Sun May 21 04:56:22 UTC 2023 I: starting to build r-bioc-biocstyle/bookworm/amd64 on jenkins on '2023-05-21 04:55' Sun May 21 04:56:22 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_4/21268/console.log Sun May 21 04:56:22 UTC 2023 I: Downloading source for bookworm/r-bioc-biocstyle=2.26.0+dfsg-1 --2023-05-21 04:56:22-- http://cdn-fastly.deb.debian.org/debian/pool/main/r/r-bioc-biocstyle/r-bioc-biocstyle_2.26.0%2bdfsg-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2211 (2.2K) [text/prs.lines.tag] Saving to: ‘r-bioc-biocstyle_2.26.0+dfsg-1.dsc’ 0K .. 100% 176M=0s 2023-05-21 04:56:22 (176 MB/s) - ‘r-bioc-biocstyle_2.26.0+dfsg-1.dsc’ saved [2211/2211] Sun May 21 04:56:22 UTC 2023 I: r-bioc-biocstyle_2.26.0+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: r-bioc-biocstyle Binary: r-bioc-biocstyle Architecture: all Version: 2.26.0+dfsg-1 Maintainer: Debian R Packages Maintainers Uploaders: Andreas Tille Homepage: https://bioconductor.org/packages/BiocStyle/ Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-biocstyle Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-biocstyle.git Testsuite: autopkgtest-pkg-r Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-cran-bookdown, r-cran-knitr (>= 1.30), r-cran-rmarkdown, r-cran-yaml, r-cran-biocmanager Package-List: r-bioc-biocstyle deb gnu-r optional arch=all Checksums-Sha1: ca877307edc51ed64f612663eda9a3e3e0af6fe2 351444 r-bioc-biocstyle_2.26.0+dfsg.orig.tar.xz 07173c8ae5f35f0efbbfd71bcdd3ee58356c8cd1 5324 r-bioc-biocstyle_2.26.0+dfsg-1.debian.tar.xz Checksums-Sha256: e9cb3385b11f89991b4bc43873c5bdf6fc898b197e99648b5d0efe678b081ff7 351444 r-bioc-biocstyle_2.26.0+dfsg.orig.tar.xz d00ab818c4f25df81e8d285707efe2b08791893812484768bf646242f5604d2e 5324 r-bioc-biocstyle_2.26.0+dfsg-1.debian.tar.xz Files: 1b04ff5e513ac007aa1a2fb8fc4b932d 351444 r-bioc-biocstyle_2.26.0+dfsg.orig.tar.xz aaeeb30c70670d73a28dc92c951fe3b9 5324 r-bioc-biocstyle_2.26.0+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmN59OwRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHbBA//f/cQTGihntOX37T3cBQeX0Cx826L7fpq 0UkCVF9qnMd/L9pIVnBAUgq038+bi23yojvqPFpBZEIVcUEaKEyMvgJx23QCceDP /SNDN6ZZfbXhwSNhMWGmbbt0lhAW+XGzu9KlqY63OV/bMEUSxID88i5c2VL45m+z qT7/7SJa6ajA661XnIm5BuabNpJC1PWZe8dABWM9vjeDyOSr8lMAKokI2h89XTTQ kCVJk35SOP0j8Gh0k7jtr3qXLPvmUQvdVsIFUe3RrK9YyjXoEcViDUwxuu8TBinI vm/TO+pS8LgaybaDwefKK+e8bYdH2gzWFRK9a+WXe8xwQFePWKVi+6RoC5MGrO80 Sy6NYbh/jKY+fgsq3gf26svJ5cCm1WH9wZYTlIC7KOCh3LrcbKct3kREzTQpXsRR n/8/UA83XJZy0OSpw+sUro+kXJaa/TFCVBXB0mBkU5zIcr0mPIF+ij0BgQ5PanaD CSQm556QsYXBdXPSw5vUtwSsqWR3/BKY5AzX96pzQK3GqCodV1fZr/jrvrohIMJT SMJtfKMF8D/S+O8IcPoIA3UY7K1eMefuexkOZgNl1uEaiKwgZzFPAfwONe6p+HnY PhzpwpbruMhy3DXt1wu/zgT90arHceKn6fC6KOG/xv7BQotSX94s3TcnfwTR7X5y zdH4tWMS4ng= =0B3T -----END PGP SIGNATURE----- Sun May 21 04:56:22 UTC 2023 I: Checking whether the package is not for us Sun May 21 04:56:22 UTC 2023 I: Starting 1st build on remote node ionos15-amd64.debian.net. Sun May 21 04:56:22 UTC 2023 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Sun May 21 05:00:03 UTC 2023 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Jun 21 23:19:35 -12 2024 I: pbuilder-time-stamp: 1719055175 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 [r-bioc-biocstyle_2.26.0+dfsg-1.dsc] I: copying [./r-bioc-biocstyle_2.26.0+dfsg.orig.tar.xz] I: copying [./r-bioc-biocstyle_2.26.0+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Nov 19 21:35:40 2022 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./r-bioc-biocstyle_2.26.0+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-biocstyle in r-bioc-biocstyle-2.26.0+dfsg dpkg-source: info: unpacking r-bioc-biocstyle_2.26.0+dfsg.orig.tar.xz dpkg-source: info: unpacking r-bioc-biocstyle_2.26.0+dfsg-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1629971/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='1712466824ba4cc3908e86e313c648a6' 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='1629971' 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.8n8Ryo9w/pbuilderrc_bsxR --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.8n8Ryo9w/b1 --logfile b1/build.log r-bioc-biocstyle_2.26.0+dfsg-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos15-amd64 6.1.0-0.deb11.6-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.15-1~bpo11+1 (2023-03-16) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 23 2023 bash -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 39224 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 39224 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 14568 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 44016 Sep 20 2022 cat -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp -rwxr-xr-x 1 root root 125640 Jan 5 2023 dash -rwxr-xr-x 1 root root 121904 Sep 20 2022 date -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd -rwxr-xr-x 1 root root 102200 Sep 20 2022 df -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir -rwxr-xr-x 1 root root 88656 Mar 22 2023 dmesg lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 35664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 85600 Mar 22 2023 findmnt -rwsr-xr-x 1 root root 35128 Mar 22 2023 fusermount -rwxr-xr-x 1 root root 203152 Jan 24 2023 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 98136 Apr 9 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 19 2022 hostname -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln -rwxr-xr-x 1 root root 53024 Mar 23 2023 login -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls -rwxr-xr-x 1 root root 207168 Mar 22 2023 lsblk -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 22 2023 more -rwsr-xr-x 1 root root 59704 Mar 22 2023 mount -rwxr-xr-x 1 root root 18744 Mar 22 2023 mountpoint -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 2023 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 27560 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 22 2023 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 2023 tar -rwxr-xr-x 1 root root 14520 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 22 2023 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 22 2023 umount -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir -rwxr-xr-x 1 root root 72024 Mar 22 2023 wdctl lrwxrwxrwx 1 root root 8 Dec 19 2022 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/1629971/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: amd64 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-compat (= 13), dh-r, r-base-dev, r-cran-bookdown, r-cran-knitr (>= 1.30), r-cran-rmarkdown, r-cran-yaml, r-cran-biocmanager dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19596 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-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-cran-bookdown; however: Package r-cran-bookdown is not installed. pbuilder-satisfydepends-dummy depends on r-cran-knitr (>= 1.30); however: Package r-cran-knitr is not installed. pbuilder-satisfydepends-dummy depends on r-cran-rmarkdown; however: Package r-cran-rmarkdown is not installed. pbuilder-satisfydepends-dummy depends on r-cran-yaml; however: Package r-cran-yaml is not installed. pbuilder-satisfydepends-dummy depends on r-cran-biocmanager; however: Package r-cran-biocmanager 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} bsdextrautils{a} ca-certificates{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-font-awesome{a} fonts-glyphicons-halflings{a} fonts-mathjax{a} gettext{a} gettext-base{a} gfortran{a} gfortran-12{a} groff-base{a} icu-devtools{a} intltool-debian{a} javascript-common{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libbrotli1{a} libbsd0{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcurl3-gnutls{a} libcurl4{a} libdata-optlist-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} libdynaloader-functions-perl{a} libelf1{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-12-dev{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-bootstrap{a} libjs-bootstrap4{a} libjs-d3{a} libjs-es5-shim{a} libjs-highlight.js{a} libjs-jquery{a} libjs-jquery-datatables{a} libjs-jquery-selectize.js{a} libjs-jquery-ui{a} libjs-json{a} libjs-lunr{a} libjs-mathjax{a} libjs-microplugin.js{a} libjs-modernizr{a} libjs-popper.js{a} libjs-prettify{a} libjs-sifter.js{a} libjs-twitter-bootstrap-datepicker{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblua5.3-0{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses5-dev{a} libncurses6{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} libpcre16-3{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpcre3{a} libpcre3-dev{a} libpcre32-3{a} libpcrecpp0v5{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16{a} libpsl5{a} libreadline-dev{a} libreadline8{a} libregexp-ipv6-perl{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsm6{a} libssh2-1{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} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libuv1{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6{a} libyaml-0-2{a} littler{a} m4{a} man-db{a} node-bootstrap-sass{a} node-html5shiv{a} node-normalize.css{a} openssl{a} pandoc{a} pandoc-data{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-cran-base64enc{a} r-cran-biocmanager{a} r-cran-bookdown{a} r-cran-bslib{a} r-cran-cachem{a} r-cran-cli{a} r-cran-commonmark{a} r-cran-crayon{a} r-cran-digest{a} r-cran-ellipsis{a} r-cran-evaluate{a} r-cran-fastmap{a} r-cran-fontawesome{a} r-cran-fs{a} r-cran-glue{a} r-cran-highr{a} r-cran-htmltools{a} r-cran-httpuv{a} r-cran-jquerylib{a} r-cran-jsonlite{a} r-cran-knitr{a} r-cran-later{a} r-cran-lifecycle{a} r-cran-littler{a} r-cran-magrittr{a} r-cran-memoise{a} r-cran-mime{a} r-cran-pkgkitten{a} r-cran-promises{a} r-cran-r6{a} r-cran-rappdirs{a} r-cran-rcpp{a} r-cran-rlang{a} r-cran-rmarkdown{a} r-cran-sass{a} r-cran-shiny{a} r-cran-sourcetools{a} r-cran-stringi{a} r-cran-stringr{a} r-cran-tinytex{a} r-cran-vctrs{a} r-cran-withr{a} r-cran-xfun{a} r-cran-xtable{a} r-cran-yaml{a} readline-common{a} sensible-utils{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx node-highlight.js node-jquery publicsuffix r-bioc-biocversion r-cran-bit64 r-cran-codetools r-cran-covr r-cran-curl r-cran-dbi r-cran-dplyr r-cran-dygraphs r-cran-future r-cran-generics r-cran-ggplot2 r-cran-htmlwidgets r-cran-lattice r-cran-markdown r-cran-mockery r-cran-pillar r-cran-rsconnect r-cran-rsqlite r-cran-rsvg r-cran-sp r-cran-testit r-cran-testthat r-cran-thematic r-cran-tibble r-cran-tikzdevice r-cran-tufte r-cran-waldo r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 253 newly installed, 0 to remove and 0 not upgraded. Need to get 158 MB of archives. After unpacking 604 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.8-1 [1407 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 11 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 13 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 14 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 21 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 22 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 23 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 24 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 25 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 26 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 27 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 28 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.2 [687 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 33 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 34 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 35 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 36 http://deb.debian.org/debian bookworm/main amd64 zip amd64 3.0-13 [230 kB] Get: 37 http://deb.debian.org/debian bookworm/main amd64 unzip amd64 6.0-28 [166 kB] Get: 38 http://deb.debian.org/debian bookworm/main amd64 libpaper1 amd64 1.1.29 [12.5 kB] Get: 39 http://deb.debian.org/debian bookworm/main amd64 libpaper-utils amd64 1.1.29 [8868 B] Get: 40 http://deb.debian.org/debian bookworm/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 41 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get: 42 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get: 43 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get: 44 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get: 45 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5 [399 kB] Get: 46 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get: 47 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get: 48 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get: 49 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get: 50 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 51 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get: 52 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 53 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get: 54 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2 [292 kB] Get: 55 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2 [759 kB] Get: 56 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get: 57 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get: 58 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get: 59 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get: 60 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get: 61 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get: 62 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get: 63 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get: 64 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1 [72.3 kB] Get: 65 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get: 66 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 67 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get: 68 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-9 [386 kB] Get: 69 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB] Get: 70 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get: 71 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get: 72 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get: 73 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.14.1-4 [449 kB] Get: 74 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get: 75 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get: 76 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get: 77 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get: 78 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get: 79 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get: 80 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get: 81 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get: 82 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get: 83 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get: 84 http://deb.debian.org/debian bookworm/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [1035 kB] Get: 85 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get: 86 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get: 87 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get: 88 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.1 [285 kB] Get: 89 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-5 [316 kB] Get: 90 http://deb.debian.org/debian bookworm/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get: 91 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get: 92 http://deb.debian.org/debian bookworm/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get: 93 http://deb.debian.org/debian bookworm/main amd64 libtk8.6 amd64 8.6.13-2 [781 kB] Get: 94 http://deb.debian.org/debian bookworm/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get: 95 http://deb.debian.org/debian bookworm/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get: 96 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1.1 [186 kB] Get: 97 http://deb.debian.org/debian bookworm/main amd64 r-base-core amd64 4.2.2.20221110-2 [26.0 MB] Get: 98 http://deb.debian.org/debian bookworm/main amd64 libgfortran-12-dev amd64 12.2.0-14 [834 kB] Get: 99 http://deb.debian.org/debian bookworm/main amd64 gfortran-12 amd64 12.2.0-14 [10.2 MB] Get: 100 http://deb.debian.org/debian bookworm/main amd64 gfortran amd64 4:12.2.0-3 [1428 B] Get: 101 http://deb.debian.org/debian bookworm/main amd64 libblas-dev amd64 3.11.0-2 [158 kB] Get: 102 http://deb.debian.org/debian bookworm/main amd64 liblapack-dev amd64 3.11.0-2 [4631 kB] Get: 103 http://deb.debian.org/debian bookworm/main amd64 libncurses6 amd64 6.4-4 [103 kB] Get: 104 http://deb.debian.org/debian bookworm/main amd64 libncurses-dev amd64 6.4-4 [349 kB] Get: 105 http://deb.debian.org/debian bookworm/main amd64 libncurses5-dev amd64 6.4-4 [932 B] Get: 106 http://deb.debian.org/debian bookworm/main amd64 libreadline-dev amd64 8.2-1.3 [151 kB] Get: 107 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-2 [290 kB] Get: 108 http://deb.debian.org/debian bookworm/main amd64 libjpeg-dev amd64 1:2.1.5-2 [71.8 kB] Get: 109 http://deb.debian.org/debian bookworm/main amd64 libpcre2-16-0 amd64 10.42-1 [245 kB] Get: 110 http://deb.debian.org/debian bookworm/main amd64 libpcre2-32-0 amd64 10.42-1 [234 kB] Get: 111 http://deb.debian.org/debian bookworm/main amd64 libpcre2-posix3 amd64 10.42-1 [55.4 kB] Get: 112 http://deb.debian.org/debian bookworm/main amd64 libpcre2-dev amd64 10.42-1 [753 kB] Get: 113 http://deb.debian.org/debian bookworm/main amd64 libpcre3 amd64 2:8.39-15 [341 kB] Get: 114 http://deb.debian.org/debian bookworm/main amd64 libpcre16-3 amd64 2:8.39-15 [257 kB] Get: 115 http://deb.debian.org/debian bookworm/main amd64 libpcre32-3 amd64 2:8.39-15 [248 kB] Get: 116 http://deb.debian.org/debian bookworm/main amd64 libpcrecpp0v5 amd64 2:8.39-15 [143 kB] Get: 117 http://deb.debian.org/debian bookworm/main amd64 libpcre3-dev amd64 2:8.39-15 [653 kB] Get: 118 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Get: 119 http://deb.debian.org/debian bookworm/main amd64 libpng-dev amd64 1.6.39-2 [359 kB] Get: 120 http://deb.debian.org/debian bookworm/main amd64 libbz2-dev amd64 1.0.8-5+b1 [30.9 kB] Get: 121 http://deb.debian.org/debian bookworm/main amd64 liblzma-dev amd64 5.4.1-0.2 [260 kB] Get: 122 http://deb.debian.org/debian bookworm/main amd64 icu-devtools amd64 72.1-3 [206 kB] Get: 123 http://deb.debian.org/debian bookworm/main amd64 libicu-dev amd64 72.1-3 [10.3 MB] Get: 124 http://deb.debian.org/debian bookworm/main amd64 libxmuu1 amd64 2:1.1.3-3 [23.9 kB] Get: 125 http://deb.debian.org/debian bookworm/main amd64 xauth amd64 1:1.1.2-1 [36.0 kB] Get: 126 http://deb.debian.org/debian bookworm/main amd64 libpkgconf3 amd64 1.8.1-1 [36.1 kB] Get: 127 http://deb.debian.org/debian bookworm/main amd64 pkgconf-bin amd64 1.8.1-1 [29.5 kB] Get: 128 http://deb.debian.org/debian bookworm/main amd64 pkgconf amd64 1.8.1-1 [25.9 kB] Get: 129 http://deb.debian.org/debian bookworm/main amd64 pkg-config amd64 1.8.1-1 [13.7 kB] Get: 130 http://deb.debian.org/debian bookworm/main amd64 r-base-dev all 4.2.2.20221110-2 [4492 B] Get: 131 http://deb.debian.org/debian bookworm/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 132 http://deb.debian.org/debian bookworm/main amd64 libswitch-perl all 2.17-3 [20.3 kB] Get: 133 http://deb.debian.org/debian bookworm/main amd64 libclone-perl amd64 0.46-1 [13.7 kB] Get: 134 http://deb.debian.org/debian bookworm/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 135 http://deb.debian.org/debian bookworm/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 136 http://deb.debian.org/debian bookworm/main amd64 libhttp-date-perl all 6.05-2 [10.5 kB] Get: 137 http://deb.debian.org/debian bookworm/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 138 http://deb.debian.org/debian bookworm/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 139 http://deb.debian.org/debian bookworm/main amd64 libregexp-ipv6-perl all 0.03-3 [5212 B] Get: 140 http://deb.debian.org/debian bookworm/main amd64 liburi-perl all 5.17-1 [90.4 kB] Get: 141 http://deb.debian.org/debian bookworm/main amd64 libhttp-message-perl all 6.44-1 [81.7 kB] Get: 142 http://deb.debian.org/debian bookworm/main amd64 libparams-util-perl amd64 1.102-2+b1 [24.8 kB] Get: 143 http://deb.debian.org/debian bookworm/main amd64 libsub-install-perl all 0.929-1 [10.5 kB] Get: 144 http://deb.debian.org/debian bookworm/main amd64 libdata-optlist-perl all 0.113-1 [10.6 kB] Get: 145 http://deb.debian.org/debian bookworm/main amd64 libb-hooks-op-check-perl amd64 0.22-2+b1 [10.5 kB] Get: 146 http://deb.debian.org/debian bookworm/main amd64 libdynaloader-functions-perl all 0.003-3 [12.7 kB] Get: 147 http://deb.debian.org/debian bookworm/main amd64 libdevel-callchecker-perl amd64 0.008-2 [15.8 kB] Get: 148 http://deb.debian.org/debian bookworm/main amd64 libparams-classify-perl amd64 0.015-2+b1 [23.1 kB] Get: 149 http://deb.debian.org/debian bookworm/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 150 http://deb.debian.org/debian bookworm/main amd64 libtry-tiny-perl all 0.31-2 [22.6 kB] Get: 151 http://deb.debian.org/debian bookworm/main amd64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get: 152 http://deb.debian.org/debian bookworm/main amd64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get: 153 http://deb.debian.org/debian bookworm/main amd64 libclass-load-perl all 0.25-2 [15.3 kB] Get: 154 http://deb.debian.org/debian bookworm/main amd64 libclass-load-xs-perl amd64 0.10-2+b1 [14.0 kB] Get: 155 http://deb.debian.org/debian bookworm/main amd64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get: 156 http://deb.debian.org/debian bookworm/main amd64 libdevel-globaldestruction-perl all 0.14-4 [7144 B] Get: 157 http://deb.debian.org/debian bookworm/main amd64 libalgorithm-c3-perl all 0.11-2 [10.8 kB] Get: 158 http://deb.debian.org/debian bookworm/main amd64 libclass-c3-perl all 0.35-2 [21.0 kB] Get: 159 http://deb.debian.org/debian bookworm/main amd64 libmro-compat-perl all 0.15-2 [11.8 kB] Get: 160 http://deb.debian.org/debian bookworm/main amd64 libdevel-overloadinfo-perl all 0.007-1 [7896 B] Get: 161 http://deb.debian.org/debian bookworm/main amd64 libdevel-stacktrace-perl all 2.0400-2 [26.8 kB] Get: 162 http://deb.debian.org/debian bookworm/main amd64 libsub-exporter-perl all 0.989-1 [50.5 kB] Get: 163 http://deb.debian.org/debian bookworm/main amd64 libeval-closure-perl all 0.14-3 [11.2 kB] Get: 164 http://deb.debian.org/debian bookworm/main amd64 libdist-checkconflicts-perl all 0.11-2 [10.5 kB] Get: 165 http://deb.debian.org/debian bookworm/main amd64 libmodule-runtime-conflicts-perl all 0.003-2 [7356 B] Get: 166 http://deb.debian.org/debian bookworm/main amd64 libpackage-deprecationmanager-perl all 0.18-1 [17.6 kB] Get: 167 http://deb.debian.org/debian bookworm/main amd64 libpackage-stash-xs-perl amd64 0.30-1+b1 [19.8 kB] Get: 168 http://deb.debian.org/debian bookworm/main amd64 libmoose-perl amd64 2.2203-1 [794 kB] Get: 169 http://deb.debian.org/debian bookworm/main amd64 libvariable-magic-perl amd64 0.63-1+b1 [44.0 kB] Get: 170 http://deb.debian.org/debian bookworm/main amd64 libb-hooks-endofscope-perl all 0.26-1 [19.6 kB] Get: 171 http://deb.debian.org/debian bookworm/main amd64 libsub-identify-perl amd64 0.14-3 [10.9 kB] Get: 172 http://deb.debian.org/debian bookworm/main amd64 libsub-name-perl amd64 0.26-2+b1 [12.6 kB] Get: 173 http://deb.debian.org/debian bookworm/main amd64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get: 174 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.88.1-9 [381 kB] Get: 175 http://deb.debian.org/debian bookworm/main amd64 libwww-curl-perl amd64 4.17-10 [58.3 kB] Get: 176 http://deb.debian.org/debian bookworm/main amd64 libwww-curl-simple-perl all 0.100191-3 [12.6 kB] Get: 177 http://deb.debian.org/debian bookworm/main amd64 dh-r all 20230121 [37.9 kB] Get: 178 http://deb.debian.org/debian bookworm/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get: 179 http://deb.debian.org/debian bookworm/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [162 kB] Get: 180 http://deb.debian.org/debian bookworm/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get: 181 http://deb.debian.org/debian bookworm/main amd64 javascript-common all 11+nmu1 [6260 B] Get: 182 http://deb.debian.org/debian bookworm/main amd64 libjs-bootstrap all 3.4.1+dfsg-3 [172 kB] Get: 183 http://deb.debian.org/debian bookworm/main amd64 libjs-popper.js all 1.16.1+ds-6 [52.4 kB] Get: 184 http://deb.debian.org/debian bookworm/main amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [517 kB] Get: 185 http://deb.debian.org/debian bookworm/main amd64 libjs-d3 all 3.5.17-4 [132 kB] Get: 186 http://deb.debian.org/debian bookworm/main amd64 libjs-es5-shim all 4.6.7-2 [47.4 kB] Get: 187 http://deb.debian.org/debian bookworm/main amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [397 kB] Get: 188 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 189 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [144 kB] Get: 190 http://deb.debian.org/debian bookworm/main amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.2 kB] Get: 191 http://deb.debian.org/debian bookworm/main amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3672 B] Get: 192 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [52.1 kB] Get: 193 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 194 http://deb.debian.org/debian bookworm/main amd64 libjs-json all 0~20221030+~1.0.8-1 [20.0 kB] Get: 195 http://deb.debian.org/debian bookworm/main amd64 libjs-lunr all 2.3.9~dfsg-2 [76.6 kB] Get: 196 http://deb.debian.org/debian bookworm/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get: 197 http://deb.debian.org/debian bookworm/main amd64 libjs-modernizr all 2.6.2+ds1-5 [47.1 kB] Get: 198 http://deb.debian.org/debian bookworm/main amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [41.7 kB] Get: 199 http://deb.debian.org/debian bookworm/main amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [32.1 kB] Get: 200 http://deb.debian.org/debian bookworm/main amd64 liblua5.3-0 amd64 5.3.6-2 [123 kB] Get: 201 http://deb.debian.org/debian bookworm/main amd64 libuv1 amd64 1.44.2-1 [140 kB] Get: 202 http://deb.debian.org/debian bookworm/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get: 203 http://deb.debian.org/debian bookworm/main amd64 r-cran-littler amd64 0.3.17-1 [96.3 kB] Get: 204 http://deb.debian.org/debian bookworm/main amd64 littler all 0.3.17-1 [14.4 kB] Get: 205 http://deb.debian.org/debian bookworm/main amd64 node-bootstrap-sass all 3.4.3-2 [186 kB] Get: 206 http://deb.debian.org/debian bookworm/main amd64 node-html5shiv all 3.7.3+dfsg-5 [13.2 kB] Get: 207 http://deb.debian.org/debian bookworm/main amd64 node-normalize.css all 8.0.1-5 [12.7 kB] Get: 208 http://deb.debian.org/debian bookworm/main amd64 pandoc-data all 2.17.1.1-1.1 [417 kB] Get: 209 http://deb.debian.org/debian bookworm/main amd64 pandoc amd64 2.17.1.1-1.1 [21.3 MB] Get: 210 http://deb.debian.org/debian bookworm/main amd64 r-cran-base64enc amd64 0.1-3-3 [27.9 kB] Get: 211 http://deb.debian.org/debian bookworm/main amd64 r-cran-biocmanager all 1.30.20+dfsg-1 [126 kB] Get: 212 http://deb.debian.org/debian bookworm/main amd64 r-cran-digest amd64 0.6.31-1 [184 kB] Get: 213 http://deb.debian.org/debian bookworm/main amd64 r-cran-rlang amd64 1.0.6-1 [1618 kB] Get: 214 http://deb.debian.org/debian bookworm/main amd64 r-cran-fastmap amd64 1.1.1-1 [68.9 kB] Get: 215 http://deb.debian.org/debian bookworm/main amd64 r-cran-ellipsis amd64 0.3.2-2 [35.1 kB] Get: 216 http://deb.debian.org/debian bookworm/main amd64 r-cran-htmltools amd64 0.5.4-1 [364 kB] Get: 217 http://deb.debian.org/debian bookworm/main amd64 r-cran-evaluate all 0.20-1 [85.9 kB] Get: 218 http://deb.debian.org/debian bookworm/main amd64 r-cran-xfun amd64 0.37+dfsg-1 [394 kB] Get: 219 http://deb.debian.org/debian bookworm/main amd64 r-cran-highr all 0.10+dfsg-1 [38.1 kB] Get: 220 http://deb.debian.org/debian bookworm/main amd64 r-cran-yaml amd64 2.3.7-1 [104 kB] Get: 221 http://deb.debian.org/debian bookworm/main amd64 r-cran-knitr all 1.42+dfsg-1 [901 kB] Get: 222 http://deb.debian.org/debian bookworm/main amd64 r-cran-jsonlite amd64 1.8.4+dfsg-1 [442 kB] Get: 223 http://deb.debian.org/debian bookworm/main amd64 r-cran-fs amd64 1.6.1+dfsg-1 [226 kB] Get: 224 http://deb.debian.org/debian bookworm/main amd64 r-cran-r6 all 2.5.1-1 [105 kB] Get: 225 http://deb.debian.org/debian bookworm/main amd64 r-cran-rappdirs amd64 0.3.3-1 [47.4 kB] Get: 226 http://deb.debian.org/debian bookworm/main amd64 r-cran-sass amd64 0.4.5+dfsg-1 [942 kB] Get: 227 http://deb.debian.org/debian bookworm/main amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.1 kB] Get: 228 http://deb.debian.org/debian bookworm/main amd64 r-cran-cachem amd64 1.0.7-1 [71.6 kB] Get: 229 http://deb.debian.org/debian bookworm/main amd64 r-cran-memoise all 2.0.1-1 [53.8 kB] Get: 230 http://deb.debian.org/debian bookworm/main amd64 r-cran-mime amd64 0.12-1+b1 [36.0 kB] Get: 231 http://deb.debian.org/debian bookworm/main amd64 r-cran-bslib all 0.4.2+dfsg-1 [3773 kB] Get: 232 http://deb.debian.org/debian bookworm/main amd64 r-cran-cli amd64 3.6.0-1 [1287 kB] Get: 233 http://deb.debian.org/debian bookworm/main amd64 r-cran-glue amd64 1.6.2-1 [152 kB] Get: 234 http://deb.debian.org/debian bookworm/main amd64 r-cran-lifecycle all 1.0.3+dfsg-1 [109 kB] Get: 235 http://deb.debian.org/debian bookworm/main amd64 r-cran-magrittr amd64 2.0.3-1 [201 kB] Get: 236 http://deb.debian.org/debian bookworm/main amd64 r-cran-stringi amd64 1.7.12-1 [858 kB] Get: 237 http://deb.debian.org/debian bookworm/main amd64 r-cran-vctrs amd64 0.5.2-1 [1371 kB] Get: 238 http://deb.debian.org/debian bookworm/main amd64 r-cran-stringr all 1.5.0-1 [295 kB] Get: 239 http://deb.debian.org/debian bookworm/main amd64 r-cran-tinytex all 0.44-1 [138 kB] Get: 240 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgkitten all 0.2.2-2 [27.0 kB] Get: 241 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpp amd64 1.0.10-1 [2059 kB] Get: 242 http://deb.debian.org/debian bookworm/main amd64 r-cran-later amd64 1.3.0+dfsg-1+b1 [117 kB] Get: 243 http://deb.debian.org/debian bookworm/main amd64 r-cran-promises amd64 1.2.0.1+dfsg-1 [274 kB] Get: 244 http://deb.debian.org/debian bookworm/main amd64 r-cran-httpuv amd64 1.6.9+dfsg-1 [478 kB] Get: 245 http://deb.debian.org/debian bookworm/main amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] Get: 246 http://deb.debian.org/debian bookworm/main amd64 r-cran-fontawesome all 0.5.0-1 [1304 kB] Get: 247 http://deb.debian.org/debian bookworm/main amd64 r-cran-sourcetools amd64 0.1.7-1-1 [45.9 kB] Get: 248 http://deb.debian.org/debian bookworm/main amd64 r-cran-crayon all 1.5.2-1 [165 kB] Get: 249 http://deb.debian.org/debian bookworm/main amd64 r-cran-withr all 2.5.0-1 [236 kB] Get: 250 http://deb.debian.org/debian bookworm/main amd64 r-cran-commonmark amd64 1.8.1-1 [117 kB] Get: 251 http://deb.debian.org/debian bookworm/main amd64 r-cran-shiny all 1.7.4+dfsg-2 [2732 kB] Get: 252 http://deb.debian.org/debian bookworm/main amd64 r-cran-rmarkdown all 2.20+dfsg-1 [2265 kB] Get: 253 http://deb.debian.org/debian bookworm/main amd64 r-cran-bookdown all 0.32+dfsg-1 [1394 kB] Fetched 158 MB in 4s (43.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package readline-common. (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 ... 19596 files and directories currently installed.) Preparing to unpack .../000-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package openssl. Preparing to unpack .../002-openssl_3.0.8-1_amd64.deb ... Unpacking openssl (3.0.8-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../003-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../005-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.44-3_amd64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.21-12_amd64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../008-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.22.4-10_amd64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.38.1-5+b1_amd64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../011-libpipeline1_1.5.7-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.11.2-2_amd64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package ucf. Preparing to unpack .../013-ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package m4. Preparing to unpack .../014-m4_1.4.19-3_amd64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../015-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../016-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../017-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../018-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package dctrl-tools. Preparing to unpack .../019-dctrl-tools_2.24-3+b1_amd64.deb ... Unpacking dctrl-tools (2.24-3+b1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../020-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../021-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../022-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../023-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../024-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../025-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../026-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../027-libelf1_0.188-2.1_amd64.deb ... Unpacking libelf1:amd64 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../028-dwz_0.15-1_amd64.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../029-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../030-libxml2_2.9.14+dfsg-1.2_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.2) ... Selecting previously unselected package gettext. Preparing to unpack .../031-gettext_0.21-12_amd64.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../032-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../033-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../034-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package zip. Preparing to unpack .../035-zip_3.0-13_amd64.deb ... Unpacking zip (3.0-13) ... Selecting previously unselected package unzip. Preparing to unpack .../036-unzip_6.0-28_amd64.deb ... Unpacking unzip (6.0-28) ... Selecting previously unselected package libpaper1:amd64. Preparing to unpack .../037-libpaper1_1.1.29_amd64.deb ... Unpacking libpaper1:amd64 (1.1.29) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../038-libpaper-utils_1.1.29_amd64.deb ... Unpacking libpaper-utils (1.1.29) ... Selecting previously unselected package xdg-utils. Preparing to unpack .../039-xdg-utils_1.1.3-4.1_all.deb ... Unpacking xdg-utils (1.1.3-4.1) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../040-libblas3_3.11.0-2_amd64.deb ... Unpacking libblas3:amd64 (3.11.0-2) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../041-libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../042-libbrotli1_1.0.9-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b6) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../043-libpng16-16_1.6.39-2_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.39-2) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../044-libfreetype6_2.12.1+dfsg-5_amd64.deb ... Unpacking libfreetype6:amd64 (2.12.1+dfsg-5) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../045-fonts-dejavu-core_2.37-6_all.deb ... Unpacking fonts-dejavu-core (2.37-6) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../046-fontconfig-config_2.14.1-4_amd64.deb ... Unpacking fontconfig-config (2.14.1-4) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../047-libfontconfig1_2.14.1-4_amd64.deb ... Unpacking libfontconfig1:amd64 (2.14.1-4) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../048-libpixman-1-0_0.42.2-1_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.42.2-1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../049-libxau6_1%3a1.0.9-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.9-1) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../050-libbsd0_0.11.7-2_amd64.deb ... Unpacking libbsd0:amd64 (0.11.7-2) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../051-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../052-libxcb1_1.15-1_amd64.deb ... Unpacking libxcb1:amd64 (1.15-1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../053-libx11-data_2%3a1.8.4-2_all.deb ... Unpacking libx11-data (2:1.8.4-2) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../054-libx11-6_2%3a1.8.4-2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.8.4-2) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../055-libxcb-render0_1.15-1_amd64.deb ... Unpacking libxcb-render0:amd64 (1.15-1) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../056-libxcb-shm0_1.15-1_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.15-1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../057-libxext6_2%3a1.3.4-1+b1_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.4-1+b1) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../058-libxrender1_1%3a0.9.10-1.1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1.1) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../059-libcairo2_1.16.0-7_amd64.deb ... Unpacking libcairo2:amd64 (1.16.0-7) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../060-libsasl2-modules-db_2.1.28+dfsg-10_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../061-libsasl2-2_2.1.28+dfsg-10_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../062-libldap-2.5-0_2.5.13+dfsg-5_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../063-libnghttp2-14_1.52.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.52.0-1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../064-libpsl5_0.21.2-1_amd64.deb ... Unpacking libpsl5:amd64 (0.21.2-1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../065-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../066-libssh2-1_1.10.0-3+b1_amd64.deb ... Unpacking libssh2-1:amd64 (1.10.0-3+b1) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../067-libcurl4_7.88.1-9_amd64.deb ... Unpacking libcurl4:amd64 (7.88.1-9) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../068-libglib2.0-0_2.74.6-2_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.74.6-2) ... Selecting previously unselected package libjpeg62-turbo:amd64. 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Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libpcrecpp0v5:amd64 (2:8.39-15) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libncurses-dev:amd64 (6.4-4) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libpcre2-dev:amd64 (10.42-1) ... Setting up libtool (2.4.7-5) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up libpcre3-dev:amd64 (2:8.39-15) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libreadline8:amd64 (8.2-1.3) ... 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Setting up liblapack-dev:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode Setting up libdata-optlist-perl (0.113-1) ... Setting up pkg-config:amd64 (1.8.1-1) ... Setting up ucf (3.0043+nmu1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libncurses5-dev:amd64 (6.4-4) ... Setting up libcurl4:amd64 (7.88.1-9) ... Setting up libx11-6:amd64 (2:1.8.4-2) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libfontconfig1:amd64 (2.14.1-4) ... Setting up libmro-compat-perl (0.15-2) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libxmuu1:amd64 (2:1.1.3-3) ... 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 libpaper1:amd64 (1.1.29) ... Creating config file /etc/papersize with new version Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b1) ... Setting up libpango-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libcurl3-gnutls:amd64 (7.88.1-9) ... 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 gfortran (4:12.2.0-3) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libcairo2:amd64 (1.16.0-7) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up libdist-checkconflicts-perl (0.11-2) ... Setting up libxt6:amd64 (1:1.2.1-1.1) ... Setting up xauth (1:1.1.2-1) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libpangoft2-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libxft2:amd64 (2.3.6-1) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libtk8.6:amd64 (8.6.13-2) ... Setting up libwww-curl-perl:amd64 (4.17-10) ... Setting up debhelper (13.11.4) ... Setting up libmodule-runtime-conflicts-perl (0.003-2) ... Setting up libclass-load-perl (0.25-2) ... Setting up r-base-core (4.2.2.20221110-2) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.2-1) ... Setting up r-cran-sourcetools (0.1.7-1-1) ... 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 r-cran-commonmark (1.8.1-1) ... Setting up r-cran-r6 (2.5.1-1) ... Setting up r-cran-pkgkitten (0.2.2-2) ... Setting up libb-hooks-endofscope-perl (0.26-1) ... Setting up r-cran-magrittr (2.0.3-1) ... Setting up r-cran-rappdirs (0.3.3-1) ... Setting up r-cran-littler (0.3.17-1) ... Setting up r-cran-fs (1.6.1+dfsg-1) ... Setting up r-cran-rcpp (1.0.10-1) ... Setting up r-cran-rlang (1.0.6-1) ... Setting up r-base-dev (4.2.2.20221110-2) ... Setting up littler (0.3.17-1) ... Setting up r-cran-xfun (0.37+dfsg-1) ... Setting up r-cran-withr (2.5.0-1) ... Setting up r-cran-mime (0.12-1+b1) ... Setting up libmoose-perl:amd64 (2.2203-1) ... Setting up r-cran-base64enc (0.1-3-3) ... Setting up r-cran-digest (0.6.31-1) ... Setting up r-cran-yaml (2.3.7-1) ... Setting up r-cran-evaluate (0.20-1) ... Setting up r-cran-highr (0.10+dfsg-1) ... Setting up r-cran-glue (1.6.2-1) ... Setting up r-cran-xtable (1:1.8-4-2) ... Setting up r-cran-cli (3.6.0-1) ... Setting up r-cran-lifecycle (1.0.3+dfsg-1) ... Setting up r-cran-biocmanager (1.30.20+dfsg-1) ... Setting up r-cran-fastmap (1.1.1-1) ... Setting up r-cran-jsonlite (1.8.4+dfsg-1) ... Setting up r-cran-stringi (1.7.12-1) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up r-cran-later (1.3.0+dfsg-1+b1) ... Setting up r-cran-tinytex (0.44-1) ... Setting up r-cran-knitr (1.42+dfsg-1) ... Setting up r-cran-cachem (1.0.7-1) ... Setting up r-cran-vctrs (0.5.2-1) ... Setting up r-cran-ellipsis (0.3.2-2) ... Setting up r-cran-stringr (1.5.0-1) ... Setting up libwww-curl-simple-perl (0.100191-3) ... Setting up r-cran-memoise (2.0.1-1) ... Setting up r-cran-promises (1.2.0.1+dfsg-1) ... Setting up r-cran-htmltools (0.5.4-1) ... Setting up r-cran-sass (0.4.5+dfsg-1) ... Setting up dh-r (20230121) ... Setting up r-cran-httpuv (1.6.9+dfsg-1) ... Setting up r-cran-fontawesome (0.5.0-1) ... Setting up r-cran-jquerylib (0.1.4+dfsg-4) ... Setting up r-cran-bslib (0.4.2+dfsg-1) ... Setting up r-cran-shiny (1.7.4+dfsg-2) ... Setting up r-cran-rmarkdown (2.20+dfsg-1) ... Setting up r-cran-bookdown (0.32+dfsg-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 I: Building the package I: Running cd /build/r-bioc-biocstyle-2.26.0+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 > ../r-bioc-biocstyle_2.26.0+dfsg-1_source.changes dpkg-buildpackage: info: source package r-bioc-biocstyle dpkg-buildpackage: info: source version 2.26.0+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem R dh_auto_clean -O--buildsystem=R dh_autoreconf_clean -O--buildsystem=R dh_clean -O--buildsystem=R debian/rules binary dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R dh_auto_install --destdir=debian/r-bioc-biocstyle/ -O--buildsystem=R I: R Package: BiocStyle Version: 2.26.0 I: Building using R version 4.2.2.20221110-2 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Sun, 20 Nov 2022 10:29:52 +0100 mkdir -p /build/r-bioc-biocstyle-2.26.0\+dfsg/debian/r-bioc-biocstyle/usr/lib/R/site-library R CMD INSTALL -l /build/r-bioc-biocstyle-2.26.0\+dfsg/debian/r-bioc-biocstyle/usr/lib/R/site-library --clean . "--built-timestamp='Sun, 20 Nov 2022 10:29:52 +0100'" * installing *source* package 'BiocStyle' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocStyle) Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 300. Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 302. Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 303. Use of uninitialized value $dep_line in split at /usr/share/perl5/Dpkg/Deps.pm line 306. I: Using r-bioc-biocgenerics for Suggests:BiocGenerics I: Using r-cran-runit for Suggests:RUnit I: Using r-cran-htmltools for Suggests:htmltools I: Using r-cran-bookdown for Imports:bookdown I: Using r-cran-knitr for Imports:knitr (>= 1.30) I: Using r-cran-rmarkdown for Imports:rmarkdown (>= 1.2) I: Using r-cran-yaml for Imports:yaml I: Using r-cran-biocmanager for Imports:BiocManager I: BioConductor API version: r-api-bioc-3.16 I: Use r-bioc-biocstyle as Debian binary package for variables substitution debian/rules override_dh_install make[1]: Entering directory '/build/r-bioc-biocstyle-2.26.0+dfsg' dh_install # For whatever reason this test is failing - remove it for the moment find debian -name test_pdf_document.R -delete make[1]: Leaving directory '/build/r-bioc-biocstyle-2.26.0+dfsg' dh_installdocs -O--buildsystem=R dh_installchangelogs -O--buildsystem=R dh_installsystemduser -O--buildsystem=R dh_perl -O--buildsystem=R debian/rules override_dh_link make[1]: Entering directory '/build/r-bioc-biocstyle-2.26.0+dfsg' dh_link dh_link usr/share/texlive/texmf-dist/bibtex/bst/urlbst/unsrturl.bst usr/lib/R/site-library/BiocStyle/resources/tex/unsrturl.bst make[1]: Leaving directory '/build/r-bioc-biocstyle-2.26.0+dfsg' dh_strip_nondeterminism -O--buildsystem=R dh_compress -O--buildsystem=R dh_fixperms -O--buildsystem=R dh_missing -O--buildsystem=R dh_installdeb -O--buildsystem=R dh_gencontrol -O--buildsystem=R dh_md5sums -O--buildsystem=R dh_builddeb -O--buildsystem=R dpkg-deb: building package 'r-bioc-biocstyle' in '../r-bioc-biocstyle_2.26.0+dfsg-1_all.deb'. dpkg-genbuildinfo --build=binary -O../r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../r-bioc-biocstyle_2.26.0+dfsg-1_amd64.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/1629971 and its subdirectories I: Current time: Fri Jun 21 23:23:12 -12 2024 I: pbuilder-time-stamp: 1719055392 Sun May 21 05:00:04 UTC 2023 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Sun May 21 05:00:04 UTC 2023 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Sun May 21 05:03:51 UTC 2023 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Sun May 21 05:03:51 UTC 2023 I: r-bioc-biocstyle_2.26.0+dfsg-1_amd64.changes: Format: 1.8 Date: Sun, 20 Nov 2022 10:29:52 +0100 Source: r-bioc-biocstyle Binary: r-bioc-biocstyle Architecture: all Version: 2.26.0+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian R Packages Maintainers Changed-By: Andreas Tille Description: r-bioc-biocstyle - standard styles for vignettes and other Bioconductor documents Changes: r-bioc-biocstyle (2.26.0+dfsg-1) unstable; urgency=medium . * New upstream version Checksums-Sha1: 1858eecde922da7863f7fa4fb40440b1c5e7ed6e 435448 r-bioc-biocstyle_2.26.0+dfsg-1_all.deb 5fd291d14e28ace375c7a43cb7e4a228ca1785db 12066 r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo Checksums-Sha256: 2e66fb9e421087879711bf0c7c5fbaf9cb029798eb78aae91cce2a4c598911f4 435448 r-bioc-biocstyle_2.26.0+dfsg-1_all.deb 4585d0543f897a2e95a1ce93b2d72a0702f04ec5bba8509ec0b1b36bd01c5bee 12066 r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo Files: 7311b01b672c0036e77133774208914e 435448 gnu-r optional r-bioc-biocstyle_2.26.0+dfsg-1_all.deb 957faff1ec5af41b9f75125f920179c0 12066 gnu-r optional r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo Sun May 21 05:03:52 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.8n8Ryo9w/r-bioc-biocstyle_2.26.0+dfsg-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.8n8Ryo9w/r-bioc-biocstyle_2.26.0+dfsg-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.8n8Ryo9w/r-bioc-biocstyle_2.26.0+dfsg-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.8n8Ryo9w/b1/r-bioc-biocstyle_2.26.0+dfsg-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.8n8Ryo9w/b2/r-bioc-biocstyle_2.26.0+dfsg-1_amd64.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: 0.338s) 0.338s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.018s) 0.018s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Sun May 21 05:03:53 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Sun May 21 05:03:53 UTC 2023 I: r-bioc-biocstyle from bookworm built successfully and reproducibly on amd64. Sun May 21 05:03:54 UTC 2023 I: Submitting .buildinfo files to external archives: Sun May 21 05:03:54 UTC 2023 I: Submitting 16K b1/r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo.asc Sun May 21 05:03:55 UTC 2023 I: Submitting 16K b2/r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo.asc Sun May 21 05:03:56 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun May 21 05:03:56 UTC 2023 I: Done submitting .buildinfo files. Sun May 21 05:03:56 UTC 2023 I: Removing signed r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo.asc files: removed './b1/r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo.asc' removed './b2/r-bioc-biocstyle_2.26.0+dfsg-1_amd64.buildinfo.asc'