r-bioc-edger →
3.6.8+dfsg-1 →
armhf → 2014-09-24 06:35:36
sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on bm-wb-04
╔══════════════════════════════════════════════════════════════════════════════╗
║ r-bioc-edger 3.6.8+dfsg-1 (armhf) 24 Sep 2014 06:24 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: r-bioc-edger
Version: 3.6.8+dfsg-1
Source Version: 3.6.8+dfsg-1
Distribution: jessie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/r-bioc-edger-KnTiQ5/r-bioc-edger-3.6.8+dfsg' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/r-bioc-edger-KnTiQ5' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/jessie-staging-armhf-sbuild-17a94667-c1f3-47b6-b648-4003f70e6313' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
Get:1 http://172.17.0.1 jessie-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 jessie-staging/main Sources [7588 kB]
Get:3 http://172.17.0.1 jessie-staging/main armhf Packages [8714 kB]
Ign http://172.17.0.1 jessie-staging/main Translation-en
Fetched 16.3 MB in 29s (544 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
└──────────────────────────────────────────────────────────────────────────────┘
Check APT
─────────
Checking available source versions...
Download source files with APT
──────────────────────────────
Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'r-bioc-edger' packaging is maintained in the 'Git' version control system at:
git://anonscm.debian.org/debian-med/r-bioc-edger.git
Need to get 162 kB of source archives.
Get:1 http://172.17.0.1/private/ jessie-staging/main r-bioc-edger 3.6.8+dfsg-1 (dsc) [2082 B]
Get:2 http://172.17.0.1/private/ jessie-staging/main r-bioc-edger 3.6.8+dfsg-1 (tar) [155 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main r-bioc-edger 3.6.8+dfsg-1 (diff) [4688 B]
Fetched 162 kB in 0s (543 kB/s)
Download complete and in download only mode
Check arch
──────────
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-sQx_HL/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
init-system-helpers
Use 'apt-get autoremove' to remove it.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 1 newly installed, 0 to remove and 63 not upgraded.
Need to get 0 B/816 B of archives.
After this operation, 0 B of additional disk space will be used.
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 11236 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), cdbs, r-base-dev, r-bioc-limma (>= 3.20)
Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), cdbs, r-base-dev, r-bioc-limma (>= 3.20)
dpkg-deb: building package `sbuild-build-depends-r-bioc-edger-dummy' in `/«BUILDDIR»/resolver-fCFYBO/apt_archive/sbuild-build-depends-r-bioc-edger-dummy.deb'.
OK
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install r-bioc-edger build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
init-system-helpers
Use 'apt-get autoremove' to remove it.
The following extra packages will be installed:
bsdmainutils cdbs cpp-4.9 debhelper file fontconfig fontconfig-config
fonts-dejavu-core g++-4.9 gcc-4.9 gcc-4.9-base gettext gettext-base gfortran
gfortran-4.9 groff-base intltool-debian libasan1 libasprintf0c2 libatomic1
libblas-dev libblas3 libbz2-dev libcairo2 libcroco3 libdatrie1 libexpat1
libffi6 libfontconfig1 libfreetype6 libgcc-4.9-dev libgcc1
libgfortran-4.9-dev libgfortran3 libglib2.0-0 libgomp1 libgraphite2-3
libharfbuzz0b libice6 libjbig0 libjpeg8 libjpeg8-dev liblapack-dev
liblapack3 liblzma-dev libmagic1 libncurses5-dev libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre3-dev
libpcrecpp0 libpipeline1 libpixman-1-0 libpng12-dev libreadline-dev
libreadline6-dev libsm6 libstdc++-4.9-dev libstdc++6 libtcl8.5 libthai-data
libthai0 libtiff5 libtinfo-dev libtk8.5 libubsan0 libunistring0 libx11-6
libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6
libxft2 libxml2 libxrender1 libxss1 libxt6 man-db po-debconf r-base-core
r-base-dev r-bioc-limma r-cran-statmod ucf unzip x11-common xdg-utils zip
zlib1g-dev
Suggested packages:
wamerican wordlist whois vacation devscripts gcc-4.9-locales dh-make
gcc-4.9-doc libstdc++6-4.9-dbg libgcc1-dbg libgomp1-dbg libitm1-dbg
libatomic1-dbg libasan1-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg
libvtv0-dbg libcilkrts5-dbg libquadmath-dbg gettext-doc gfortran-doc
gfortran-4.9-doc libgfortran3-dbg groff liblzma-doc ncurses-doc readline-doc
libstdc++-4.9-doc tcl8.5 tk8.5 less www-browser libmail-box-perl r-doc-info
r-doc-pdf r-mathlib r-base-html texlive-base texlive-latex-base
texlive-generic-recommended texlive-fonts-recommended texlive-fonts-extra
texlive-extra-utils texlive-latex-recommended texlive-latex-extra texinfo
gvfs-bin
Recommended packages:
autotools-dev curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
bzip2-doc libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl
r-recommended r-doc-html libfile-mimeinfo-perl libnet-dbus-perl
libx11-protocol-perl x11-utils x11-xserver-utils
The following NEW packages will be installed:
bsdmainutils cdbs debhelper file fontconfig fontconfig-config
fonts-dejavu-core gettext gettext-base gfortran gfortran-4.9 groff-base
intltool-debian libasprintf0c2 libblas-dev libblas3 libbz2-dev libcairo2
libcroco3 libdatrie1 libexpat1 libffi6 libfontconfig1 libfreetype6
libgfortran-4.9-dev libgfortran3 libglib2.0-0 libgraphite2-3 libharfbuzz0b
libice6 libjbig0 libjpeg8 libjpeg8-dev liblapack-dev liblapack3 liblzma-dev
libmagic1 libncurses5-dev libpango-1.0-0 libpangocairo-1.0-0
libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre3-dev libpcrecpp0
libpipeline1 libpixman-1-0 libpng12-dev libreadline-dev libreadline6-dev
libsm6 libtcl8.5 libthai-data libthai0 libtiff5 libtinfo-dev libtk8.5
libunistring0 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0
libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxss1 libxt6 man-db
po-debconf r-base-core r-base-dev r-bioc-limma r-cran-statmod
sbuild-build-depends-r-bioc-edger-dummy ucf unzip x11-common xdg-utils zip
zlib1g-dev
The following packages will be upgraded:
cpp-4.9 g++-4.9 gcc-4.9 gcc-4.9-base libasan1 libatomic1 libgcc-4.9-dev
libgcc1 libgomp1 libstdc++-4.9-dev libstdc++6 libubsan0
12 upgraded, 84 newly installed, 0 to remove and 51 not upgraded.
Need to get 71.1 MB/71.1 MB of archives.
After this operation, 116 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ jessie-staging/main libgomp1 armhf 4.9.1-14 [34.7 kB]
Get:2 http://172.17.0.1/private/ jessie-staging/main gcc-4.9-base armhf 4.9.1-14 [158 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main libstdc++6 armhf 4.9.1-14 [234 kB]
Get:4 http://172.17.0.1/private/ jessie-staging/main libasan1 armhf 4.9.1-14 [165 kB]
Get:5 http://172.17.0.1/private/ jessie-staging/main libubsan0 armhf 4.9.1-14 [68.2 kB]
Get:6 http://172.17.0.1/private/ jessie-staging/main libatomic1 armhf 4.9.1-14 [6792 B]
Get:7 http://172.17.0.1/private/ jessie-staging/main libgcc-4.9-dev armhf 4.9.1-14 [351 kB]
Get:8 http://172.17.0.1/private/ jessie-staging/main cpp-4.9 armhf 4.9.1-14 [4261 kB]
Get:9 http://172.17.0.1/private/ jessie-staging/main gcc-4.9 armhf 4.9.1-14 [4432 kB]
Get:10 http://172.17.0.1/private/ jessie-staging/main g++-4.9 armhf 4.9.1-14 [11.8 MB]
Get:11 http://172.17.0.1/private/ jessie-staging/main libstdc++-4.9-dev armhf 4.9.1-14 [1123 kB]
Get:12 http://172.17.0.1/private/ jessie-staging/main libgcc1 armhf 1:4.9.1-14 [39.5 kB]
Get:13 http://172.17.0.1/private/ jessie-staging/main libpipeline1 armhf 1.3.0-1 [21.1 kB]
Get:14 http://172.17.0.1/private/ jessie-staging/main groff-base armhf 1.22.2-8 [1045 kB]
Get:15 http://172.17.0.1/private/ jessie-staging/main bsdmainutils armhf 9.0.5 [206 kB]
Get:16 http://172.17.0.1/private/ jessie-staging/main man-db armhf 2.6.7.1-1 [964 kB]
Get:17 http://172.17.0.1/private/ jessie-staging/main libasprintf0c2 armhf 0.19.2-2 [30.6 kB]
Get:18 http://172.17.0.1/private/ jessie-staging/main libmagic1 armhf 1:5.19-2 [232 kB]
Get:19 http://172.17.0.1/private/ jessie-staging/main libxml2 armhf 2.9.1+dfsg1-4 [698 kB]
Get:20 http://172.17.0.1/private/ jessie-staging/main libexpat1 armhf 2.1.0-6 [60.2 kB]
Get:21 http://172.17.0.1/private/ jessie-staging/main libfreetype6 armhf 2.5.2-1.1 [398 kB]
Get:22 http://172.17.0.1/private/ jessie-staging/main ucf all 3.0030 [69.7 kB]
Get:23 http://172.17.0.1/private/ jessie-staging/main fonts-dejavu-core all 2.34-1 [1047 kB]
Get:24 http://172.17.0.1/private/ jessie-staging/main fontconfig-config all 2.11.0-6.1 [275 kB]
Get:25 http://172.17.0.1/private/ jessie-staging/main libfontconfig1 armhf 2.11.0-6.1 [310 kB]
Get:26 http://172.17.0.1/private/ jessie-staging/main libpixman-1-0 armhf 0.32.6-3 [422 kB]
Get:27 http://172.17.0.1/private/ jessie-staging/main libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:28 http://172.17.0.1/private/ jessie-staging/main libxdmcp6 armhf 1:1.1.1-1 [24.6 kB]
Get:29 http://172.17.0.1/private/ jessie-staging/main libxcb1 armhf 1.10-3 [38.1 kB]
Get:30 http://172.17.0.1/private/ jessie-staging/main libx11-data all 2:1.6.2-3 [126 kB]
Get:31 http://172.17.0.1/private/ jessie-staging/main libx11-6 armhf 2:1.6.2-3 [656 kB]
Get:32 http://172.17.0.1/private/ jessie-staging/main libxcb-render0 armhf 1.10-3 [16.0 kB]
Get:33 http://172.17.0.1/private/ jessie-staging/main libxcb-shm0 armhf 1.10-3 [11.0 kB]
Get:34 http://172.17.0.1/private/ jessie-staging/main libxext6 armhf 2:1.3.2-1 [51.1 kB]
Get:35 http://172.17.0.1/private/ jessie-staging/main libxrender1 armhf 1:0.9.8-1 [30.4 kB]
Get:36 http://172.17.0.1/private/ jessie-staging/main libcairo2 armhf 1.12.16-5 [873 kB]
Get:37 http://172.17.0.1/private/ jessie-staging/main libffi6 armhf 3.1-2 [18.1 kB]
Get:38 http://172.17.0.1/private/ jessie-staging/main libglib2.0-0 armhf 2.40.0-5 [2252 kB]
Get:39 http://172.17.0.1/private/ jessie-staging/main libcroco3 armhf 0.6.8-3 [121 kB]
Get:40 http://172.17.0.1/private/ jessie-staging/main libdatrie1 armhf 0.2.8-1 [29.1 kB]
Get:41 http://172.17.0.1/private/ jessie-staging/main libgfortran3 armhf 4.9.1-14 [154 kB]
Get:42 http://172.17.0.1/private/ jessie-staging/main libgraphite2-3 armhf 1.2.4-3 [48.2 kB]
Get:43 http://172.17.0.1/private/ jessie-staging/main libharfbuzz0b armhf 0.9.35-1 [461 kB]
Get:44 http://172.17.0.1/private/ jessie-staging/main x11-common all 1:7.7+7 [287 kB]
Get:45 http://172.17.0.1/private/ jessie-staging/main libice6 armhf 2:1.0.9-1 [51.2 kB]
Get:46 http://172.17.0.1/private/ jessie-staging/main libjbig0 armhf 2.1-3 [27.3 kB]
Get:47 http://172.17.0.1/private/ jessie-staging/main libjpeg8 armhf 8d1-1 [108 kB]
Get:48 http://172.17.0.1/private/ jessie-staging/main fontconfig armhf 2.11.0-6.1 [401 kB]
Get:49 http://172.17.0.1/private/ jessie-staging/main libthai-data all 0.1.21-1 [159 kB]
Get:50 http://172.17.0.1/private/ jessie-staging/main libthai0 armhf 0.1.21-1 [43.4 kB]
Get:51 http://172.17.0.1/private/ jessie-staging/main libpango-1.0-0 armhf 1.36.7-1 [271 kB]
Get:52 http://172.17.0.1/private/ jessie-staging/main libpangoft2-1.0-0 armhf 1.36.7-1 [206 kB]
Get:53 http://172.17.0.1/private/ jessie-staging/main libpangocairo-1.0-0 armhf 1.36.7-1 [196 kB]
Get:54 http://172.17.0.1/private/ jessie-staging/main libpaper1 armhf 1.1.24+nmu3 [20.7 kB]
Get:55 http://172.17.0.1/private/ jessie-staging/main libpcrecpp0 armhf 1:8.35-3 [138 kB]
Get:56 http://172.17.0.1/private/ jessie-staging/main libsm6 armhf 2:1.2.2-1 [31.2 kB]
Get:57 http://172.17.0.1/private/ jessie-staging/main libtcl8.5 armhf 8.5.16-1 [647 kB]
Get:58 http://172.17.0.1/private/ jessie-staging/main libtiff5 armhf 4.0.3-10 [191 kB]
Get:59 http://172.17.0.1/private/ jessie-staging/main libxft2 armhf 2.3.2-1 [48.3 kB]
Get:60 http://172.17.0.1/private/ jessie-staging/main libxss1 armhf 1:1.2.2-1 [16.8 kB]
Get:61 http://172.17.0.1/private/ jessie-staging/main libtk8.5 armhf 8.5.16-1 [644 kB]
Get:62 http://172.17.0.1/private/ jessie-staging/main libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:63 http://172.17.0.1/private/ jessie-staging/main libxt6 armhf 1:1.1.4-1 [183 kB]
Get:64 http://172.17.0.1/private/ jessie-staging/main file armhf 1:5.19-2 [57.8 kB]
Get:65 http://172.17.0.1/private/ jessie-staging/main gettext-base armhf 0.19.2-2 [116 kB]
Get:66 http://172.17.0.1/private/ jessie-staging/main cdbs all 0.4.126 [75.5 kB]
Get:67 http://172.17.0.1/private/ jessie-staging/main gettext armhf 0.19.2-2 [1161 kB]
Get:68 http://172.17.0.1/private/ jessie-staging/main intltool-debian all 0.35.0+20060710.1 [29.8 kB]
Get:69 http://172.17.0.1/private/ jessie-staging/main po-debconf all 1.0.16+nmu3 [220 kB]
Get:70 http://172.17.0.1/private/ jessie-staging/main debhelper all 9.20140817 [814 kB]
Get:71 http://172.17.0.1/private/ jessie-staging/main libgfortran-4.9-dev armhf 4.9.1-14 [181 kB]
Get:72 http://172.17.0.1/private/ jessie-staging/main gfortran-4.9 armhf 4.9.1-14 [4517 kB]
Get:73 http://172.17.0.1/private/ jessie-staging/main gfortran armhf 4:4.9.1-1 [1288 B]
Get:74 http://172.17.0.1/private/ jessie-staging/main libblas3 armhf 1.2.20110419-7 [186 kB]
Get:75 http://172.17.0.1/private/ jessie-staging/main libblas-dev armhf 1.2.20110419-7 [201 kB]
Get:76 http://172.17.0.1/private/ jessie-staging/main libbz2-dev armhf 1.0.6-7 [27.5 kB]
Get:77 http://172.17.0.1/private/ jessie-staging/main libjpeg8-dev armhf 8d1-1 [205 kB]
Get:78 http://172.17.0.1/private/ jessie-staging/main liblapack3 armhf 3.5.0-3 [1277 kB]
Get:79 http://172.17.0.1/private/ jessie-staging/main liblapack-dev armhf 3.5.0-3 [1325 kB]
Get:80 http://172.17.0.1/private/ jessie-staging/main liblzma-dev armhf 5.1.1alpha+20120614-2 [272 kB]
Get:81 http://172.17.0.1/private/ jessie-staging/main libtinfo-dev armhf 5.9+20140712-2 [65.4 kB]
Get:82 http://172.17.0.1/private/ jessie-staging/main libncurses5-dev armhf 5.9+20140712-2 [153 kB]
Get:83 http://172.17.0.1/private/ jessie-staging/main libpaper-utils armhf 1.1.24+nmu3 [17.0 kB]
Get:84 http://172.17.0.1/private/ jessie-staging/main libpcre3-dev armhf 1:8.35-3 [407 kB]
Get:85 http://172.17.0.1/private/ jessie-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-1+rpi1 [192 kB]
Get:86 http://172.17.0.1/private/ jessie-staging/main libpng12-dev armhf 1.2.50-2 [236 kB]
Get:87 http://172.17.0.1/private/ jessie-staging/main libreadline6-dev armhf 6.3-8 [105 kB]
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Get:89 http://172.17.0.1/private/ jessie-staging/main zip armhf 3.0-8 [326 kB]
Get:90 http://172.17.0.1/private/ jessie-staging/main unzip armhf 6.0-12 [152 kB]
Get:91 http://172.17.0.1/private/ jessie-staging/main xdg-utils all 1.1.0~rc1+git20111210-7.1 [64.6 kB]
Get:92 http://172.17.0.1/private/ jessie-staging/main r-base-core armhf 3.1.1-1 [19.5 MB]
Get:93 http://172.17.0.1/private/ jessie-staging/main r-base-dev all 3.1.1-1 [4018 B]
Get:94 http://172.17.0.1/private/ jessie-staging/main r-cran-statmod armhf 1.4.20-1 [142 kB]
Get:95 http://172.17.0.1/private/ jessie-staging/main r-bioc-limma armhf 3.20.9+dfsg-1 [1783 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up libgomp1:armhf (4.9.1-14) ...
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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
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Not building database; man-db/auto-update is not 'true'.
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Setting up libfreetype6:armhf (2.5.2-1.1) ...
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Setting up libcairo2:armhf (1.12.16-5) ...
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No schema files found: doing nothing.
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Setting up x11-common (1:7.7+7) ...
update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults
All runlevel operations denied by policy
invoke-rc.d: policy-rc.d denied execution of start.
Setting up libice6:armhf (2:1.0.9-1) ...
Setting up libjbig0:armhf (2.1-3) ...
Setting up libjpeg8:armhf (8d1-1) ...
Setting up fontconfig (2.11.0-6.1) ...
Regenerating fonts cache... done.
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Setting up libpango-1.0-0:armhf (1.36.7-1) ...
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Setting up libpangocairo-1.0-0:armhf (1.36.7-1) ...
Setting up libpaper1:armhf (1.1.24+nmu3) ...
Creating config file /etc/papersize with new version
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Setting up libsm6:armhf (2:1.2.2-1) ...
Setting up libtcl8.5:armhf (8.5.16-1) ...
Setting up libtiff5:armhf (4.0.3-10) ...
Setting up libxft2:armhf (2.3.2-1) ...
Setting up libxss1:armhf (1:1.2.2-1) ...
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Setting up libunistring0:armhf (0.9.3-5.2) ...
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Setting up gfortran (4:4.9.1-1) ...
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 libblas3 (1.2.20110419-7) ...
update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
Setting up libblas-dev (1.2.20110419-7) ...
update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
Setting up libbz2-dev:armhf (1.0.6-7) ...
Setting up libjpeg8-dev:armhf (8d1-1) ...
Setting up liblapack3 (3.5.0-3) ...
update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up liblapack-dev (3.5.0-3) ...
update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up liblzma-dev:armhf (5.1.1alpha+20120614-2) ...
Setting up libtinfo-dev:armhf (5.9+20140712-2) ...
Setting up libncurses5-dev:armhf (5.9+20140712-2) ...
Setting up libpaper-utils (1.1.24+nmu3) ...
Setting up libpcre3-dev:armhf (1:8.35-3) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-1+rpi1) ...
Setting up libpng12-dev:armhf (1.2.50-2) ...
Setting up libreadline6-dev:armhf (6.3-8) ...
Setting up libreadline-dev:armhf (6.3-8) ...
Setting up zip (3.0-8) ...
Setting up unzip (6.0-12) ...
Setting up xdg-utils (1.1.0~rc1+git20111210-7.1) ...
Setting up r-base-core (3.1.1-1) ...
Creating config file /etc/R/Renviron with new version
Setting up r-base-dev (3.1.1-1) ...
Setting up r-cran-statmod (1.4.20-1) ...
Setting up r-bioc-limma (3.20.9+dfsg-1) ...
Setting up sbuild-build-depends-r-bioc-edger-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.19-7) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.16-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.24.51.20140727-1 dpkg-dev_1.17.10 g++-4.9_4.9.1-14 gcc-4.8_4.8.3-7 gcc-4.9_4.9.1-14 libc6-dev_2.19-7 libstdc++-4.9-dev_4.9.1-14 libstdc++6_4.9.1-14 linux-libc-dev_3.14.4-1+rpi1
Package versions: apt_1.0.6 base-files_7.5+rpi1 base-passwd_3.5.33 bash_4.3-8 binutils_2.24.51.20140727-1 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.8 build-essential_11.6 bzip2_1.0.6-7 cdbs_0.4.126 coreutils_8.21-1.2 cpio_2.11+dfsg-2 cpp_4:4.9.1-1 cpp-4.8_4.8.3-7 cpp-4.9_4.9.1-14 dash_0.5.7-4 debconf_1.5.53 debfoster_2.7-2 debhelper_9.20140817 debianutils_4.4 diffutils_1:3.3-1 dpkg_1.17.10 dpkg-dev_1.17.10 e2fslibs_1.42.11-2 e2fsprogs_1.42.11-2 fakeroot_1.20.1-1.1 file_1:5.19-2 findutils_4.4.2-9 fontconfig_2.11.0-6.1 fontconfig-config_2.11.0-6.1 fonts-dejavu-core_2.34-1 g++_4:4.9.1-1 g++-4.9_4.9.1-14 gcc_4:4.9.1-1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8_4.8.3-7 gcc-4.8-base_4.8.3-7 gcc-4.9_4.9.1-14 gcc-4.9-base_4.9.1-14 gettext_0.19.2-2 gettext-base_0.19.2-2 gfortran_4:4.9.1-1 gfortran-4.9_4.9.1-14 gnupg_1.4.18-2 gpgv_1.4.18-2 grep_2.20-2 groff-base_1.22.2-8 gzip_1.6-3 hostname_3.15 init_1.21 init-system-helpers_1.21 initramfs-tools_0.115 initscripts_2.88dsf-53.3 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 klibc-utils_2.0.3-1+rpi1 kmod_18-1 libacl1_2.2.52-1 libapt-pkg4.12_1.0.6 libasan0_4.8.3-7 libasan1_4.9.1-14 libasprintf0c2_0.19.2-2 libatomic1_4.9.1-14 libattr1_1:2.4.47-1 libaudit-common_1:2.3.7-1 libaudit1_1:2.3.7-1 libblas-dev_1.2.20110419-7 libblas3_1.2.20110419-7 libblkid1_2.20.1-5.8 libbz2-1.0_1.0.6-7 libbz2-dev_1.0.6-7 libc-bin_2.19-7 libc-dev-bin_2.19-7 libc6_2.19-7 libc6-dev_2.19-7 libcairo2_1.12.16-5 libcap2_1:2.24-4 libcgi-pm-perl_3.65-1 libcloog-isl4_0.18.2-1 libcomerr2_1.42.11-2 libcroco3_0.6.8-3 libdatrie1_0.2.8-1 libdb5.1_5.1.29-6 libdb5.3_5.3.28-6 libdbus-1-3_1.8.6-2 libdebconfclient0_0.191 libdpkg-perl_1.17.10 libdrm2_2.4.56-1 libexpat1_2.1.0-6 libfakeroot_1.20.1-1.1 libffi6_3.1-2 libfontconfig1_2.11.0-6.1 libfreetype6_2.5.2-1.1 libgc1c2_1:7.2d-6.3 libgcc-4.8-dev_4.8.3-7 libgcc-4.9-dev_4.9.1-14 libgcc1_1:4.9.1-14 libgdbm3_1.8.3-13 libgfortran-4.9-dev_4.9.1-14 libgfortran3_4.9.1-14 libglib2.0-0_2.40.0-5 libgmp10_2:6.0.0+dfsg-4+rpi1 libgomp1_4.9.1-14 libgraphite2-3_1.2.4-3 libharfbuzz0b_0.9.35-1 libice6_2:1.0.9-1 libisl10_0.12.2-2 libjbig0_2.1-3 libjpeg8_8d1-1 libjpeg8-dev_8d1-1 libklibc_2.0.3-1+rpi1 libkmod2_18-1 liblapack-dev_3.5.0-3 liblapack3_3.5.0-3 liblzma-dev_5.1.1alpha+20120614-2 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.19-2 libmodule-build-perl_0.420800-1 libmodule-signature-perl_0.73-1 libmount1_2.20.1-5.8 libmpc3_1.0.2-1 libmpfr4_3.1.2-1 libncurses5_5.9+20140712-2 libncurses5-dev_5.9+20140712-2 libncursesw5_5.9+20140712-2 libpackage-constants-perl_0.04-1 libpam-modules_1.1.8-3.1 libpam-modules-bin_1.1.8-3.1 libpam-runtime_1.1.8-3.1 libpam0g_1.1.8-3.1 libpango-1.0-0_1.36.7-1 libpangocairo-1.0-0_1.36.7-1 libpangoft2-1.0-0_1.36.7-1 libpaper-utils_1.1.24+nmu3 libpaper1_1.1.24+nmu3 libpcre3_1:8.35-3 libpcre3-dev_1:8.35-3 libpcrecpp0_1:8.35-3 libpipeline1_1.3.0-1 libpixman-1-0_0.32.6-3 libpng12-0_1.2.50-2 libpng12-dev_1.2.50-2 libpod-readme-perl_0.11-1 libprocps0_1:3.3.4-2 libprocps3_1:3.3.9-7 libreadline-dev_6.3-8 libreadline6_6.3-8 libreadline6-dev_6.3-8 libregexp-common-perl_2013031301-1 libselinux1_2.3-1 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-1 libslang2_2.2.4-17 libsm6_2:1.2.2-1 libss2_1.42.11-2 libstdc++-4.9-dev_4.9.1-14 libstdc++6_4.9.1-14 libtcl8.5_8.5.16-1 libthai-data_0.1.21-1 libthai0_0.1.21-1 libtiff5_4.0.3-10 libtimedate-perl_2.3000-2 libtinfo-dev_5.9+20140712-2 libtinfo5_5.9+20140712-2 libtk8.5_8.5.16-1 libubsan0_4.9.1-14 libudev1_208-6 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-24 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.8 libx11-6_2:1.6.2-3 libx11-data_2:1.6.2-3 libxau6_1:1.0.8-1 libxcb-render0_1.10-3 libxcb-shm0_1.10-3 libxcb1_1.10-3 libxdmcp6_1:1.1.1-1 libxext6_2:1.3.2-1 libxft2_2.3.2-1 libxml2_2.9.1+dfsg1-4 libxrender1_1:0.9.8-1 libxss1_1:1.2.2-1 libxt6_1:1.1.4-1 linux-libc-dev_3.14.4-1+rpi1 login_1:4.2-2 lsb-base_4.1+Debian13+rpi1 make_4.0-8 makedev_2.3.1-93 man-db_2.6.7.1-1 mawk_1.3.3-17 mount_2.20.1-5.8 multiarch-support_2.19-7 nano_2.2.6-3 ncurses-base_5.9+20140712-2 ncurses-bin_5.9+20140712-2 passwd_1:4.2-2 patch_2.7.1-6 perl_5.20.0-4 perl-base_5.20.0-4 perl-modules_5.20.0-4 plymouth_0.9.0-6 po-debconf_1.0.16+nmu3 procps_1:3.3.9-7 r-base-core_3.1.1-1 r-base-dev_3.1.1-1 r-bioc-limma_3.20.9+dfsg-1 r-cran-statmod_1.4.20-1 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-edger-dummy_0.invalid.0 sed_4.2.2-4 sensible-utils_0.0.9 startpar_0.59-3 sysv-rc_2.88dsf-53.3 sysvinit_2.88dsf-53.3 sysvinit-core_2.88dsf-53.3 sysvinit-utils_2.88dsf-53.3 tar_1.27.1-2 tzdata_2014f-1 ucf_3.0030 udev_208-6 unzip_6.0-12 util-linux_2.20.1-5.8 x11-common_1:7.7+7 xdg-utils_1.1.0~rc1+git20111210-7.1 xz-utils_5.1.1alpha+20120614-2 zip_3.0-8 zlib1g_1:1.2.8.dfsg-1+rpi1 zlib1g-dev_1:1.2.8.dfsg-1+rpi1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Thu Sep 18 13:54:09 2014 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./r-bioc-edger_3.6.8+dfsg-1.dsc
dpkg-source: info: extracting r-bioc-edger in r-bioc-edger-3.6.8+dfsg
dpkg-source: info: unpacking r-bioc-edger_3.6.8+dfsg.orig.tar.xz
dpkg-source: info: unpacking r-bioc-edger_3.6.8+dfsg-1.debian.tar.xz
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
APT_CONFIG=/var/lib/sbuild/apt.conf
COLUMNS=80
CONSOLE=/dev/console
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
INIT_VERSION=sysvinit-2.88
LC_ALL=POSIX
LINES=24
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PREVLEVEL=N
PWD=/
RUNLEVEL=2
SCHROOT_ALIAS_NAME=jessie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=jessie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=jessie-staging-armhf-sbuild-17a94667-c1f3-47b6-b648-4003f70e6313
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
init=/sbin/init
previous=N
rootmnt=/root
runlevel=2
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package r-bioc-edger
dpkg-buildpackage: source version 3.6.8+dfsg-1
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build r-bioc-edger-3.6.8+dfsg
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
test -x debian/rules
dh_clean
rm -f debian/r-bioc-edger.substvars
rm -f debian/r-bioc-edger.*.debhelper
rm -rf debian/r-bioc-edger/
rm -f debian/*.debhelper.log
rm -f debian/files
find . \( \( -type f -a \
\( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
-o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
-o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
-o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
\) -exec rm -f {} + \) -o \
\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
rm -f *-stamp
if test -d src; then \
find src -regex ".*\.o" | \
xargs --no-run-if-empty -r rm; \
fi
rm -f config.log config.status
debian/rules build-arch
test -x debian/rules
mkdir -p "."
fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
rm -f debian/r-bioc-edger.substvars
rm -f debian/r-bioc-edger.*.debhelper
rm -rf debian/r-bioc-edger/
dh_installdirs -A
install -d debian/r-bioc-edger
mkdir -p "."
dh_installdirs usr/lib/R/site-library
install -d debian/r-bioc-edger/usr/lib/R/site-library
echo "R:Depends=r-base-core (>= 3.1.1-1)" >> debian/r-bioc-edger.substvars
if test -f /usr/bin/xvfb-run; then \
xvfb-run -a \
R CMD INSTALL -l /«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/lib/R/site-library --clean \
. ; \
else \
R CMD INSTALL -l /«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/lib/R/site-library \
--clean . ;\
fi
* installing *source* package 'edgeR' ...
** libs
make[1]: Entering directory '/«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/src'
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_compute_nbdev.cpp -o R_compute_nbdev.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_cr_adjust.cpp -o R_cr_adjust.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_exact_test_by_deviance.cpp -o R_exact_test_by_deviance.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_levenberg.cpp -o R_levenberg.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_loess_by_col.cpp -o R_loess_by_col.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_maximize_interpolant.cpp -o R_maximize_interpolant.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_one_group.cpp -o R_one_group.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_process_hairpin_reads.c -o R_process_hairpin_reads.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c R_simple_good_turing.cpp -o R_simple_good_turing.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c adj_coxreid.cpp -o adj_coxreid.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c fmm_spline.c -o fmm_spline.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c glm_levenberg.cpp -o glm_levenberg.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c glm_one_group.cpp -o glm_one_group.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c interpolator.cpp -o interpolator.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c matvec_check.cpp -o matvec_check.o
g++ -I/usr/share/R/include -DNDEBUG -fpic -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c nbdev.cpp -o nbdev.o
g++ -shared -Wl,-z,relro -o edgeR.so R_compute_nbdev.o R_cr_adjust.o R_exact_test_by_deviance.o R_levenberg.o R_loess_by_col.o R_maximize_interpolant.o R_one_group.o R_process_hairpin_reads.o R_simple_good_turing.o adj_coxreid.o fmm_spline.o glm_levenberg.o glm_one_group.o interpolator.o matvec_check.o nbdev.o -llapack -lblas -lgfortran -lm -L/usr/lib/R/lib -lR
make[1]: Leaving directory '/«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/src'
make[1]: Entering directory '/«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/src'
make[1]: Leaving directory '/«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/src'
installing to /«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (edgeR)
rm -vf /«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/lib/R/site-library/R.css \
/«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/lib/R/site-library/edgeR/COPYING \
/«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/lib/R/site-library/edgeR/LICENSE.txt
if test -f debian/overrides; then \
install -d /«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/share/lintian/overrides ; \
install -m 0644 debian/overrides \
/«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/share/lintian/overrides/r-bioc-edger; \
fi
Adding cdbs dependencies to debian/r-bioc-edger.substvars
dh_installdirs -pr-bioc-edger
chmod 644 debian/r-bioc-edger/usr/lib/R/site-library/edgeR/doc/*
dh_installdocs -pr-bioc-edger
install -g 0 -o 0 -d debian/r-bioc-edger/usr/share/doc/r-bioc-edger
cd 'tests/..' && find 'tests' \( -type f -or -type l \) -and ! -empty -print0 | xargs -0 -I {} cp --parents -dp {} /«BUILDDIR»/r-bioc-edger-3.6.8+dfsg/debian/r-bioc-edger/usr/share/doc/r-bioc-edger
cp -a debian/README.test debian/r-bioc-edger/usr/share/doc/r-bioc-edger
cp -a debian/tests/run-unit-test debian/r-bioc-edger/usr/share/doc/r-bioc-edger
chown -R 0:0 debian/r-bioc-edger/usr/share/doc
chmod -R go=rX debian/r-bioc-edger/usr/share/doc
chmod -R u\+rw debian/r-bioc-edger/usr/share/doc
install -g 0 -o 0 -m 644 -p debian/README.Debian debian/r-bioc-edger/usr/share/doc/r-bioc-edger/README.Debian
install -g 0 -o 0 -m 644 -p debian/copyright debian/r-bioc-edger/usr/share/doc/r-bioc-edger/copyright
dh_installexamples -pr-bioc-edger
dh_installman -pr-bioc-edger
dh_installinfo -pr-bioc-edger
dh_installmenu -pr-bioc-edger
dh_installcron -pr-bioc-edger
dh_installinit -pr-bioc-edger
dh_installdebconf -pr-bioc-edger
install -o 0 -g 0 -d debian/r-bioc-edger/DEBIAN
dh_installemacsen -pr-bioc-edger
dh_installcatalogs -pr-bioc-edger
grep -s -v '^misc:Depends=' debian/r-bioc-edger.substvars > debian/r-bioc-edger.substvars.new || true
mv debian/r-bioc-edger.substvars.new debian/r-bioc-edger.substvars
dh_installpam -pr-bioc-edger
dh_installlogrotate -pr-bioc-edger
dh_installlogcheck -pr-bioc-edger
dh_installchangelogs -pr-bioc-edger
install -o 0 -g 0 -p -m644 debian/changelog debian/r-bioc-edger/usr/share/doc/r-bioc-edger/changelog.Debian
dh_installudev -pr-bioc-edger
dh_lintian -pr-bioc-edger
dh_bugfiles -pr-bioc-edger
dh_install -pr-bioc-edger
dh_link -pr-bioc-edger
dh_installmime -pr-bioc-edger
dh_installgsettings -pr-bioc-edger
dh_strip -pr-bioc-edger
strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs/edgeR.so
dh_compress -pr-bioc-edger
cd debian/r-bioc-edger
chmod a-x usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save usr/share/doc/r-bioc-edger/changelog.Debian
gzip -9nf usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save usr/share/doc/r-bioc-edger/changelog.Debian
cd '/«BUILDDIR»/r-bioc-edger-3.6.8+dfsg'
dh_fixperms -pr-bioc-edger
find debian/r-bioc-edger -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
find debian/r-bioc-edger ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
find debian/r-bioc-edger/usr/share/doc -type f ! -regex 'debian/r-bioc-edger/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 644
find debian/r-bioc-edger/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 755
find debian/r-bioc-edger/usr/share/man debian/r-bioc-edger/usr/man/ debian/r-bioc-edger/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 644
find debian/r-bioc-edger -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 644
find debian/r-bioc-edger/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 644
find debian/r-bioc-edger/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 644
find debian/r-bioc-edger -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 644
find debian/r-bioc-edger/usr/lib/arm-linux-gnueabihf/perl5/5.20 debian/r-bioc-edger/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X
find debian/r-bioc-edger/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w
dh_makeshlibs -pr-bioc-edger
rm -f debian/r-bioc-edger/DEBIAN/shlibs
dh_installdeb -pr-bioc-edger
dh_perl -pr-bioc-edger
dh_shlibdeps -pr-bioc-edger
dpkg-shlibdeps -Tdebian/r-bioc-edger.substvars debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs/edgeR.so
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs/edgeR.so was not linked against libgfortran.so.3 (it uses none of the library's symbols)
dh_gencontrol -pr-bioc-edger
echo misc:Depends= >> debian/r-bioc-edger.substvars
dpkg-gencontrol -pr-bioc-edger -ldebian/changelog -Tdebian/r-bioc-edger.substvars -Pdebian/r-bioc-edger
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
chmod 644 debian/r-bioc-edger/DEBIAN/control
chown 0:0 debian/r-bioc-edger/DEBIAN/control
dh_md5sums -pr-bioc-edger
(cd debian/r-bioc-edger >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum > DEBIAN/md5sums) >/dev/null
chmod 644 debian/r-bioc-edger/DEBIAN/md5sums
chown 0:0 debian/r-bioc-edger/DEBIAN/md5sums
dh_builddeb -pr-bioc-edger
dpkg-deb --build debian/r-bioc-edger ..
dpkg-deb: building package `r-bioc-edger' in `../r-bioc-edger_3.6.8+dfsg-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-edger_3.6.8+dfsg-1_armhf.changes
dpkg-genchanges: arch-specific upload - not including arch-independent packages
dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build r-bioc-edger-3.6.8+dfsg
dpkg-buildpackage: binary-only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20140924-0634
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
r-bioc-edger_3.6.8+dfsg-1_armhf.changes:
────────────────────────────────────────
Format: 1.8
Date: Thu, 18 Sep 2014 15:43:07 +0200
Source: r-bioc-edger
Binary: r-bioc-edger
Architecture: armhf
Version: 3.6.8+dfsg-1
Distribution: jessie-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
r-bioc-edger - Empirical analysis of digital gene expression data in R
Changes:
r-bioc-edger (3.6.8+dfsg-1) unstable; urgency=medium
.
* New upstream version
* d/copyright: reviewed
Checksums-Sha1:
3e72cfbc02003b50e5145f3f5802cd042878d6e9 456758 r-bioc-edger_3.6.8+dfsg-1_armhf.deb
Checksums-Sha256:
dbf4ee31d02670cc8849f7f2af797bb4c5ce5b17a7d1c5878969fe4b5642394e 456758 r-bioc-edger_3.6.8+dfsg-1_armhf.deb
Files:
65873dd6e389a02bb7991e7a79b14a40 456758 gnu-r optional r-bioc-edger_3.6.8+dfsg-1_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
r-bioc-edger_3.6.8+dfsg-1_armhf.deb
───────────────────────────────────
new debian package, version 2.0.
size 456758 bytes: control archive=1734 bytes.
932 bytes, 17 lines control
2378 bytes, 31 lines md5sums
Package: r-bioc-edger
Version: 3.6.8+dfsg-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 541
Depends: r-base-core (>= 3.1.1-1), libblas3 | libblas.so.3, libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libgfortran3 (>= 4.3), liblapack3 | liblapack.so.3, libstdc++6 (>= 4.3.0), r-bioc-limma (>= 3.20)
Suggests: r-cran-mass
Section: gnu-r
Priority: optional
Homepage: http://www.bioconductor.org/packages/release/bioc/html/edgeR.html
Description: Empirical analysis of digital gene expression data in R
Bioconductor package for differential expression analysis of whole
transcriptome sequencing (RNA-seq) and digital gene expression
profiles with biological replication. It uses empirical Bayes
estimation and exact tests based on the negative binomial
distribution. It is also useful for differential signal analysis with
other types of genome-scale count data.
drwxr-xr-x root/root 0 2014-09-24 06:33 ./
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/
drwxr-xr-x root/root 0 2014-09-24 06:32 ./usr/lib/
drwxr-xr-x root/root 0 2014-09-24 06:32 ./usr/lib/R/
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/lib/R/site-library/
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/
-rw-r--r-- root/root 1302 2014-09-24 06:32 ./usr/lib/R/site-library/edgeR/NAMESPACE
-rw-r--r-- root/root 1406 2014-09-24 06:32 ./usr/lib/R/site-library/edgeR/DESCRIPTION
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/Meta/
-rw-r--r-- root/root 1160 2014-09-24 06:32 ./usr/lib/R/site-library/edgeR/Meta/package.rds
-rw-r--r-- root/root 3741 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/Meta/Rd.rds
-rw-r--r-- root/root 3568 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/Meta/hsearch.rds
-rw-r--r-- root/root 1676 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/Meta/links.rds
-rw-r--r-- root/root 554 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/Meta/nsInfo.rds
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/libs/
-rw-r--r-- root/root 55244 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/libs/edgeR.so
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/R/
-rw-r--r-- root/root 1056 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/R/edgeR
-rw-r--r-- root/root 119901 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/R/edgeR.rdb
-rw-r--r-- root/root 2445 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/R/edgeR.rdx
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/doc/
-rw-r--r-- root/root 1805 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/doc/edgeR.Rnw
-rw-r--r-- root/root 48051 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/doc/edgeR.pdf
-rw-r--r-- root/root 663 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/doc/index.html
-rw-r--r-- root/root 2057 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/CITATION
-rw-r--r-- root/root 17732 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/NEWS.Rd
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/help/
-rw-r--r-- root/root 848 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/help/paths.rds
-rw-r--r-- root/root 239308 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/help/edgeR.rdb
-rw-r--r-- root/root 1855 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/help/edgeR.rdx
-rw-r--r-- root/root 3972 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/help/AnIndex
-rw-r--r-- root/root 1347 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/help/aliases.rds
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/html/
-rw-r--r-- root/root 23100 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/html/00Index.html
-rw-r--r-- root/root 1179 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/html/R.css
-rw-r--r-- root/root 7121 2014-09-24 06:33 ./usr/lib/R/site-library/edgeR/INDEX
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/share/
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/share/doc/
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/share/doc/r-bioc-edger/
drwxr-xr-x root/root 0 2014-09-24 06:33 ./usr/share/doc/r-bioc-edger/tests/
-rw-r--r-- root/root 1373 2014-04-11 21:32 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R.gz
-rw-r--r-- root/root 5941 2014-07-14 00:21 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save.gz
-rw-r--r-- root/root 512 2014-09-18 13:51 ./usr/share/doc/r-bioc-edger/README.test
-rw-r--r-- root/root 426 2014-09-18 13:51 ./usr/share/doc/r-bioc-edger/run-unit-test
-rw-r--r-- root/root 274 2014-09-18 13:51 ./usr/share/doc/r-bioc-edger/README.Debian
-rw-r--r-- root/root 1479 2014-09-18 13:51 ./usr/share/doc/r-bioc-edger/copyright
-rw-r--r-- root/root 1907 2014-09-18 13:51 ./usr/share/doc/r-bioc-edger/changelog.Debian.gz
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 2076
Build-Time: 120
Distribution: jessie-staging
Host Architecture: armhf
Install-Time: 426
Job: r-bioc-edger_3.6.8+dfsg-1
Machine Architecture: armhf
Package: r-bioc-edger
Package-Time: 597
Source-Version: 3.6.8+dfsg-1
Space: 2076
Status: successful
Version: 3.6.8+dfsg-1
────────────────────────────────────────────────────────────────────────────────
Finished at 20140924-0634
Build needed 00:09:57, 2076k disc space