Tue Jun 6 09:12:10 UTC 2023 I: starting to build r-bioc-affy/bookworm/armhf on jenkins on '2023-06-06 09:11' Tue Jun 6 09:12:10 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_44/2174/console.log Tue Jun 6 09:12:10 UTC 2023 I: Downloading source for bookworm/r-bioc-affy=1.76.0-1 --2023-06-06 09:12:10-- http://cdn-fastly.deb.debian.org/debian/pool/main/r/r-bioc-affy/r-bioc-affy_1.76.0-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2153 (2.1K) [text/prs.lines.tag] Saving to: ‘r-bioc-affy_1.76.0-1.dsc’ 0K .. 100% 176M=0s 2023-06-06 09:12:10 (176 MB/s) - ‘r-bioc-affy_1.76.0-1.dsc’ saved [2153/2153] Tue Jun 6 09:12:10 UTC 2023 I: r-bioc-affy_1.76.0-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: r-bioc-affy Binary: r-bioc-affy Architecture: any Version: 1.76.0-1 Maintainer: Debian R Packages Maintainers Uploaders: Andreas Tille Homepage: https://bioconductor.org/packages/affy/ Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-affy Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-affy.git Testsuite: autopkgtest-pkg-r Build-Depends: debhelper-compat (= 13), dh-r (>= 20210218), r-base-dev, r-bioc-biocgenerics, r-bioc-biobase, r-bioc-affyio, r-cran-biocmanager, r-bioc-preprocesscore, r-bioc-zlibbioc Package-List: r-bioc-affy deb gnu-r optional arch=any Checksums-Sha1: 523f9f183ccea4de9c9f2d6fcddee78e49724304 1215069 r-bioc-affy_1.76.0.orig.tar.gz 26b24f45d2b2ef2218161d60a655ab83371a137f 4884 r-bioc-affy_1.76.0-1.debian.tar.xz Checksums-Sha256: f28162f390369957f4bed64c535c64c1901be151c4642cf456065e45704d3dc6 1215069 r-bioc-affy_1.76.0.orig.tar.gz 95c52f7037956cc9f956c355db767c272da7c1caf76978dc3389feb4063fc5d7 4884 r-bioc-affy_1.76.0-1.debian.tar.xz Files: 53cbffc6730bbac4cd93bbd70fb87414 1215069 r-bioc-affy_1.76.0.orig.tar.gz 1db5b730e2f2e2d726ac03a55c4ce761 4884 r-bioc-affy_1.76.0-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmN6lT4RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEZbA//bEQYPimZLBzrhO8vy2NnQIpl8wmL0Bxm DKWQI4qUFThOK1+3+qc50JtGTx2fzhOPxozuTtDHaMWCWkyeErf6px26ymiA2/qy oYBofpAeWijmkCmVKdrzV9f7q7YdXV3gccgpoXWPV6nqYFFS8y4+/7pW8FXZTtKv gJ9YQdn79PckAjsJvsBtakTVlFvWqDwAxQ8a0K/UTAQUJN8mc7x3EC1XjRUi3F5b BF8qQJmRneL7Ia57ME5bDd4qAj1IfhLiOmykN/cMpvC/OKoULXX0/vlwa/jkyDGL SXCidkbCmAO2ufwSkTx6PxPEsjmXdZIVuRf77QS0nnlrDn4oWpcAAfgqmqgejYH9 vu2Aa2gC8zcYFUFkbBpWOLic25JtqKYiNRKh/VKU7gz54VUs7vtvvF/wAh/QMvSi 2GwjMb31QGm6cXUmb1pbSJbJFUwjoFCKDfDPTPUWboDzBDf9rUafescC3QQaWcsk DD8vnLYH4YFUyWlAPatBX7TpGaCVoIAuF/VP5WBLPzaO2uPTcAhbAAynoNaU5t7c YN8Ada8xkrStEhDHTL/RfkxpVNplqUwxjhrCDJbiwzPnQaqIN71fv9QCfN4y3JeP Y3dInvobapBQw+pVPEDAu9EIrOUqlbeXNc3Mt6GqpV1Haq9HlfMcf50UQnjqrcxl wslVAhBInQE= =i7Sl -----END PGP SIGNATURE----- Tue Jun 6 09:12:10 UTC 2023 I: Checking whether the package is not for us Tue Jun 6 09:12:10 UTC 2023 I: Starting 1st build on remote node cbxi4pro0-armhf-rb.debian.net. Tue Jun 6 09:12:10 UTC 2023 I: Preparing to do remote build '1' on cbxi4pro0-armhf-rb.debian.net. Tue Jun 6 09:25:36 UTC 2023 I: Deleting $TMPDIR on cbxi4pro0-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Jun 5 21:12:27 -12 2023 I: pbuilder-time-stamp: 1686042747 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-affy_1.76.0-1.dsc] I: copying [./r-bioc-affy_1.76.0.orig.tar.gz] I: copying [./r-bioc-affy_1.76.0-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Nov 20 08:59:42 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-affy_1.76.0-1.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-affy in r-bioc-affy-1.76.0 dpkg-source: info: unpacking r-bioc-affy_1.76.0.orig.tar.gz dpkg-source: info: unpacking r-bioc-affy_1.76.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4248/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='6927ba8784744e6fa8463dd460e762df' 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='4248' 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.h5MYI5Nr/pbuilderrc_OeoI --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.h5MYI5Nr/b1 --logfile b1/build.log r-bioc-affy_1.76.0-1.dsc' SUDO_GID='113' SUDO_UID='107' 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 cbxi4pro0 5.10.0-23-armmp #1 SMP Debian 5.10.179-1 (2023-05-12) armv7l 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/4248/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-compat (= 13), dh-r (>= 20210218), r-base-dev, r-bioc-biocgenerics, r-bioc-biobase, r-bioc-affyio, r-cran-biocmanager, r-bioc-preprocesscore, r-bioc-zlibbioc 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-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-r (>= 20210218); 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-bioc-biocgenerics; however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biobase; however: Package r-bioc-biobase is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-affyio; however: Package r-bioc-affyio is not installed. pbuilder-satisfydepends-dummy depends on r-cran-biocmanager; however: Package r-cran-biocmanager is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-preprocesscore; however: Package r-bioc-preprocesscore is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-zlibbioc; however: Package r-bioc-zlibbioc 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} gettext{a} gettext-base{a} gfortran{a} gfortran-12{a} groff-base{a} icu-devtools{a} intltool-debian{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} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{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} 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} m4{a} man-db{a} openssl{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-bioc-affyio{a} r-bioc-biobase{a} r-bioc-biocgenerics{a} r-bioc-preprocesscore{a} r-bioc-zlibbioc{a} r-cran-biocmanager{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 publicsuffix r-bioc-biocversion r-cran-runit r-cran-testthat r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 183 newly installed, 0 to remove and 0 not upgraded. Need to get 92.0 MB of archives. After unpacking 254 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf readline-common all 8.2-1.3 [69.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf openssl armhf 3.0.9-1 [1381 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf ca-certificates all 20230311 [153 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 11 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 12 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf ucf all 3.0043+nmu1 [55.2 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf dctrl-tools armhf 2.24-3 [96.0 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 22 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 24 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 26 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 28 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB] Get: 32 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 34 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 35 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 36 http://deb.debian.org/debian bookworm/main armhf zip armhf 3.0-13 [218 kB] Get: 37 http://deb.debian.org/debian bookworm/main armhf unzip armhf 6.0-28 [152 kB] Get: 38 http://deb.debian.org/debian bookworm/main armhf libpaper1 armhf 1.1.29 [11.9 kB] Get: 39 http://deb.debian.org/debian bookworm/main armhf libpaper-utils armhf 1.1.29 [8400 B] Get: 40 http://deb.debian.org/debian bookworm/main armhf xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 41 http://deb.debian.org/debian bookworm/main armhf libblas3 armhf 3.11.0-2 [105 kB] Get: 42 http://deb.debian.org/debian bookworm/main armhf libexpat1 armhf 2.5.0-1 [79.9 kB] Get: 43 http://deb.debian.org/debian bookworm/main armhf libbrotli1 armhf 1.0.9-2+b6 [271 kB] Get: 44 http://deb.debian.org/debian bookworm/main armhf libpng16-16 armhf 1.6.39-2 [260 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf libfreetype6 armhf 2.12.1+dfsg-5 [332 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf fonts-dejavu-core all 2.37-6 [1068 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf fontconfig-config armhf 2.14.1-4 [315 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf libfontconfig1 armhf 2.14.1-4 [368 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf libpixman-1-0 armhf 0.42.2-1 [465 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf libxau6 armhf 1:1.0.9-1 [19.0 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf libbsd0 armhf 0.11.7-2 [113 kB] Get: 52 http://deb.debian.org/debian bookworm/main armhf libxdmcp6 armhf 1:1.1.2-3 [24.9 kB] Get: 53 http://deb.debian.org/debian bookworm/main armhf libxcb1 armhf 1.15-1 [140 kB] Get: 54 http://deb.debian.org/debian bookworm/main armhf libx11-data all 2:1.8.4-2 [292 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf libx11-6 armhf 2:1.8.4-2 [695 kB] Get: 56 http://deb.debian.org/debian bookworm/main armhf libxcb-render0 armhf 1.15-1 [114 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf libxcb-shm0 armhf 1.15-1 [106 kB] Get: 58 http://deb.debian.org/debian bookworm/main armhf libxext6 armhf 2:1.3.4-1+b1 [47.8 kB] Get: 59 http://deb.debian.org/debian bookworm/main armhf libxrender1 armhf 1:0.9.10-1.1 [30.1 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf libcairo2 armhf 1.16.0-7 [493 kB] Get: 61 http://deb.debian.org/debian bookworm/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get: 62 http://deb.debian.org/debian bookworm/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get: 63 http://deb.debian.org/debian bookworm/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5 [158 kB] Get: 64 http://deb.debian.org/debian bookworm/main armhf libnghttp2-14 armhf 1.52.0-1 [60.8 kB] Get: 65 http://deb.debian.org/debian bookworm/main armhf libpsl5 armhf 0.21.2-1 [57.5 kB] Get: 66 http://deb.debian.org/debian bookworm/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 67 http://deb.debian.org/debian bookworm/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get: 68 http://deb.debian.org/debian bookworm/main armhf libcurl4 armhf 7.88.1-10 [347 kB] Get: 69 http://deb.debian.org/debian bookworm/main armhf libglib2.0-0 armhf 2.74.6-2 [1227 kB] Get: 70 http://deb.debian.org/debian bookworm/main armhf libjpeg62-turbo armhf 1:2.1.5-2 [143 kB] Get: 71 http://deb.debian.org/debian bookworm/main armhf libgfortran5 armhf 12.2.0-14 [246 kB] Get: 72 http://deb.debian.org/debian bookworm/main armhf liblapack3 armhf 3.11.0-2 [1724 kB] Get: 73 http://deb.debian.org/debian bookworm/main armhf fontconfig armhf 2.14.1-4 [448 kB] Get: 74 http://deb.debian.org/debian bookworm/main armhf libfribidi0 armhf 1.0.8-2.1 [63.1 kB] Get: 75 http://deb.debian.org/debian bookworm/main armhf libgraphite2-3 armhf 1.3.14-1 [70.5 kB] Get: 76 http://deb.debian.org/debian bookworm/main armhf libharfbuzz0b armhf 6.0.0+dfsg-3 [1893 kB] Get: 77 http://deb.debian.org/debian bookworm/main armhf libthai-data all 0.1.29-1 [176 kB] Get: 78 http://deb.debian.org/debian bookworm/main armhf libdatrie1 armhf 0.2.13-2+b1 [39.9 kB] Get: 79 http://deb.debian.org/debian bookworm/main armhf libthai0 armhf 0.1.29-1 [54.3 kB] Get: 80 http://deb.debian.org/debian bookworm/main armhf libpango-1.0-0 armhf 1.50.12+ds-1 [188 kB] Get: 81 http://deb.debian.org/debian bookworm/main armhf libpangoft2-1.0-0 armhf 1.50.12+ds-1 [40.9 kB] Get: 82 http://deb.debian.org/debian bookworm/main armhf libpangocairo-1.0-0 armhf 1.50.12+ds-1 [30.3 kB] Get: 83 http://deb.debian.org/debian bookworm/main armhf libreadline8 armhf 8.2-1.3 [144 kB] Get: 84 http://deb.debian.org/debian bookworm/main armhf libtcl8.6 armhf 8.6.13+dfsg-2 [922 kB] Get: 85 http://deb.debian.org/debian bookworm/main armhf libdeflate0 armhf 1.14-1 [52.2 kB] Get: 86 http://deb.debian.org/debian bookworm/main armhf libjbig0 armhf 2.1-6.1 [27.1 kB] Get: 87 http://deb.debian.org/debian bookworm/main armhf liblerc4 armhf 4.0.0+ds-2 [137 kB] Get: 88 http://deb.debian.org/debian bookworm/main armhf libwebp7 armhf 1.2.4-0.2 [242 kB] Get: 89 http://deb.debian.org/debian bookworm/main armhf libtiff6 armhf 4.5.0-6 [295 kB] Get: 90 http://deb.debian.org/debian bookworm/main armhf libxft2 armhf 2.3.6-1 [53.8 kB] Get: 91 http://deb.debian.org/debian bookworm/main armhf x11-common all 1:7.7+23 [252 kB] Get: 92 http://deb.debian.org/debian bookworm/main armhf libxss1 armhf 1:1.2.3-1 [17.2 kB] Get: 93 http://deb.debian.org/debian bookworm/main armhf libtk8.6 armhf 8.6.13-2 [689 kB] Get: 94 http://deb.debian.org/debian bookworm/main armhf libice6 armhf 2:1.0.10-1 [51.9 kB] Get: 95 http://deb.debian.org/debian bookworm/main armhf libsm6 armhf 2:1.2.3-1 [33.0 kB] Get: 96 http://deb.debian.org/debian bookworm/main armhf libxt6 armhf 1:1.2.1-1.1 [157 kB] Get: 97 http://deb.debian.org/debian bookworm/main armhf r-base-core armhf 4.2.2.20221110-2 [25.6 MB] Get: 98 http://deb.debian.org/debian bookworm/main armhf libgfortran-12-dev armhf 12.2.0-14 [298 kB] Get: 99 http://deb.debian.org/debian bookworm/main armhf gfortran-12 armhf 12.2.0-14 [7633 kB] Get: 100 http://deb.debian.org/debian bookworm/main armhf gfortran armhf 4:12.2.0-3 [1424 B] Get: 101 http://deb.debian.org/debian bookworm/main armhf libblas-dev armhf 3.11.0-2 [115 kB] Get: 102 http://deb.debian.org/debian bookworm/main armhf liblapack-dev armhf 3.11.0-2 [1798 kB] Get: 103 http://deb.debian.org/debian bookworm/main armhf libncurses6 armhf 6.4-4 [81.1 kB] Get: 104 http://deb.debian.org/debian bookworm/main armhf libncurses-dev armhf 6.4-4 [311 kB] Get: 105 http://deb.debian.org/debian bookworm/main armhf libncurses5-dev armhf 6.4-4 [932 B] Get: 106 http://deb.debian.org/debian bookworm/main armhf libreadline-dev armhf 8.2-1.3 [136 kB] Get: 107 http://deb.debian.org/debian bookworm/main armhf libjpeg62-turbo-dev armhf 1:2.1.5-2 [260 kB] Get: 108 http://deb.debian.org/debian bookworm/main armhf libjpeg-dev armhf 1:2.1.5-2 [71.8 kB] Get: 109 http://deb.debian.org/debian bookworm/main armhf libpcre2-16-0 armhf 10.42-1 [211 kB] Get: 110 http://deb.debian.org/debian bookworm/main armhf libpcre2-32-0 armhf 10.42-1 [203 kB] Get: 111 http://deb.debian.org/debian bookworm/main armhf libpcre2-posix3 armhf 10.42-1 [55.0 kB] Get: 112 http://deb.debian.org/debian bookworm/main armhf libpcre2-dev armhf 10.42-1 [666 kB] Get: 113 http://deb.debian.org/debian bookworm/main armhf libpcre3 armhf 2:8.39-15 [315 kB] Get: 114 http://deb.debian.org/debian bookworm/main armhf libpcre16-3 armhf 2:8.39-15 [235 kB] Get: 115 http://deb.debian.org/debian bookworm/main armhf libpcre32-3 armhf 2:8.39-15 [226 kB] Get: 116 http://deb.debian.org/debian bookworm/main armhf libpcrecpp0v5 armhf 2:8.39-15 [141 kB] Get: 117 http://deb.debian.org/debian bookworm/main armhf libpcre3-dev armhf 2:8.39-15 [591 kB] Get: 118 http://deb.debian.org/debian bookworm/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-1 [902 kB] Get: 119 http://deb.debian.org/debian bookworm/main armhf libpng-dev armhf 1.6.39-2 [343 kB] Get: 120 http://deb.debian.org/debian bookworm/main armhf libbz2-dev armhf 1.0.8-5+b1 [28.1 kB] Get: 121 http://deb.debian.org/debian bookworm/main armhf liblzma-dev armhf 5.4.1-0.2 [248 kB] Get: 122 http://deb.debian.org/debian bookworm/main armhf icu-devtools armhf 72.1-3 [183 kB] Get: 123 http://deb.debian.org/debian bookworm/main armhf libicu-dev armhf 72.1-3 [10.1 MB] Get: 124 http://deb.debian.org/debian bookworm/main armhf libxmuu1 armhf 2:1.1.3-3 [23.3 kB] Get: 125 http://deb.debian.org/debian bookworm/main armhf xauth armhf 1:1.1.2-1 [33.2 kB] Get: 126 http://deb.debian.org/debian bookworm/main armhf libpkgconf3 armhf 1.8.1-1 [31.3 kB] Get: 127 http://deb.debian.org/debian bookworm/main armhf pkgconf-bin armhf 1.8.1-1 [28.5 kB] Get: 128 http://deb.debian.org/debian bookworm/main armhf pkgconf armhf 1.8.1-1 [25.9 kB] Get: 129 http://deb.debian.org/debian bookworm/main armhf pkg-config armhf 1.8.1-1 [13.7 kB] Get: 130 http://deb.debian.org/debian bookworm/main armhf r-base-dev all 4.2.2.20221110-2 [4492 B] Get: 131 http://deb.debian.org/debian bookworm/main armhf libfile-which-perl all 1.27-2 [15.1 kB] Get: 132 http://deb.debian.org/debian bookworm/main armhf libswitch-perl all 2.17-3 [20.3 kB] Get: 133 http://deb.debian.org/debian bookworm/main armhf libclone-perl armhf 0.46-1 [13.1 kB] Get: 134 http://deb.debian.org/debian bookworm/main armhf libencode-locale-perl all 1.05-3 [12.9 kB] Get: 135 http://deb.debian.org/debian bookworm/main armhf libtimedate-perl all 2.3300-2 [39.3 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 libio-html-perl all 1.004-3 [16.2 kB] Get: 138 http://deb.debian.org/debian bookworm/main armhf liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 139 http://deb.debian.org/debian bookworm/main armhf libregexp-ipv6-perl all 0.03-3 [5212 B] Get: 140 http://deb.debian.org/debian bookworm/main armhf liburi-perl all 5.17-1 [90.4 kB] Get: 141 http://deb.debian.org/debian bookworm/main armhf libhttp-message-perl all 6.44-1 [81.7 kB] Get: 142 http://deb.debian.org/debian bookworm/main armhf libparams-util-perl armhf 1.102-2+b1 [23.8 kB] Get: 143 http://deb.debian.org/debian bookworm/main armhf libsub-install-perl all 0.929-1 [10.5 kB] Get: 144 http://deb.debian.org/debian bookworm/main armhf libdata-optlist-perl all 0.113-1 [10.6 kB] Get: 145 http://deb.debian.org/debian bookworm/main armhf libb-hooks-op-check-perl armhf 0.22-2+b1 [10.3 kB] Get: 146 http://deb.debian.org/debian bookworm/main armhf libdynaloader-functions-perl all 0.003-3 [12.7 kB] Get: 147 http://deb.debian.org/debian bookworm/main armhf libdevel-callchecker-perl armhf 0.008-2 [15.7 kB] Get: 148 http://deb.debian.org/debian bookworm/main armhf libparams-classify-perl armhf 0.015-2+b1 [21.9 kB] Get: 149 http://deb.debian.org/debian bookworm/main armhf libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 150 http://deb.debian.org/debian bookworm/main armhf libtry-tiny-perl all 0.31-2 [22.6 kB] Get: 151 http://deb.debian.org/debian bookworm/main armhf libmodule-implementation-perl all 0.09-2 [12.6 kB] Get: 152 http://deb.debian.org/debian bookworm/main armhf libpackage-stash-perl all 0.40-1 [22.0 kB] Get: 153 http://deb.debian.org/debian bookworm/main armhf libclass-load-perl all 0.25-2 [15.3 kB] Get: 154 http://deb.debian.org/debian bookworm/main armhf libclass-load-xs-perl armhf 0.10-2+b1 [13.7 kB] Get: 155 http://deb.debian.org/debian bookworm/main armhf libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get: 156 http://deb.debian.org/debian bookworm/main armhf libdevel-globaldestruction-perl all 0.14-4 [7144 B] Get: 157 http://deb.debian.org/debian bookworm/main armhf libalgorithm-c3-perl all 0.11-2 [10.8 kB] Get: 158 http://deb.debian.org/debian bookworm/main armhf libclass-c3-perl all 0.35-2 [21.0 kB] Get: 159 http://deb.debian.org/debian bookworm/main armhf libmro-compat-perl all 0.15-2 [11.8 kB] Get: 160 http://deb.debian.org/debian bookworm/main armhf libdevel-overloadinfo-perl all 0.007-1 [7896 B] Get: 161 http://deb.debian.org/debian bookworm/main armhf libdevel-stacktrace-perl all 2.0400-2 [26.8 kB] Get: 162 http://deb.debian.org/debian bookworm/main armhf libsub-exporter-perl all 0.989-1 [50.5 kB] Get: 163 http://deb.debian.org/debian bookworm/main armhf libeval-closure-perl all 0.14-3 [11.2 kB] Get: 164 http://deb.debian.org/debian bookworm/main armhf libdist-checkconflicts-perl all 0.11-2 [10.5 kB] Get: 165 http://deb.debian.org/debian bookworm/main armhf libmodule-runtime-conflicts-perl all 0.003-2 [7356 B] Get: 166 http://deb.debian.org/debian bookworm/main armhf libpackage-deprecationmanager-perl all 0.18-1 [17.6 kB] Get: 167 http://deb.debian.org/debian bookworm/main armhf libpackage-stash-xs-perl armhf 0.30-1+b1 [18.2 kB] Get: 168 http://deb.debian.org/debian bookworm/main armhf libmoose-perl armhf 2.2203-1 [793 kB] Get: 169 http://deb.debian.org/debian bookworm/main armhf libvariable-magic-perl armhf 0.63-1+b1 [41.5 kB] Get: 170 http://deb.debian.org/debian bookworm/main armhf libb-hooks-endofscope-perl all 0.26-1 [19.6 kB] Get: 171 http://deb.debian.org/debian bookworm/main armhf libsub-identify-perl armhf 0.14-3 [10.5 kB] Get: 172 http://deb.debian.org/debian bookworm/main armhf libsub-name-perl armhf 0.26-2+b1 [12.2 kB] Get: 173 http://deb.debian.org/debian bookworm/main armhf libnamespace-clean-perl all 0.27-2 [17.8 kB] Get: 174 http://deb.debian.org/debian bookworm/main armhf libcurl3-gnutls armhf 7.88.1-10 [343 kB] Get: 175 http://deb.debian.org/debian bookworm/main armhf libwww-curl-perl armhf 4.17-10 [56.1 kB] Get: 176 http://deb.debian.org/debian bookworm/main armhf libwww-curl-simple-perl all 0.100191-3 [12.6 kB] Get: 177 http://deb.debian.org/debian bookworm/main armhf dh-r all 20230121 [37.9 kB] Get: 178 http://deb.debian.org/debian bookworm/main armhf r-bioc-biocgenerics all 0.44.0-2 [600 kB] Get: 179 http://deb.debian.org/debian bookworm/main armhf r-bioc-zlibbioc all 1.44.0+dfsg-1 [9200 B] Get: 180 http://deb.debian.org/debian bookworm/main armhf r-bioc-affyio armhf 1.68.0-1 [78.3 kB] Get: 181 http://deb.debian.org/debian bookworm/main armhf r-bioc-biobase armhf 2.58.0-2 [2111 kB] Get: 182 http://deb.debian.org/debian bookworm/main armhf r-bioc-preprocesscore armhf 1.60.2+ds-1 [135 kB] Get: 183 http://deb.debian.org/debian bookworm/main armhf r-cran-biocmanager all 1.30.20+dfsg-1 [126 kB] Fetched 92.0 MB in 21s (4371 kB/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 ... 19324 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_3.0.9-1_armhf.deb ... Unpacking openssl (3.0.9-1) ... 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_armhf.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../005-libmagic1_1%3a5.44-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.44-3_armhf.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.21-12_armhf.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../008-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.22.4-10_armhf.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.38.1-5+b1_armhf.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../011-libpipeline1_1.5.7-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.11.2-2_armhf.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_armhf.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. 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Unpacking libdynaloader-functions-perl (0.003-3) ... Selecting previously unselected package libdevel-callchecker-perl:armhf. Preparing to unpack .../146-libdevel-callchecker-perl_0.008-2_armhf.deb ... Unpacking libdevel-callchecker-perl:armhf (0.008-2) ... Selecting previously unselected package libparams-classify-perl:armhf. Preparing to unpack .../147-libparams-classify-perl_0.015-2+b1_armhf.deb ... Unpacking libparams-classify-perl:armhf (0.015-2+b1) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../148-libmodule-runtime-perl_0.016-2_all.deb ... Unpacking libmodule-runtime-perl (0.016-2) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../149-libtry-tiny-perl_0.31-2_all.deb ... Unpacking libtry-tiny-perl (0.31-2) ... Selecting previously unselected package libmodule-implementation-perl. Preparing to unpack .../150-libmodule-implementation-perl_0.09-2_all.deb ... Unpacking libmodule-implementation-perl (0.09-2) ... Selecting previously unselected package libpackage-stash-perl. Preparing to unpack .../151-libpackage-stash-perl_0.40-1_all.deb ... Unpacking libpackage-stash-perl (0.40-1) ... Selecting previously unselected package libclass-load-perl. Preparing to unpack .../152-libclass-load-perl_0.25-2_all.deb ... Unpacking libclass-load-perl (0.25-2) ... Selecting previously unselected package libclass-load-xs-perl. Preparing to unpack .../153-libclass-load-xs-perl_0.10-2+b1_armhf.deb ... Unpacking libclass-load-xs-perl (0.10-2+b1) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../154-libsub-exporter-progressive-perl_0.001013-3_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-3) ... Selecting previously unselected package libdevel-globaldestruction-perl. Preparing to unpack .../155-libdevel-globaldestruction-perl_0.14-4_all.deb ... Unpacking libdevel-globaldestruction-perl (0.14-4) ... Selecting previously unselected package libalgorithm-c3-perl. Preparing to unpack .../156-libalgorithm-c3-perl_0.11-2_all.deb ... Unpacking libalgorithm-c3-perl (0.11-2) ... Selecting previously unselected package libclass-c3-perl. Preparing to unpack .../157-libclass-c3-perl_0.35-2_all.deb ... Unpacking libclass-c3-perl (0.35-2) ... Selecting previously unselected package libmro-compat-perl. Preparing to unpack .../158-libmro-compat-perl_0.15-2_all.deb ... Unpacking libmro-compat-perl (0.15-2) ... Selecting previously unselected package libdevel-overloadinfo-perl. Preparing to unpack .../159-libdevel-overloadinfo-perl_0.007-1_all.deb ... Unpacking libdevel-overloadinfo-perl (0.007-1) ... Selecting previously unselected package libdevel-stacktrace-perl. Preparing to unpack .../160-libdevel-stacktrace-perl_2.0400-2_all.deb ... Unpacking libdevel-stacktrace-perl (2.0400-2) ... 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Selecting previously unselected package libpackage-stash-xs-perl:armhf. Preparing to unpack .../166-libpackage-stash-xs-perl_0.30-1+b1_armhf.deb ... Unpacking libpackage-stash-xs-perl:armhf (0.30-1+b1) ... Selecting previously unselected package libmoose-perl:armhf. Preparing to unpack .../167-libmoose-perl_2.2203-1_armhf.deb ... Unpacking libmoose-perl:armhf (2.2203-1) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../168-libvariable-magic-perl_0.63-1+b1_armhf.deb ... Unpacking libvariable-magic-perl (0.63-1+b1) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../169-libb-hooks-endofscope-perl_0.26-1_all.deb ... Unpacking libb-hooks-endofscope-perl (0.26-1) ... Selecting previously unselected package libsub-identify-perl. Preparing to unpack .../170-libsub-identify-perl_0.14-3_armhf.deb ... Unpacking libsub-identify-perl (0.14-3) ... Selecting previously unselected package libsub-name-perl:armhf. Preparing to unpack .../171-libsub-name-perl_0.26-2+b1_armhf.deb ... Unpacking libsub-name-perl:armhf (0.26-2+b1) ... Selecting previously unselected package libnamespace-clean-perl. Preparing to unpack .../172-libnamespace-clean-perl_0.27-2_all.deb ... Unpacking libnamespace-clean-perl (0.27-2) ... Selecting previously unselected package libcurl3-gnutls:armhf. Preparing to unpack .../173-libcurl3-gnutls_7.88.1-10_armhf.deb ... Unpacking libcurl3-gnutls:armhf (7.88.1-10) ... Selecting previously unselected package libwww-curl-perl:armhf. Preparing to unpack .../174-libwww-curl-perl_4.17-10_armhf.deb ... Unpacking libwww-curl-perl:armhf (4.17-10) ... Selecting previously unselected package libwww-curl-simple-perl. Preparing to unpack .../175-libwww-curl-simple-perl_0.100191-3_all.deb ... Unpacking libwww-curl-simple-perl (0.100191-3) ... Selecting previously unselected package dh-r. Preparing to unpack .../176-dh-r_20230121_all.deb ... Unpacking dh-r (20230121) ... Selecting previously unselected package r-bioc-biocgenerics. Preparing to unpack .../177-r-bioc-biocgenerics_0.44.0-2_all.deb ... Unpacking r-bioc-biocgenerics (0.44.0-2) ... Selecting previously unselected package r-bioc-zlibbioc. Preparing to unpack .../178-r-bioc-zlibbioc_1.44.0+dfsg-1_all.deb ... Unpacking r-bioc-zlibbioc (1.44.0+dfsg-1) ... Selecting previously unselected package r-bioc-affyio. Preparing to unpack .../179-r-bioc-affyio_1.68.0-1_armhf.deb ... Unpacking r-bioc-affyio (1.68.0-1) ... Selecting previously unselected package r-bioc-biobase. Preparing to unpack .../180-r-bioc-biobase_2.58.0-2_armhf.deb ... Unpacking r-bioc-biobase (2.58.0-2) ... Selecting previously unselected package r-bioc-preprocesscore. Preparing to unpack .../181-r-bioc-preprocesscore_1.60.2+ds-1_armhf.deb ... Unpacking r-bioc-preprocesscore (1.60.2+ds-1) ... Selecting previously unselected package r-cran-biocmanager. Preparing to unpack .../182-r-cran-biocmanager_1.30.20+dfsg-1_all.deb ... Unpacking r-cran-biocmanager (1.30.20+dfsg-1) ... Setting up libexpat1:armhf (2.5.0-1) ... Setting up libpipeline1:armhf (1.5.7-1) ... Setting up libgraphite2-3:armhf (1.3.14-1) ... Setting up libpixman-1-0:armhf (0.42.2-1) ... 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 libicu72:armhf (72.1-3) ... Setting up liblerc4:armhf (4.0.0+ds-2) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libpcre16-3:armhf (2:8.39-15) ... Setting up libdynaloader-functions-perl (0.003-3) ... Setting up libdatrie1:armhf (0.2.13-2+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libclone-perl:armhf (0.46-1) ... 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 unzip (6.0-28) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:armhf (1.0.9-2+b6) ... 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 libnghttp2-14:armhf (1.52.0-1) ... Setting up libmagic1:armhf (1:5.44-3) ... Setting up libdeflate0:armhf (1.14-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libencode-locale-perl (1.05-3) ... Setting up file (1:5.44-3) ... Setting up libjbig0:armhf (2.1-6.1) ... Setting up libpcre2-16-0:armhf (10.42-1) ... Setting up libsub-install-perl (0.929-1) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... 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 libpcre2-32-0:armhf (10.42-1) ... 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 libpkgconf3:armhf (1.8.1-1) ... Setting up libalgorithm-c3-perl (0.11-2) ... Setting up libjpeg62-turbo:armhf (1:2.1.5-2) ... Setting up libswitch-perl (2.17-3) ... Setting up libx11-data (2:1.8.4-2) ... Setting up libjpeg62-turbo-dev:armhf (1:2.1.5-2) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:armhf (6.4-4) ... Setting up libfribidi0:armhf (1.0.8-2.1) ... Setting up libpng16-16:armhf (1.6.39-2) ... Setting up libpcre32-3:armhf (2:8.39-15) ... Setting up libvariable-magic-perl (0.63-1+b1) ... Setting up libio-html-perl (1.004-3) ... 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 icu-devtools (72.1-3) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up pkgconf-bin (1.8.1-1) ... Setting up libparams-util-perl (1.102-2+b1) ... 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 libtimedate-perl (2.3300-2) ... Setting up libregexp-ipv6-perl (0.03-3) ... Setting up liblzma-dev:armhf (5.4.1-0.2) ... Setting up libsub-name-perl:armhf (0.26-2+b1) ... Setting up zlib1g-dev:armhf (1:1.2.13.dfsg-1) ... Setting up libpcre2-posix3:armhf (10.42-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libtiff6:armhf (4.5.0-6) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libthai-data (0.1.29-1) ... Setting up libdevel-globaldestruction-perl (0.14-4) ... Setting up libssh2-1:armhf (1.10.0-3+b1) ... Setting up libdevel-stacktrace-perl (2.0400-2) ... Setting up openssl (3.0.9-1) ... Setting up libbsd0:armhf (0.11.7-2) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libicu-dev:armhf (72.1-3) ... 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 liburi-perl (5.17-1) ... Setting up libblas-dev:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode Setting up dctrl-tools (2.24-3) ... Setting up libbz2-dev:armhf (1.0.8-5+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 libpcrecpp0v5:armhf (2:8.39-15) ... 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 libncurses-dev:armhf (6.4-4) ... Setting up libxcb1:armhf (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libpcre2-dev:armhf (10.42-1) ... Setting up libtool (2.4.7-5) ... Setting up libxcb-render0:armhf (1.15-1) ... Setting up libpcre3-dev:armhf (2:8.39-15) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libreadline8:armhf (8.2-1.3) ... Setting up libpng-dev:armhf (1.6.39-2) ... Setting up libjpeg-dev:armhf (1:2.1.5-2) ... Setting up libgfortran-12-dev:armhf (12.2.0-14) ... Setting up libxcb-shm0:armhf (1.15-1) ... Setting up libclass-c3-perl (0.35-2) ... Setting up libreadline-dev:armhf (8.2-1.3) ... Setting up libdevel-callchecker-perl:armhf (0.008-2) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Setting up pkgconf:armhf (1.8.1-1) ... 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 gfortran-12 (12.2.0-14) ... Setting up libfreetype6:armhf (2.12.1+dfsg-5) ... Setting up liblapack-dev:armhf (3.11.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode Setting up libdata-optlist-perl (0.113-1) ... Setting up pkg-config:armhf (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:armhf (6.4-4) ... Setting up libcurl4:armhf (7.88.1-10) ... 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 libxmuu1:armhf (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:armhf (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:armhf (1:0.9.10-1.1) ... Setting up po-debconf (1.0.21+nmu1) ... 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 libcurl3-gnutls:armhf (7.88.1-10) ... 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:armhf (1.16.0-7) ... 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 xauth (1:1.1.2-1) ... Setting up libxss1:armhf (1:1.2.3-1) ... Setting up libpangoft2-1.0-0:armhf (1.50.12+ds-1) ... Setting up libpangocairo-1.0-0:armhf (1.50.12+ds-1) ... 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 libtk8.6:armhf (8.6.13-2) ... Setting up libwww-curl-perl:armhf (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 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 libb-hooks-endofscope-perl (0.26-1) ... Setting up r-bioc-biocgenerics (0.44.0-2) ... Setting up r-base-dev (4.2.2.20221110-2) ... Setting up libmoose-perl:armhf (2.2203-1) ... Setting up r-cran-biocmanager (1.30.20+dfsg-1) ... Setting up r-bioc-zlibbioc (1.44.0+dfsg-1) ... Setting up r-bioc-biobase (2.58.0-2) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up r-bioc-preprocesscore (1.60.2+ds-1) ... Setting up r-bioc-affyio (1.68.0-1) ... Setting up libwww-curl-simple-perl (0.100191-3) ... Setting up dh-r (20230121) ... 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-affy-1.76.0/ && 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-affy_1.76.0-1_source.changes dpkg-buildpackage: info: source package r-bioc-affy dpkg-buildpackage: info: source version 1.76.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf 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 autoreconf: warning: autoconf input should be named 'configure.ac', not 'configure.in' configure.in:24: warning: The macro `AC_TRY_RUN' is obsolete. configure.in:24: You should run autoupdate. ./lib/autoconf/general.m4:2997: AC_TRY_RUN is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/headers.m4:89: _AC_CHECK_HEADER_COMPILE is expanded from... ./lib/autoconf/headers.m4:56: AC_CHECK_HEADER is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/libs.m4:100: AC_CHECK_LIB is expanded from... aclocal.m4:6: R_ZLIB is expanded from... configure.in:24: the top level configure.in:27: warning: AC_OUTPUT should be used without arguments. configure.in:27: You should run autoupdate. 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-affy/ -O--buildsystem=R I: R Package: affy Version: 1.76.0 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 21:15:09 +0100 mkdir -p /build/r-bioc-affy-1.76.0/debian/r-bioc-affy/usr/lib/R/site-library R CMD INSTALL -l /build/r-bioc-affy-1.76.0/debian/r-bioc-affy/usr/lib/R/site-library --clean . "--built-timestamp='Sun, 20 Nov 2022 21:15:09 +0100'" * installing *source* package 'affy' ... ** using staged installation checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for main in -lz... yes checking for zlib.h... yes checking if zlib version >= 1.1.3... yes configure: creating ./config.status config.status: creating src/Makevars ** libs make[1]: Entering directory '/build/r-bioc-affy-1.76.0/src' gcc -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -I'/usr/lib/R/site-library/preprocessCore/include' -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.76.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-dMPcIs/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c chipbackground.c -o chipbackground.o gcc -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -I'/usr/lib/R/site-library/preprocessCore/include' -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.76.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-dMPcIs/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c getall_locations.c -o getall_locations.o gcc -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -I'/usr/lib/R/site-library/preprocessCore/include' -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.76.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-dMPcIs/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mas5calls.c -o mas5calls.o gcc -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -I'/usr/lib/R/site-library/preprocessCore/include' -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.76.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-dMPcIs/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rma2.c -o rma2.o gcc -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -I'/usr/lib/R/site-library/preprocessCore/include' -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.76.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-dMPcIs/r-base-4.2.2.20221110=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rma_common.c -o rma_common.o gcc -shared -L/usr/lib/R/lib -Wl,-z,relro -o affy.so chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -lz -L/usr/lib/R/lib -lR make[1]: Leaving directory '/build/r-bioc-affy-1.76.0/src' make[1]: Entering directory '/build/r-bioc-affy-1.76.0/src' make[1]: Leaving directory '/build/r-bioc-affy-1.76.0/src' installing to /build/r-bioc-affy-1.76.0/debian/r-bioc-affy/usr/lib/R/site-library/00LOCK-r-bioc-affy-1.76.0/00new/affy/libs ** R ** data ** demo ** 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 ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (affy) 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. W: Ignoring specified R dependency: R (>= 2.8.0) I: Using r-bioc-biocgenerics for Depends:BiocGenerics (>= 0.1.12) I: Using r-bioc-biobase for Depends:Biobase (>= 2.5.5) W: Cannot find a debian package for Suggests:tkWidgets (>= 1.19.0) W: Cannot find a debian package for Suggests:affydata W: Cannot find a debian package for Suggests:widgetTools I: Using r-bioc-affyio for Imports:affyio (>= 1.13.3) I: Using r-cran-biocmanager for Imports:BiocManager I: Using r-bioc-preprocesscore for Imports:preprocessCore I: Using r-bioc-zlibbioc for Imports:zlibbioc I: Using r-bioc-preprocesscore for LinkingTo:preprocessCore I: BioConductor API version: r-api-bioc-3.16 I: Use r-bioc-affy as Debian binary package for variables substitution dh_installdocs -O--buildsystem=R dh_installchangelogs -O--buildsystem=R dh_installsystemduser -O--buildsystem=R dh_perl -O--buildsystem=R dh_link -O--buildsystem=R dh_strip_nondeterminism -O--buildsystem=R dh_compress -O--buildsystem=R dh_fixperms -O--buildsystem=R dh_missing -O--buildsystem=R dh_dwz -a -O--buildsystem=R dh_strip -a -O--buildsystem=R dh_makeshlibs -a -O--buildsystem=R dh_shlibdeps -a -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-affy' in '../r-bioc-affy_1.76.0-1_armhf.deb'. dpkg-deb: building package 'r-bioc-affy-dbgsym' in '../r-bioc-affy-dbgsym_1.76.0-1_armhf.deb'. dpkg-genbuildinfo --build=binary -O../r-bioc-affy_1.76.0-1_armhf.buildinfo dpkg-genchanges --build=binary -O../r-bioc-affy_1.76.0-1_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/4248 and its subdirectories I: Current time: Mon Jun 5 21:25:13 -12 2023 I: pbuilder-time-stamp: 1686043513 Tue Jun 6 09:25:40 UTC 2023 I: 1st build successful. Starting 2nd build on remote node jtx1c-armhf-rb.debian.net. Tue Jun 6 09:25:40 UTC 2023 I: Preparing to do remote build '2' on jtx1c-armhf-rb.debian.net. Tue Jun 6 09:27:40 UTC 2023 I: Deleting $TMPDIR on jtx1c-armhf-rb.debian.net. Tue Jun 6 09:27:42 UTC 2023 I: r-bioc-affy_1.76.0-1_armhf.changes: Format: 1.8 Date: Sun, 20 Nov 2022 21:15:09 +0100 Source: r-bioc-affy Binary: r-bioc-affy r-bioc-affy-dbgsym Architecture: armhf Version: 1.76.0-1 Distribution: unstable Urgency: medium Maintainer: Debian R Packages Maintainers Changed-By: Andreas Tille Description: r-bioc-affy - BioConductor methods for Affymetrix Oligonucleotide Arrays Changes: r-bioc-affy (1.76.0-1) unstable; urgency=medium . * New upstream version Checksums-Sha1: ac873bad495ad19a7fd0f1e0905169c6dffa7b22 36480 r-bioc-affy-dbgsym_1.76.0-1_armhf.deb 2f88efaeb4d893e3fff89064514623863af6db19 9881 r-bioc-affy_1.76.0-1_armhf.buildinfo f7a419f0ec1f38d28672c286d67ff07b2fd1bdc7 1329448 r-bioc-affy_1.76.0-1_armhf.deb Checksums-Sha256: f10ce4ceb7d00ea593012a6c64db25b6a55ecfc7758fb591bca0fc7437fb22a7 36480 r-bioc-affy-dbgsym_1.76.0-1_armhf.deb 5b9d1ab9ffbb2de9907e4b859de873c16d391985e4ec1820dfe5e080cff6aac9 9881 r-bioc-affy_1.76.0-1_armhf.buildinfo 882880aea4e39dc5e8662d7cb499293984ae37bc1da18639dc5519217bf599e4 1329448 r-bioc-affy_1.76.0-1_armhf.deb Files: d6a10ef5755a8d82ec8abb7dec93aaed 36480 debug optional r-bioc-affy-dbgsym_1.76.0-1_armhf.deb e819e70d686d3b1b5574006bb3771529 9881 gnu-r optional r-bioc-affy_1.76.0-1_armhf.buildinfo 2cb5c5bb8e359aa9aaf79d0f257b55e9 1329448 gnu-r optional r-bioc-affy_1.76.0-1_armhf.deb Tue Jun 6 09:27:43 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.h5MYI5Nr/r-bioc-affy_1.76.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.h5MYI5Nr/r-bioc-affy_1.76.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.h5MYI5Nr/r-bioc-affy_1.76.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.h5MYI5Nr/b1/r-bioc-affy_1.76.0-1_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.h5MYI5Nr/b2/r-bioc-affy_1.76.0-1_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: 0.330s) 0.330s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.030s) 0.029s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Tue Jun 6 09:27:44 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Tue Jun 6 09:27:44 UTC 2023 I: r-bioc-affy from bookworm built successfully and reproducibly on armhf. Tue Jun 6 09:27:46 UTC 2023 I: Submitting .buildinfo files to external archives: Tue Jun 6 09:27:46 UTC 2023 I: Submitting 12K b1/r-bioc-affy_1.76.0-1_armhf.buildinfo.asc Tue Jun 6 09:27:47 UTC 2023 I: Submitting 12K b2/r-bioc-affy_1.76.0-1_armhf.buildinfo.asc Tue Jun 6 09:27:48 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Jun 6 09:27:48 UTC 2023 I: Done submitting .buildinfo files. Tue Jun 6 09:27:48 UTC 2023 I: Removing signed r-bioc-affy_1.76.0-1_armhf.buildinfo.asc files: removed './b1/r-bioc-affy_1.76.0-1_armhf.buildinfo.asc' removed './b2/r-bioc-affy_1.76.0-1_armhf.buildinfo.asc'