https://launchpad.net/ubuntu/+source/r-bioc-genomicalignments/1.32.0-1/+build/23749608 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lcy02-amd64-044 5.4.0-110-generic #124-Ubuntu SMP Thu Apr 14 19:46:19 UTC 2022 x86_64 Buildd toolchain package versions: launchpad-buildd_212~550~ubuntu20.04.1 python3-lpbuildd_212~550~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.4 dpkg-dev_1.19.7ubuntu3 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 16 May 00:03:42 ntpdate[1819]: adjust time server 10.131.248.1 offset 0.000649 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=kinetic --arch=amd64 PACKAGEBUILD-23749608 --image-type chroot /home/buildd/filecache-default/4bae5e21afd462667e3742a3b80ddb4ff02f2b5f Creating target for build PACKAGEBUILD-23749608 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=kinetic --arch=amd64 PACKAGEBUILD-23749608 Starting target for build PACKAGEBUILD-23749608 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=kinetic --arch=amd64 PACKAGEBUILD-23749608 'deb http://ftpmaster.internal/ubuntu kinetic main universe' 'deb http://ftpmaster.internal/ubuntu kinetic-security main universe' 'deb http://ftpmaster.internal/ubuntu kinetic-updates main universe' 'deb http://ftpmaster.internal/ubuntu kinetic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-23749608 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=kinetic --arch=amd64 PACKAGEBUILD-23749608 Updating target for build PACKAGEBUILD-23749608 Get:1 http://ftpmaster.internal/ubuntu kinetic InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu kinetic-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu kinetic-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu kinetic-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu kinetic/main amd64 Packages [1398 kB] Get:6 http://ftpmaster.internal/ubuntu kinetic/main Translation-en [511 kB] Get:7 http://ftpmaster.internal/ubuntu kinetic/universe amd64 Packages [14.2 MB] Get:8 http://ftpmaster.internal/ubuntu kinetic/universe Translation-en [5701 kB] Get:9 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 Packages [158 kB] Get:10 http://ftpmaster.internal/ubuntu kinetic-proposed/main Translation-en [58.8 kB] Get:11 http://ftpmaster.internal/ubuntu kinetic-proposed/universe amd64 Packages [714 kB] Get:12 http://ftpmaster.internal/ubuntu kinetic-proposed/universe Translation-en [262 kB] Get:13 http://ftpmaster.internal/ubuntu kinetic-proposed/restricted amd64 Packages [39.6 kB] Get:14 http://ftpmaster.internal/ubuntu kinetic-proposed/restricted Translation-en [6720 B] Get:15 http://ftpmaster.internal/ubuntu kinetic-proposed/multiverse amd64 Packages [3696 B] Get:16 http://ftpmaster.internal/ubuntu kinetic-proposed/multiverse Translation-en [6248 B] Fetched 23.7 MB in 2s (10.6 MB/s) Reading package lists... W: Target Packages (main/binary-amd64/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Translations (main/i18n/Translation-en) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (universe/binary-amd64/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Translations (universe/i18n/Translation-en) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (main/binary-amd64/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Translations (main/i18n/Translation-en) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (universe/binary-amd64/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Translations (universe/i18n/Translation-en) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: util-linux-extra The following packages will be upgraded: binutils binutils-common binutils-x86-64-linux-gnu bsdutils cpp-11 dash debianutils dpkg dpkg-dev g++-11 gcc-11 gcc-11-base gcc-12-base libasan6 libassuan0 libatomic1 libbinutils libblkid1 libcc1-0 libctf-nobfd0 libctf0 libdpkg-perl libgcc-11-dev libgcc-s1 libgnutls30 libgomp1 libgpg-error0 libip4tc2 libitm1 libjson-c5 liblsan0 libmount1 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libpcre3 libpng16-16 libquadmath0 libreadline8 libseccomp2 libsmartcols1 libsqlite3-0 libssl3 libstdc++-11-dev libstdc++6 libtinfo6 libtsan0 libubsan1 libuuid1 libzstd1 linux-libc-dev lto-disabled-list mount ncurses-base ncurses-bin openssl pinentry-curses readline-common util-linux 64 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 70.3 MB of archives. After this operation, 757 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 bsdutils amd64 1:2.38-4ubuntu1 [80.7 kB] Get:2 http://ftpmaster.internal/ubuntu kinetic/main amd64 debianutils amd64 5.7-0.2 [103 kB] Get:3 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libzstd1 amd64 1.5.2+dfsg-1 [270 kB] Get:4 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 dpkg amd64 1.21.7ubuntu3 [1342 kB] Get:5 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 dash amd64 0.5.11+git20210903+057cd650a4ed-8 [88.0 kB] Get:6 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 ncurses-bin amd64 6.3+20220423-2 [183 kB] Get:7 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libblkid1 amd64 2.38-4ubuntu1 [103 kB] Get:8 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libmount1 amd64 2.38-4ubuntu1 [121 kB] Get:9 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libsmartcols1 amd64 2.38-4ubuntu1 [50.8 kB] Get:10 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 util-linux-extra amd64 2.38-4ubuntu1 [83.8 kB] Get:11 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 util-linux amd64 2.38-4ubuntu1 [1069 kB] Get:12 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 ncurses-base all 6.3+20220423-2 [21.2 kB] Get:13 http://ftpmaster.internal/ubuntu kinetic/main amd64 libpam0g amd64 1.4.0-13ubuntu1 [60.2 kB] Get:14 http://ftpmaster.internal/ubuntu kinetic/main amd64 libpam-modules-bin amd64 1.4.0-13ubuntu1 [37.6 kB] Get:15 http://ftpmaster.internal/ubuntu kinetic/main amd64 libpam-modules amd64 1.4.0-13ubuntu1 [278 kB] Get:16 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 mount amd64 2.38-4ubuntu1 [114 kB] Get:17 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libatomic1 amd64 12.1.0-2ubuntu1 [10.4 kB] Get:18 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libubsan1 amd64 12.1.0-2ubuntu1 [969 kB] Get:19 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 gcc-12-base amd64 12.1.0-2ubuntu1 [18.8 kB] Get:20 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libstdc++6 amd64 12.1.0-2ubuntu1 [679 kB] Get:21 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libquadmath0 amd64 12.1.0-2ubuntu1 [152 kB] Get:22 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 liblsan0 amd64 12.1.0-2ubuntu1 [1060 kB] Get:23 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libitm1 amd64 12.1.0-2ubuntu1 [29.5 kB] Get:24 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libgomp1 amd64 12.1.0-2ubuntu1 [125 kB] Get:25 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libcc1-0 amd64 12.1.0-2ubuntu1 [46.6 kB] Get:26 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libgcc-s1 amd64 12.1.0-2ubuntu1 [54.2 kB] Get:27 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libgpg-error0 amd64 1.45-2 [69.0 kB] Get:28 http://ftpmaster.internal/ubuntu kinetic/main amd64 libpam-runtime all 1.4.0-13ubuntu1 [40.2 kB] Get:29 http://ftpmaster.internal/ubuntu kinetic/main amd64 libpcre2-8-0 amd64 10.40-1 [227 kB] Get:30 http://ftpmaster.internal/ubuntu kinetic/main amd64 libpcre3 amd64 2:8.39-14 [245 kB] Get:31 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libncursesw6 amd64 6.3+20220423-2 [146 kB] Get:32 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libncurses6 amd64 6.3+20220423-2 [110 kB] Get:33 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libtinfo6 amd64 6.3+20220423-2 [99.6 kB] Get:34 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libuuid1 amd64 2.38-4ubuntu1 [23.2 kB] Get:35 http://ftpmaster.internal/ubuntu kinetic/main amd64 libp11-kit0 amd64 0.24.1-1 [257 kB] Get:36 http://ftpmaster.internal/ubuntu kinetic/main amd64 libgnutls30 amd64 3.7.4-2ubuntu1 [972 kB] Get:37 http://ftpmaster.internal/ubuntu kinetic/main amd64 libseccomp2 amd64 2.5.4-1ubuntu1 [46.3 kB] Get:38 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libip4tc2 amd64 1.8.7-1ubuntu6 [19.7 kB] Get:39 http://ftpmaster.internal/ubuntu kinetic/main amd64 libjson-c5 amd64 0.16-1 [33.7 kB] Get:40 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 readline-common all 8.1.2-1.2 [53.6 kB] Get:41 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libreadline8 amd64 8.1.2-1.2 [153 kB] Get:42 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libsqlite3-0 amd64 3.38.5-1 [646 kB] Get:43 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libssl3 amd64 3.0.3-0ubuntu1 [1884 kB] Get:44 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 openssl amd64 3.0.3-0ubuntu1 [1173 kB] Get:45 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libpng16-16 amd64 1.6.37-5 [187 kB] Get:46 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libctf-nobfd0 amd64 2.38-4ubuntu1 [105 kB] Get:47 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libctf0 amd64 2.38-4ubuntu1 [101 kB] Get:48 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.38-4ubuntu1 [2304 kB] Get:49 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libbinutils amd64 2.38-4ubuntu1 [651 kB] Get:50 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 binutils amd64 2.38-4ubuntu1 [3190 B] Get:51 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 binutils-common amd64 2.38-4ubuntu1 [221 kB] Get:52 http://ftpmaster.internal/ubuntu kinetic/main amd64 g++-11 amd64 11.3.0-1ubuntu1 [11.4 MB] Get:53 http://ftpmaster.internal/ubuntu kinetic/main amd64 libstdc++-11-dev amd64 11.3.0-1ubuntu1 [2087 kB] Get:54 http://ftpmaster.internal/ubuntu kinetic/main amd64 libasan6 amd64 11.3.0-1ubuntu1 [2284 kB] Get:55 http://ftpmaster.internal/ubuntu kinetic/main amd64 gcc-11 amd64 11.3.0-1ubuntu1 [20.1 MB] Get:56 http://ftpmaster.internal/ubuntu kinetic/main amd64 libgcc-11-dev amd64 11.3.0-1ubuntu1 [2516 kB] Get:57 http://ftpmaster.internal/ubuntu kinetic/main amd64 libtsan0 amd64 11.3.0-1ubuntu1 [2261 kB] Get:58 http://ftpmaster.internal/ubuntu kinetic/main amd64 cpp-11 amd64 11.3.0-1ubuntu1 [9968 kB] Get:59 http://ftpmaster.internal/ubuntu kinetic/main amd64 gcc-11-base amd64 11.3.0-1ubuntu1 [21.1 kB] Get:60 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 dpkg-dev all 1.21.7ubuntu3 [1070 kB] Get:61 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libdpkg-perl all 1.21.7ubuntu3 [236 kB] Get:62 http://ftpmaster.internal/ubuntu kinetic/main amd64 lto-disabled-list all 25 [12.6 kB] Get:63 http://ftpmaster.internal/ubuntu kinetic/main amd64 libassuan0 amd64 2.5.5-3 [37.4 kB] Get:64 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 linux-libc-dev amd64 5.15.0-28.29 [1345 kB] Get:65 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 pinentry-curses amd64 1.2.0-1 [35.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 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Setting up binutils-x86-64-linux-gnu (2.38-4ubuntu1) ... Setting up binutils (2.38-4ubuntu1) ... Setting up dpkg-dev (1.21.7ubuntu3) ... Setting up libstdc++-11-dev:amd64 (11.3.0-1ubuntu1) ... Setting up gcc-11 (11.3.0-1ubuntu1) ... Setting up g++-11 (11.3.0-1ubuntu1) ... Processing triggers for debianutils (5.7-0.2) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-23749608 amd64 kinetic-proposed -c chroot:build-PACKAGEBUILD-23749608 --arch=amd64 --dist=kinetic-proposed --nolog -A r-bioc-genomicalignments_1.32.0-1.dsc Initiating build PACKAGEBUILD-23749608 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-110-generic #124-Ubuntu SMP Thu Apr 14 19:46:19 UTC 2022 x86_64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on lcy02-amd64-044.buildd +==============================================================================+ | r-bioc-genomicalignments 1.32.0-1 (amd64) Mon, 16 May 2022 00:03:57 +0000 | +==============================================================================+ Package: r-bioc-genomicalignments Version: 1.32.0-1 Source Version: 1.32.0-1 Distribution: kinetic-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-23749608/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/r-bioc-genomicalignments-jyMxZm/resolver-TQXhJ8' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- r-bioc-genomicalignments_1.32.0-1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/r-bioc-genomicalignments-jyMxZm/r-bioc-genomicalignments-1.32.0' with '<>' I: NOTICE: Log filtering will replace 'build/r-bioc-genomicalignments-jyMxZm' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.37.0), r-bioc-s4vectors (>= 0.27.12), r-bioc-iranges (>= 2.23.9), r-bioc-genomeinfodb, r-bioc-genomicranges (>= 1.41.5), r-bioc-summarizedexperiment, r-bioc-biostrings (>= 2.55.7), r-bioc-rsamtools, r-bioc-biocparallel, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.37.0), r-bioc-s4vectors (>= 0.27.12), r-bioc-iranges (>= 2.23.9), r-bioc-genomeinfodb, r-bioc-genomicranges (>= 1.41.5), r-bioc-summarizedexperiment, r-bioc-biostrings (>= 2.55.7), r-bioc-rsamtools, r-bioc-biocparallel, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [483 B] Get:5 copy:/<>/apt_archive ./ Packages [570 B] Fetched 2010 B in 0s (0 B/s) Reading package lists... Reading package lists... W: Target Packages (main/binary-amd64/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (universe/binary-amd64/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:4 and /etc/apt/sources.list.d/proposed.list:1 Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils dctrl-tools debhelper debugedit dh-autoreconf dh-r dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran gfortran-11 groff-base icu-devtools intltool-debian libalgorithm-c3-perl libarchive-zip-perl libb-hooks-endofscope-perl libb-hooks-op-check-perl libblas-dev libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libbz2-dev libcairo2 libclass-c3-perl libclass-load-perl libclass-load-xs-perl libcurl3-gnutls libcurl4 libdata-optlist-perl libdatrie1 libdebhelper-perl libdeflate0 libdevel-callchecker-perl libdevel-globaldestruction-perl libdevel-overloadinfo-perl libdevel-stacktrace-perl libdist-checkconflicts-perl libdw1 libdynaloader-functions-perl libelf1 libencode-locale-perl libeval-closure-perl libexpat1 libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1 libfreetype6 libfribidi0 libgfortran-11-dev libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libhttp-date-perl libhttp-message-perl libice6 libicu-dev libicu71 libio-html-perl libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev liblapack3 libldap-2.5-0 liblwp-mediatypes-perl liblzma-dev libmagic-mgc libmagic1 libmd0 libmodule-implementation-perl libmodule-runtime-conflicts-perl libmodule-runtime-perl libmoose-perl libmro-compat-perl libnamespace-clean-perl libncurses-dev libncurses5-dev libnghttp2-14 libpackage-deprecationmanager-perl libpackage-stash-perl libpackage-stash-xs-perl libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libparams-classify-perl libparams-util-perl libpcre16-3 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpsl5 libreadline-dev librtmp1 libsasl2-2 libsasl2-modules-db libscalar-list-utils-perl libsigsegv2 libsm6 libssh-4 libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-override-perl libswitch-perl libtcl8.6 libthai-data libthai0 libtiff5 libtimedate-perl libtk8.6 libtool libtry-tiny-perl libuchardet0 liburi-perl libvariable-magic-perl libwebp7 libwww-curl-perl libwww-curl-simple-perl libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1 libxss1 libxt6 m4 man-db pkg-config po-debconf r-base-core r-base-dev r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings r-bioc-delayedarray r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-crayon r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-lattice r-cran-matrix r-cran-matrixstats r-cran-rcurl r-cran-snow ucf unzip x11-common xauth xdg-utils zip zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc debtags dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-multilib gfortran-doc gfortran-11-multilib gfortran-11-doc libcoarrays-dev groff liblapack-doc libboost-doc libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-filesystem1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-program-options1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-regex1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev icu-doc liblzma-doc ncurses-doc libscalar-number-perl readline-doc tcl8.6 tk8.6 libtool-doc gcj-jdk libbusiness-isbn-perl libwww-perl libcurl4-gnutls-dev m4-doc apparmor less www-browser libmail-box-perl elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html texlive-base texlive-latex-base texlive-plain-generic texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils texlive-latex-recommended texlive-latex-extra texinfo r-bioc-all r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-cran-foreach r-cran-bbmisc r-bioc-variantannotation r-bioc-genomicalignments r-bioc-shortread r-cran-codetools r-bioc-biocstyle r-cran-knitr r-cran-data.table r-bioc-bsgenome r-bioc-genomicfeatures r-cran-runit r-bioc-hdf5array r-bioc-genefilter r-cran-lobstr r-bioc-delayedmatrixstats r-cran-rmarkdown r-bioc-rtracklayer r-bioc-gviz r-bioc-annotationhub r-bioc-dexseq r-bioc-edger r-bioc-keggrest r-cran-digest r-bioc-sparsematrixstats r-cran-testthat r-bioc-graph r-cran-jsonlite r-bioc-rhdf5 r-cran-rstudioapi r-cran-shiny r-cran-base64enc r-cran-ggplot2 r-cran-markdown r-cran-xml r-cran-rmpi r-cran-rlecuyer Recommended packages: devscripts cme git-buildpackage curl | wget | lynx bzip2-doc libclass-c3-xs-perl libdevel-lexalias-perl libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libclone-perl libldap-common libdevel-partialdump-perl libpng-tools publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl r-recommended r-doc-html r-cran-runit r-cran-batchjobs r-cran-doparallel r-cran-batchtools r-cran-rmpi r-cran-testthat r-cran-withr r-cran-mockery r-cran-testit r-cran-codetools r-cran-survival libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils dctrl-tools debhelper debugedit dh-autoreconf dh-r dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran gfortran-11 groff-base icu-devtools intltool-debian libalgorithm-c3-perl libarchive-zip-perl libb-hooks-endofscope-perl libb-hooks-op-check-perl libblas-dev libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libbz2-dev libcairo2 libclass-c3-perl libclass-load-perl libclass-load-xs-perl libcurl3-gnutls libcurl4 libdata-optlist-perl libdatrie1 libdebhelper-perl libdeflate0 libdevel-callchecker-perl libdevel-globaldestruction-perl libdevel-overloadinfo-perl libdevel-stacktrace-perl libdist-checkconflicts-perl libdw1 libdynaloader-functions-perl libelf1 libencode-locale-perl libeval-closure-perl libexpat1 libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1 libfreetype6 libfribidi0 libgfortran-11-dev libgfortran5 libglib2.0-0 libgraphite2-3 libharfbuzz0b libhttp-date-perl libhttp-message-perl libice6 libicu-dev libicu71 libio-html-perl libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev liblapack3 libldap-2.5-0 liblwp-mediatypes-perl liblzma-dev libmagic-mgc libmagic1 libmd0 libmodule-implementation-perl libmodule-runtime-conflicts-perl libmodule-runtime-perl libmoose-perl libmro-compat-perl libnamespace-clean-perl libncurses-dev libncurses5-dev libnghttp2-14 libpackage-deprecationmanager-perl libpackage-stash-perl libpackage-stash-xs-perl libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libparams-classify-perl libparams-util-perl libpcre16-3 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpsl5 libreadline-dev librtmp1 libsasl2-2 libsasl2-modules-db libscalar-list-utils-perl libsigsegv2 libsm6 libssh-4 libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-override-perl libswitch-perl libtcl8.6 libthai-data libthai0 libtiff5 libtimedate-perl libtk8.6 libtool libtry-tiny-perl libuchardet0 liburi-perl libvariable-magic-perl libwebp7 libwww-curl-perl libwww-curl-simple-perl libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1 libxss1 libxt6 m4 man-db pkg-config po-debconf r-base-core r-base-dev r-bioc-biobase r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biostrings r-bioc-delayedarray r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges r-bioc-iranges r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-s4vectors r-bioc-summarizedexperiment r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops r-cran-crayon r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-lattice r-cran-matrix r-cran-matrixstats r-cran-rcurl r-cran-snow sbuild-build-depends-main-dummy ucf unzip x11-common xauth xdg-utils zip zlib1g-dev 0 upgraded, 201 newly installed, 0 to remove and 0 not upgraded. Need to get 161 MB of archives. After this operation, 508 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [784 B] Get:2 http://ftpmaster.internal/ubuntu kinetic/main amd64 libmd0 amd64 1.0.4-1build1 [23.0 kB] Get:3 http://ftpmaster.internal/ubuntu kinetic/main amd64 libbsd0 amd64 0.11.6-1 [44.5 kB] Get:4 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libelf1 amd64 0.187-1 [51.3 kB] Get:5 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libexpat1 amd64 2.4.8-1 [90.6 kB] Get:6 http://ftpmaster.internal/ubuntu kinetic/main amd64 libfribidi0 amd64 1.0.8-2ubuntu3.1 [26.1 kB] Get:7 http://ftpmaster.internal/ubuntu kinetic/main amd64 libglib2.0-0 amd64 2.72.1-1 [1460 kB] Get:8 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libicu71 amd64 71.1-3 [10.6 MB] Get:9 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libxml2 amd64 2.9.14+dfsg-1 [756 kB] Get:10 http://ftpmaster.internal/ubuntu kinetic/main amd64 ucf all 3.0043 [56.1 kB] Get:11 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 bsdextrautils amd64 2.38-4ubuntu1 [71.1 kB] Get:12 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libmagic-mgc amd64 1:5.41-4 [257 kB] Get:13 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libmagic1 amd64 1:5.41-4 [87.3 kB] Get:14 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 file amd64 1:5.41-4 [21.5 kB] Get:15 http://ftpmaster.internal/ubuntu kinetic/main amd64 gettext-base amd64 0.21-4ubuntu4 [37.8 kB] Get:16 http://ftpmaster.internal/ubuntu kinetic/main amd64 libuchardet0 amd64 0.0.7-1build2 [76.9 kB] Get:17 http://ftpmaster.internal/ubuntu kinetic/main amd64 groff-base amd64 1.22.4-8build1 [955 kB] Get:18 http://ftpmaster.internal/ubuntu kinetic-proposed/main amd64 libnghttp2-14 amd64 1.47.0-1 [69.0 kB] Get:19 http://ftpmaster.internal/ubuntu kinetic/main amd64 libpipeline1 amd64 1.5.6-1 [23.1 kB] Get:20 http://ftpmaster.internal/ubuntu kinetic/main amd64 libpsl5 amd64 0.21.0-1.2build2 [58.4 kB] Get:21 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libswitch-perl all 2.17-2.1 [18.3 kB] Get:128 http://ftpmaster.internal/ubuntu kinetic/main amd64 libencode-locale-perl all 1.05-1.1 [11.8 kB] Get:129 http://ftpmaster.internal/ubuntu kinetic/main amd64 libtimedate-perl all 2.3300-2 [34.0 kB] Get:130 http://ftpmaster.internal/ubuntu kinetic/main amd64 libhttp-date-perl all 6.05-1 [9920 B] Get:131 http://ftpmaster.internal/ubuntu kinetic/main amd64 libio-html-perl all 1.004-3 [15.9 kB] Get:132 http://ftpmaster.internal/ubuntu kinetic/main amd64 liblwp-mediatypes-perl all 6.04-1 [19.5 kB] Get:133 http://ftpmaster.internal/ubuntu kinetic/main amd64 liburi-perl all 5.10-1 [78.8 kB] Get:134 http://ftpmaster.internal/ubuntu kinetic/main amd64 libhttp-message-perl all 6.36-1 [76.8 kB] Get:135 http://ftpmaster.internal/ubuntu kinetic/main amd64 libparams-util-perl amd64 1.102-1build3 [22.7 kB] Get:136 http://ftpmaster.internal/ubuntu kinetic/main amd64 libsub-install-perl all 0.928-1.1 [9972 B] Get:137 http://ftpmaster.internal/ubuntu 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[1467 kB] Get:183 http://ftpmaster.internal/ubuntu kinetic-proposed/universe amd64 r-bioc-s4vectors amd64 0.34.0-1 [2004 kB] Get:184 http://ftpmaster.internal/ubuntu kinetic-proposed/universe amd64 r-bioc-iranges amd64 2.30.0-1 [2213 kB] Get:185 http://ftpmaster.internal/ubuntu kinetic-proposed/universe amd64 r-bioc-zlibbioc all 1.42.0+dfsg-1 [9342 B] Get:186 http://ftpmaster.internal/ubuntu kinetic-proposed/universe amd64 r-bioc-xvector amd64 0.36.0-1 [622 kB] Get:187 http://ftpmaster.internal/ubuntu kinetic/universe amd64 r-cran-bitops amd64 1.0-7-1 [29.8 kB] Get:188 http://ftpmaster.internal/ubuntu kinetic/universe amd64 r-cran-rcurl amd64 1.98-1.6-1 [809 kB] Get:189 http://ftpmaster.internal/ubuntu kinetic/universe amd64 r-bioc-genomeinfodbdata all 1.2.7-1 [11.2 MB] Get:190 http://ftpmaster.internal/ubuntu kinetic-proposed/universe amd64 r-bioc-genomeinfodb all 1.32.1-1 [3923 kB] Get:191 http://ftpmaster.internal/ubuntu kinetic-proposed/universe amd64 r-cran-crayon all 1.5.1-1 [162 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amd64 r-bioc-rsamtools amd64 2.12.0-1 [3686 kB] Get:201 http://ftpmaster.internal/ubuntu kinetic-proposed/universe amd64 r-bioc-summarizedexperiment all 1.26.1+dfsg-1 [1995 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 161 MB in 1s (126 MB/s) Selecting previously unselected package libmd0:amd64. 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Setting up libpipeline1:amd64 (1.5.6-1) ... Setting up libgraphite2-3:amd64 (1.3.14-1build2) ... Setting up libpixman-1-0:amd64 (0.40.0-1build4) ... Setting up libicu71:amd64 (71.1-3) ... Setting up libfile-which-perl (1.27-1) ... Setting up libxau6:amd64 (1:1.0.9-1build5) ... Setting up libncurses-dev:amd64 (6.3+20220423-2) ... Setting up libpsl5:amd64 (0.21.0-1.2build2) ... Setting up libboost1.74-dev:amd64 (1.74.0-14ubuntu4) ... Setting up bsdextrautils (2.38-4ubuntu1) ... Setting up libpcre16-3:amd64 (2:8.39-14) ... Setting up libdynaloader-functions-perl (0.003-1.1) ... Setting up libdatrie1:amd64 (0.2.13-2) ... Setting up libmagic-mgc (1:5.41-4) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libsub-identify-perl (0.14-1build5) ... Setting up libglib2.0-0:amd64 (2.72.1-1) ... No schema files found: doing nothing. Setting up libscalar-list-utils-perl (1:1.62-1) ... Setting up unzip (6.0-26ubuntu3) ... Setting up libdebhelper-perl (13.7.1ubuntu1) ... Setting up libbrotli1:amd64 (1.0.9-2build6) ... Setting up liblwp-mediatypes-perl (6.04-1) ... Setting up x11-common (1:7.7+23ubuntu2) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libtry-tiny-perl (0.31-1) ... Setting up libnghttp2-14:amd64 (1.47.0-1) ... Setting up libmagic1:amd64 (1:5.41-4) ... Setting up libdeflate0:amd64 (1.10-2) ... Setting up gettext-base (0.21-4ubuntu4) ... Setting up libencode-locale-perl (1.05-1.1) ... Setting up file (1:5.41-4) ... Setting up libreadline-dev:amd64 (8.1.2-1.2) ... Setting up libjbig0:amd64 (2.1-3.1build3) ... Setting up libpcre2-16-0:amd64 (10.40-1) ... Setting up libsub-install-perl (0.928-1.1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg2-3ubuntu1) ... Setting up zip (3.0-12build2) ... Setting up libpackage-stash-xs-perl (0.29-1build5) ... Setting up autotools-dev (20220109.1) ... Setting up libpcre2-32-0:amd64 (10.40-1) ... Setting up libblas3:amd64 (3.10.0-2ubuntu1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libalgorithm-c3-perl (0.11-1) ... Setting up libswitch-perl (2.17-2.1) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-1) ... Setting up libx11-data (2:1.7.5-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2build4) ... Setting up libsigsegv2:amd64 (2.13-1ubuntu3) ... Setting up libfribidi0:amd64 (1.0.8-2ubuntu3.1) ... Setting up libpcre32-3:amd64 (2:8.39-14) ... Setting up libvariable-magic-perl (0.62-1build5) ... Setting up libio-html-perl (1.004-3) ... Setting up libtcl8.6:amd64 (8.6.12+dfsg-1build1) ... Setting up autopoint (0.21-4ubuntu4) ... Setting up libb-hooks-op-check-perl (0.22-1build5) ... Setting up icu-devtools (71.1-3) ... Setting up pkg-config (0.29.2-1ubuntu3) ... Setting up fonts-dejavu-core (2.37-2build1) ... Setting up ucf (3.0043) ... Setting up libjpeg-turbo8:amd64 (2.1.2-0ubuntu1) ... Setting up libparams-util-perl (1.102-1build3) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg2-3ubuntu1) ... Setting up libssh-4:amd64 (0.9.6-2build1) ... Setting up libgfortran5:amd64 (12.1.0-2ubuntu1) ... Setting up libsub-exporter-progressive-perl (0.001013-1) ... Setting up libwebp7:amd64 (1.2.2-2) ... Setting up libtimedate-perl (2.3300-2) ... Setting up liblzma-dev:amd64 (5.2.5-2ubuntu1) ... Setting up libsub-name-perl (0.26-1build3) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2ubuntu9) ... Setting up libpcre2-posix3:amd64 (10.40-1) ... Setting up libmd0:amd64 (1.0.4-1build1) ... Setting up libuchardet0:amd64 (0.0.7-1build2) ... Setting up libncurses5-dev:amd64 (6.3+20220423-2) ... Setting up libsub-override-perl (0.09-2) ... Setting up libharfbuzz0b:amd64 (2.7.4-1ubuntu4) ... Setting up libthai-data (0.1.29-1build1) ... Setting up libdevel-globaldestruction-perl (0.14-1.1) ... Setting up libdevel-stacktrace-perl (2.0400-1) ... Setting up libboost-dev:amd64 (1.74.0.3ubuntu7) ... Setting up libbsd0:amd64 (0.11.6-1) ... Setting up libelf1:amd64 (0.187-1) ... Setting up libicu-dev:amd64 (71.1-3) ... Setting up libxml2:amd64 (2.9.14+dfsg-1) ... Setting up xdg-utils (1.1.3-4.1ubuntu2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up liburi-perl (5.10-1) ... Setting up libblas-dev:amd64 (3.10.0-2ubuntu1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up dctrl-tools (2.24-3build2) ... Setting up libbz2-dev:amd64 (1.0.8-5build1) ... Setting up libjpeg8:amd64 (8c-2ubuntu10) ... Setting up libfile-stripnondeterminism-perl (1.13.0-1) ... Setting up r-cran-bh (1.74.0-2) ... Setting up libpaper1:amd64 (1.1.28build2) ... Creating config file /etc/papersize with new version Setting up libice6:amd64 (2:1.0.10-1build2) ... Setting up libhttp-date-perl (6.05-1) ... Setting up libdw1:amd64 (0.187-1) ... Setting up libjpeg-turbo8-dev:amd64 (2.1.2-0ubuntu1) ... Setting up libxdmcp6:amd64 (1:1.1.3-0ubuntu5) ... Setting up liblapack3:amd64 (3.10.0-2ubuntu1) ... 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 libxcb1:amd64 (1.14-3ubuntu3) ... Setting up gettext (0.21-4ubuntu4) ... Setting up libpcre2-dev:amd64 (10.40-1) ... Setting up libtool (2.4.7-4) ... Setting up libxcb-render0:amd64 (1.14-3ubuntu3) ... Setting up libpcre3-dev:amd64 (2:8.39-14) ... Setting up libgfortran-11-dev:amd64 (11.3.0-1ubuntu1) ... Setting up fontconfig-config (2.13.1-4.2ubuntu5) ... Setting up libpng-dev:amd64 (1.6.37-5) ... Setting up m4 (1.4.18-5ubuntu2) ... Setting up libxcb-shm0:amd64 (1.14-3ubuntu3) ... Setting up libpaper-utils (1.1.28build2) ... Setting up libclass-c3-perl (0.35-1) ... Setting up libdevel-callchecker-perl (0.008-1ubuntu4) ... Setting up libldap-2.5-0:amd64 (2.5.11+dfsg-1~exp1ubuntu3) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libthai0:amd64 (0.1.29-1build1) ... Setting up liblapack-dev:amd64 (3.10.0-2ubuntu1) ... 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 (0.112-1) ... Setting up gfortran-11 (11.3.0-1ubuntu1) ... Setting up autoconf (2.71-2) ... Setting up dh-strip-nondeterminism (1.13.0-1) ... Setting up dwz (0.14-1build2) ... Setting up groff-base (1.22.4-8build1) ... Setting up debugedit (1:5.0-4build1) ... Setting up libcurl4:amd64 (7.83.1-1) ... Setting up libx11-6:amd64 (2:1.7.5-1) ... Setting up libtiff5:amd64 (4.3.0-7) ... Setting up libfontconfig1:amd64 (2.13.1-4.2ubuntu5) ... Setting up libmro-compat-perl (0.15-1) ... Setting up libjpeg8-dev:amd64 (8c-2ubuntu10) ... Setting up libsm6:amd64 (2:1.2.3-1build2) ... Setting up libxmuu1:amd64 (2:1.1.3-3) ... Setting up libsub-exporter-perl (0.988-1) ... Setting up libhttp-message-perl (6.36-1) ... Setting up libeval-closure-perl (0.14-1) ... 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 fontconfig (2.13.1-4.2ubuntu5) ... Regenerating fonts cache... done. Setting up libxrender1:amd64 (1:0.9.10-1build4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libparams-classify-perl (0.015-1build5) ... Setting up libpango-1.0-0:amd64 (1.50.7+ds-1) ... Setting up libjpeg-dev:amd64 (8c-2ubuntu10) ... Setting up libxext6:amd64 (2:1.3.4-1build1) ... Setting up libcurl3-gnutls:amd64 (7.83.1-1) ... Setting up man-db (2.10.2-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up gfortran (4:11.2.0-1ubuntu1) ... 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 (1.16.0-5ubuntu2) ... Setting up dh-autoreconf (20) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libdist-checkconflicts-perl (0.11-1.1) ... Setting up libxt6:amd64 (1:1.2.1-1) ... Setting up xauth (1:1.1.1-1) ... Setting up libxss1:amd64 (1:1.2.3-1build2) ... Setting up libpangoft2-1.0-0:amd64 (1.50.7+ds-1) ... Setting up libpangocairo-1.0-0:amd64 (1.50.7+ds-1) ... Setting up libxft2:amd64 (2.3.4-1) ... Setting up libmodule-implementation-perl (0.09-1.1) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libtk8.6:amd64 (8.6.12-1build1) ... Setting up libwww-curl-perl (4.17-7build2) ... Setting up debhelper (13.7.1ubuntu1) ... Setting up libmodule-runtime-conflicts-perl (0.003-1.1) ... Setting up libclass-load-perl (0.25-1) ... Setting up r-base-core (4.2.0-1ubuntu1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.1-1) ... Setting up r-cran-futile.options (1.0.1-3build1) ... Setting up r-cran-lattice (0.20-45-3) ... Setting up r-cran-formatr (1.12-1) ... Setting up libpackage-deprecationmanager-perl (0.17-1.1) ... Setting up libdevel-overloadinfo-perl (0.007-1) ... Setting up libclass-load-xs-perl (0.10-1build7) ... Setting up libb-hooks-endofscope-perl (0.26-1) ... Setting up r-bioc-genomeinfodbdata (1.2.7-1) ... Setting up r-bioc-biocgenerics (0.42.0-1) ... Setting up r-cran-matrixstats (0.61.0-1) ... Setting up r-base-dev (4.2.0-1ubuntu1) ... Setting up r-bioc-matrixgenerics (1.8.0-1) ... Setting up libmoose-perl:amd64 (2.2200-1build1) ... Setting up r-cran-lambda.r (1.2.4-2build1) ... Setting up r-cran-snow (1:0.4.4-2) ... Setting up r-cran-bitops (1.0-7-1) ... Setting up r-bioc-zlibbioc (1.42.0+dfsg-1) ... Setting up r-bioc-biobase (2.56.0-1) ... Setting up r-bioc-s4vectors (0.34.0-1) ... Setting up r-cran-futile.logger (1.4.3-4build1) ... Setting up libnamespace-clean-perl (0.27-1) ... Setting up r-cran-matrix (1.4-1-1) ... Setting up r-bioc-iranges (2.30.0-1) ... Setting up r-cran-rcurl (1.98-1.6-1) ... Setting up r-bioc-delayedarray (0.22.0+dfsg-1) ... Setting up r-bioc-biocparallel (1.30.0-1) ... Setting up libwww-curl-simple-perl (0.100191-2) ... Setting up r-bioc-rhtslib (1.28.0+dfsg-1) ... Setting up r-bioc-genomeinfodb (1.32.1-1) ... Setting up r-bioc-xvector (0.36.0-1) ... Setting up dh-r (20210218ubuntu1) ... Setting up r-bioc-genomicranges (1.48.0+dfsg-1) ... Setting up r-bioc-biostrings (2.64.0-1) ... Setting up r-bioc-rsamtools (2.12.0-1) ... Setting up r-bioc-summarizedexperiment (1.26.1+dfsg-1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-110-generic #124-Ubuntu SMP Thu Apr 14 19:46:19 UTC 2022 amd64 (x86_64) Toolchain package versions: binutils_2.38-4ubuntu1 dpkg-dev_1.21.7ubuntu3 g++-11_11.3.0-1ubuntu1 gcc-11_11.3.0-1ubuntu1 libc6-dev_2.35-0ubuntu3 libstdc++-11-dev_11.3.0-1ubuntu1 libstdc++6_12.1.0-2ubuntu1 linux-libc-dev_5.15.0-28.29 Package versions: adduser_3.118ubuntu5 advancecomp_2.1-2.1ubuntu2 apt_2.4.5 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-4ubuntu4 autotools-dev_20220109.1 base-files_12ubuntu5 base-passwd_3.5.52build1 bash_5.1-6ubuntu1 binutils_2.38-4ubuntu1 binutils-common_2.38-4ubuntu1 binutils-x86-64-linux-gnu_2.38-4ubuntu1 bsdextrautils_2.38-4ubuntu1 bsdutils_1:2.38-4ubuntu1 build-essential_12.9ubuntu3 bzip2_1.0.8-5build1 ca-certificates_20211016 coreutils_8.32-4.1ubuntu1 cpp_4:11.2.0-1ubuntu1 cpp-11_11.3.0-1ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-8 dctrl-tools_2.24-3build2 debconf_1.5.79ubuntu1 debhelper_13.7.1ubuntu1 debianutils_5.7-0.2 debugedit_1:5.0-4build1 dh-autoreconf_20 dh-r_20210218ubuntu1 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.8-0ubuntu2 dpkg_1.21.7ubuntu3 dpkg-dev_1.21.7ubuntu3 dwz_0.14-1build2 e2fsprogs_1.46.5-2ubuntu1 fakeroot_1.28-1ubuntu1 file_1:5.41-4 findutils_4.8.0-1ubuntu3 fontconfig_2.13.1-4.2ubuntu5 fontconfig-config_2.13.1-4.2ubuntu5 fonts-dejavu-core_2.37-2build1 g++_4:11.2.0-1ubuntu1 g++-11_11.3.0-1ubuntu1 gcc_4:11.2.0-1ubuntu1 gcc-11_11.3.0-1ubuntu1 gcc-11-base_11.3.0-1ubuntu1 gcc-12-base_12.1.0-2ubuntu1 gettext_0.21-4ubuntu4 gettext-base_0.21-4ubuntu4 gfortran_4:11.2.0-1ubuntu1 gfortran-11_11.3.0-1ubuntu1 gpg_2.2.27-3ubuntu2 gpg-agent_2.2.27-3ubuntu2 gpgconf_2.2.27-3ubuntu2 gpgv_2.2.27-3ubuntu2 grep_3.7-1build1 groff-base_1.22.4-8build1 gzip_1.10-4ubuntu4 hostname_3.23ubuntu2 icu-devtools_71.1-3 init_1.62 init-system-helpers_1.62 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libalgorithm-c3-perl_0.11-1 libapparmor1_3.0.4-2ubuntu2 libapt-pkg6.0_2.4.5 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.3 libasan6_11.3.0-1ubuntu1 libassuan0_2.5.5-3 libatomic1_12.1.0-2ubuntu1 libattr1_1:2.5.1-1build1 libaudit-common_1:3.0.7-1build1 libaudit1_1:3.0.7-1build1 libb-hooks-endofscope-perl_0.26-1 libb-hooks-op-check-perl_0.22-1build5 libbinutils_2.38-4ubuntu1 libblas-dev_3.10.0-2ubuntu1 libblas3_3.10.0-2ubuntu1 libblkid1_2.38-4ubuntu1 libboost-dev_1.74.0.3ubuntu7 libboost1.74-dev_1.74.0-14ubuntu4 libbrotli1_1.0.9-2build6 libbsd0_0.11.6-1 libbz2-1.0_1.0.8-5build1 libbz2-dev_1.0.8-5build1 libc-bin_2.35-0ubuntu3 libc-dev-bin_2.35-0ubuntu3 libc6_2.35-0ubuntu3 libc6-dev_2.35-0ubuntu3 libcairo2_1.16.0-5ubuntu2 libcap-ng0_0.7.9-2.2build3 libcap2_1:2.44-1build3 libcc1-0_12.1.0-2ubuntu1 libclass-c3-perl_0.35-1 libclass-load-perl_0.25-1 libclass-load-xs-perl_0.10-1build7 libcom-err2_1.46.5-2ubuntu1 libcrypt-dev_1:4.4.27-1 libcrypt1_1:4.4.27-1 libcryptsetup12_2:2.4.3-1ubuntu1 libctf-nobfd0_2.38-4ubuntu1 libctf0_2.38-4ubuntu1 libcurl3-gnutls_7.83.1-1 libcurl4_7.83.1-1 libdata-optlist-perl_0.112-1 libdatrie1_0.2.13-2 libdb5.3_5.3.28+dfsg1-0.8ubuntu3 libdebconfclient0_0.261ubuntu1 libdebhelper-perl_13.7.1ubuntu1 libdeflate0_1.10-2 libdevel-callchecker-perl_0.008-1ubuntu4 libdevel-globaldestruction-perl_0.14-1.1 libdevel-overloadinfo-perl_0.007-1 libdevel-stacktrace-perl_2.0400-1 libdevmapper1.02.1_2:1.02.175-2.1ubuntu4 libdist-checkconflicts-perl_0.11-1.1 libdpkg-perl_1.21.7ubuntu3 libdw1_0.187-1 libdynaloader-functions-perl_0.003-1.1 libelf1_0.187-1 libencode-locale-perl_1.05-1.1 libeval-closure-perl_0.14-1 libexpat1_2.4.8-1 libext2fs2_1.46.5-2ubuntu1 libfakeroot_1.28-1ubuntu1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libfile-which-perl_1.27-1 libfontconfig1_2.13.1-4.2ubuntu5 libfreetype6_2.12.1+dfsg-1 libfribidi0_1.0.8-2ubuntu3.1 libgcc-11-dev_11.3.0-1ubuntu1 libgcc-s1_12.1.0-2ubuntu1 libgcrypt20_1.9.4-3ubuntu3 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libgfortran-11-dev_11.3.0-1ubuntu1 libgfortran5_12.1.0-2ubuntu1 libglib2.0-0_2.72.1-1 libgmp10_2:6.2.1+dfsg-3ubuntu1 libgnutls30_3.7.4-2ubuntu1 libgomp1_12.1.0-2ubuntu1 libgpg-error0_1.45-2 libgraphite2-3_1.3.14-1build2 libgssapi-krb5-2_1.19.2-2 libharfbuzz0b_2.7.4-1ubuntu4 libhogweed6_3.7.3-1build2 libhttp-date-perl_6.05-1 libhttp-message-perl_6.36-1 libice6_2:1.0.10-1build2 libicu-dev_71.1-3 libicu71_71.1-3 libidn2-0_2.3.2-2build1 libio-html-perl_1.004-3 libip4tc2_1.8.7-1ubuntu6 libisl23_0.24-2build1 libitm1_12.1.0-2ubuntu1 libjbig0_2.1-3.1build3 libjpeg-dev_8c-2ubuntu10 libjpeg-turbo8_2.1.2-0ubuntu1 libjpeg-turbo8-dev_2.1.2-0ubuntu1 libjpeg8_8c-2ubuntu10 libjpeg8-dev_8c-2ubuntu10 libjson-c5_0.16-1 libk5crypto3_1.19.2-2 libkeyutils1_1.6.1-2ubuntu3 libkmod2_29-1ubuntu1 libkrb5-3_1.19.2-2 libkrb5support0_1.19.2-2 liblapack-dev_3.10.0-2ubuntu1 liblapack3_3.10.0-2ubuntu1 libldap-2.5-0_2.5.11+dfsg-1~exp1ubuntu3 liblockfile-bin_1.17-1build2 liblockfile1_1.17-1build2 liblsan0_12.1.0-2ubuntu1 liblwp-mediatypes-perl_6.04-1 liblz4-1_1.9.3-2build2 liblzma-dev_5.2.5-2ubuntu1 liblzma5_5.2.5-2ubuntu1 libmagic-mgc_1:5.41-4 libmagic1_1:5.41-4 libmd0_1.0.4-1build1 libmodule-implementation-perl_0.09-1.1 libmodule-runtime-conflicts-perl_0.003-1.1 libmodule-runtime-perl_0.016-1 libmoose-perl_2.2200-1build1 libmount1_2.38-4ubuntu1 libmpc3_1.2.1-2build1 libmpfr6_4.1.0-3build3 libmro-compat-perl_0.15-1 libnamespace-clean-perl_0.27-1 libncurses-dev_6.3+20220423-2 libncurses5-dev_6.3+20220423-2 libncurses6_6.3+20220423-2 libncursesw6_6.3+20220423-2 libnettle8_3.7.3-1build2 libnghttp2-14_1.47.0-1 libnpth0_1.6-3build2 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librtmp1_2.4+20151223.gitfa8646d.1-2build4 libsasl2-2_2.1.27+dfsg2-3ubuntu1 libsasl2-modules-db_2.1.27+dfsg2-3ubuntu1 libscalar-list-utils-perl_1:1.62-1 libseccomp2_2.5.4-1ubuntu1 libselinux1_3.3-1build2 libsemanage-common_3.3-1build2 libsemanage2_3.3-1build2 libsepol2_3.3-1build1 libsigsegv2_2.13-1ubuntu3 libsm6_2:1.2.3-1build2 libsmartcols1_2.38-4ubuntu1 libsqlite3-0_3.38.5-1 libss2_1.46.5-2ubuntu1 libssh-4_0.9.6-2build1 libssl3_3.0.3-0ubuntu1 libstdc++-11-dev_11.3.0-1ubuntu1 libstdc++6_12.1.0-2ubuntu1 libsub-exporter-perl_0.988-1 libsub-exporter-progressive-perl_0.001013-1 libsub-identify-perl_0.14-1build5 libsub-install-perl_0.928-1.1 libsub-name-perl_0.26-1build3 libsub-override-perl_0.09-2 libswitch-perl_2.17-2.1 libsystemd0_249.11-0ubuntu3.1 libtasn1-6_4.18.0-4build1 libtcl8.6_8.6.12+dfsg-1build1 libthai-data_0.1.29-1build1 libthai0_0.1.29-1build1 libtiff5_4.3.0-7 libtimedate-perl_2.3300-2 libtinfo6_6.3+20220423-2 libtirpc-common_1.3.2-2build1 libtirpc-dev_1.3.2-2build1 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ncurses-base_6.3+20220423-2 ncurses-bin_6.3+20220423-2 openssl_3.0.3-0ubuntu1 optipng_0.7.7-2build1 passwd_1:4.8.1-2ubuntu2 patch_2.7.6-7build2 perl_5.34.0-3ubuntu1 perl-base_5.34.0-3ubuntu1 perl-modules-5.34_5.34.0-3ubuntu1 pinentry-curses_1.2.0-1 pkg-config_0.29.2-1ubuntu3 pkgbinarymangler_149 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3 procps_2:3.3.17-6ubuntu2 r-base-core_4.2.0-1ubuntu1 r-base-dev_4.2.0-1ubuntu1 r-bioc-biobase_2.56.0-1 r-bioc-biocgenerics_0.42.0-1 r-bioc-biocparallel_1.30.0-1 r-bioc-biostrings_2.64.0-1 r-bioc-delayedarray_0.22.0+dfsg-1 r-bioc-genomeinfodb_1.32.1-1 r-bioc-genomeinfodbdata_1.2.7-1 r-bioc-genomicranges_1.48.0+dfsg-1 r-bioc-iranges_2.30.0-1 r-bioc-matrixgenerics_1.8.0-1 r-bioc-rhtslib_1.28.0+dfsg-1 r-bioc-rsamtools_2.12.0-1 r-bioc-s4vectors_0.34.0-1 r-bioc-summarizedexperiment_1.26.1+dfsg-1 r-bioc-xvector_0.36.0-1 r-bioc-zlibbioc_1.42.0+dfsg-1 r-cran-bh_1.74.0-2 r-cran-bitops_1.0-7-1 r-cran-crayon_1.5.1-1 r-cran-formatr_1.12-1 r-cran-futile.logger_1.4.3-4build1 r-cran-futile.options_1.0.1-3build1 r-cran-lambda.r_1.2.4-2build1 r-cran-lattice_0.20-45-3 r-cran-matrix_1.4-1-1 r-cran-matrixstats_0.61.0-1 r-cran-rcurl_1.98-1.6-1 r-cran-snow_1:0.4.4-2 readline-common_8.1.2-1.2 rpcsvc-proto_1.4.2-0ubuntu6 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1ubuntu2 sensible-utils_0.0.17 systemd_249.11-0ubuntu3.1 systemd-sysv_249.11-0ubuntu3.1 sysvinit-utils_3.01-1ubuntu1 tar_1.34+dfsg-1build3 tzdata_2022a-0ubuntu1 ubuntu-keyring_2021.03.26 ucf_3.0043 unzip_6.0-26ubuntu3 usrmerge_25ubuntu2 util-linux_2.38-4ubuntu1 util-linux-extra_2.38-4ubuntu1 x11-common_1:7.7+23ubuntu2 xauth_1:1.1.1-1 xdg-utils_1.1.3-4.1ubuntu2 xz-utils_5.2.5-2ubuntu1 zip_3.0-12build2 zlib1g_1:1.2.11.dfsg-2ubuntu9 zlib1g-dev_1:1.2.11.dfsg-2ubuntu9 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: r-bioc-genomicalignments Binary: r-bioc-genomicalignments Architecture: any Version: 1.32.0-1 Maintainer: Debian R Packages Maintainers Uploaders: Andreas Tille Homepage: https://bioconductor.org/packages/GenomicAlignments/ Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-genomicalignments Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-genomicalignments.git Testsuite: autopkgtest-pkg-r Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-biocgenerics (>= 0.37.0), r-bioc-s4vectors (>= 0.27.12), r-bioc-iranges (>= 2.23.9), r-bioc-genomeinfodb, r-bioc-genomicranges (>= 1.41.5), r-bioc-summarizedexperiment, r-bioc-biostrings (>= 2.55.7), r-bioc-rsamtools, r-bioc-biocparallel Package-List: r-bioc-genomicalignments deb gnu-r optional arch=any Checksums-Sha1: c6d5fadcc94a3bb171627b2244d518b3b53630a9 2220004 r-bioc-genomicalignments_1.32.0.orig.tar.gz 7163a27f4a0de189529435a0fb35f4cc0e0d3c47 7348 r-bioc-genomicalignments_1.32.0-1.debian.tar.xz Checksums-Sha256: 71354a8f7b07283065bff8280558a15ddfc35a6d225de2d8f7c5214400a3d5c5 2220004 r-bioc-genomicalignments_1.32.0.orig.tar.gz 1699c49dbb21d7cfb6ef6511e174ac065625d7aa33527b3850a90e2e8cfe087d 7348 r-bioc-genomicalignments_1.32.0-1.debian.tar.xz Files: cf05831c345894ad836c38dafda02217 2220004 r-bioc-genomicalignments_1.32.0.orig.tar.gz 60fdda7f5b8b82413e380e58860befb4 7348 r-bioc-genomicalignments_1.32.0-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmKBVLsRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEnXg//UtYJydNdRXUq3Q/QolSxg3lVbGqKBu8k C24d6cxeeR3MxeXnc8MS5e+HF7lAFuKbZ8OOAoebD2RhKJRD/FmarBT8Y6PhxsMi 7TIVNVEL2/buQUO+8iRclL9Bthx9gTHAOdrGHsjsLWSRvM/pHmqHYwhiarF3IzWN sXnClxzGcZxlcjY+YWTjLaPt4RlPRCbiMlVFtg0fqEXfVtGsvIqTWYiT7UGxET3/ XSTwb0V46S9XMOp6DuITVeQygL8gT2OjFuK+n8EZ4L/aPpNe4lFj45cBMR1PKgLg 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info: applying disable-testing-pasillaBamSubset.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-23749608 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-23749608 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-23749608 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -b -rfakeroot dpkg-buildpackage: info: source package r-bioc-genomicalignments dpkg-buildpackage: info: source version 1.32.0-1 dpkg-buildpackage: info: source distribution unstable 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-genomicalignments/ -O--buildsystem=R I: R Package: GenomicAlignments Version: 1.32.0 I: Building using R version 4.2.0-1ubuntu1 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Sun, 15 May 2022 18:44:46 +0200 mkdir -p /<>/debian/r-bioc-genomicalignments/usr/lib/R/site-library R CMD INSTALL -l /<>/debian/r-bioc-genomicalignments/usr/lib/R/site-library --clean . "--built-timestamp='Sun, 15 May 2022 18:44:46 +0200'" * installing *source* package ‘GenomicAlignments’ ... ** using staged installation ** libs make[1]: Entering directory '/<>/src' gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-DNFheM/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-DNFheM/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c R_init_GenomicAlignments.c -o R_init_GenomicAlignments.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-DNFheM/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-DNFheM/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cigar_utils.c -o cigar_utils.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-DNFheM/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c coordinate_mapping_methods.c -o coordinate_mapping_methods.o gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-DNFheM/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c encodeOverlaps_methods.c -o encodeOverlaps_methods.o gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o GenomicAlignments.so IRanges_stubs.o R_init_GenomicAlignments.o S4Vectors_stubs.o cigar_utils.o coordinate_mapping_methods.o encodeOverlaps_methods.o -L/usr/lib/R/lib -lR make[1]: Leaving directory '/<>/src' make[1]: Entering directory '/<>/src' make[1]: Leaving directory '/<>/src' installing to /<>/debian/r-bioc-genomicalignments/usr/lib/R/site-library/00LOCK-r-bioc-genomicalignments-1.32.0/00new/GenomicAlignments/libs ** 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 ** 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 (GenomicAlignments) 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 301. Use of uninitialized value $dep_line in split at /usr/share/perl5/Dpkg/Deps.pm line 304. W: Ignoring specified R dependency: R (>= 4.0.0) I: Using r-bioc-biocgenerics for Depends:BiocGenerics (>= 0.37.0) I: Using r-bioc-s4vectors for Depends:S4Vectors (>= 0.27.12) I: Using r-bioc-iranges for Depends:IRanges (>= 2.23.9) I: Using r-bioc-genomeinfodb for Depends:GenomeInfoDb (>= 1.13.1) I: Using r-bioc-genomicranges for Depends:GenomicRanges (>= 1.41.5) I: Using r-bioc-summarizedexperiment for Depends:SummarizedExperiment (>= 1.9.13) I: Using r-bioc-biostrings for Depends:Biostrings (>= 2.55.7) I: Using r-bioc-rsamtools for Depends:Rsamtools (>= 1.31.2) I: Using r-bioc-shortread for Suggests:ShortRead I: Using r-bioc-rtracklayer for Suggests:rtracklayer I: Using r-bioc-bsgenome for Suggests:BSgenome I: Using r-bioc-genomicfeatures for Suggests:GenomicFeatures W: Cannot find a debian package for Suggests:RNAseqData.HNRNPC.bam.chr14 W: Cannot find a debian package for Suggests:pasillaBamSubset W: Cannot find a debian package for Suggests:TxDb.Hsapiens.UCSC.hg19.knownGene W: Cannot find a debian package for Suggests:TxDb.Dmelanogaster.UCSC.dm3.ensGene W: Cannot find a debian package for Suggests:BSgenome.Dmelanogaster.UCSC.dm3 W: Cannot find a debian package for Suggests:BSgenome.Hsapiens.UCSC.hg19 I: Using r-bioc-deseq2 for Suggests:DESeq2 I: Using r-bioc-edger for Suggests:edgeR I: Using r-cran-runit for Suggests:RUnit I: Using r-bioc-biocstyle for Suggests:BiocStyle I: Using r-bioc-biocgenerics for Imports:BiocGenerics I: Using r-bioc-s4vectors for Imports:S4Vectors I: Using r-bioc-iranges for Imports:IRanges I: Using r-bioc-genomicranges for Imports:GenomicRanges I: Using r-bioc-biostrings for Imports:Biostrings I: Using r-bioc-rsamtools for Imports:Rsamtools I: Using r-bioc-biocparallel for Imports:BiocParallel I: Using r-bioc-s4vectors for LinkingTo:S4Vectors I: Using r-bioc-iranges for LinkingTo:IRanges I: BioConductor API version: r-api-bioc-3.15 I: Use r-bioc-genomicalignments 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 872b8001b767ca8b7591ccf971fb1fed7279de16 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 INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing r-bioc-genomicalignments (in debian/r-bioc-genomicalignments); do_strip: , oemstrip: pkgstriptranslations: processing r-bioc-genomicalignments-dbgsym (in debian/.debhelper/r-bioc-genomicalignments/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/r-bioc-genomicalignments/DEBIAN/control, package r-bioc-genomicalignments, directory debian/r-bioc-genomicalignments pkgstripfiles: Truncating usr/share/doc/r-bioc-genomicalignments/changelog.Debian.gz to topmost ten records pkgstripfiles: processing control file: debian/.debhelper/r-bioc-genomicalignments/dbgsym-root/DEBIAN/control, package r-bioc-genomicalignments-dbgsym, directory debian/.debhelper/r-bioc-genomicalignments/dbgsym-root dpkg-deb: building package 'r-bioc-genomicalignments-dbgsym' in 'debian/.debhelper/scratch-space/build-r-bioc-genomicalignments/r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-bioc-genomicalignments ... pkgstripfiles: No PNG files. dpkg-deb: building package 'r-bioc-genomicalignments' in '../r-bioc-genomicalignments_1.32.0-1_amd64.deb'. Renaming r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.deb to r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.ddeb dpkg-genbuildinfo --build=binary -O../r-bioc-genomicalignments_1.32.0-1_amd64.buildinfo dpkg-genchanges --build=binary -mLaunchpad Build Daemon -O../r-bioc-genomicalignments_1.32.0-1_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) -------------------------------------------------------------------------------- Build finished at 2022-05-16T00:04:44Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ r-bioc-genomicalignments_1.32.0-1_amd64.changes: ------------------------------------------------ Format: 1.8 Date: Sun, 15 May 2022 18:44:46 +0200 Source: r-bioc-genomicalignments Binary: r-bioc-genomicalignments Built-For-Profiles: noudeb Architecture: amd64 Version: 1.32.0-1 Distribution: kinetic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: r-bioc-genomicalignments - BioConductor representation and manipulation of short genomic ali Changes: r-bioc-genomicalignments (1.32.0-1) unstable; urgency=medium . * New upstream version * Standards-Version: 4.6.1 (routine-update) Checksums-Sha1: c9b5fafe8c45f9f4e26b1ab9c152cfaf3b481922 65468 r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.ddeb 1219294ed8c741046dd5324cfee3274896679869 12021 r-bioc-genomicalignments_1.32.0-1_amd64.buildinfo b8d77bb4a564b4438f87a899caa3d02b2d201b46 2091578 r-bioc-genomicalignments_1.32.0-1_amd64.deb Checksums-Sha256: dbf6347266ad75e594e47e1812df01ac40129ebd535f336072b9d9ef93c52490 65468 r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.ddeb 63903b97f224fc2a6c2abfaa7212c73031bccba1eb82acd051562f3837f2e811 12021 r-bioc-genomicalignments_1.32.0-1_amd64.buildinfo 04aec0b1c3ac22f417f6ca3036fffe0005166bdcd07a5a69cb2d7fe5d30d7a3b 2091578 r-bioc-genomicalignments_1.32.0-1_amd64.deb Files: 141411ba8336c69aacd3675fb438dff9 65468 debug optional r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.ddeb 02097902f435a5b3d022f367a5a673f1 12021 gnu-r optional r-bioc-genomicalignments_1.32.0-1_amd64.buildinfo 10ff877980ed3084b64807d979844dca 2091578 gnu-r optional r-bioc-genomicalignments_1.32.0-1_amd64.deb /<>/r-bioc-genomicalignments_1.32.0-1_amd64.changes.new could not be renamed to /<>/r-bioc-genomicalignments_1.32.0-1_amd64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: r-bioc-genomicalignments Binary: r-bioc-genomicalignments r-bioc-genomicalignments-dbgsym Architecture: amd64 Version: 1.32.0-1 Checksums-Md5: 141411ba8336c69aacd3675fb438dff9 65468 r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.ddeb 10ff877980ed3084b64807d979844dca 2091578 r-bioc-genomicalignments_1.32.0-1_amd64.deb Checksums-Sha1: c9b5fafe8c45f9f4e26b1ab9c152cfaf3b481922 65468 r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.ddeb b8d77bb4a564b4438f87a899caa3d02b2d201b46 2091578 r-bioc-genomicalignments_1.32.0-1_amd64.deb Checksums-Sha256: dbf6347266ad75e594e47e1812df01ac40129ebd535f336072b9d9ef93c52490 65468 r-bioc-genomicalignments-dbgsym_1.32.0-1_amd64.ddeb 04aec0b1c3ac22f417f6ca3036fffe0005166bdcd07a5a69cb2d7fe5d30d7a3b 2091578 r-bioc-genomicalignments_1.32.0-1_amd64.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Mon, 16 May 2022 00:04:44 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1.3), autopoint (= 0.21-4ubuntu4), autotools-dev (= 20220109.1), base-files (= 12ubuntu5), base-passwd (= 3.5.52build1), bash (= 5.1-6ubuntu1), binutils (= 2.38-4ubuntu1), binutils-common (= 2.38-4ubuntu1), binutils-x86-64-linux-gnu (= 2.38-4ubuntu1), bsdextrautils (= 2.38-4ubuntu1), bsdutils (= 1:2.38-4ubuntu1), build-essential (= 12.9ubuntu3), bzip2 (= 1.0.8-5build1), ca-certificates (= 20211016), coreutils (= 8.32-4.1ubuntu1), cpp (= 4:11.2.0-1ubuntu1), cpp-11 (= 11.3.0-1ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-8), dctrl-tools (= 2.24-3build2), debconf (= 1.5.79ubuntu1), debhelper (= 13.7.1ubuntu1), debianutils (= 5.7-0.2), debugedit (= 1:5.0-4build1), dh-autoreconf (= 20), dh-r (= 20210218ubuntu1), dh-strip-nondeterminism (= 1.13.0-1), diffutils (= 1:3.8-0ubuntu2), dpkg (= 1.21.7ubuntu3), dpkg-dev (= 1.21.7ubuntu3), dwz (= 0.14-1build2), file (= 1:5.41-4), findutils (= 4.8.0-1ubuntu3), fontconfig (= 2.13.1-4.2ubuntu5), fontconfig-config (= 2.13.1-4.2ubuntu5), fonts-dejavu-core (= 2.37-2build1), g++ (= 4:11.2.0-1ubuntu1), g++-11 (= 11.3.0-1ubuntu1), gcc (= 4:11.2.0-1ubuntu1), gcc-11 (= 11.3.0-1ubuntu1), gcc-11-base (= 11.3.0-1ubuntu1), gcc-12-base (= 12.1.0-2ubuntu1), gettext (= 0.21-4ubuntu4), gettext-base (= 0.21-4ubuntu4), gfortran (= 4:11.2.0-1ubuntu1), gfortran-11 (= 11.3.0-1ubuntu1), grep (= 3.7-1build1), groff-base (= 1.22.4-8build1), gzip (= 1.10-4ubuntu4), hostname (= 3.23ubuntu2), icu-devtools (= 71.1-3), init-system-helpers (= 1.62), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.3.1-1), libalgorithm-c3-perl (= 0.11-1), libarchive-zip-perl (= 1.68-1), libasan6 (= 11.3.0-1ubuntu1), libatomic1 (= 12.1.0-2ubuntu1), libattr1 (= 1:2.5.1-1build1), libaudit-common (= 1:3.0.7-1build1), libaudit1 (= 1:3.0.7-1build1), libb-hooks-endofscope-perl (= 0.26-1), libb-hooks-op-check-perl (= 0.22-1build5), libbinutils (= 2.38-4ubuntu1), libblas-dev (= 3.10.0-2ubuntu1), libblas3 (= 3.10.0-2ubuntu1), libblkid1 (= 2.38-4ubuntu1), libboost-dev (= 1.74.0.3ubuntu7), libboost1.74-dev (= 1.74.0-14ubuntu4), libbrotli1 (= 1.0.9-2build6), libbsd0 (= 0.11.6-1), libbz2-1.0 (= 1.0.8-5build1), libbz2-dev (= 1.0.8-5build1), libc-bin (= 2.35-0ubuntu3), libc-dev-bin (= 2.35-0ubuntu3), libc6 (= 2.35-0ubuntu3), libc6-dev (= 2.35-0ubuntu3), libcairo2 (= 1.16.0-5ubuntu2), libcap-ng0 (= 0.7.9-2.2build3), libcap2 (= 1:2.44-1build3), libcc1-0 (= 12.1.0-2ubuntu1), libclass-c3-perl (= 0.35-1), libclass-load-perl (= 0.25-1), libclass-load-xs-perl (= 0.10-1build7), libcom-err2 (= 1.46.5-2ubuntu1), libcrypt-dev (= 1:4.4.27-1), libcrypt1 (= 1:4.4.27-1), libctf-nobfd0 (= 2.38-4ubuntu1), libctf0 (= 2.38-4ubuntu1), libcurl3-gnutls (= 7.83.1-1), libcurl4 (= 7.83.1-1), libdata-optlist-perl (= 0.112-1), libdatrie1 (= 0.2.13-2), libdb5.3 (= 5.3.28+dfsg1-0.8ubuntu3), libdebconfclient0 (= 0.261ubuntu1), libdebhelper-perl (= 13.7.1ubuntu1), libdeflate0 (= 1.10-2), libdevel-callchecker-perl (= 0.008-1ubuntu4), libdevel-globaldestruction-perl (= 0.14-1.1), libdevel-overloadinfo-perl (= 0.007-1), libdevel-stacktrace-perl (= 2.0400-1), libdist-checkconflicts-perl (= 0.11-1.1), libdpkg-perl (= 1.21.7ubuntu3), libdw1 (= 0.187-1), libdynaloader-functions-perl (= 0.003-1.1), libelf1 (= 0.187-1), libencode-locale-perl (= 1.05-1.1), libeval-closure-perl (= 0.14-1), libexpat1 (= 2.4.8-1), libffi8 (= 3.4.2-4), libfile-stripnondeterminism-perl (= 1.13.0-1), libfile-which-perl (= 1.27-1), libfontconfig1 (= 2.13.1-4.2ubuntu5), libfreetype6 (= 2.12.1+dfsg-1), libfribidi0 (= 1.0.8-2ubuntu3.1), libgcc-11-dev (= 11.3.0-1ubuntu1), libgcc-s1 (= 12.1.0-2ubuntu1), libgcrypt20 (= 1.9.4-3ubuntu3), libgdbm-compat4 (= 1.23-1), libgdbm6 (= 1.23-1), libgfortran-11-dev (= 11.3.0-1ubuntu1), libgfortran5 (= 12.1.0-2ubuntu1), libglib2.0-0 (= 2.72.1-1), libgmp10 (= 2:6.2.1+dfsg-3ubuntu1), libgnutls30 (= 3.7.4-2ubuntu1), libgomp1 (= 12.1.0-2ubuntu1), libgpg-error0 (= 1.45-2), libgraphite2-3 (= 1.3.14-1build2), libgssapi-krb5-2 (= 1.19.2-2), libharfbuzz0b (= 2.7.4-1ubuntu4), libhogweed6 (= 3.7.3-1build2), libhttp-date-perl (= 6.05-1), libhttp-message-perl (= 6.36-1), libice6 (= 2:1.0.10-1build2), libicu-dev (= 71.1-3), libicu71 (= 71.1-3), libidn2-0 (= 2.3.2-2build1), libio-html-perl (= 1.004-3), libisl23 (= 0.24-2build1), libitm1 (= 12.1.0-2ubuntu1), libjbig0 (= 2.1-3.1build3), libjpeg-dev (= 8c-2ubuntu10), libjpeg-turbo8 (= 2.1.2-0ubuntu1), libjpeg-turbo8-dev (= 2.1.2-0ubuntu1), libjpeg8 (= 8c-2ubuntu10), libjpeg8-dev (= 8c-2ubuntu10), libk5crypto3 (= 1.19.2-2), libkeyutils1 (= 1.6.1-2ubuntu3), libkrb5-3 (= 1.19.2-2), libkrb5support0 (= 1.19.2-2), liblapack-dev (= 3.10.0-2ubuntu1), liblapack3 (= 3.10.0-2ubuntu1), libldap-2.5-0 (= 2.5.11+dfsg-1~exp1ubuntu3), liblsan0 (= 12.1.0-2ubuntu1), liblwp-mediatypes-perl (= 6.04-1), liblz4-1 (= 1.9.3-2build2), liblzma-dev (= 5.2.5-2ubuntu1), liblzma5 (= 5.2.5-2ubuntu1), libmagic-mgc (= 1:5.41-4), libmagic1 (= 1:5.41-4), libmd0 (= 1.0.4-1build1), libmodule-implementation-perl (= 0.09-1.1), libmodule-runtime-conflicts-perl (= 0.003-1.1), libmodule-runtime-perl (= 0.016-1), libmoose-perl (= 2.2200-1build1), libmount1 (= 2.38-4ubuntu1), libmpc3 (= 1.2.1-2build1), libmpfr6 (= 4.1.0-3build3), libmro-compat-perl (= 0.15-1), libnamespace-clean-perl (= 0.27-1), libncurses-dev (= 6.3+20220423-2), libncurses5-dev (= 6.3+20220423-2), libncurses6 (= 6.3+20220423-2), libncursesw6 (= 6.3+20220423-2), libnettle8 (= 3.7.3-1build2), libnghttp2-14 (= 1.47.0-1), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libp11-kit0 (= 0.24.1-1), libpackage-deprecationmanager-perl (= 0.17-1.1), libpackage-stash-perl (= 0.40-1), libpackage-stash-xs-perl (= 0.29-1build5), libpam-modules (= 1.4.0-13ubuntu1), libpam-modules-bin (= 1.4.0-13ubuntu1), libpam-runtime (= 1.4.0-13ubuntu1), libpam0g (= 1.4.0-13ubuntu1), libpango-1.0-0 (= 1.50.7+ds-1), libpangocairo-1.0-0 (= 1.50.7+ds-1), libpangoft2-1.0-0 (= 1.50.7+ds-1), libpaper-utils (= 1.1.28build2), libpaper1 (= 1.1.28build2), libparams-classify-perl (= 0.015-1build5), libparams-util-perl (= 1.102-1build3), libpcre16-3 (= 2:8.39-14), libpcre2-16-0 (= 10.40-1), libpcre2-32-0 (= 10.40-1), libpcre2-8-0 (= 10.40-1), libpcre2-dev (= 10.40-1), libpcre2-posix3 (= 10.40-1), libpcre3 (= 2:8.39-14), libpcre3-dev (= 2:8.39-14), libpcre32-3 (= 2:8.39-14), libpcrecpp0v5 (= 2:8.39-14), libperl5.34 (= 5.34.0-3ubuntu1), libpipeline1 (= 1.5.6-1), libpixman-1-0 (= 0.40.0-1build4), libpng-dev (= 1.6.37-5), libpng16-16 (= 1.6.37-5), libpsl5 (= 0.21.0-1.2build2), libquadmath0 (= 12.1.0-2ubuntu1), libreadline-dev (= 8.1.2-1.2), libreadline8 (= 8.1.2-1.2), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.27+dfsg2-3ubuntu1), libsasl2-modules-db (= 2.1.27+dfsg2-3ubuntu1), libscalar-list-utils-perl (= 1:1.62-1), libseccomp2 (= 2.5.4-1ubuntu1), libselinux1 (= 3.3-1build2), libsigsegv2 (= 2.13-1ubuntu3), libsm6 (= 2:1.2.3-1build2), libsmartcols1 (= 2.38-4ubuntu1), libssh-4 (= 0.9.6-2build1), libssl3 (= 3.0.3-0ubuntu1), libstdc++-11-dev (= 11.3.0-1ubuntu1), libstdc++6 (= 12.1.0-2ubuntu1), libsub-exporter-perl (= 0.988-1), libsub-exporter-progressive-perl (= 0.001013-1), libsub-identify-perl (= 0.14-1build5), libsub-install-perl (= 0.928-1.1), libsub-name-perl (= 0.26-1build3), libsub-override-perl (= 0.09-2), libswitch-perl (= 2.17-2.1), libsystemd0 (= 249.11-0ubuntu3.1), libtasn1-6 (= 4.18.0-4build1), libtcl8.6 (= 8.6.12+dfsg-1build1), libthai-data (= 0.1.29-1build1), libthai0 (= 0.1.29-1build1), libtiff5 (= 4.3.0-7), libtimedate-perl (= 2.3300-2), libtinfo6 (= 6.3+20220423-2), libtirpc-common (= 1.3.2-2build1), libtirpc-dev (= 1.3.2-2build1), libtirpc3 (= 1.3.2-2build1), libtk8.6 (= 8.6.12-1build1), libtool (= 2.4.7-4), libtry-tiny-perl (= 0.31-1), libtsan0 (= 11.3.0-1ubuntu1), libubsan1 (= 12.1.0-2ubuntu1), libuchardet0 (= 0.0.7-1build2), libudev1 (= 249.11-0ubuntu3.1), libunistring2 (= 1.0-1), liburi-perl (= 5.10-1), libuuid1 (= 2.38-4ubuntu1), libvariable-magic-perl (= 0.62-1build5), libwebp7 (= 1.2.2-2), libwww-curl-perl (= 4.17-7build2), libwww-curl-simple-perl (= 0.100191-2), libx11-6 (= 2:1.7.5-1), libx11-data (= 2:1.7.5-1), libxau6 (= 1:1.0.9-1build5), libxcb-render0 (= 1.14-3ubuntu3), libxcb-shm0 (= 1.14-3ubuntu3), libxcb1 (= 1.14-3ubuntu3), libxdmcp6 (= 1:1.1.3-0ubuntu5), libxext6 (= 2:1.3.4-1build1), libxft2 (= 2.3.4-1), libxml2 (= 2.9.14+dfsg-1), libxmuu1 (= 2:1.1.3-3), libxrender1 (= 1:0.9.10-1build4), libxss1 (= 1:1.2.3-1build2), libxt6 (= 1:1.2.1-1), libzstd1 (= 1.5.2+dfsg-1), linux-libc-dev (= 5.15.0-28.29), login (= 1:4.8.1-2ubuntu2), lsb-base (= 11.1.0ubuntu4), lto-disabled-list (= 25), m4 (= 1.4.18-5ubuntu2), make (= 4.3-4.1build1), man-db (= 2.10.2-1), mawk (= 1.3.4.20200120-3), ncurses-base (= 6.3+20220423-2), ncurses-bin (= 6.3+20220423-2), openssl (= 3.0.3-0ubuntu1), patch (= 2.7.6-7build2), perl (= 5.34.0-3ubuntu1), perl-base (= 5.34.0-3ubuntu1), perl-modules-5.34 (= 5.34.0-3ubuntu1), pkg-config (= 0.29.2-1ubuntu3), po-debconf (= 1.0.21+nmu1), r-base-core (= 4.2.0-1ubuntu1), r-base-dev (= 4.2.0-1ubuntu1), r-bioc-biobase (= 2.56.0-1), r-bioc-biocgenerics (= 0.42.0-1), r-bioc-biocparallel (= 1.30.0-1), r-bioc-biostrings (= 2.64.0-1), r-bioc-delayedarray (= 0.22.0+dfsg-1), r-bioc-genomeinfodb (= 1.32.1-1), r-bioc-genomeinfodbdata (= 1.2.7-1), r-bioc-genomicranges (= 1.48.0+dfsg-1), r-bioc-iranges (= 2.30.0-1), r-bioc-matrixgenerics (= 1.8.0-1), r-bioc-rhtslib (= 1.28.0+dfsg-1), r-bioc-rsamtools (= 2.12.0-1), r-bioc-s4vectors (= 0.34.0-1), r-bioc-summarizedexperiment (= 1.26.1+dfsg-1), r-bioc-xvector (= 0.36.0-1), r-bioc-zlibbioc (= 1.42.0+dfsg-1), r-cran-bh (= 1.74.0-2), r-cran-bitops (= 1.0-7-1), r-cran-crayon (= 1.5.1-1), r-cran-formatr (= 1.12-1), r-cran-futile.logger (= 1.4.3-4build1), r-cran-futile.options (= 1.0.1-3build1), r-cran-lambda.r (= 1.2.4-2build1), r-cran-lattice (= 0.20-45-3), r-cran-matrix (= 1.4-1-1), r-cran-matrixstats (= 0.61.0-1), r-cran-rcurl (= 1.98-1.6-1), r-cran-snow (= 1:0.4.4-2), readline-common (= 8.1.2-1.2), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.8-1ubuntu2), sensible-utils (= 0.0.17), sysvinit-utils (= 3.01-1ubuntu1), tar (= 1.34+dfsg-1build3), tzdata (= 2022a-0ubuntu1), ucf (= 3.0043), unzip (= 6.0-26ubuntu3), util-linux (= 2.38-4ubuntu1), util-linux-extra (= 2.38-4ubuntu1), x11-common (= 1:7.7+23ubuntu2), xauth (= 1:1.1.1-1), xdg-utils (= 1.1.3-4.1ubuntu2), xz-utils (= 5.2.5-2ubuntu1), zip (= 3.0-12build2), zlib1g (= 1:1.2.11.dfsg-2ubuntu9), zlib1g-dev (= 1:1.2.11.dfsg-2ubuntu9) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1652633086" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ r-bioc-genomicalignments_1.32.0-1_amd64.deb ------------------------------------------- new Debian package, version 2.0. size 2091578 bytes: control archive=2269 bytes. 1265 bytes, 17 lines control 4857 bytes, 49 lines md5sums Package: r-bioc-genomicalignments Version: 1.32.0-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian R Packages Maintainers Installed-Size: 2896 Depends: r-base-core (>= 4.2.0-1ubuntu1), r-api-4.0, r-api-bioc-3.15, r-bioc-biocgenerics (>= 0.37.0), r-bioc-s4vectors (>= 0.27.12), r-bioc-iranges (>= 2.23.9), r-bioc-genomeinfodb (>= 1.13.1), r-bioc-genomicranges (>= 1.41.5), r-bioc-summarizedexperiment (>= 1.9.13), r-bioc-biostrings (>= 2.55.7), r-bioc-rsamtools (>= 1.31.2), r-bioc-biocparallel, libc6 (>= 2.4) Suggests: r-bioc-shortread, r-bioc-rtracklayer, r-bioc-bsgenome, r-bioc-genomicfeatures, r-bioc-deseq2, r-bioc-edger, r-cran-runit, r-bioc-biocstyle Section: gnu-r Priority: optional Homepage: https://bioconductor.org/packages/GenomicAlignments/ Description: BioConductor representation and manipulation of short genomic alignments This BioConductor package provides efficient containers for storing and manipulating short genomic alignments (typically obtained by aligning short reads to a reference genome). 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+------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: 8636 Build-Time: 30 Distribution: kinetic-proposed Host Architecture: amd64 Install-Time: 16 Job: r-bioc-genomicalignments_1.32.0-1.dsc Machine Architecture: amd64 Package: r-bioc-genomicalignments Package-Time: 47 Source-Version: 1.32.0-1 Space: 8636 Status: successful Version: 1.32.0-1 -------------------------------------------------------------------------------- Finished at 2022-05-16T00:04:44Z Build needed 00:00:47, 8636k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=kinetic --arch=amd64 PACKAGEBUILD-23749608 Scanning for processes to kill in build PACKAGEBUILD-23749608