:13:09 UTC 2023 I: roary_3.13.0+dfsg-1_armhf.changes: Format: 1.8 Date: Fri, 08 Nov 2019 14:37:07 +0100 Source: roary Binary: roary Architecture: all Version: 3.13.0+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Sascha Steinbiss Description: roary - high speed stand alone pan genome pipeline Changes: roary (3.13.0+dfsg-1) unstable; urgency=medium . * New upstream release. * Use debhelper 12. * Bump Standards-Version. * Update source lintian override location and tags. Checksums-Sha1: 06634412da3a5e41ab046a516a02c451ff2737f0 181176 roary_3.13.0+dfsg-1_all.deb b8a2a1ee93dcca3049d84026ebef889c40f48d24 13844 roary_3.13.0+dfsg-1_armhf.buildinfo Checksums-Sha256: f24920612d5d989e608c61166faad652acffef06df9d686b00425cbd34d676e5 181176 roary_3.13.0+dfsg-1_all.deb 7d1bef41eb09dec50df75377a38748f218dc124516dc9e5f25409a5d0cafcaa9 13844 roary_3.13.0+dfsg-1_armhf.buildinfo Files: 1c95a56309c4dc212df01c5a0a18ff36 181176 science optional roary_3.13.0+dfsg-1_all.deb 3d50aca6d1fe449f5f35909331d365f5 13844 science optional roary_3.13.0+dfsg-1_armhf.buildinfo Sun May 28 16:13:10 UTC 2023 I: diffoscope 242 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.hjOENBnI/roary_3.13.0+dfsg-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.hjOENBnI/roary_3.13.0+dfsg-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.hjOENBnI/roary_3.13.0+dfsg-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.hjOENBnI/b1/roary_3.13.0+dfsg-1_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.hjOENBnI/b2/roary_3.13.0+dfsg-1_armhf.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.501s) 0.501s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.016s) 0.016s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Sun May 28 16:13:11 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Sun May 28 16:13:11 UTC 2023 I: roary from bookworm built successfully and reproducibly on armhf. Sun May 28 16:13:12 UTC 2023 I: Submitting .buildinfo files to external archives: Sun May 28 16:13:12 UTC 2023 I: Submitting 16K b1/roary_3.13.0+dfsg-1_armhf.buildinfo.asc Sun May 28 16:13:14 UTC 2023 I: Submitting 16K b2/roary_3.13.0+dfsg-1_armhf.buildinfo.asc Sun May 28 16:13:14 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun May 28 16:13:14 UTC 2023 I: Done submitting .buildinfo files. Sun May 28 16:13:14 UTC 2023 I: Removing signed roary_3.13.0+dfsg-1_armhf.buildinfo.asc files: removed './b1/roary_3.13.0+dfsg-1_armhf.buildinfo.asc' removed './b2/roary_3.13.0+dfsg-1_armhf.buildinfo.asc'