https://launchpad.net/ubuntu/+source/r-bioc-delayedarray/0.12.0+dfsg-1/+build/18079692 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-004 4.4.0-166-generic #195-Ubuntu SMP Tue Oct 1 09:36:37 UTC 2019 aarch64 Buildd toolchain package versions: launchpad-buildd_180 python-lpbuildd_180 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.6 dpkg-dev_1.18.4ubuntu1.6 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 10 Nov 05:10:28 ntpdate[1937]: adjust time server 10.211.37.1 offset 0.021398 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18079692 --image-type chroot /home/buildd/filecache-default/f005b6164729459c78307140747b338a2f357aa2 Creating target for build PACKAGEBUILD-18079692 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18079692 Starting target for build PACKAGEBUILD-18079692 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18079692 'deb http://ftpmaster.internal/ubuntu focal main universe' 'deb http://ftpmaster.internal/ubuntu focal-security main universe' 'deb http://ftpmaster.internal/ubuntu focal-updates main universe' 'deb http://ftpmaster.internal/ubuntu focal-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-18079692 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18079692 Updating target for build PACKAGEBUILD-18079692 Get:1 http://ftpmaster.internal/ubuntu focal InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu focal-security InRelease [79.7 kB] Get:3 http://ftpmaster.internal/ubuntu focal-updates InRelease [79.7 kB] Get:4 http://ftpmaster.internal/ubuntu focal-proposed InRelease [107 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main armhf Packages [939 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main Translation-en [506 kB] Get:7 http://ftpmaster.internal/ubuntu focal/universe armhf Packages [8483 kB] Get:8 http://ftpmaster.internal/ubuntu focal/universe Translation-en [5190 kB] Get:9 http://ftpmaster.internal/ubuntu focal-proposed/main armhf Packages [61.8 kB] Get:10 http://ftpmaster.internal/ubuntu focal-proposed/main Translation-en [40.2 kB] Get:11 http://ftpmaster.internal/ubuntu focal-proposed/universe armhf Packages [297 kB] Get:12 http://ftpmaster.internal/ubuntu focal-proposed/universe Translation-en [215 kB] Fetched 16.3 MB in 9s (1775 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libhogweed4 libnettle6 libperl5.28 perl-modules-5.28 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libhogweed5 libnettle7 libperl5.30 perl-modules-5.30 The following packages will be upgraded: base-files binutils binutils-arm-linux-gnueabihf binutils-common bzip2 cpp-9 debianutils g++-9 gcc-9 gcc-9-base hostname libacl1 libapparmor1 libasan5 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libbz2-1.0 libcap-ng0 libcap2 libcc1-0 libcryptsetup12 libdebconfclient0 libgcc-9-dev libgcc1 libgcrypt20 libgnutls30 libgomp1 libjson-c4 libkmod2 liblockfile-bin liblockfile1 liblz4-1 libncurses6 libncursesw6 libp11-kit0 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsqlite3-0 libstdc++-9-dev libstdc++6 libsystemd0 libtinfo6 libubsan1 libudev1 linux-libc-dev lsb-base ncurses-base ncurses-bin perl perl-base systemd systemd-sysv sysvinit-utils 58 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 44.4 MB of archives. After this operation, 39.4 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu focal/main armhf base-files armhf 11ubuntu1 [60.1 kB] Get:2 http://ftpmaster.internal/ubuntu focal/main armhf debianutils armhf 4.9 [84.7 kB] Get:3 http://ftpmaster.internal/ubuntu focal/main armhf hostname armhf 3.23 [10.4 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main armhf ncurses-bin armhf 6.1+20191019-1ubuntu1 [163 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main armhf perl-modules-5.30 all 5.30.0-9 [2739 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main armhf libperl5.30 armhf 5.30.0-9 [3286 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main armhf perl armhf 5.30.0-9 [224 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main armhf perl-base armhf 5.30.0-9 [1408 kB] Get:9 http://ftpmaster.internal/ubuntu focal/main armhf bzip2 armhf 1.0.8-2 [32.4 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main armhf libbz2-1.0 armhf 1.0.8-2 [31.0 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main armhf ncurses-base all 6.1+20191019-1ubuntu1 [17.9 kB] Get:12 http://ftpmaster.internal/ubuntu focal/main armhf lsb-base all 11.1.0ubuntu1 [12.2 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main armhf sysvinit-utils armhf 2.96-1ubuntu1 [19.2 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main armhf systemd-sysv armhf 243-3ubuntu1 [9364 B] Get:15 http://ftpmaster.internal/ubuntu focal/main armhf libacl1 armhf 2.2.53-5 [15.9 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main armhf libapparmor1 armhf 2.13.3-5ubuntu5 [29.7 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main armhf libaudit-common all 1:2.8.5-2ubuntu2 [4080 B] Get:18 http://ftpmaster.internal/ubuntu focal/main armhf libcap-ng0 armhf 0.7.9-2.1 [9692 B] Get:19 http://ftpmaster.internal/ubuntu focal/main armhf libaudit1 armhf 1:2.8.5-2ubuntu2 [36.0 kB] Get:20 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libcap2 armhf 1:2.27-1 [12.7 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main armhf libjson-c4 armhf 0.13.1+dfsg-6 [25.6 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main armhf libcryptsetup12 armhf 2:2.2.1-1ubuntu1 [163 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main armhf libnettle7 armhf 3.5.1+really3.5.1-2 [126 kB] Get:24 http://ftpmaster.internal/ubuntu focal/main armhf libhogweed5 armhf 3.5.1+really3.5.1-2 [127 kB] Get:25 http://ftpmaster.internal/ubuntu focal/main armhf libp11-kit0 armhf 0.23.18.1-2 [166 kB] Get:26 http://ftpmaster.internal/ubuntu focal/main armhf libgnutls30 armhf 3.6.9-5ubuntu2 [730 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main armhf libkmod2 armhf 26-3ubuntu1 [37.0 kB] Get:28 http://ftpmaster.internal/ubuntu focal-proposed/main armhf liblz4-1 armhf 1.9.2-1 [51.8 kB] Get:29 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libseccomp2 armhf 2.4.1-0ubuntu0.19.10.4 [30.8 kB] Get:30 http://ftpmaster.internal/ubuntu focal/main armhf systemd armhf 243-3ubuntu1 [3479 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main armhf libsystemd0 armhf 243-3ubuntu1 [243 kB] Get:32 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libcc1-0 armhf 9.2.1-18ubuntu1 [41.7 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main armhf binutils-arm-linux-gnueabihf armhf 2.33.1-1ubuntu1 [2101 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main armhf libbinutils armhf 2.33.1-1ubuntu1 [315 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main armhf binutils-common armhf 2.33.1-1ubuntu1 [203 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main armhf binutils armhf 2.33.1-1ubuntu1 [3348 B] Get:37 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libgomp1 armhf 9.2.1-18ubuntu1 [77.5 kB] Get:38 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libatomic1 armhf 9.2.1-18ubuntu1 [7080 B] Get:39 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libasan5 armhf 9.2.1-18ubuntu1 [386 kB] Get:40 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libubsan1 armhf 9.2.1-18ubuntu1 [118 kB] Get:41 http://ftpmaster.internal/ubuntu focal-proposed/main armhf gcc-9-base armhf 9.2.1-18ubuntu1 [19.0 kB] Get:42 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libstdc++6 armhf 9.2.1-18ubuntu1 [451 kB] Get:43 http://ftpmaster.internal/ubuntu focal-proposed/main armhf g++-9 armhf 9.2.1-18ubuntu1 [7912 kB] Get:44 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libstdc++-9-dev armhf 9.2.1-18ubuntu1 [1777 kB] Get:45 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libgcc-9-dev armhf 9.2.1-18ubuntu1 [687 kB] Get:46 http://ftpmaster.internal/ubuntu focal-proposed/main armhf gcc-9 armhf 9.2.1-18ubuntu1 [7586 kB] Get:47 http://ftpmaster.internal/ubuntu focal-proposed/main armhf cpp-9 armhf 9.2.1-18ubuntu1 [6889 kB] Get:48 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libgcc1 armhf 1:9.2.1-18ubuntu1 [37.5 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main armhf libattr1 armhf 1:2.4.48-5 [11.5 kB] Get:50 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libdebconfclient0 armhf 0.250ubuntu1 [5820 B] Get:51 http://ftpmaster.internal/ubuntu focal/main armhf libgcrypt20 armhf 1.8.5-3ubuntu1 [364 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main armhf libncurses6 armhf 6.1+20191019-1ubuntu1 [79.7 kB] Get:53 http://ftpmaster.internal/ubuntu focal/main armhf libtinfo6 armhf 6.1+20191019-1ubuntu1 [72.8 kB] Get:54 http://ftpmaster.internal/ubuntu focal/main armhf libncursesw6 armhf 6.1+20191019-1ubuntu1 [106 kB] Get:55 http://ftpmaster.internal/ubuntu focal/main armhf libselinux1 armhf 2.9-2build1 [60.7 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main armhf libsemanage-common all 2.9-3build1 [9736 B] Get:57 http://ftpmaster.internal/ubuntu focal/main armhf libsemanage1 armhf 2.9-3build1 [73.7 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main armhf libudev1 armhf 243-3ubuntu1 [71.0 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main armhf libsqlite3-0 armhf 3.30.1-1 [460 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main armhf liblockfile-bin armhf 1.16-1.1 [10.5 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main armhf liblockfile1 armhf 1.16-1.1 [5620 B] Get:62 http://ftpmaster.internal/ubuntu focal-proposed/main armhf linux-libc-dev armhf 5.3.0-21.22 [1067 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 44.4 MB in 3s (14.9 MB/s) (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../base-files_11ubuntu1_armhf.deb ... Unpacking base-files (11ubuntu1) over (10.2ubuntu7) ... Setting up base-files (11ubuntu1) ... Installing new version of config file /etc/debian_version ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... Updating /root/.profile to current default. (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../debianutils_4.9_armhf.deb ... Unpacking debianutils (4.9) over (4.8.6.3) ... Setting up debianutils (4.9) ... (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../hostname_3.23_armhf.deb ... Unpacking hostname (3.23) over (3.22) ... Setting up hostname (3.23) ... (Reading database ... 12487 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.1+20191019-1ubuntu1_armhf.deb ... 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Setting up gcc-9 (9.2.1-18ubuntu1) ... Setting up libstdc++-9-dev:armhf (9.2.1-18ubuntu1) ... Setting up systemd (243-3ubuntu1) ... Installing new version of config file /etc/dhcp/dhclient-enter-hooks.d/resolved ... Installing new version of config file /etc/systemd/networkd.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from KVM UUID. Setting up g++-9 (9.2.1-18ubuntu1) ... Setting up systemd-sysv (243-3ubuntu1) ... Processing triggers for libc-bin (2.30-0ubuntu2) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-18079692 armhf focal-proposed -c chroot:build-PACKAGEBUILD-18079692 --arch=armhf --dist=focal-proposed --nolog r-bioc-delayedarray_0.12.0+dfsg-1.dsc Initiating build PACKAGEBUILD-18079692 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-166-generic #195-Ubuntu SMP Tue Oct 1 09:36:37 UTC 2019 armv7l sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-arm64-004.buildd +==============================================================================+ | r-bioc-delayedarray 0.12.0+dfsg-1 (armhf) 10 Nov 2019 05:11 | +==============================================================================+ Package: r-bioc-delayedarray Version: 0.12.0+dfsg-1 Source Version: 0.12.0+dfsg-1 Distribution: focal-proposed Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf I: NOTICE: Log filtering will replace 'build/r-bioc-delayedarray-azLLWS/r-bioc-delayedarray-0.12.0+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/r-bioc-delayedarray-azLLWS' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-18079692/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- r-bioc-delayedarray_0.12.0+dfsg-1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-9fOY_l/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-9fOY_l/apt_archive ./ InRelease Get:2 copy:/<>/resolver-9fOY_l/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-9fOY_l/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-9fOY_l/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-9fOY_l/apt_archive ./ Packages [528 B] Fetched 2861 B in 0s (125 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libhogweed4 libnettle6 libperl5.28 perl-modules-5.28 Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-9fOY_l/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14415 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper-compat (= 12), dh-r, r-base-dev, r-cran-matrixstats, r-bioc-biocgenerics (>= 0.31.5), r-bioc-s4vectors (>= 0.21.7), r-bioc-iranges (>= 2.17.3), r-bioc-biocparallel, r-cran-matrix Filtered Build-Depends: debhelper-compat (= 12), dh-r, r-base-dev, r-cran-matrixstats, r-bioc-biocgenerics (>= 0.31.5), r-bioc-s4vectors (>= 0.21.7), r-bioc-iranges (>= 2.17.3), r-bioc-biocparallel, r-cran-matrix dpkg-deb: building package 'sbuild-build-depends-r-bioc-delayedarray-dummy' in '/<>/resolver-O0RDvk/apt_archive/sbuild-build-depends-r-bioc-delayedarray-dummy.deb'. Ign:1 copy:/<>/resolver-O0RDvk/apt_archive ./ InRelease Get:2 copy:/<>/resolver-O0RDvk/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-O0RDvk/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-O0RDvk/apt_archive ./ Sources [301 B] Get:5 copy:/<>/resolver-O0RDvk/apt_archive ./ Packages [622 B] Fetched 3042 B in 0s (127 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install r-bioc-delayedarray build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libhogweed4 libnettle6 libperl5.28 perl-modules-5.28 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils dctrl-tools debhelper dh-autoreconf dh-r dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran gfortran-9 groff-base icu-devtools intltool-debian libarchive-zip-perl libasn1-8-heimdal libblas-dev libblas3 libbsd0 libbz2-dev libcairo2 libcroco3 libcurl4 libdatrie1 libdebhelper-perl libelf1 libexpat1 libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1 libfreetype6 libfribidi0 libgfortran-9-dev libgfortran5 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu-dev libicu63 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack-dev liblapack3 libldap-2.4-2 libldap-common liblzma-dev libmagic-mgc libmagic1 libncurses-dev libncurses5-dev libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre16-3 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix0 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpsl5 libreadline-dev libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libssh-4 libsub-override-perl libswitch-perl libtcl8.6 libthai-data libthai0 libtiff5 libtk8.6 libtool libuchardet0 libwebp6 libwind0-heimdal 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-biocgenerics r-bioc-biocparallel r-bioc-iranges r-bioc-s4vectors 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-snow ucf unzip x11-common xauth xdg-utils zip zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation debtags dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-multilib gfortran-doc gfortran-9-multilib gfortran-9-doc libgfortran5-dbg libcoarrays-dev groff liblapack-doc krb5-doc krb5-user icu-doc liblzma-doc ncurses-doc readline-doc tcl8.6 tk8.6 libtool-doc gcj-jdk 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-biobase r-bioc-genomicranges r-bioc-delayedarray r-bioc-biostrings r-bioc-rsamtools 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-cran-knitr r-cran-data.table r-bioc-genomicfeatures r-bioc-summarizedexperiment r-bioc-graph r-cran-shiny r-cran-rmarkdown r-cran-jsonlite r-cran-base64enc r-cran-ggplot2 r-cran-rmpi r-cran-rsprng r-cran-rlecuyer Recommended packages: devscripts curl | wget | lynx bzip2-doc libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales 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-bioc-rsamtools r-cran-batchtools r-cran-rmpi r-bioc-xvector r-bioc-genomicranges r-cran-testit r-cran-codetools r-cran-survival r-cran-testthat 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 bsdmainutils dctrl-tools debhelper dh-autoreconf dh-r dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran gfortran-9 groff-base icu-devtools intltool-debian libarchive-zip-perl libasn1-8-heimdal libblas-dev libblas3 libbsd0 libbz2-dev libcairo2 libcroco3 libcurl4 libdatrie1 libdebhelper-perl libelf1 libexpat1 libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1 libfreetype6 libfribidi0 libgfortran-9-dev libgfortran5 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu-dev libicu63 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack-dev liblapack3 libldap-2.4-2 libldap-common liblzma-dev libmagic-mgc libmagic1 libncurses-dev libncurses5-dev libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre16-3 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix0 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpsl5 libreadline-dev libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libssh-4 libsub-override-perl libswitch-perl libtcl8.6 libthai-data libthai0 libtiff5 libtk8.6 libtool libuchardet0 libwebp6 libwind0-heimdal 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-biocgenerics r-bioc-biocparallel r-bioc-iranges r-bioc-s4vectors 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-snow sbuild-build-depends-r-bioc-delayedarray-dummy ucf unzip x11-common xauth xdg-utils zip zlib1g-dev 0 upgraded, 151 newly installed, 0 to remove and 0 not upgraded. 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3.0-11build1 [145 kB] Get:54 http://ftpmaster.internal/ubuntu focal/main armhf unzip armhf 6.0-25ubuntu1 [155 kB] Get:55 http://ftpmaster.internal/ubuntu focal/main armhf libpaper1 armhf 1.1.28 [12.1 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main armhf libpaper-utils armhf 1.1.28 [7960 B] Get:57 http://ftpmaster.internal/ubuntu focal/main armhf xdg-utils all 1.1.3-1ubuntu2 [60.5 kB] Get:58 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libblas3 armhf 3.8.0-8 [101 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main armhf libfreetype6 armhf 2.10.1-2 [283 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main armhf fonts-dejavu-core all 2.37-1 [1041 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main armhf fontconfig-config all 2.13.1-2ubuntu2 [28.9 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main armhf libfontconfig1 armhf 2.13.1-2ubuntu2 [95.8 kB] Get:63 http://ftpmaster.internal/ubuntu focal/main armhf libpixman-1-0 armhf 0.38.4-0ubuntu1 [159 kB] Get:64 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armhf 7.5.0+dfsg-3build1 [88.9 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main armhf libkrb5-26-heimdal armhf 7.5.0+dfsg-3build1 [170 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main armhf libheimntlm0-heimdal armhf 7.5.0+dfsg-3build1 [13.2 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main armhf libgssapi3-heimdal armhf 7.5.0+dfsg-3build1 [79.7 kB] Get:77 http://ftpmaster.internal/ubuntu focal/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-1build3 [13.1 kB] Get:78 http://ftpmaster.internal/ubuntu focal/main armhf libsasl2-2 armhf 2.1.27+dfsg-1build3 [42.7 kB] Get:79 http://ftpmaster.internal/ubuntu focal/main armhf libldap-common all 2.4.48+dfsg-1ubuntu3 [17.3 kB] Get:80 http://ftpmaster.internal/ubuntu focal/main armhf libldap-2.4-2 armhf 2.4.48+dfsg-1ubuntu3 [133 kB] Get:81 http://ftpmaster.internal/ubuntu focal/main armhf libnghttp2-14 armhf 1.39.2-1 [68.6 kB] Get:82 http://ftpmaster.internal/ubuntu focal/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2build1 [49.1 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main armhf libssh-4 armhf 0.9.0-1ubuntu1 [172 kB] Get:84 http://ftpmaster.internal/ubuntu focal/main armhf libcurl4 armhf 7.65.3-1ubuntu4 [200 kB] Get:85 http://ftpmaster.internal/ubuntu focal/main armhf libjpeg-turbo8 armhf 2.0.3-0ubuntu1 [90.4 kB] Get:86 http://ftpmaster.internal/ubuntu focal/main armhf libjpeg8 armhf 8c-2ubuntu8 [2202 B] Get:87 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libgfortran5 armhf 9.2.1-18ubuntu1 [252 kB] Get:88 http://ftpmaster.internal/ubuntu focal-proposed/main armhf liblapack3 armhf 3.8.0-8 [1704 kB] Get:89 http://ftpmaster.internal/ubuntu focal/main armhf fontconfig armhf 2.13.1-2ubuntu2 [169 kB] Get:90 http://ftpmaster.internal/ubuntu focal/main armhf libgraphite2-3 armhf 1.3.13-11 [62.7 kB] Get:91 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libharfbuzz0b armhf 2.6.4-1 [347 kB] Get:92 http://ftpmaster.internal/ubuntu focal/main armhf libthai-data all 0.1.28-3 [134 kB] Get:93 http://ftpmaster.internal/ubuntu focal/main armhf libdatrie1 armhf 0.2.12-3 [15.2 kB] Get:94 http://ftpmaster.internal/ubuntu focal/main armhf libthai0 armhf 0.1.28-3 [14.7 kB] Get:95 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libpango-1.0-0 armhf 1.44.7-1 [143 kB] Get:96 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libpangoft2-1.0-0 armhf 1.44.7-1 [28.6 kB] Get:97 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libpangocairo-1.0-0 armhf 1.44.7-1 [20.7 kB] Get:98 http://ftpmaster.internal/ubuntu focal/main armhf libtcl8.6 armhf 8.6.9+dfsg-2 [790 kB] Get:99 http://ftpmaster.internal/ubuntu focal/main armhf libjbig0 armhf 2.1-3.1build1 [23.9 kB] Get:100 http://ftpmaster.internal/ubuntu focal/main armhf libwebp6 armhf 0.6.1-2 [152 kB] Get:101 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libtiff5 armhf 4.1.0-1 [143 kB] Get:102 http://ftpmaster.internal/ubuntu focal/main armhf libxft2 armhf 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4:9.2.1-3.1ubuntu1 [1380 B] Get:113 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libblas-dev armhf 3.8.0-8 [109 kB] Get:114 http://ftpmaster.internal/ubuntu focal-proposed/main armhf liblapack-dev armhf 3.8.0-8 [1784 kB] Get:115 http://ftpmaster.internal/ubuntu focal/main armhf libncurses-dev armhf 6.1+20191019-1ubuntu1 [301 kB] Get:116 http://ftpmaster.internal/ubuntu focal/main armhf libncurses5-dev armhf 6.1+20191019-1ubuntu1 [992 B] Get:117 http://ftpmaster.internal/ubuntu focal/main armhf libreadline-dev armhf 8.0-3 [128 kB] Get:118 http://ftpmaster.internal/ubuntu focal/main armhf libjpeg-turbo8-dev armhf 2.0.3-0ubuntu1 [203 kB] Get:119 http://ftpmaster.internal/ubuntu focal/main armhf libjpeg8-dev armhf 8c-2ubuntu8 [1554 B] Get:120 http://ftpmaster.internal/ubuntu focal/main armhf libjpeg-dev armhf 8c-2ubuntu8 [1554 B] Get:121 http://ftpmaster.internal/ubuntu focal/main armhf libpcre2-16-0 armhf 10.32-5 [146 kB] Get:122 http://ftpmaster.internal/ubuntu focal/main 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http://ftpmaster.internal/ubuntu focal/universe armhf r-cran-futile.options all 1.0.1-2 [19.8 kB] Get:144 http://ftpmaster.internal/ubuntu focal/universe armhf r-cran-futile.logger all 1.4.3-3 [102 kB] Get:145 http://ftpmaster.internal/ubuntu focal/universe armhf r-cran-snow all 1:0.4.3-1 [107 kB] Get:146 http://ftpmaster.internal/ubuntu focal-proposed/universe armhf r-bioc-biocparallel armhf 1.20.0-1 [1067 kB] Get:147 http://ftpmaster.internal/ubuntu focal-proposed/universe armhf r-bioc-s4vectors armhf 0.24.0-1 [1931 kB] Get:148 http://ftpmaster.internal/ubuntu focal-proposed/universe armhf r-bioc-iranges armhf 2.20.0-1 [2198 kB] Get:149 http://ftpmaster.internal/ubuntu focal/universe armhf r-cran-lattice armhf 0.20-38-1 [1110 kB] Get:150 http://ftpmaster.internal/ubuntu focal/universe armhf r-cran-matrix armhf 1.2-17-2 [3398 kB] Get:151 http://ftpmaster.internal/ubuntu focal/universe armhf r-cran-matrixstats armhf 0.55.0-1 [600 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 83.9 MB in 17s (4876 kB/s) Selecting previously unselected package libbsd0:armhf. (Reading database ... 14415 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.10.0-1_armhf.deb ... Unpacking libbsd0:armhf (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_11.1.2ubuntu2_armhf.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../002-libuchardet0_0.0.6-3_armhf.deb ... Unpacking libuchardet0:armhf (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../003-groff-base_1.22.4-3_armhf.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../004-libpipeline1_1.5.1-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.9.0-1_armhf.deb ... Unpacking man-db (2.9.0-1) ... 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Setting up x11-common (1:7.7+19ubuntu12) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:armhf (1.39.2-1) ... Setting up libmagic1:armhf (1:5.37-6) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.37-6) ... Setting up libreadline-dev:armhf (8.0-3) ... Setting up libldap-common (2.4.48+dfsg-1ubuntu3) ... Setting up libjbig0:armhf (2.1-3.1build1) ... Setting up libpcre2-16-0:armhf (10.32-5) ... Setting up libicu63:armhf (63.2-2) ... Setting up libkrb5support0:armhf (1.17-6) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-1build3) ... Setting up zip (3.0-11build1) ... Setting up autotools-dev (20180224.1) ... Setting up libpcre2-32-0:armhf (10.32-5) ... Setting up libblas3:armhf (3.8.0-8) ... 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 libpcre2-posix0:armhf (10.32-5) ... Setting up libswitch-perl (2.17-2) ... Setting up libfreetype6:armhf (2.10.1-2) ... Setting up libx11-data (2:1.6.8-1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2build1) ... Setting up libsigsegv2:armhf (2.12-2) ... Setting up libfribidi0:armhf (1.0.7-1) ... Setting up libpcre32-3:armhf (2:8.39-12) ... Setting up libtcl8.6:armhf (8.6.9+dfsg-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up libwebp6:armhf (0.6.1-2) ... Setting up icu-devtools (63.2-2) ... Setting up pkg-config (0.29.1-0ubuntu3) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up ucf (3.0038+nmu1) ... Setting up libk5crypto3:armhf (1.17-6) ... Setting up libjpeg-turbo8:armhf (2.0.3-0ubuntu1) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-1build3) ... Setting up libgfortran5:armhf (9.2.1-18ubuntu1) ... Setting up libroken18-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up liblzma-dev:armhf (5.2.4-1) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1ubuntu3) ... Setting up libuchardet0:armhf (0.0.6-3) ... Setting up libncurses5-dev:armhf (6.1+20191019-1ubuntu1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libharfbuzz0b:armhf (2.6.4-1) ... Setting up libthai-data (0.1.28-3) ... Setting up libkrb5-3:armhf (1.17-6) ... Setting up libbsd0:armhf (0.10.0-1) ... Setting up libelf1:armhf (0.176-1.1) ... Setting up libicu-dev:armhf (63.2-2) ... Setting up libxml2:armhf (2.9.4+dfsg1-7ubuntu5) ... Setting up xdg-utils (1.1.3-1ubuntu2) ... Setting up libblas-dev:armhf (3.8.0-8) ... 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 libheimbase1-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libbz2-dev:armhf (1.0.8-2) ... Setting up libjpeg8:armhf (8c-2ubuntu8) ... Setting up libfile-stripnondeterminism-perl (1.6.2-1) ... Setting up libpaper1:armhf (1.1.28) ... Creating config file /etc/papersize with new version Setting up libice6:armhf (2:1.0.10-0ubuntu1) ... Setting up libjpeg-turbo8-dev:armhf (2.0.3-0ubuntu1) ... Setting up libxdmcp6:armhf (1:1.1.3-0ubuntu1) ... Setting up liblapack3:armhf (3.8.0-8) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libxcb1:armhf (1.13.1-2) ... Setting up libpcre2-dev:armhf (10.32-5) ... Setting up libtool (2.4.6-11) ... Setting up libxcb-render0:armhf (1.13.1-2) ... Setting up libpcre3-dev:armhf (2:8.39-12) ... Setting up fontconfig-config (2.13.1-2ubuntu2) ... Setting up libasn1-8-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libpng-dev:armhf (1.6.37-1) ... Setting up libgfortran-9-dev:armhf (9.2.1-18ubuntu1) ... Setting up m4 (1.4.18-4) ... Setting up libxcb-shm0:armhf (1.13.1-2) ... Setting up libpaper-utils (1.1.28) ... Setting up libhcrypto4-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libthai0:armhf (0.1.28-3) ... Setting up libwind0-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up liblapack-dev:armhf (3.8.0-8) ... 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 libgssapi-krb5-2:armhf (1.17-6) ... Setting up libcroco3:armhf (0.6.13-1) ... Setting up libssh-4:armhf (0.9.0-1ubuntu1) ... Setting up autoconf (2.69-11ubuntu1) ... Setting up dh-strip-nondeterminism (1.6.2-1) ... Setting up dwz (0.13-2) ... Setting up groff-base (1.22.4-3) ... Setting up libx11-6:armhf (2:1.6.8-1) ... Setting up libtiff5:armhf (4.1.0-1) ... Setting up libfontconfig1:armhf (2.13.1-2ubuntu2) ... Setting up libjpeg8-dev:armhf (8c-2ubuntu8) ... Setting up libsm6:armhf (2:1.2.3-1) ... Setting up libxmuu1:armhf (2:1.1.3-0ubuntu1) ... Setting up automake (1:1.16.1-4ubuntu3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up fontconfig (2.13.1-2ubuntu2) ... Regenerating fonts cache... done. Setting up gettext (0.19.8.1-9) ... Setting up libxrender1:armhf (1:0.9.10-1) ... Setting up gfortran-9 (9.2.1-18ubuntu1) ... Setting up libhx509-5-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libpango-1.0-0:armhf (1.44.7-1) ... Setting up libjpeg-dev:armhf (8c-2ubuntu8) ... Setting up libxext6:armhf (2:1.3.4-0ubuntu1) ... Setting up man-db (2.9.0-1) ... 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 (4:9.2.1-3.1ubuntu1) ... 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:armhf (1.16.0-4) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxt6:armhf (1:1.1.5-1) ... Setting up xauth (1:1.1-0ubuntu1) ... Setting up libxss1:armhf (1:1.2.3-1) ... Setting up libpangoft2-1.0-0:armhf (1.44.7-1) ... Setting up libpangocairo-1.0-0:armhf (1.44.7-1) ... Setting up libkrb5-26-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libxft2:armhf (2.3.3-0ubuntu1) ... Setting up po-debconf (1.0.21) ... Setting up libtk8.6:armhf (8.6.9-2) ... Setting up libheimntlm0-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libgssapi3-heimdal:armhf (7.5.0+dfsg-3build1) ... Setting up libldap-2.4-2:armhf (2.4.48+dfsg-1ubuntu3) ... Setting up libcurl4:armhf (7.65.3-1ubuntu4) ... Setting up r-base-core (3.6.1-7) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-futile.options (1.0.1-2) ... Setting up r-cran-lattice (0.20-38-1) ... Setting up r-cran-formatr (1.7-1) ... Setting up r-bioc-biocgenerics (0.32.0-1) ... Setting up r-cran-matrixstats (0.55.0-1) ... Setting up r-base-dev (3.6.1-7) ... Setting up r-cran-lambda.r (1.2.4-1) ... Setting up r-cran-snow (1:0.4.3-1) ... Setting up r-bioc-s4vectors (0.24.0-1) ... Setting up r-cran-futile.logger (1.4.3-3) ... Setting up r-cran-matrix (1.2-17-2) ... Setting up r-bioc-iranges (2.20.0-1) ... Setting up r-bioc-biocparallel (1.20.0-1) ... Setting up debhelper (12.7.1ubuntu1) ... Setting up dh-autoreconf (19) ... Setting up dh-r (20190917) ... Setting up sbuild-build-depends-r-bioc-delayedarray-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.30-0ubuntu2) ... Processing triggers for systemd (243-3ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-166-generic arm64 (armv7l) Toolchain package versions: binutils_2.33.1-1ubuntu1 dpkg-dev_1.19.7ubuntu2 g++-9_9.2.1-18ubuntu1 gcc-9_9.2.1-18ubuntu1 libc6-dev_2.30-0ubuntu2 libstdc++-9-dev_9.2.1-18ubuntu1 libstdc++6_9.2.1-18ubuntu1 linux-libc-dev_5.3.0-21.22 Package versions: adduser_3.118ubuntu1 advancecomp_2.1-2.1 apt_1.9.4 autoconf_2.69-11ubuntu1 automake_1:1.16.1-4ubuntu3 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_11ubuntu1 base-passwd_3.5.46 bash_5.0-4ubuntu1 binutils_2.33.1-1ubuntu1 binutils-arm-linux-gnueabihf_2.33.1-1ubuntu1 binutils-common_2.33.1-1ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.34-0.1ubuntu2 build-essential_12.8ubuntu1 bzip2_1.0.8-2 ca-certificates_20190110 coreutils_8.30-3ubuntu2 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ubuntu-keyring_2018.09.18.1 ucf_3.0038+nmu1 unzip_6.0-25ubuntu1 util-linux_2.34-0.1ubuntu2 x11-common_1:7.7+19ubuntu12 xauth_1:1.1-0ubuntu1 xdg-utils_1.1.3-1ubuntu2 xz-utils_5.2.4-1 zip_3.0-11build1 zlib1g_1:1.2.11.dfsg-1ubuntu3 zlib1g-dev_1:1.2.11.dfsg-1ubuntu3 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Nov 9 21:46:36 2019 UTC gpgv: using RSA key 9A3C07BD06DE2F416E813A5D612EF1613E050F54 gpgv: issuer "daissi@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./r-bioc-delayedarray_0.12.0+dfsg-1.dsc dpkg-source: info: extracting r-bioc-delayedarray in r-bioc-delayedarray-0.12.0+dfsg dpkg-source: info: unpacking r-bioc-delayedarray_0.12.0+dfsg.orig.tar.xz dpkg-source: info: unpacking r-bioc-delayedarray_0.12.0+dfsg-1.debian.tar.xz Check disc 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-18079692 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-18079692 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-18079692 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package r-bioc-delayedarray dpkg-buildpackage: info: source version 0.12.0+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf fakeroot 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 build-arch dh build-arch --buildsystem R dh_update_autotools_config -a -O--buildsystem=R dh_autoreconf -a -O--buildsystem=R dh_auto_configure -a -O--buildsystem=R dh_auto_build -a -O--buildsystem=R dh_auto_test -a -O--buildsystem=R create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch --buildsystem R dh_testroot -a -O--buildsystem=R dh_prep -a -O--buildsystem=R dh_auto_install -a -O--buildsystem=R I: R packages needed for DEP8: runit, biocgenerics, genefilter I: R Package: DelayedArray Version: 0.12.0 I: Building using R version 3.6.1-7 I: R API version: r-api-3.5 I: Using built-time from d/changelog: Sat, 09 Nov 2019 22:39:39 +0100 mkdir -p /<>/r-bioc-delayedarray-0.12.0\+dfsg/debian/r-bioc-delayedarray/usr/lib/R/site-library R CMD INSTALL -l /<>/r-bioc-delayedarray-0.12.0\+dfsg/debian/r-bioc-delayedarray/usr/lib/R/site-library --clean . "--built-timestamp='Sat, 09 Nov 2019 22:39:39 +0100'" * installing *source* package ‘DelayedArray’ ... ** using staged installation ** libs make[1]: Entering directory '/<>/r-bioc-delayedarray-0.12.0+dfsg/src' gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I"/usr/lib/R/site-library/S4Vectors/include" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-kQdXWm/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_init_DelayedArray.c -o R_init_DelayedArray.o gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I"/usr/lib/R/site-library/S4Vectors/include" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-kQdXWm/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I"/usr/lib/R/site-library/S4Vectors/include" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-kQdXWm/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c abind.c -o abind.o gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I"/usr/lib/R/site-library/S4Vectors/include" -fpic -g -O2 -fdebug-prefix-map=/build/r-base-kQdXWm/r-base-3.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c compress_atomic_vector.c -o compress_atomic_vector.o gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o DelayedArray.so R_init_DelayedArray.o S4Vectors_stubs.o abind.o compress_atomic_vector.o -L/usr/lib/R/lib -lR make[1]: Leaving directory '/<>/r-bioc-delayedarray-0.12.0+dfsg/src' make[1]: Entering directory '/<>/r-bioc-delayedarray-0.12.0+dfsg/src' make[1]: Leaving directory '/<>/r-bioc-delayedarray-0.12.0+dfsg/src' installing to /<>/r-bioc-delayedarray-0.12.0+dfsg/debian/r-bioc-delayedarray/usr/lib/R/site-library/00LOCK-r-bioc-delayedarray-0.12.0+dfsg/00new/DelayedArray/libs ** R ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘aperm’ in package ‘DelayedArray’ Creating a generic function for ‘sweep’ from package ‘base’ in package ‘DelayedArray’ Creating a new generic function for ‘apply’ in package ‘DelayedArray’ Creating a new generic function for ‘rowsum’ in package ‘DelayedArray’ Creating a generic function for ‘dnorm’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘pnorm’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘qnorm’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘dbinom’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘pbinom’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘qbinom’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘dpois’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘ppois’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘qpois’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘dlogis’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘plogis’ from package ‘stats’ in package ‘DelayedArray’ Creating a generic function for ‘qlogis’ from package ‘stats’ in package ‘DelayedArray’ Creating a new generic function for ‘rowMaxs’ in package ‘DelayedArray’ Creating a new generic function for ‘colMaxs’ in package ‘DelayedArray’ Creating a new generic function for ‘rowMins’ in package ‘DelayedArray’ Creating a new generic function for ‘colMins’ in package ‘DelayedArray’ Creating a new generic function for ‘rowRanges’ in package ‘DelayedArray’ Creating a new generic function for ‘colRanges’ in package ‘DelayedArray’ ** 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 (DelayedArray) W: Ignoring specified R dependency: R (>= 3.4) I: Using r-cran-matrixstats for Depends:matrixStats I: Using r-bioc-biocgenerics for Depends:BiocGenerics (>= 0.31.5) I: Using r-bioc-s4vectors for Depends:S4Vectors (>= 0.21.7) I: Using r-bioc-iranges for Depends:IRanges (>= 2.17.3) I: Using r-bioc-biocparallel for Depends:BiocParallel I: Using r-cran-runit for Recommends:runit I: Using r-bioc-biocgenerics for Recommends:biocgenerics I: Using r-bioc-genefilter for Recommends:genefilter W: Cannot find a debian package for Suggests:HDF5Array I: Using r-bioc-summarizedexperiment for Suggests:SummarizedExperiment W: Cannot find a debian package for Suggests:airway W: Cannot find a debian package for Suggests:pryr W: Cannot find a debian package for Suggests:DelayedMatrixStats I: Using r-cran-knitr for Suggests:knitr W: Cannot find a debian package for Suggests:BiocStyle I: Using r-cran-matrix for Imports:Matrix I: BioConductor API version: r-api-bioc-3.10 dh_installdocs -a -O--buildsystem=R dh_installchangelogs -a -O--buildsystem=R dh_installinit -a -O--buildsystem=R dh_installsystemduser -a -O--buildsystem=R dh_perl -a -O--buildsystem=R dh_link -a -O--buildsystem=R dh_strip_nondeterminism -a -O--buildsystem=R dh_compress -a -O--buildsystem=R dh_fixperms -a -O--buildsystem=R dh_missing -a -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 -a -O--buildsystem=R dh_gencontrol -a -O--buildsystem=R dh_md5sums -a -O--buildsystem=R dh_builddeb -a -O--buildsystem=R INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 pkgstriptranslations: processing r-bioc-delayedarray-dbgsym (in debian/.debhelper/r-bioc-delayedarray/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing r-bioc-delayedarray (in debian/r-bioc-delayedarray); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/r-bioc-delayedarray/DEBIAN/control, package r-bioc-delayedarray, directory debian/r-bioc-delayedarray pkgstripfiles: processing control file: debian/.debhelper/r-bioc-delayedarray/dbgsym-root/DEBIAN/control, package r-bioc-delayedarray-dbgsym, directory debian/.debhelper/r-bioc-delayedarray/dbgsym-root dpkg-deb: building package 'r-bioc-delayedarray-dbgsym' in 'debian/.debhelper/scratch-space/build-r-bioc-delayedarray/r-bioc-delayedarray-dbgsym_0.12.0+dfsg-1_armhf.deb'. pkgstripfiles: Truncating usr/share/doc/r-bioc-delayedarray/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package r-bioc-delayedarray ... pkgstripfiles: No PNG files. Renaming r-bioc-delayedarray-dbgsym_0.12.0+dfsg-1_armhf.deb to r-bioc-delayedarray-dbgsym_0.12.0+dfsg-1_armhf.ddeb dpkg-deb: building package 'r-bioc-delayedarray' in '../r-bioc-delayedarray_0.12.0+dfsg-1_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../r-bioc-delayedarray_0.12.0+dfsg-1_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20191110-0513 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ r-bioc-delayedarray_0.12.0+dfsg-1_armhf.changes: ------------------------------------------------ Format: 1.8 Date: Sat, 09 Nov 2019 22:39:39 +0100 Source: r-bioc-delayedarray Binary: r-bioc-delayedarray Architecture: armhf Version: 0.12.0+dfsg-1 Distribution: focal-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Dylan Aïssi Description: r-bioc-delayedarray - BioConductor delayed operations on array-like objects Changes: r-bioc-delayedarray (0.12.0+dfsg-1) unstable; urgency=medium . * Team upload. * New upstream version * Fixed debian/watch for BioConductor * debhelper-compat 12 * Standards-Version: 4.4.1 Checksums-Sha1: 1d9f5b0813f199cb60592f1251bffbdf37efe0a1 28424 r-bioc-delayedarray-dbgsym_0.12.0+dfsg-1_armhf.ddeb b4c28f3f744ff2a82b02229ca181e67d0bbbd705 9166 r-bioc-delayedarray_0.12.0+dfsg-1_armhf.buildinfo 1ed3f1ded13e4293e9d10291b283143b8418f0b8 1656820 r-bioc-delayedarray_0.12.0+dfsg-1_armhf.deb Checksums-Sha256: 06d201ffdfec1b7cc1c1f5f1f18f79817850bafa84c9555e2c36ccce509c24db 28424 r-bioc-delayedarray-dbgsym_0.12.0+dfsg-1_armhf.ddeb 9d267368a7e52a55aff699e56405dab53e92c8e0025a968d2bedcc6028bee8fa 9166 r-bioc-delayedarray_0.12.0+dfsg-1_armhf.buildinfo ac2656bc2ca89a7bd483a31ad0c8b9e4efb3c3c53e5ad73833324642394a77eb 1656820 r-bioc-delayedarray_0.12.0+dfsg-1_armhf.deb Files: 4f5791fa6cdcda533597d679232ecc92 28424 debug optional r-bioc-delayedarray-dbgsym_0.12.0+dfsg-1_armhf.ddeb 6fb82ddf326d32fc9b319b1c07bb90a7 9166 gnu-r optional r-bioc-delayedarray_0.12.0+dfsg-1_armhf.buildinfo 75497acf2a77500b867a003b397d1719 1656820 gnu-r optional r-bioc-delayedarray_0.12.0+dfsg-1_armhf.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ r-bioc-delayedarray_0.12.0+dfsg-1_armhf.deb ------------------------------------------- new debian package, version 2.0. size 1656820 bytes: control archive=2136 bytes. 1228 bytes, 21 lines control 3797 bytes, 41 lines md5sums Package: r-bioc-delayedarray Version: 0.12.0+dfsg-1 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian R Packages Maintainers Installed-Size: 2635 Depends: r-base-core (>= 3.6.1-7), r-api-3.5, r-api-bioc-3.10, r-cran-matrixstats, r-bioc-biocgenerics (>= 0.31.5), r-bioc-s4vectors (>= 0.21.7), r-bioc-iranges (>= 2.17.3), r-bioc-biocparallel, r-cran-matrix, libc6 (>= 2.4) Recommends: r-cran-runit, r-bioc-genefilter Suggests: r-bioc-summarizedexperiment, r-cran-knitr Section: gnu-r Priority: optional Homepage: https://bioconductor.org/packages/DelayedArray/ Description: BioConductor delayed operations on array-like objects Wrapping an array-like object (typically an on-disk object) in a DelayedArray object allows one to perform common array operations on it without loading the object in memory. In order to reduce memory usage and optimize performance, operations on the object are either delayed or executed using a block processing mechanism. 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+------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build-Space: 5616 Build-Time: 99 Distribution: focal-proposed Host Architecture: armhf Install-Time: 54 Job: r-bioc-delayedarray_0.12.0+dfsg-1.dsc Machine Architecture: arm64 Package: r-bioc-delayedarray Package-Time: 156 Source-Version: 0.12.0+dfsg-1 Space: 5616 Status: successful Version: 0.12.0+dfsg-1 -------------------------------------------------------------------------------- Finished at 20191110-0513 Build needed 00:02:36, 5616k disc space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18079692 Scanning for processes to kill in build PACKAGEBUILD-18079692