r-bioc-edger →
3.4.2+dfsg-2 →
armhf → 2014-01-15 00:06:15
sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on bm-wb-01
╔══════════════════════════════════════════════════════════════════════════════╗
║ r-bioc-edger 3.4.2+dfsg-2 (armhf) 14 Jan 2014 23:54 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: r-bioc-edger
Version: 3.4.2+dfsg-2
Source Version: 3.4.2+dfsg-2
Distribution: jessie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/r-bioc-edger-TIMuGS/r-bioc-edger-3.4.2+dfsg' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/r-bioc-edger-TIMuGS' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/jessie-staging-armhf-sbuild-479cc771-cdbb-4ce3-9e9b-90820986976d' 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 [7181 kB]
Get:3 http://172.17.0.1 jessie-staging/main armhf Packages [8302 kB]
Ign http://172.17.0.1 jessie-staging/main Translation-en
Fetched 15.5 MB in 30s (503 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 429 kB of source archives.
Get:1 http://172.17.0.1/private/ jessie-staging/main r-bioc-edger 3.4.2+dfsg-2 (dsc) [1444 B]
Get:2 http://172.17.0.1/private/ jessie-staging/main r-bioc-edger 3.4.2+dfsg-2 (tar) [423 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main r-bioc-edger 3.4.2+dfsg-2 (diff) [4511 B]
Fetched 429 kB in 0s (4944 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-m7j5t1/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 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 26 not upgraded.
Need to get 0 B/764 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 ... 11446 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
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
dpkg-deb: building package `sbuild-build-depends-r-bioc-edger-dummy' in `/«BUILDDIR»/resolver-6YnkHs/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 extra packages will be installed:
bsdmainutils cdbs cpp-4.8 debhelper file fontconfig fontconfig-config
fonts-dejavu-core g++-4.8 gcc-4.8 gcc-4.8-base gettext gettext-base gfortran
gfortran-4.8 groff-base intltool-debian libasan0 libasprintf0c2 libatomic1
libblas-dev libblas3 libbz2-dev libcairo2 libcroco3 libdatrie1 libdrm2
libegl1-mesa libexpat1 libffi6 libfontconfig1 libfreetype6 libgbm1
libgcc-4.8-dev libgcc1 libgfortran-4.8-dev libgfortran3 libgl1-mesa-glx
libglapi-mesa libglib2.0-0 libgomp1 libgraphite2-3 libharfbuzz0b libice6
libjbig0 libjpeg8 libjpeg8-dev liblapack-dev liblapack3 libllvm3.3 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
libpng12-0 libpng12-dev libreadline-dev libreadline6-dev libsm6
libstdc++-4.8-dev libstdc++6 libthai-data libthai0 libtiff5 libtinfo-dev
libunistring0 libwayland-client0 libwayland-server0 libx11-6 libx11-data
libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-glx0 libxcb-render0 libxcb-shape0
libxcb-shm0 libxcb-xfixes0 libxcb1 libxdamage1 libxdmcp6 libxext6 libxfixes3
libxft2 libxml2 libxrender1 libxss1 libxt6 libxxf86vm1 man-db po-debconf
r-base-core r-base-dev r-bioc-limma tcl8.5 tk8.5 ucf unzip x11-common
xdg-utils zip zlib1g-dev
Suggested packages:
wamerican wordlist whois vacation devscripts gcc-4.8-locales dh-make
gcc-4.8-doc libstdc++6-4.8-dbg libgcc1-dbg libgomp1-dbg libitm1-dbg
libatomic1-dbg libasan0-dbg libtsan0-dbg libbacktrace1-dbg libquadmath-dbg
gettext-doc gfortran-doc gfortran-4.8-doc libgfortran3-dbg groff ncurses-doc
ttf-baekmuk ttf-arphic-gbsn00lp ttf-arphic-bsmi00lp ttf-arphic-gkai00mp
ttf-arphic-bkai00mp libstdc++-4.8-doc 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
texi2html tcl-tclreadline gvfs-bin
Recommended packages:
autotools-dev curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
libegl1-mesa-drivers libgl1-mesa-dri libglib2.0-data shared-mime-info
xml-core libmail-sendmail-perl r-recommended r-doc-html xterm
x-terminal-emulator 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-4.8 groff-base
intltool-debian libasprintf0c2 libblas-dev libblas3 libbz2-dev libcairo2
libcroco3 libdatrie1 libdrm2 libegl1-mesa libexpat1 libffi6 libfontconfig1
libfreetype6 libgbm1 libgfortran-4.8-dev libgfortran3 libgl1-mesa-glx
libglapi-mesa libglib2.0-0 libgraphite2-3 libharfbuzz0b libice6 libjbig0
libjpeg8 libjpeg8-dev liblapack-dev liblapack3 libllvm3.3 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
libpng12-0 libpng12-dev libreadline-dev libreadline6-dev libsm6 libthai-data
libthai0 libtiff5 libtinfo-dev libunistring0 libwayland-client0
libwayland-server0 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0
libxcb-glx0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-xfixes0 libxcb1
libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxml2 libxrender1
libxss1 libxt6 libxxf86vm1 man-db po-debconf r-base-core r-base-dev
r-bioc-limma sbuild-build-depends-r-bioc-edger-dummy tcl8.5 tk8.5 ucf unzip
x11-common xdg-utils zip zlib1g-dev
The following packages will be upgraded:
cpp-4.8 g++-4.8 gcc-4.8 gcc-4.8-base libasan0 libatomic1 libgcc-4.8-dev
libgcc1 libgomp1 libstdc++-4.8-dev libstdc++6
11 upgraded, 99 newly installed, 0 to remove and 15 not upgraded.
Need to get 74.7 MB/74.7 MB of archives.
After this operation, 133 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ jessie-staging/main libgomp1 armhf 4.8.2-12 [22.4 kB]
Get:2 http://172.17.0.1/private/ jessie-staging/main gcc-4.8-base armhf 4.8.2-12 [152 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main libstdc++6 armhf 4.8.2-12 [213 kB]
Get:4 http://172.17.0.1/private/ jessie-staging/main libasan0 armhf 4.8.2-12 [55.9 kB]
Get:5 http://172.17.0.1/private/ jessie-staging/main libatomic1 armhf 4.8.2-12 [5734 B]
Get:6 http://172.17.0.1/private/ jessie-staging/main cpp-4.8 armhf 4.8.2-12 [3858 kB]
Get:7 http://172.17.0.1/private/ jessie-staging/main libstdc++-4.8-dev armhf 4.8.2-12 [1082 kB]
Get:8 http://172.17.0.1/private/ jessie-staging/main g++-4.8 armhf 4.8.2-12 [4933 kB]
Get:9 http://172.17.0.1/private/ jessie-staging/main gcc-4.8 armhf 4.8.2-12 [3943 kB]
Get:10 http://172.17.0.1/private/ jessie-staging/main libgcc-4.8-dev armhf 4.8.2-12 [209 kB]
Get:11 http://172.17.0.1/private/ jessie-staging/main libgcc1 armhf 1:4.8.2-12 [40.2 kB]
Get:12 http://172.17.0.1/private/ jessie-staging/main libpipeline1 armhf 1.2.6-1 [24.4 kB]
Get:13 http://172.17.0.1/private/ jessie-staging/main groff-base armhf 1.22.2-3 [666 kB]
Get:14 http://172.17.0.1/private/ jessie-staging/main bsdmainutils armhf 9.0.5 [206 kB]
Get:15 http://172.17.0.1/private/ jessie-staging/main man-db armhf 2.6.5-2 [949 kB]
Get:16 http://172.17.0.1/private/ jessie-staging/main libasprintf0c2 armhf 0.18.3.1-2 [29.5 kB]
Get:17 http://172.17.0.1/private/ jessie-staging/main libmagic1 armhf 1:5.14-2 [213 kB]
Get:18 http://172.17.0.1/private/ jessie-staging/main libxml2 armhf 2.9.1+dfsg1-3 [836 kB]
Get:19 http://172.17.0.1/private/ jessie-staging/main libdrm2 armhf 2.4.50-1 [474 kB]
Get:20 http://172.17.0.1/private/ jessie-staging/main libffi6 armhf 3.0.13-4 [19.8 kB]
Get:21 http://172.17.0.1/private/ jessie-staging/main libglapi-mesa armhf 9.2.2-1 [63.2 kB]
Get:22 http://172.17.0.1/private/ jessie-staging/main libllvm3.3 armhf 1:3.3-16 [5374 kB]
Get:23 http://172.17.0.1/private/ jessie-staging/main libwayland-client0 armhf 1.3.0-1+rpi1 [20.7 kB]
Get:24 http://172.17.0.1/private/ jessie-staging/main libwayland-server0 armhf 1.3.0-1+rpi1 [24.9 kB]
Get:25 http://172.17.0.1/private/ jessie-staging/main libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:26 http://172.17.0.1/private/ jessie-staging/main libxdmcp6 armhf 1:1.1.1-1 [24.6 kB]
Get:27 http://172.17.0.1/private/ jessie-staging/main libxcb1 armhf 1.10-2 [36.9 kB]
Get:28 http://172.17.0.1/private/ jessie-staging/main libxcb-dri2-0 armhf 1.10-2 [11.8 kB]
Get:29 http://172.17.0.1/private/ jessie-staging/main libgbm1 armhf 9.2.2-1 [418 kB]
Get:30 http://172.17.0.1/private/ jessie-staging/main libx11-data all 2:1.6.2-1 [125 kB]
Get:31 http://172.17.0.1/private/ jessie-staging/main libx11-6 armhf 2:1.6.2-1 [867 kB]
Get:32 http://172.17.0.1/private/ jessie-staging/main libx11-xcb1 armhf 2:1.6.2-1 [163 kB]
Get:33 http://172.17.0.1/private/ jessie-staging/main libxcb-render0 armhf 1.10-2 [15.7 kB]
Get:34 http://172.17.0.1/private/ jessie-staging/main libxcb-shape0 armhf 1.10-2 [10.8 kB]
Get:35 http://172.17.0.1/private/ jessie-staging/main libxcb-xfixes0 armhf 1.10-2 [13.4 kB]
Get:36 http://172.17.0.1/private/ jessie-staging/main libegl1-mesa armhf 9.2.2-1 [74.6 kB]
Get:37 http://172.17.0.1/private/ jessie-staging/main libexpat1 armhf 2.1.0-4 [117 kB]
Get:38 http://172.17.0.1/private/ jessie-staging/main libpng12-0 armhf 1.2.49-5 [179 kB]
Get:39 http://172.17.0.1/private/ jessie-staging/main libfreetype6 armhf 2.5.2-1 [397 kB]
Get:40 http://172.17.0.1/private/ jessie-staging/main ucf all 3.0027+nmu1 [70.6 kB]
Get:41 http://172.17.0.1/private/ jessie-staging/main fonts-dejavu-core all 2.33+svn2514-3 [1042 kB]
Get:42 http://172.17.0.1/private/ jessie-staging/main fontconfig-config all 2.11.0-2 [270 kB]
Get:43 http://172.17.0.1/private/ jessie-staging/main libfontconfig1 armhf 2.11.0-2 [329 kB]
Get:44 http://172.17.0.1/private/ jessie-staging/main libxcb-glx0 armhf 1.10-2 [23.2 kB]
Get:45 http://172.17.0.1/private/ jessie-staging/main libxfixes3 armhf 1:5.0.1-1 [21.0 kB]
Get:46 http://172.17.0.1/private/ jessie-staging/main libxdamage1 armhf 1:1.1.4-1 [14.6 kB]
Get:47 http://172.17.0.1/private/ jessie-staging/main libxext6 armhf 2:1.3.2-1 [51.1 kB]
Get:48 http://172.17.0.1/private/ jessie-staging/main libxxf86vm1 armhf 1:1.1.3-1 [20.0 kB]
Get:49 http://172.17.0.1/private/ jessie-staging/main libgl1-mesa-glx armhf 9.2.2-1 [128 kB]
Get:50 http://172.17.0.1/private/ jessie-staging/main libpixman-1-0 armhf 0.32.4-1 [476 kB]
Get:51 http://172.17.0.1/private/ jessie-staging/main libxcb-shm0 armhf 1.10-2 [10.8 kB]
Get:52 http://172.17.0.1/private/ jessie-staging/main libxrender1 armhf 1:0.9.8-1 [30.4 kB]
Get:53 http://172.17.0.1/private/ jessie-staging/main libcairo2 armhf 1.12.16-2 [998 kB]
Get:54 http://172.17.0.1/private/ jessie-staging/main libglib2.0-0 armhf 2.36.4-1 [1907 kB]
Get:55 http://172.17.0.1/private/ jessie-staging/main libcroco3 armhf 0.6.8-2 [119 kB]
Get:56 http://172.17.0.1/private/ jessie-staging/main libdatrie1 armhf 0.2.7.1-1 [28.1 kB]
Get:57 http://172.17.0.1/private/ jessie-staging/main libgfortran3 armhf 4.8.2-12 [153 kB]
Get:58 http://172.17.0.1/private/ jessie-staging/main libgraphite2-3 armhf 1.2.4-1 [57.9 kB]
Get:59 http://172.17.0.1/private/ jessie-staging/main libharfbuzz0b armhf 0.9.25-1 [452 kB]
Get:60 http://172.17.0.1/private/ jessie-staging/main x11-common all 1:7.7+5 [282 kB]
Get:61 http://172.17.0.1/private/ jessie-staging/main libice6 armhf 2:1.0.8-2 [56.2 kB]
Get:62 http://172.17.0.1/private/ jessie-staging/main libjpeg8 armhf 8d-2 [133 kB]
Get:63 http://172.17.0.1/private/ jessie-staging/main libthai-data all 0.1.20-1 [157 kB]
Get:64 http://172.17.0.1/private/ jessie-staging/main libthai0 armhf 0.1.20-1 [41.4 kB]
Get:65 http://172.17.0.1/private/ jessie-staging/main fontconfig armhf 2.11.0-2 [407 kB]
Get:66 http://172.17.0.1/private/ jessie-staging/main libpango-1.0-0 armhf 1.36.0-1+b1 [257 kB]
Get:67 http://172.17.0.1/private/ jessie-staging/main libpangoft2-1.0-0 armhf 1.36.0-1+b1 [192 kB]
Get:68 http://172.17.0.1/private/ jessie-staging/main libpangocairo-1.0-0 armhf 1.36.0-1+b1 [181 kB]
Get:69 http://172.17.0.1/private/ jessie-staging/main libpaper1 armhf 1.1.24+nmu2 [20.9 kB]
Get:70 http://172.17.0.1/private/ jessie-staging/main libpcrecpp0 armhf 1:8.31-2 [125 kB]
Get:71 http://172.17.0.1/private/ jessie-staging/main libsm6 armhf 2:1.2.1-2 [32.5 kB]
Get:72 http://172.17.0.1/private/ jessie-staging/main libjbig0 armhf 2.0-2 [31.5 kB]
Get:73 http://172.17.0.1/private/ jessie-staging/main libtiff5 armhf 4.0.3-7 [229 kB]
Get:74 http://172.17.0.1/private/ jessie-staging/main libunistring0 armhf 0.9.3-5 [408 kB]
Get:75 http://172.17.0.1/private/ jessie-staging/main libxft2 armhf 2.3.1-1 [55.4 kB]
Get:76 http://172.17.0.1/private/ jessie-staging/main libxss1 armhf 1:1.2.2-1 [16.8 kB]
Get:77 http://172.17.0.1/private/ jessie-staging/main libxt6 armhf 1:1.1.4-1 [183 kB]
Get:78 http://172.17.0.1/private/ jessie-staging/main file armhf 1:5.14-2 [53.8 kB]
Get:79 http://172.17.0.1/private/ jessie-staging/main gettext-base armhf 0.18.3.1-2 [135 kB]
Get:80 http://172.17.0.1/private/ jessie-staging/main cdbs all 0.4.122 [81.4 kB]
Get:81 http://172.17.0.1/private/ jessie-staging/main gettext armhf 0.18.3.1-2 [1829 kB]
Get:82 http://172.17.0.1/private/ jessie-staging/main intltool-debian all 0.35.0+20060710.1 [29.8 kB]
Get:83 http://172.17.0.1/private/ jessie-staging/main po-debconf all 1.0.16+nmu2 [223 kB]
Get:84 http://172.17.0.1/private/ jessie-staging/main debhelper all 9.20131227 [687 kB]
Get:85 http://172.17.0.1/private/ jessie-staging/main libgfortran-4.8-dev armhf 4.8.2-12 [180 kB]
Get:86 http://172.17.0.1/private/ jessie-staging/main gfortran-4.8 armhf 4.8.2-12 [4092 kB]
Get:87 http://172.17.0.1/private/ jessie-staging/main gfortran armhf 4:4.8.2-1 [1138 B]
Get:88 http://172.17.0.1/private/ jessie-staging/main libblas3 armhf 1.2.20110419-7 [186 kB]
Get:89 http://172.17.0.1/private/ jessie-staging/main libblas-dev armhf 1.2.20110419-7 [201 kB]
Get:90 http://172.17.0.1/private/ jessie-staging/main libbz2-dev armhf 1.0.6-5 [33.8 kB]
Get:91 http://172.17.0.1/private/ jessie-staging/main libjpeg8-dev armhf 8d-2 [238 kB]
Get:92 http://172.17.0.1/private/ jessie-staging/main liblapack3 armhf 3.5.0-2 [2416 kB]
Get:93 http://172.17.0.1/private/ jessie-staging/main liblapack-dev armhf 3.5.0-2 [2716 kB]
Get:94 http://172.17.0.1/private/ jessie-staging/main libtinfo-dev armhf 5.9+20130608-1 [92.5 kB]
Get:95 http://172.17.0.1/private/ jessie-staging/main libncurses5-dev armhf 5.9+20130608-1 [201 kB]
Get:96 http://172.17.0.1/private/ jessie-staging/main libpaper-utils armhf 1.1.24+nmu2 [17.9 kB]
Get:97 http://172.17.0.1/private/ jessie-staging/main libpcre3-dev armhf 1:8.31-2 [350 kB]
Get:98 http://172.17.0.1/private/ jessie-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-1 [212 kB]
Get:99 http://172.17.0.1/private/ jessie-staging/main libpng12-dev armhf 1.2.49-5 [258 kB]
Get:100 http://172.17.0.1/private/ jessie-staging/main libreadline6-dev armhf 6.2+dfsg-0.1 [164 kB]
Get:101 http://172.17.0.1/private/ jessie-staging/main libreadline-dev armhf 6.2+dfsg-0.1 [898 B]
Get:102 http://172.17.0.1/private/ jessie-staging/main zip armhf 3.0-8 [326 kB]
Get:103 http://172.17.0.1/private/ jessie-staging/main unzip armhf 6.0-10 [192 kB]
Get:104 http://172.17.0.1/private/ jessie-staging/main xdg-utils all 1.1.0~rc1+git20111210-7 [83.7 kB]
Get:105 http://172.17.0.1/private/ jessie-staging/main tcl8.5 armhf 8.5.14-2 [1579 kB]
Get:106 http://172.17.0.1/private/ jessie-staging/main tk8.5 armhf 8.5.14-2 [1123 kB]
Get:107 http://172.17.0.1/private/ jessie-staging/main r-base-core armhf 3.0.2-1 [21.2 MB]
Get:108 http://172.17.0.1/private/ jessie-staging/main r-base-dev all 3.0.2-1 [3926 B]
Get:109 http://172.17.0.1/private/ jessie-staging/main r-bioc-limma armhf 3.16.7~dfsg-1 [864 kB]
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Setting up libffi6:armhf (3.0.13-4) ...
Setting up libglapi-mesa:armhf (9.2.2-1) ...
Setting up libllvm3.3:armhf (1:3.3-16) ...
Setting up libwayland-client0:armhf (1.3.0-1+rpi1) ...
Setting up libwayland-server0:armhf (1.3.0-1+rpi1) ...
Setting up libxau6:armhf (1:1.0.8-1) ...
Setting up libxdmcp6:armhf (1:1.1.1-1) ...
Setting up libxcb1:armhf (1.10-2) ...
Setting up libxcb-dri2-0:armhf (1.10-2) ...
Setting up libgbm1:armhf (9.2.2-1) ...
Setting up libx11-data (2:1.6.2-1) ...
Setting up libx11-6:armhf (2:1.6.2-1) ...
Setting up libx11-xcb1:armhf (2:1.6.2-1) ...
Setting up libxcb-render0:armhf (1.10-2) ...
Setting up libxcb-shape0:armhf (1.10-2) ...
Setting up libxcb-xfixes0:armhf (1.10-2) ...
Setting up libegl1-mesa:armhf (9.2.2-1) ...
Setting up libexpat1:armhf (2.1.0-4) ...
Setting up libpng12-0:armhf (1.2.49-5) ...
Setting up libfreetype6:armhf (2.5.2-1) ...
Setting up ucf (3.0027+nmu1) ...
Setting up fonts-dejavu-core (2.33+svn2514-3) ...
Setting up fontconfig-config (2.11.0-2) ...
Setting up libfontconfig1:armhf (2.11.0-2) ...
Setting up libxcb-glx0:armhf (1.10-2) ...
Setting up libxfixes3:armhf (1:5.0.1-1) ...
Setting up libxdamage1:armhf (1:1.1.4-1) ...
Setting up libxext6:armhf (2:1.3.2-1) ...
Setting up libxxf86vm1:armhf (1:1.1.3-1) ...
Setting up libgl1-mesa-glx:armhf (9.2.2-1) ...
Setting up libpixman-1-0:armhf (0.32.4-1) ...
Setting up libxcb-shm0:armhf (1.10-2) ...
Setting up libxrender1:armhf (1:0.9.8-1) ...
Setting up libcairo2:armhf (1.12.16-2) ...
Setting up libglib2.0-0:armhf (2.36.4-1) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.8-2) ...
Setting up libdatrie1:armhf (0.2.7.1-1) ...
Setting up libgfortran3:armhf (4.8.2-12) ...
Setting up libgraphite2-3:armhf (1.2.4-1) ...
Setting up libharfbuzz0b:armhf (0.9.25-1) ...
Setting up x11-common (1:7.7+5) ...
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 (2:1.0.8-2) ...
Setting up libjpeg8:armhf (8d-2) ...
Setting up libthai-data (0.1.20-1) ...
Setting up libthai0:armhf (0.1.20-1) ...
Setting up fontconfig (2.11.0-2) ...
Regenerating fonts cache... done.
Setting up libpango-1.0-0:armhf (1.36.0-1+b1) ...
Setting up libpangoft2-1.0-0:armhf (1.36.0-1+b1) ...
Setting up libpangocairo-1.0-0:armhf (1.36.0-1+b1) ...
Setting up libpaper1:armhf (1.1.24+nmu2) ...
Creating config file /etc/papersize with new version
Setting up libpcrecpp0:armhf (1:8.31-2) ...
Setting up libsm6:armhf (2:1.2.1-2) ...
Setting up libjbig0:armhf (2.0-2) ...
Setting up libtiff5:armhf (4.0.3-7) ...
Setting up libunistring0:armhf (0.9.3-5) ...
Setting up libxft2:armhf (2.3.1-1) ...
Setting up libxss1:armhf (1:1.2.2-1) ...
Setting up libxt6:armhf (1:1.1.4-1) ...
Setting up file (1:5.14-2) ...
Setting up gettext-base (0.18.3.1-2) ...
Setting up cdbs (0.4.122) ...
Setting up gettext (0.18.3.1-2) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu2) ...
Setting up debhelper (9.20131227) ...
Setting up libgfortran-4.8-dev:armhf (4.8.2-12) ...
Setting up gfortran-4.8 (4.8.2-12) ...
Setting up gfortran (4:4.8.2-1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) 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 (1.0.6-5) ...
Setting up libjpeg8-dev:armhf (8d-2) ...
Setting up liblapack3 (3.5.0-2) ...
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 (3.5.0-2) ...
update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up libtinfo-dev:armhf (5.9+20130608-1) ...
Setting up libncurses5-dev:armhf (5.9+20130608-1) ...
Setting up libpaper-utils (1.1.24+nmu2) ...
Setting up libpcre3-dev:armhf (1:8.31-2) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-1) ...
Setting up libpng12-dev (1.2.49-5) ...
Setting up libreadline6-dev:armhf (6.2+dfsg-0.1) ...
Setting up libreadline-dev:armhf (6.2+dfsg-0.1) ...
Setting up zip (3.0-8) ...
Setting up unzip (6.0-10) ...
Setting up xdg-utils (1.1.0~rc1+git20111210-7) ...
Setting up tcl8.5 (8.5.14-2) ...
update-alternatives: using /usr/bin/tclsh8.5 to provide /usr/bin/tclsh (tclsh) in auto mode
Setting up tk8.5 (8.5.14-2) ...
update-alternatives: using /usr/bin/wish8.5 to provide /usr/bin/wish (wish) in auto mode
Setting up r-base-core (3.0.2-1) ...
Creating config file /etc/R/Renviron with new version
Setting up r-base-dev (3.0.2-1) ...
Setting up r-bioc-limma (3.16.7~dfsg-1) ...
Setting up sbuild-build-depends-r-bioc-edger-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.17-97) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.11.0-armv7-x13 armhf (armv7l)
Toolchain package versions: binutils_2.24-2 dpkg-dev_1.17.5 g++-4.8_4.8.2-12 gcc-4.8_4.8.2-12 libc6-dev_2.17-97 libstdc++-4.8-dev_4.8.2-12 libstdc++6_4.8.2-12 linux-libc-dev_3.10.11-1+rpi1
Package versions: apt_0.9.14.1+rpi1 base-files_7.2+rpi1 base-passwd_3.5.28 bash_4.2+dfsg-1 binutils_2.24-2 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.5 build-essential_11.6 bzip2_1.0.6-5 cdbs_0.4.122 coreutils_8.21-1 cpio_2.11+dfsg-1 cpp_4:4.8.2-1 cpp-4.8_4.8.2-12 dash_0.5.7-3 debconf_1.5.52 debconf-i18n_1.5.52 debfoster_2.7-1.2 debhelper_9.20131227 debianutils_4.4 diffutils_1:3.3-1 dpkg_1.17.5 dpkg-dev_1.17.5 e2fslibs_1.42.8-1 e2fsprogs_1.42.8-1 fakeroot_1.18.4-2 file_1:5.14-2 findutils_4.4.2-7 fontconfig_2.11.0-2 fontconfig-config_2.11.0-2 fonts-dejavu-core_2.33+svn2514-3 g++_4:4.8.2-1 g++-4.8_4.8.2-12 gcc_4:4.8.2-1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-9+rpi1 gcc-4.8_4.8.2-12 gcc-4.8-base_4.8.2-12 gettext_0.18.3.1-2 gettext-base_0.18.3.1-2 gfortran_4:4.8.2-1 gfortran-4.8_4.8.2-12 gnupg_1.4.15-3 gpgv_1.4.15-3 grep_2.15-2 groff-base_1.22.2-3 gzip_1.6-2 hostname_3.15 initramfs-tools_0.115 initscripts_2.88dsf-43 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 klibc-utils_2.0.2-1+rpi1 kmod_9-3 libacl1_2.2.52-1 libapt-pkg4.12_0.9.14.1+rpi1 libasan0_4.8.2-12 libasprintf0c2_0.18.3.1-2 libatomic1_4.8.2-12 libattr1_1:2.4.47-1 libaudit-common_1:2.3.2-2 libaudit1_1:2.3.2-2 libblas-dev_1.2.20110419-7 libblas3_1.2.20110419-7 libblkid1_2.20.1-5.5 libbz2-1.0_1.0.6-5 libbz2-dev_1.0.6-5 libc-bin_2.17-97 libc-dev-bin_2.17-97 libc6_2.17-97 libc6-dev_2.17-97 libcairo2_1.12.16-2 libcap2_1:2.22-1.2 libcloog-isl4_0.18.1-3 libcomerr2_1.42.8-1 libcroco3_0.6.8-2 libdatrie1_0.2.7.1-1 libdb5.1_5.1.29-6 libdbus-1-3_1.6.18-2 libdpkg-perl_1.17.5 libdrm2_2.4.50-1 libegl1-mesa_9.2.2-1 libexpat1_2.1.0-4 libffi6_3.0.13-4 libfontconfig1_2.11.0-2 libfreetype6_2.5.2-1 libgbm1_9.2.2-1 libgc1c2_1:7.2d-6 libgcc-4.8-dev_4.8.2-12 libgcc1_1:4.8.2-12 libgdbm3_1.8.3-12 libgfortran-4.8-dev_4.8.2-12 libgfortran3_4.8.2-12 libgl1-mesa-glx_9.2.2-1 libglapi-mesa_9.2.2-1 libglib2.0-0_2.36.4-1 libgmp10_2:5.1.3+dfsg-1 libgomp1_4.8.2-12 libgraphite2-3_1.2.4-1 libharfbuzz0b_0.9.25-1 libice6_2:1.0.8-2 libisl10_0.12.1-2 libjbig0_2.0-2 libjpeg8_8d-2 libjpeg8-dev_8d-2 libklibc_2.0.2-1+rpi1 libkmod2_9-3 liblapack-dev_3.5.0-2 liblapack3_3.5.0-2 libllvm3.3_1:3.3-16 liblocale-gettext-perl_1.05-7+b3 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.14-2 libmount1_2.20.1-5.5 libmpc3_1.0.1-1 libmpfr4_3.1.2-1 libncurses5_5.9+20130608-1 libncurses5-dev_5.9+20130608-1 libncursesw5_5.9+20130608-1 libnih-dbus1_1.0.3-4.2 libnih1_1.0.3-4.2 libpam-modules_1.1.3-9 libpam-modules-bin_1.1.3-9 libpam-runtime_1.1.3-9 libpam0g_1.1.3-9 libpango-1.0-0_1.36.0-1+b1 libpangocairo-1.0-0_1.36.0-1+b1 libpangoft2-1.0-0_1.36.0-1+b1 libpaper-utils_1.1.24+nmu2 libpaper1_1.1.24+nmu2 libpcre3_1:8.31-2 libpcre3-dev_1:8.31-2 libpcrecpp0_1:8.31-2 libpipeline1_1.2.6-1 libpixman-1-0_0.32.4-1 libpng12-0_1.2.49-5 libpng12-dev_1.2.49-5 libprocps0_1:3.3.4-2 libreadline-dev_6.2+dfsg-0.1 libreadline6_6.2+dfsg-0.1 libreadline6-dev_6.2+dfsg-0.1 libselinux1_2.2.1-1 libsemanage-common_2.2-1 libsemanage1_2.2-1 libsepol1_2.2-1 libslang2_2.2.4-16 libsm6_2:1.2.1-2 libss2_1.42.8-1 libstdc++-4.8-dev_4.8.2-12 libstdc++6_4.8.2-12 libtext-charwidth-perl_0.04-7+b3 libtext-iconv-perl_1.7-5+b3 libtext-wrapi18n-perl_0.06-7 libthai-data_0.1.20-1 libthai0_0.1.20-1 libtiff5_4.0.3-7 libtimedate-perl_2.3000-1 libtinfo-dev_5.9+20130608-1 libtinfo5_5.9+20130608-1 libudev1_204-5 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.3 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.5 libwayland-client0_1.3.0-1+rpi1 libwayland-server0_1.3.0-1+rpi1 libx11-6_2:1.6.2-1 libx11-data_2:1.6.2-1 libx11-xcb1_2:1.6.2-1 libxau6_1:1.0.8-1 libxcb-dri2-0_1.10-2 libxcb-glx0_1.10-2 libxcb-render0_1.10-2 libxcb-shape0_1.10-2 libxcb-shm0_1.10-2 libxcb-xfixes0_1.10-2 libxcb1_1.10-2 libxdamage1_1:1.1.4-1 libxdmcp6_1:1.1.1-1 libxext6_2:1.3.2-1 libxfixes3_1:5.0.1-1 libxft2_2.3.1-1 libxml2_2.9.1+dfsg1-3 libxrender1_1:0.9.8-1 libxss1_1:1.2.2-1 libxt6_1:1.1.4-1 libxxf86vm1_1:1.1.3-1 linux-libc-dev_3.10.11-1+rpi1 login_1:4.1.5.1-1 lsb-base_4.1+Debian12+rpi1 make_3.81-8.3 makedev_2.3.1-93 man-db_2.6.5-2 mawk_1.3.3-17 mount_2.20.1-5.5 mountall_2.52 multiarch-support_2.17-97 ncurses-base_5.9+20130608-1 ncurses-bin_5.9+20130608-1 passwd_1:4.1.5.1-1 patch_2.7.1-4 perl_5.18.1-5 perl-base_5.18.1-5 perl-modules_5.18.1-5 plymouth_0.8.8-6+deb8u3 po-debconf_1.0.16+nmu2 procps_1:3.3.4-2 r-base-core_3.0.2-1 r-base-dev_3.0.2-1 r-bioc-limma_3.16.7~dfsg-1 raspbian-archive-keyring_20120528.2 readline-common_6.2+dfsg-0.1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-edger-dummy_0.invalid.0 sed_4.2.2-3 sensible-utils_0.0.9 sysv-rc_2.88dsf-43 sysvinit_2.88dsf-43 sysvinit-utils_2.88dsf-43 tar_1.26+dfsg-8 tcl8.5_8.5.14-2 tk8.5_8.5.14-2 tzdata_2013i-1 ucf_3.0027+nmu1 udev_204-5 unzip_6.0-10 util-linux_2.20.1-5.5 x11-common_1:7.7+5 xdg-utils_1.1.0~rc1+git20111210-7 xz-utils_5.1.1alpha+20120614-2 zip_3.0-8 zlib1g_1:1.2.8.dfsg-1 zlib1g-dev_1:1.2.8.dfsg-1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Wed Jan 8 09:05:27 2014 UTC using DSA key ID C09FD35A
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./r-bioc-edger_3.4.2+dfsg-2.dsc
dpkg-source: info: extracting r-bioc-edger in r-bioc-edger-3.4.2+dfsg
dpkg-source: info: unpacking r-bioc-edger_3.4.2+dfsg.orig.tar.gz
dpkg-source: info: unpacking r-bioc-edger_3.4.2+dfsg-2.debian.tar.gz
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=en_GB.UTF-8
LC_ALL=POSIX
LOGNAME=root
MAIL=/var/mail/root
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/root
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-479cc771-cdbb-4ce3-9e9b-90820986976d
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
SHLVL=1
SSH_CLIENT=172.17.0.6 43063 22
SSH_CONNECTION=172.17.0.6 43063 172.17.2.1 22
SSH_TTY=/dev/pts/0
TERM=xterm
USER=buildd
_=/etc/init.d/buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package r-bioc-edger
dpkg-buildpackage: source version 3.4.2+dfsg-2
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build r-bioc-edger-3.4.2+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 "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
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 "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
dh_installdirs usr/lib/R/site-library
install -d debian/r-bioc-edger/usr/lib/R/site-library
echo "R:Depends=r-base-core (>= 3.0.2-1)" >> debian/r-bioc-edger.substvars
if test -f /usr/bin/xvfb-run; then \
xvfb-run -a \
R CMD INSTALL -l /«BUILDDIR»/r-bioc-edger-3.4.2+dfsg/debian/r-bioc-edger/usr/lib/R/site-library --clean \
. ; \
else \
R CMD INSTALL -l /«BUILDDIR»/r-bioc-edger-3.4.2+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-3.4.2+dfsg/src'
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_exact_test_by_deviance.cpp -o R_exact_test_by_deviance.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_loess_by_col.cpp -o R_loess_by_col.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_cr_adjust.cpp -o R_cr_adjust.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_levenberg.cpp -o R_levenberg.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_maximize_interpolant.cpp -o R_maximize_interpolant.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_one_group.cpp -o R_one_group.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_simple_good_turing.cpp -o R_simple_good_turing.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/adj_coxreid.cpp -o core/adj_coxreid.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/glm_levenberg.cpp -o core/glm_levenberg.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/glm_one_group.cpp -o core/glm_one_group.o
g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/interpolator.cpp -o core/interpolator.o
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/fmm_spline.c -o core/fmm_spline.o
g++ -shared -o edgeR.so R_exact_test_by_deviance.o R_loess_by_col.o R_cr_adjust.o R_levenberg.o R_maximize_interpolant.o R_one_group.o R_simple_good_turing.o core/adj_coxreid.o core/glm_levenberg.o core/glm_one_group.o core/interpolator.o core/fmm_spline.o -llapack -lblas -lgfortran -lm -L/usr/lib/R/lib -lR
make[1]: Leaving directory `/«BUILDDIR»/r-bioc-edger-3.4.2+dfsg/src'
make[1]: Entering directory `/«BUILDDIR»/r-bioc-edger-3.4.2+dfsg/src'
make[1]: Leaving directory `/«BUILDDIR»/r-bioc-edger-3.4.2+dfsg/src'
installing to /«BUILDDIR»/r-bioc-edger-3.4.2+dfsg/debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (edgeR)
rm -vf /«BUILDDIR»/r-bioc-edger-3.4.2+dfsg/debian/r-bioc-edger/usr/lib/R/site-library/R.css \
/«BUILDDIR»/r-bioc-edger-3.4.2+dfsg/debian/r-bioc-edger/usr/lib/R/site-library/edgeR/COPYING \
/«BUILDDIR»/r-bioc-edger-3.4.2+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-3.4.2+dfsg/debian/r-bioc-edger/usr/share/lintian/overrides ; \
install -m 0644 debian/overrides \
/«BUILDDIR»/r-bioc-edger-3.4.2+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-3.4.2+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
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.Rout.save usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R usr/share/doc/r-bioc-edger/changelog.Debian
gzip -9nf usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R usr/share/doc/r-bioc-edger/changelog.Debian
cd '/«BUILDDIR»/r-bioc-edger-3.4.2+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/perl5 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 -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 -- -Z xz
dpkg-deb -Z xz --build debian/r-bioc-edger ..
dpkg-deb: building package `r-bioc-edger' in `../r-bioc-edger_3.4.2+dfsg-2_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../r-bioc-edger_3.4.2+dfsg-2_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-3.4.2+dfsg
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20140115-0005
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
r-bioc-edger_3.4.2+dfsg-2_armhf.changes:
────────────────────────────────────────
Format: 1.8
Date: Wed, 08 Jan 2014 10:01:36 +0100
Source: r-bioc-edger
Binary: r-bioc-edger
Architecture: armhf
Version: 3.4.2+dfsg-2
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
Closes: 727695
Changes:
r-bioc-edger (3.4.2+dfsg-2) unstable; urgency=medium
.
[ Martin Pitt ]
* debian/tests/control: Re-add @ test dependency which got dropped in the
previous upload.
* debian/tests/upstream: Run edger tests, not limma (copy&paste error).
(Closes: #727695)
.
[ Andreas Tille ]
* Standards-Version: 3.9.5
Checksums-Sha1:
477c812baa4cc308967ddc3b8b622f3e88dd67ac 583718 r-bioc-edger_3.4.2+dfsg-2_armhf.deb
Checksums-Sha256:
51d6689ca707bfcff73cfc9b7a2281c0f63321d0b9fcaf53eea2b6ea66ed218b 583718 r-bioc-edger_3.4.2+dfsg-2_armhf.deb
Files:
c9d1b4566851544c370b970116646864 583718 gnu-r optional r-bioc-edger_3.4.2+dfsg-2_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
r-bioc-edger_3.4.2+dfsg-2_armhf.deb
───────────────────────────────────
new debian package, version 2.0.
size 583718 bytes: control archive=1826 bytes.
939 bytes, 17 lines control
2845 bytes, 37 lines md5sums
Package: r-bioc-edger
Version: 3.4.2+dfsg-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1541
Depends: r-base-core (>= 3.0.2-1), r-bioc-limma, libblas3 | libblas.so.3, libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libgfortran3 (>= 4.3), liblapack3 | liblapack.so.3, libstdc++6 (>= 4.4.0), r-cran-statmod
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 2014-01-15 00:04 ./
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/
drwxr-xr-x root/root 0 2014-01-15 00:03 ./usr/lib/
drwxr-xr-x root/root 0 2014-01-15 00:03 ./usr/lib/R/
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/
-rw-r--r-- root/root 827 2014-01-15 00:03 ./usr/lib/R/site-library/edgeR/NAMESPACE
-rw-r--r-- root/root 1124 2014-01-15 00:03 ./usr/lib/R/site-library/edgeR/DESCRIPTION
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/Meta/
-rw-r--r-- root/root 1024 2014-01-15 00:03 ./usr/lib/R/site-library/edgeR/Meta/package.rds
-rw-r--r-- root/root 3636 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/Meta/Rd.rds
-rw-r--r-- root/root 3467 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/Meta/hsearch.rds
-rw-r--r-- root/root 1630 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/Meta/links.rds
-rw-r--r-- root/root 159 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/Meta/data.rds
-rw-r--r-- root/root 227 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/Meta/vignette.rds
-rw-r--r-- root/root 366 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/Meta/nsInfo.rds
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/libs/
-rw-r--r-- root/root 37016 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/libs/edgeR.so
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/R/
-rw-r--r-- root/root 1056 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/R/edgeR
-rw-r--r-- root/root 116204 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/R/edgeR.rdb
-rw-r--r-- root/root 2294 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/R/edgeR.rdx
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/data/
-rw-r--r-- root/root 248500 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/data/NC1.txt
-rw-r--r-- root/root 228426 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/data/NC2.txt
-rw-r--r-- root/root 318545 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/data/Tu102.txt
-rw-r--r-- root/root 263571 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/data/Tu98.txt
-rw-r--r-- root/root 19 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/data/datalist
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/doc/
-rw-r--r-- root/root 1826 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/doc/edgeR.Rnw
-rw-r--r-- root/root 49354 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/doc/edgeR.pdf
-rw-r--r-- root/root 691 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/doc/index.html
-rw-r--r-- root/root 2057 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/CITATION
-rw-r--r-- root/root 14960 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/NEWS.Rd
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/help/
-rw-r--r-- root/root 773 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/help/paths.rds
-rw-r--r-- root/root 231078 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/help/edgeR.rdb
-rw-r--r-- root/root 1751 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/help/edgeR.rdx
-rw-r--r-- root/root 3768 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/help/AnIndex
-rw-r--r-- root/root 1320 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/help/aliases.rds
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/html/
-rw-r--r-- root/root 22632 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/html/00Index.html
-rw-r--r-- root/root 1179 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/html/R.css
-rw-r--r-- root/root 6806 2014-01-15 00:04 ./usr/lib/R/site-library/edgeR/INDEX
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/share/
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/share/doc/
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/share/doc/r-bioc-edger/
drwxr-xr-x root/root 0 2014-01-15 00:04 ./usr/share/doc/r-bioc-edger/tests/
-rw-r--r-- root/root 5706 2013-10-14 21:53 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save.gz
-rw-r--r-- root/root 1392 2013-10-14 21:53 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R.gz
-rw-r--r-- root/root 243 2014-01-08 09:03 ./usr/share/doc/r-bioc-edger/README.test
-rw-r--r-- root/root 274 2014-01-08 09:03 ./usr/share/doc/r-bioc-edger/README.Debian
-rw-r--r-- root/root 1377 2014-01-08 09:03 ./usr/share/doc/r-bioc-edger/copyright
-rw-r--r-- root/root 1758 2014-01-08 09:03 ./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: 4196
Build-Time: 107
Distribution: jessie-staging
Host Architecture: armhf
Install-Time: 479
Job: r-bioc-edger_3.4.2+dfsg-2
Machine Architecture: armhf
Package: r-bioc-edger
Package-Time: 642
Source-Version: 3.4.2+dfsg-2
Space: 4196
Status: successful
Version: 3.4.2+dfsg-2
────────────────────────────────────────────────────────────────────────────────
Finished at 20140115-0005
Build needed 00:10:42, 4196k disc space