[med-svn] [SCM] r-bioc-limma branch, meta, updated. meta/3.12.0_dfsg-1-2-g9961a91
Charles Plessy
plessy at debian.org
Sun Aug 4 08:54:43 UTC 2013
The following commit has been merged in the meta branch:
commit 9961a9174634daad88d5353e6a317d1617131101
Author: Charles Plessy <plessy at debian.org>
Date: Sun Aug 4 17:44:30 2013 +0900
r-bioc-limma (3.16.7~dfsg-1) unstable; urgency=low
be4e6a5 Imported Upstream version 3.16.7~dfsg
5d10f8d Normalised VCS URLs.
3ed3572 Signal the presence of autopkgtest suite with a XS-Testsuite field.
-- Charles Plessy <plessy at debian.org> Sun, 04 Aug 2013 17:28:41 +0900
diff --git a/amd64.changes b/amd64.changes
index 06dc811..fb8b066 100644
--- a/amd64.changes
+++ b/amd64.changes
@@ -1,12 +1,9 @@
------BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA256
-
Format: 1.8
-Date: Thu, 12 Apr 2012 11:40:40 +0900
+Date: Sun, 04 Aug 2013 17:28:41 +0900
Source: r-bioc-limma
Binary: r-bioc-limma
Architecture: source amd64
-Version: 3.12.0~dfsg-1
+Version: 3.16.7~dfsg-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
@@ -14,44 +11,23 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
r-bioc-limma - linear models for microarray data
Changes:
- r-bioc-limma (3.12.0~dfsg-1) unstable; urgency=low
+ r-bioc-limma (3.16.7~dfsg-1) unstable; urgency=low
.
- [ Charles Plessy ]
- 2d3420e Imported Upstream version 3.12.0~dfsg
- 4bbb8e4 Document LIMMA's copyright as a whole.
- .
- [ Andreas Tille ]
- 8a61a4c Obtain references from inst/CITATION
+ be4e6a5 Imported Upstream version 3.16.7~dfsg
+ 5d10f8d Normalised VCS URLs.
+ 3ed3572 Signal the presence of autopkgtest suite with a XS-Testsuite field.
Checksums-Sha1:
- 876cd4739d3ae6d6a036bb35618a72e3a59e03a9 2030 r-bioc-limma_3.12.0~dfsg-1.dsc
- b8557dac54643997e17913245385b2ab6cac8c01 282812 r-bioc-limma_3.12.0~dfsg.orig.tar.gz
- 3a36aa2745e375bcf3bee1f0be18e10da0f19fd7 3098 r-bioc-limma_3.12.0~dfsg-1.diff.gz
- 450a6c80a4b087db813f841637d54bc6434f7277 805696 r-bioc-limma_3.12.0~dfsg-1_amd64.deb
+ db6715e979e42763a93c539125f96e04d4ddf348 1194 r-bioc-limma_3.16.7~dfsg-1.dsc
+ caa5fcd40e285913d7081dc4a8b70777220a9570 309741 r-bioc-limma_3.16.7~dfsg.orig.tar.gz
+ a0456ff44b13165cfb210264a1f1eee8a81bd305 4179 r-bioc-limma_3.16.7~dfsg-1.debian.tar.gz
+ 66aca97b5bbfe6f4163610e5c97316f6e632c01e 839742 r-bioc-limma_3.16.7~dfsg-1_amd64.deb
Checksums-Sha256:
- 12525e56b612d44cebd68f32cb645acf9f4708858682ef62ec87f9c666a46082 2030 r-bioc-limma_3.12.0~dfsg-1.dsc
- b6d1b2ea73dcee00092c5b2df553a76206be26220813cbdac06287fbd5294500 282812 r-bioc-limma_3.12.0~dfsg.orig.tar.gz
- 48c92c920e283293764dba120553efa4efb8c00be5704fc22ec4842e7a69d41a 3098 r-bioc-limma_3.12.0~dfsg-1.diff.gz
- cce5635f18fe8f51070d4caf586ee50827bd0e2da161565d05f12c06a0b38acf 805696 r-bioc-limma_3.12.0~dfsg-1_amd64.deb
+ 09570962c084ab971c0c4b82f99e88396d3ac2aae971c273c393de3e8080347d 1194 r-bioc-limma_3.16.7~dfsg-1.dsc
+ fc3be68e035e333ef10591bf5d2700b0645a8168a23de660be5692bc29874983 309741 r-bioc-limma_3.16.7~dfsg.orig.tar.gz
+ 23df5dd0e56090b29e3053f960cba883aca140d383f8620ddca433e82a11fc84 4179 r-bioc-limma_3.16.7~dfsg-1.debian.tar.gz
+ 3ca2c51d5d3c7cf8afa00f5cb89b0067cb9f6dac7cbe4aada9d38d3685c86695 839742 r-bioc-limma_3.16.7~dfsg-1_amd64.deb
Files:
- 2a3c13863987e87a396b69e47707b607 2030 gnu-r optional r-bioc-limma_3.12.0~dfsg-1.dsc
- e257693c72260d1ca3eb8602c442642e 282812 gnu-r optional r-bioc-limma_3.12.0~dfsg.orig.tar.gz
- a465d356326fb766d6f5cf6501ae4744 3098 gnu-r optional r-bioc-limma_3.12.0~dfsg-1.diff.gz
- 690f9c13fe136bd849b136ce088134f8 805696 gnu-r optional r-bioc-limma_3.12.0~dfsg-1_amd64.deb
-
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+ c1b5499eb04cfc989be46847970b003c 1194 gnu-r optional r-bioc-limma_3.16.7~dfsg-1.dsc
+ 52b146dd234554f70934e5644590f15d 309741 gnu-r optional r-bioc-limma_3.16.7~dfsg.orig.tar.gz
+ afcad26e2daafc45236d3ed157e724a2 4179 gnu-r optional r-bioc-limma_3.16.7~dfsg-1.debian.tar.gz
+ 07ac6fcd59c69e1bf73e43216a4b8075 839742 gnu-r optional r-bioc-limma_3.16.7~dfsg-1_amd64.deb
diff --git a/amd64.log b/amd64.log
index 28d894e..a0820a7 100644
--- a/amd64.log
+++ b/amd64.log
@@ -1,18 +1,20 @@
-sbuild (Debian sbuild) 0.62.6 (07 Dec 2011) on anx191
+sbuild (Debian sbuild) 0.64.0 (17 May 2013) on anx191
╔══════════════════════════════════════════════════════════════════════════════╗
-║ r-bioc-limma 3.12.0~dfsg-1 (amd64) 12 Apr 2012 11:42 ║
+║ r-bioc-limma 3.16.7~dfsg-1 (amd64) 04 Aug 2013 17:35 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: r-bioc-limma
-Version: 3.12.0~dfsg-1
-Source Version: 3.12.0~dfsg-1
+Version: 3.16.7~dfsg-1
+Source Version: 3.16.7~dfsg-1
Distribution: unstable
-Architecture: amd64
+Machine Architecture: amd64
+Host Architecture: amd64
+Build Architecture: amd64
-I: NOTICE: Log filtering will replace 'build/r-bioc-limma-X7_eNq/r-bioc-limma-3.12.0~dfsg' with '«PKGBUILDDIR»'
-I: NOTICE: Log filtering will replace 'build/r-bioc-limma-X7_eNq' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-b38d27c1-20f1-4265-900b-a1e78d65d190' with '«CHROOT»'
+I: NOTICE: Log filtering will replace 'build/r-bioc-limma-piiL2k/r-bioc-limma-3.16.7~dfsg' with '«PKGBUILDDIR»'
+I: NOTICE: Log filtering will replace 'build/r-bioc-limma-piiL2k' with '«BUILDDIR»'
+I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-a5d45d11-4123-4f17-9654-8779a0f98df7' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
@@ -20,8 +22,7 @@ I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-b3
Hit http://ftp.jp.debian.org sid InRelease
Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
-Hit http://ftp.jp.debian.org sid/main TranslationIndex
-Hit http://ftp.jp.debian.org sid/main Translation-en
+Hit http://ftp.jp.debian.org sid/main Translation-en/DiffIndex
Reading package lists...
Reading package lists...
Building dependency tree...
@@ -36,14 +37,14 @@ Reading state information...
Local sources
─────────────
-r-bioc-limma_3.12.0~dfsg-1.dsc exists in .; copying to chroot
+r-bioc-limma_3.16.7~dfsg-1.dsc exists in .; copying to chroot
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-EyGAmY/apt_archive/sbuild-build-depends-core-dummy.deb'.
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-Ebnh2u/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Reading package lists...
@@ -56,10 +57,13 @@ Reading package lists...
Building dependency tree...
Reading state information...
sbuild-build-depends-core-dummy is already the newest version.
+The following packages were automatically installed and are no longer required:
+ g++-4.7 libstdc++6-4.7-dev
+Use 'apt-get autoremove' to remove them.
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), cdbs, r-base-dev (>= 2.14.2~20120222)
-Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), cdbs, r-base-dev (>= 2.14.2~20120222)
-dpkg-deb: building package `sbuild-build-depends-r-bioc-limma-dummy' in `/«BUILDDIR»/resolver-ekvL9T/apt_archive/sbuild-build-depends-r-bioc-limma-dummy.deb'.
+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
+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
+dpkg-deb: building package `sbuild-build-depends-r-bioc-limma-dummy' in `/«BUILDDIR»/resolver-92daPL/apt_archive/sbuild-build-depends-r-bioc-limma-dummy.deb'.
OK
Reading package lists...
@@ -71,354 +75,479 @@ Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
+The following packages were automatically installed and are no longer required:
+ g++-4.7 libstdc++6-4.7-dev
+Use 'apt-get autoremove' to remove them.
The following extra packages will be installed:
- cdbs debhelper dpatch file fontconfig fontconfig-config gettext gettext-base
- gfortran gfortran-4.6 groff-base html2text intltool-debian libblas-dev
- libblas3gf libbz2-dev libcairo2 libcroco3 libdatrie1 libexpat1 libffi5
- libfontconfig1 libfreetype6 libgfortran3 libglib2.0-0 libice6 libjpeg8
- libjpeg8-dev liblapack-dev liblapack3gf libmagic1 libncurses5-dev
- libpango1.0-0 libpaper-utils libpaper1 libpcre3 libpcre3-dev libpcrecpp0
- libpipeline1 libpixman-1-0 libpng12-dev libreadline-dev libreadline6-dev
- libsm6 libthai-data libthai0 libtiff4 libtinfo-dev 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 tcl8.5 tk8.5 ttf-dejavu-core unzip x11-common xdg-utils zip
- zlib1g-dev
+ 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 libharfbuzz0a libice6 libjbig0 libjpeg8 libjpeg8-dev
+ liblapack-dev liblapack3 libllvm3.2 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 libthai-data libthai0 libtiff5 libtinfo-dev libudev0
+ 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 tcl8.5 tk8.5 ttf-dejavu-core ucf unzip x11-common
+ xdg-utils zip zlib1g-dev
Suggested packages:
- devscripts dh-make curl defoma gettext-doc gfortran-multilib gfortran-doc
- gfortran-4.6-multilib gfortran-4.6-doc libgfortran3-dbg groff ncurses-doc
+ devscripts dh-make gettext-doc gfortran-multilib gfortran-doc
+ gfortran-4.8-multilib gfortran-4.8-doc libgfortran3-dbg groff ncurses-doc
ttf-baekmuk ttf-arphic-gbsn00lp ttf-arphic-bsmi00lp ttf-arphic-gkai00mp
ttf-arphic-bkai00mp 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 tclreadline gvfs-bin
+ texi2html tcl-tclreadline gvfs-bin
Recommended packages:
- autotools-dev patchutils autopoint 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
+ 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:
- cdbs debhelper dpatch file fontconfig fontconfig-config gettext gettext-base
- gfortran gfortran-4.6 groff-base html2text intltool-debian libblas-dev
- libblas3gf libbz2-dev libcairo2 libcroco3 libdatrie1 libexpat1 libffi5
- libfontconfig1 libfreetype6 libgfortran3 libglib2.0-0 libice6 libjpeg8
- libjpeg8-dev liblapack-dev liblapack3gf libmagic1 libncurses5-dev
- libpango1.0-0 libpaper-utils libpaper1 libpcre3 libpcre3-dev libpcrecpp0
- libpipeline1 libpixman-1-0 libpng12-dev libreadline-dev libreadline6-dev
- libsm6 libthai-data libthai0 libtiff4 libtinfo-dev 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 sbuild-build-depends-r-bioc-limma-dummy tcl8.5 tk8.5
- ttf-dejavu-core unzip x11-common xdg-utils zip zlib1g-dev
-0 upgraded, 75 newly installed, 0 to remove and 0 not upgraded.
-Need to get 42.6 MB/58.9 MB of archives.
-After this operation, 128 MB of additional disk space will be used.
-Get:1 http://ftp.jp.debian.org/debian/ sid/main libpipeline1 amd64 1.2.1-1 [39.2 kB]
-Get:2 http://ftp.jp.debian.org/debian/ sid/main libmagic1 amd64 5.11-1 [250 kB]
-Get:3 http://ftp.jp.debian.org/debian/ sid/main libpcre3 amd64 1:8.30-4 [242 kB]
-Get:4 http://ftp.jp.debian.org/debian/ sid/main libexpat1 amd64 2.1.0-1 [141 kB]
-Get:5 http://ftp.jp.debian.org/debian/ sid/main libfreetype6 amd64 2.4.9-1 [450 kB]
-Get:6 http://ftp.jp.debian.org/debian/ sid/main fontconfig-config all 2.8.0-3.1 [219 kB]
-Get:7 http://ftp.jp.debian.org/debian/ sid/main libfontconfig1 amd64 2.8.0-3.1 [283 kB]
-Get:8 http://ftp.jp.debian.org/debian/ sid/main libpixman-1-0 amd64 0.24.4-1 [406 kB]
-Get:9 http://ftp.jp.debian.org/debian/ sid/main libxau6 amd64 1:1.0.7-1 [18.8 kB]
-Get:10 http://ftp.jp.debian.org/debian/ sid/main libxcb1 amd64 1.8.1-1 [50.0 kB]
-Get:11 http://ftp.jp.debian.org/debian/ sid/main libxcb-render0 amd64 1.8.1-1 [18.4 kB]
-Get:12 http://ftp.jp.debian.org/debian/ sid/main libxcb-shm0 amd64 1.8.1-1 [10.1 kB]
-Get:13 http://ftp.jp.debian.org/debian/ sid/main libcairo2 amd64 1.12.0-2 [896 kB]
-Get:14 http://ftp.jp.debian.org/debian/ sid/main libglib2.0-0 amd64 2.32.0-4 [2054 kB]
-Get:15 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-7 [895 kB]
-Get:16 http://ftp.jp.debian.org/debian/ sid/main libcroco3 amd64 0.6.5-1 [151 kB]
-Get:17 http://ftp.jp.debian.org/debian/ sid/main libdatrie1 amd64 0.2.5-3 [28.6 kB]
-Get:18 http://ftp.jp.debian.org/debian/ sid/main libgfortran3 amd64 4.7.0-3 [352 kB]
-Get:19 http://ftp.jp.debian.org/debian/ sid/main x11-common all 1:7.6+12 [283 kB]
-Get:20 http://ftp.jp.debian.org/debian/ sid/main libice6 amd64 2:1.0.8-2 [63.1 kB]
-Get:21 http://ftp.jp.debian.org/debian/ sid/main libjpeg8 amd64 8d-1 [134 kB]
-Get:22 http://ftp.jp.debian.org/debian/ sid/main libthai-data all 0.1.17-1 [205 kB]
-Get:23 http://ftp.jp.debian.org/debian/ sid/main libthai0 amd64 0.1.17-1 [44.8 kB]
-Get:24 http://ftp.jp.debian.org/debian/ sid/main fontconfig amd64 2.8.0-3.1 [335 kB]
-Get:25 http://ftp.jp.debian.org/debian/ sid/main libpango1.0-0 amd64 1.30.0-1 [461 kB]
-Get:26 http://ftp.jp.debian.org/debian/ sid/main libpcrecpp0 amd64 1:8.30-4 [125 kB]
-Get:27 http://ftp.jp.debian.org/debian/ sid/main libsm6 amd64 2:1.2.1-2 [34.2 kB]
-Get:28 http://ftp.jp.debian.org/debian/ sid/main libtiff4 amd64 3.9.6-2 [200 kB]
-Get:29 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-7 [1151 kB]
-Get:30 http://ftp.jp.debian.org/debian/ sid/main man-db amd64 2.6.1-2 [1057 kB]
-Get:31 http://ftp.jp.debian.org/debian/ sid/main file amd64 5.11-1 [53.2 kB]
-Get:32 http://ftp.jp.debian.org/debian/ sid/main cdbs all 0.4.109 [79.4 kB]
-Get:33 http://ftp.jp.debian.org/debian/ sid/main debhelper all 9.20120410 [694 kB]
-Get:34 http://ftp.jp.debian.org/debian/ sid/main dpatch all 2.0.35 [95.2 kB]
-Get:35 http://ftp.jp.debian.org/debian/ sid/main gfortran-4.6 amd64 4.6.3-3 [5565 kB]
-Get:36 http://ftp.jp.debian.org/debian/ sid/main gfortran amd64 4:4.6.3-4 [1134 B]
-Get:37 http://ftp.jp.debian.org/debian/ sid/main libbz2-dev amd64 1.0.6-1 [32.1 kB]
-Get:38 http://ftp.jp.debian.org/debian/ sid/main libjpeg8-dev amd64 8d-1 [242 kB]
-Get:39 http://ftp.jp.debian.org/debian/ sid/main libtinfo-dev amd64 5.9-6 [103 kB]
-Get:40 http://ftp.jp.debian.org/debian/ sid/main libncurses5-dev amd64 5.9-6 [406 kB]
-Get:41 http://ftp.jp.debian.org/debian/ sid/main libpcre3-dev amd64 1:8.30-4 [348 kB]
-Get:42 http://ftp.jp.debian.org/debian/ sid/main zlib1g-dev amd64 1:1.2.6.dfsg-2 [213 kB]
-Get:43 http://ftp.jp.debian.org/debian/ sid/main libpng12-dev amd64 1.2.49-1 [266 kB]
-Get:44 http://ftp.jp.debian.org/debian/ sid/main libreadline6-dev amd64 6.2-8 [264 kB]
-Get:45 http://ftp.jp.debian.org/debian/ sid/main libreadline-dev amd64 6.2-8 [890 B]
-Get:46 http://ftp.jp.debian.org/debian/ sid/main unzip amd64 6.0-6 [194 kB]
-Get:47 http://ftp.jp.debian.org/debian/ sid/main xdg-utils all 1.1.0~rc1+git20111210-6 [83.7 kB]
-Get:48 http://ftp.jp.debian.org/debian/ sid/main tcl8.5 amd64 8.5.11-1 [1633 kB]
-Get:49 http://ftp.jp.debian.org/debian/ sid/main tk8.5 amd64 8.5.11-1 [1183 kB]
-Get:50 http://ftp.jp.debian.org/debian/ sid/main r-base-core amd64 2.15.0-1 [20.5 MB]
-Get:51 http://ftp.jp.debian.org/debian/ sid/main r-base-dev all 2.15.0-1 [3900 B]
+ 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 libharfbuzz0a libice6 libjbig0 libjpeg8 libjpeg8-dev
+ liblapack-dev liblapack3 libllvm3.2 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 libthai-data libthai0 libtiff5 libtinfo-dev libudev0
+ 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 sbuild-build-depends-r-bioc-limma-dummy tcl8.5 tk8.5
+ ttf-dejavu-core ucf unzip x11-common xdg-utils zip zlib1g-dev
+0 upgraded, 98 newly installed, 0 to remove and 0 not upgraded.
+Need to get 70.8 MB/71.5 MB of archives.
+After this operation, 160 MB of additional disk space will be used.
+Get:1 http://ftp.jp.debian.org/debian/ sid/main libpipeline1 amd64 1.2.4-1 [41.0 kB]
+Get:2 http://ftp.jp.debian.org/debian/ sid/main libudev0 amd64 175-7.2 [126 kB]
+Get:3 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.22.2-3 [747 kB]
+Get:4 http://ftp.jp.debian.org/debian/ sid/main man-db amd64 2.6.5-2 [976 kB]
+Get:5 http://ftp.jp.debian.org/debian/ sid/main libasprintf0c2 amd64 0.18.3-1 [29.6 kB]
+Get:6 http://ftp.jp.debian.org/debian/ sid/main libmagic1 amd64 1:5.14-2 [216 kB]
+Get:7 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.9.1+dfsg1-2 [911 kB]
+Get:8 http://ftp.jp.debian.org/debian/ sid/main libdrm2 amd64 2.4.45-3 [468 kB]
+Get:9 http://ftp.jp.debian.org/debian/ sid/main libffi6 amd64 3.0.13-4 [21.6 kB]
+Get:10 http://ftp.jp.debian.org/debian/ sid/main libglapi-mesa amd64 9.1.4-1 [49.2 kB]
+Get:11 http://ftp.jp.debian.org/debian/ sid/main libllvm3.2 amd64 1:3.2repack-10 [8040 kB]
+Get:12 http://ftp.jp.debian.org/debian/ sid/main libxau6 amd64 1:1.0.8-1 [20.7 kB]
+Get:13 http://ftp.jp.debian.org/debian/ sid/main libxdmcp6 amd64 1:1.1.1-1 [26.3 kB]
+Get:14 http://ftp.jp.debian.org/debian/ sid/main libxcb1 amd64 1.9.1-3 [50.3 kB]
+Get:15 http://ftp.jp.debian.org/debian/ sid/main libxcb-dri2-0 amd64 1.9.1-3 [12.9 kB]
+Get:16 http://ftp.jp.debian.org/debian/ sid/main libgbm1 amd64 9.1.4-1 [469 kB]
+Get:17 http://ftp.jp.debian.org/debian/ sid/main libwayland-client0 amd64 1.1.0-2 [23.0 kB]
+Get:18 http://ftp.jp.debian.org/debian/ sid/main libwayland-server0 amd64 1.1.0-2 [33.0 kB]
+Get:19 http://ftp.jp.debian.org/debian/ sid/main libx11-data all 2:1.6.0-1 [191 kB]
+Get:20 http://ftp.jp.debian.org/debian/ sid/main libx11-6 amd64 2:1.6.0-1 [919 kB]
+Get:21 http://ftp.jp.debian.org/debian/ sid/main libx11-xcb1 amd64 2:1.6.0-1 [153 kB]
+Get:22 http://ftp.jp.debian.org/debian/ sid/main libxcb-render0 amd64 1.9.1-3 [19.0 kB]
+Get:23 http://ftp.jp.debian.org/debian/ sid/main libxcb-shape0 amd64 1.9.1-3 [11.5 kB]
+Get:24 http://ftp.jp.debian.org/debian/ sid/main libxcb-xfixes0 amd64 1.9.1-3 [14.9 kB]
+Get:25 http://ftp.jp.debian.org/debian/ sid/main libegl1-mesa amd64 9.1.4-1 [83.7 kB]
+Get:26 http://ftp.jp.debian.org/debian/ sid/main libexpat1 amd64 2.1.0-4 [138 kB]
+Get:27 http://ftp.jp.debian.org/debian/ sid/main libfreetype6 amd64 2.4.9-1.1 [451 kB]
+Get:28 http://ftp.jp.debian.org/debian/ sid/main ucf all 3.0027+nmu1 [70.6 kB]
+Get:29 http://ftp.jp.debian.org/debian/ sid/main fonts-dejavu-core all 2.33+svn2514-3 [1042 kB]
+Get:30 http://ftp.jp.debian.org/debian/ sid/main ttf-dejavu-core all 2.33+svn2514-3 [29.8 kB]
+Get:31 http://ftp.jp.debian.org/debian/ sid/main fontconfig-config all 2.10.2-2 [251 kB]
+Get:32 http://ftp.jp.debian.org/debian/ sid/main libfontconfig1 amd64 2.10.2-2 [319 kB]
+Get:33 http://ftp.jp.debian.org/debian/ sid/main libxcb-glx0 amd64 1.9.1-3 [32.5 kB]
+Get:34 http://ftp.jp.debian.org/debian/ sid/main libxfixes3 amd64 1:5.0.1-1 [22.5 kB]
+Get:35 http://ftp.jp.debian.org/debian/ sid/main libxdamage1 amd64 1:1.1.4-1 [15.1 kB]
+Get:36 http://ftp.jp.debian.org/debian/ sid/main libxext6 amd64 2:1.3.2-1 [56.5 kB]
+Get:37 http://ftp.jp.debian.org/debian/ sid/main libxxf86vm1 amd64 1:1.1.2-1+deb7u1 [19.5 kB]
+Get:38 http://ftp.jp.debian.org/debian/ sid/main libgl1-mesa-glx amd64 9.1.4-1 [133 kB]
+Get:39 http://ftp.jp.debian.org/debian/ sid/main libpixman-1-0 amd64 0.30.0-3 [477 kB]
+Get:40 http://ftp.jp.debian.org/debian/ sid/main libxcb-shm0 amd64 1.9.1-3 [10.8 kB]
+Get:41 http://ftp.jp.debian.org/debian/ sid/main libxrender1 amd64 1:0.9.8-1 [33.5 kB]
+Get:42 http://ftp.jp.debian.org/debian/ sid/main libcairo2 amd64 1.12.14-5 [1044 kB]
+Get:43 http://ftp.jp.debian.org/debian/ sid/main libglib2.0-0 amd64 2.36.3-3 [2048 kB]
+Get:44 http://ftp.jp.debian.org/debian/ sid/main libcroco3 amd64 0.6.8-2 [133 kB]
+Get:45 http://ftp.jp.debian.org/debian/ sid/main libdatrie1 amd64 0.2.6-2 [30.2 kB]
+Get:46 http://ftp.jp.debian.org/debian/ sid/main libgfortran3 amd64 4.8.1-8 [345 kB]
+Get:47 http://ftp.jp.debian.org/debian/ sid/main libgraphite2-3 amd64 1.2.3-1 [61.3 kB]
+Get:48 http://ftp.jp.debian.org/debian/ sid/main libharfbuzz0a amd64 0.9.19-1 [441 kB]
+Get:49 http://ftp.jp.debian.org/debian/ sid/main x11-common all 1:7.7+3 [284 kB]
+Get:50 http://ftp.jp.debian.org/debian/ sid/main libice6 amd64 2:1.0.8-2 [63.1 kB]
+Get:51 http://ftp.jp.debian.org/debian/ sid/main libjpeg8 amd64 8d-1 [134 kB]
+Get:52 http://ftp.jp.debian.org/debian/ sid/main libthai-data all 0.1.19-2 [156 kB]
+Get:53 http://ftp.jp.debian.org/debian/ sid/main libthai0 amd64 0.1.19-2 [43.1 kB]
+Get:54 http://ftp.jp.debian.org/debian/ sid/main fontconfig amd64 2.10.2-2 [375 kB]
+Get:55 http://ftp.jp.debian.org/debian/ sid/main libpango-1.0-0 amd64 1.32.5-5+b1 [263 kB]
+Get:56 http://ftp.jp.debian.org/debian/ sid/main libpangoft2-1.0-0 amd64 1.32.5-5+b1 [187 kB]
+Get:57 http://ftp.jp.debian.org/debian/ sid/main libpangocairo-1.0-0 amd64 1.32.5-5+b1 [174 kB]
+Get:58 http://ftp.jp.debian.org/debian/ sid/main libpaper1 amd64 1.1.24+nmu2 [22.0 kB]
+Get:59 http://ftp.jp.debian.org/debian/ sid/main libpcrecpp0 amd64 1:8.31-2 [128 kB]
+Get:60 http://ftp.jp.debian.org/debian/ sid/main libsm6 amd64 2:1.2.1-2 [34.2 kB]
+Get:61 http://ftp.jp.debian.org/debian/ sid/main libjbig0 amd64 2.0-2 [32.2 kB]
+Get:62 http://ftp.jp.debian.org/debian/ sid/main libtiff5 amd64 4.0.3-1 [237 kB]
+Get:63 http://ftp.jp.debian.org/debian/ sid/main libxft2 amd64 2.3.1-1 [61.0 kB]
+Get:64 http://ftp.jp.debian.org/debian/ sid/main libxss1 amd64 1:1.2.2-1 [17.5 kB]
+Get:65 http://ftp.jp.debian.org/debian/ sid/main libxt6 amd64 1:1.1.3-1+deb7u1 [212 kB]
+Get:66 http://ftp.jp.debian.org/debian/ sid/main file amd64 1:5.14-2 [54.0 kB]
+Get:67 http://ftp.jp.debian.org/debian/ sid/main gettext-base amd64 0.18.3-1 [161 kB]
+Get:68 http://ftp.jp.debian.org/debian/ sid/main cdbs all 0.4.122 [81.4 kB]
+Get:69 http://ftp.jp.debian.org/debian/ sid/main gettext amd64 0.18.3-1 [1898 kB]
+Get:70 http://ftp.jp.debian.org/debian/ sid/main debhelper all 9.20130630 [710 kB]
+Get:71 http://ftp.jp.debian.org/debian/ sid/main libgfortran-4.8-dev amd64 4.8.1-8 [436 kB]
+Get:72 http://ftp.jp.debian.org/debian/ sid/main gfortran-4.8 amd64 4.8.1-8 [6142 kB]
+Get:73 http://ftp.jp.debian.org/debian/ sid/main gfortran amd64 4:4.8.1-2 [1126 B]
+Get:74 http://ftp.jp.debian.org/debian/ sid/main libblas3 amd64 1.2.20110419-5 [293 kB]
+Get:75 http://ftp.jp.debian.org/debian/ sid/main libblas-dev amd64 1.2.20110419-5 [312 kB]
+Get:76 http://ftp.jp.debian.org/debian/ sid/main libbz2-dev amd64 1.0.6-4 [32.8 kB]
+Get:77 http://ftp.jp.debian.org/debian/ sid/main libjpeg8-dev amd64 8d-1 [242 kB]
+Get:78 http://ftp.jp.debian.org/debian/ sid/main liblapack3 amd64 3.4.2+dfsg-1 [5088 kB]
+Get:79 http://ftp.jp.debian.org/debian/ sid/main liblapack-dev amd64 3.4.2+dfsg-1 [5602 kB]
+Get:80 http://ftp.jp.debian.org/debian/ sid/main libtinfo-dev amd64 5.9+20130608-1 [108 kB]
+Get:81 http://ftp.jp.debian.org/debian/ sid/main libncurses5-dev amd64 5.9+20130608-1 [222 kB]
+Get:82 http://ftp.jp.debian.org/debian/ sid/main libpaper-utils amd64 1.1.24+nmu2 [18.3 kB]
+Get:83 http://ftp.jp.debian.org/debian/ sid/main libpcre3-dev amd64 1:8.31-2 [356 kB]
+Get:84 http://ftp.jp.debian.org/debian/ sid/main zlib1g-dev amd64 1:1.2.8.dfsg-1 [217 kB]
+Get:85 http://ftp.jp.debian.org/debian/ sid/main libpng12-dev amd64 1.2.49-4 [267 kB]
+Get:86 http://ftp.jp.debian.org/debian/ sid/main libreadline6-dev amd64 6.2+dfsg-0.1 [193 kB]
+Get:87 http://ftp.jp.debian.org/debian/ sid/main libreadline-dev amd64 6.2+dfsg-0.1 [896 B]
+Get:88 http://ftp.jp.debian.org/debian/ sid/main zip amd64 3.0-7 [336 kB]
+Get:89 http://ftp.jp.debian.org/debian/ sid/main unzip amd64 6.0-9 [194 kB]
+Get:90 http://ftp.jp.debian.org/debian/ sid/main xdg-utils all 1.1.0~rc1+git20111210-7 [83.7 kB]
+Get:91 http://ftp.jp.debian.org/debian/ sid/main tcl8.5 amd64 8.5.14-2 [1639 kB]
+Get:92 http://ftp.jp.debian.org/debian/ sid/main tk8.5 amd64 8.5.14-2 [1196 kB]
+Get:93 http://ftp.jp.debian.org/debian/ sid/main r-base-core amd64 3.0.1-6 [21.6 MB]
+Get:94 http://ftp.jp.debian.org/debian/ sid/main r-base-dev all 3.0.1-6 [3898 B]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 42.6 MB in 14s (3012 kB/s)
+Fetched 70.8 MB in 17s (4157 kB/s)
Selecting previously unselected package libpipeline1:amd64.
-(Reading database ... 10946 files and directories currently installed.)
-Unpacking libpipeline1:amd64 (from .../libpipeline1_1.2.1-1_amd64.deb) ...
+(Reading database ... 12039 files and directories currently installed.)
+Unpacking libpipeline1:amd64 (from .../libpipeline1_1.2.4-1_amd64.deb) ...
+Selecting previously unselected package libudev0:amd64.
+Unpacking libudev0:amd64 (from .../libudev0_175-7.2_amd64.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.22.2-3_amd64.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.5-2_amd64.deb) ...
+Selecting previously unselected package libasprintf0c2:amd64.
+Unpacking libasprintf0c2:amd64 (from .../libasprintf0c2_0.18.3-1_amd64.deb) ...
Selecting previously unselected package libmagic1:amd64.
-Unpacking libmagic1:amd64 (from .../libmagic1_5.11-1_amd64.deb) ...
-Selecting previously unselected package libpcre3:amd64.
-Unpacking libpcre3:amd64 (from .../libpcre3_1%3a8.30-4_amd64.deb) ...
-Selecting previously unselected package libexpat1:amd64.
-Unpacking libexpat1:amd64 (from .../libexpat1_2.1.0-1_amd64.deb) ...
-Selecting previously unselected package libfreetype6:amd64.
-Unpacking libfreetype6:amd64 (from .../libfreetype6_2.4.9-1_amd64.deb) ...
-Selecting previously unselected package ttf-dejavu-core.
-Unpacking ttf-dejavu-core (from .../ttf-dejavu-core_2.33-2_all.deb) ...
-Selecting previously unselected package fontconfig-config.
-Unpacking fontconfig-config (from .../fontconfig-config_2.8.0-3.1_all.deb) ...
-Selecting previously unselected package libfontconfig1:amd64.
-Unpacking libfontconfig1:amd64 (from .../libfontconfig1_2.8.0-3.1_amd64.deb) ...
-Selecting previously unselected package libpixman-1-0:amd64.
-Unpacking libpixman-1-0:amd64 (from .../libpixman-1-0_0.24.4-1_amd64.deb) ...
+Unpacking libmagic1:amd64 (from .../libmagic1_1%3a5.14-2_amd64.deb) ...
+Selecting previously unselected package libxml2:amd64.
+Unpacking libxml2:amd64 (from .../libxml2_2.9.1+dfsg1-2_amd64.deb) ...
+Selecting previously unselected package libdrm2:amd64.
+Unpacking libdrm2:amd64 (from .../libdrm2_2.4.45-3_amd64.deb) ...
+Selecting previously unselected package libffi6:amd64.
+Unpacking libffi6:amd64 (from .../libffi6_3.0.13-4_amd64.deb) ...
+Selecting previously unselected package libglapi-mesa:amd64.
+Unpacking libglapi-mesa:amd64 (from .../libglapi-mesa_9.1.4-1_amd64.deb) ...
+Selecting previously unselected package libllvm3.2:amd64.
+Unpacking libllvm3.2:amd64 (from .../libllvm3.2_1%3a3.2repack-10_amd64.deb) ...
Selecting previously unselected package libxau6:amd64.
-Unpacking libxau6:amd64 (from .../libxau6_1%3a1.0.7-1_amd64.deb) ...
+Unpacking libxau6:amd64 (from .../libxau6_1%3a1.0.8-1_amd64.deb) ...
Selecting previously unselected package libxdmcp6:amd64.
-Unpacking libxdmcp6:amd64 (from .../libxdmcp6_1%3a1.1.0-4_amd64.deb) ...
+Unpacking libxdmcp6:amd64 (from .../libxdmcp6_1%3a1.1.1-1_amd64.deb) ...
Selecting previously unselected package libxcb1:amd64.
-Unpacking libxcb1:amd64 (from .../libxcb1_1.8.1-1_amd64.deb) ...
+Unpacking libxcb1:amd64 (from .../libxcb1_1.9.1-3_amd64.deb) ...
+Selecting previously unselected package libxcb-dri2-0:amd64.
+Unpacking libxcb-dri2-0:amd64 (from .../libxcb-dri2-0_1.9.1-3_amd64.deb) ...
+Selecting previously unselected package libgbm1:amd64.
+Unpacking libgbm1:amd64 (from .../libgbm1_9.1.4-1_amd64.deb) ...
+Selecting previously unselected package libwayland-client0:amd64.
+Unpacking libwayland-client0:amd64 (from .../libwayland-client0_1.1.0-2_amd64.deb) ...
+Selecting previously unselected package libwayland-server0:amd64.
+Unpacking libwayland-server0:amd64 (from .../libwayland-server0_1.1.0-2_amd64.deb) ...
Selecting previously unselected package libx11-data.
-Unpacking libx11-data (from .../libx11-data_2%3a1.4.4-4_all.deb) ...
+Unpacking libx11-data (from .../libx11-data_2%3a1.6.0-1_all.deb) ...
Selecting previously unselected package libx11-6:amd64.
-Unpacking libx11-6:amd64 (from .../libx11-6_2%3a1.4.4-4_amd64.deb) ...
+Unpacking libx11-6:amd64 (from .../libx11-6_2%3a1.6.0-1_amd64.deb) ...
+Selecting previously unselected package libx11-xcb1:amd64.
+Unpacking libx11-xcb1:amd64 (from .../libx11-xcb1_2%3a1.6.0-1_amd64.deb) ...
Selecting previously unselected package libxcb-render0:amd64.
-Unpacking libxcb-render0:amd64 (from .../libxcb-render0_1.8.1-1_amd64.deb) ...
+Unpacking libxcb-render0:amd64 (from .../libxcb-render0_1.9.1-3_amd64.deb) ...
+Selecting previously unselected package libxcb-shape0:amd64.
+Unpacking libxcb-shape0:amd64 (from .../libxcb-shape0_1.9.1-3_amd64.deb) ...
+Selecting previously unselected package libxcb-xfixes0:amd64.
+Unpacking libxcb-xfixes0:amd64 (from .../libxcb-xfixes0_1.9.1-3_amd64.deb) ...
+Selecting previously unselected package libegl1-mesa:amd64.
+Unpacking libegl1-mesa:amd64 (from .../libegl1-mesa_9.1.4-1_amd64.deb) ...
+Selecting previously unselected package libexpat1:amd64.
+Unpacking libexpat1:amd64 (from .../libexpat1_2.1.0-4_amd64.deb) ...
+Selecting previously unselected package libfreetype6:amd64.
+Unpacking libfreetype6:amd64 (from .../libfreetype6_2.4.9-1.1_amd64.deb) ...
+Selecting previously unselected package ucf.
+Unpacking ucf (from .../ucf_3.0027+nmu1_all.deb) ...
+Moving old data out of the way
+Selecting previously unselected package fonts-dejavu-core.
+Unpacking fonts-dejavu-core (from .../fonts-dejavu-core_2.33+svn2514-3_all.deb) ...
+Selecting previously unselected package ttf-dejavu-core.
+Unpacking ttf-dejavu-core (from .../ttf-dejavu-core_2.33+svn2514-3_all.deb) ...
+Selecting previously unselected package fontconfig-config.
+Unpacking fontconfig-config (from .../fontconfig-config_2.10.2-2_all.deb) ...
+Selecting previously unselected package libfontconfig1:amd64.
+Unpacking libfontconfig1:amd64 (from .../libfontconfig1_2.10.2-2_amd64.deb) ...
+Selecting previously unselected package libxcb-glx0:amd64.
+Unpacking libxcb-glx0:amd64 (from .../libxcb-glx0_1.9.1-3_amd64.deb) ...
+Selecting previously unselected package libxfixes3:amd64.
+Unpacking libxfixes3:amd64 (from .../libxfixes3_1%3a5.0.1-1_amd64.deb) ...
+Selecting previously unselected package libxdamage1:amd64.
+Unpacking libxdamage1:amd64 (from .../libxdamage1_1%3a1.1.4-1_amd64.deb) ...
+Selecting previously unselected package libxext6:amd64.
+Unpacking libxext6:amd64 (from .../libxext6_2%3a1.3.2-1_amd64.deb) ...
+Selecting previously unselected package libxxf86vm1:amd64.
+Unpacking libxxf86vm1:amd64 (from .../libxxf86vm1_1%3a1.1.2-1+deb7u1_amd64.deb) ...
+Selecting previously unselected package libgl1-mesa-glx:amd64.
+Unpacking libgl1-mesa-glx:amd64 (from .../libgl1-mesa-glx_9.1.4-1_amd64.deb) ...
+Selecting previously unselected package libpixman-1-0:amd64.
+Unpacking libpixman-1-0:amd64 (from .../libpixman-1-0_0.30.0-3_amd64.deb) ...
Selecting previously unselected package libxcb-shm0:amd64.
-Unpacking libxcb-shm0:amd64 (from .../libxcb-shm0_1.8.1-1_amd64.deb) ...
+Unpacking libxcb-shm0:amd64 (from .../libxcb-shm0_1.9.1-3_amd64.deb) ...
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-Unpacking libxrender1:amd64 (from .../libxrender1_1%3a0.9.6-2_amd64.deb) ...
+Unpacking libxrender1:amd64 (from .../libxrender1_1%3a0.9.8-1_amd64.deb) ...
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-Unpacking libcairo2:amd64 (from .../libcairo2_1.12.0-2_amd64.deb) ...
-Selecting previously unselected package libffi5:amd64.
-Unpacking libffi5:amd64 (from .../libffi5_3.0.10-3_amd64.deb) ...
+Unpacking libcairo2:amd64 (from .../libcairo2_1.12.14-5_amd64.deb) ...
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-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-7_amd64.deb) ...
+Unpacking libglib2.0-0:amd64 (from .../libglib2.0-0_2.36.3-3_amd64.deb) ...
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-Unpacking libcroco3:amd64 (from .../libcroco3_0.6.5-1_amd64.deb) ...
+Unpacking libcroco3:amd64 (from .../libcroco3_0.6.8-2_amd64.deb) ...
Selecting previously unselected package libdatrie1:amd64.
-Unpacking libdatrie1:amd64 (from .../libdatrie1_0.2.5-3_amd64.deb) ...
+Unpacking libdatrie1:amd64 (from .../libdatrie1_0.2.6-2_amd64.deb) ...
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-Unpacking libgfortran3:amd64 (from .../libgfortran3_4.7.0-3_amd64.deb) ...
+Unpacking libgfortran3:amd64 (from .../libgfortran3_4.8.1-8_amd64.deb) ...
+Selecting previously unselected package libgraphite2-3:amd64.
+Unpacking libgraphite2-3:amd64 (from .../libgraphite2-3_1.2.3-1_amd64.deb) ...
+Selecting previously unselected package libharfbuzz0a:amd64.
+Unpacking libharfbuzz0a:amd64 (from .../libharfbuzz0a_0.9.19-1_amd64.deb) ...
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-Unpacking x11-common (from .../x11-common_1%3a7.6+12_all.deb) ...
+Unpacking x11-common (from .../x11-common_1%3a7.7+3_all.deb) ...
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Unpacking libice6:amd64 (from .../libice6_2%3a1.0.8-2_amd64.deb) ...
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Unpacking libjpeg8:amd64 (from .../libjpeg8_8d-1_amd64.deb) ...
Selecting previously unselected package libthai-data.
-Unpacking libthai-data (from .../libthai-data_0.1.17-1_all.deb) ...
+Unpacking libthai-data (from .../libthai-data_0.1.19-2_all.deb) ...
Selecting previously unselected package libthai0:amd64.
-Unpacking libthai0:amd64 (from .../libthai0_0.1.17-1_amd64.deb) ...
-Selecting previously unselected package libxft2:amd64.
-Unpacking libxft2:amd64 (from .../libxft2_2.2.0-3_amd64.deb) ...
+Unpacking libthai0:amd64 (from .../libthai0_0.1.19-2_amd64.deb) ...
Selecting previously unselected package fontconfig.
-Unpacking fontconfig (from .../fontconfig_2.8.0-3.1_amd64.deb) ...
-Selecting previously unselected package libpango1.0-0:amd64.
-Unpacking libpango1.0-0:amd64 (from .../libpango1.0-0_1.30.0-1_amd64.deb) ...
+Unpacking fontconfig (from .../fontconfig_2.10.2-2_amd64.deb) ...
+Selecting previously unselected package libpango-1.0-0:amd64.
+Unpacking libpango-1.0-0:amd64 (from .../libpango-1.0-0_1.32.5-5+b1_amd64.deb) ...
+Selecting previously unselected package libpangoft2-1.0-0:amd64.
+Unpacking libpangoft2-1.0-0:amd64 (from .../libpangoft2-1.0-0_1.32.5-5+b1_amd64.deb) ...
+Selecting previously unselected package libpangocairo-1.0-0:amd64.
+Unpacking libpangocairo-1.0-0:amd64 (from .../libpangocairo-1.0-0_1.32.5-5+b1_amd64.deb) ...
+Selecting previously unselected package libpaper1:amd64.
+Unpacking libpaper1:amd64 (from .../libpaper1_1.1.24+nmu2_amd64.deb) ...
Selecting previously unselected package libpcrecpp0:amd64.
-Unpacking libpcrecpp0:amd64 (from .../libpcrecpp0_1%3a8.30-4_amd64.deb) ...
+Unpacking libpcrecpp0:amd64 (from .../libpcrecpp0_1%3a8.31-2_amd64.deb) ...
Selecting previously unselected package libsm6:amd64.
Unpacking libsm6:amd64 (from .../libsm6_2%3a1.2.1-2_amd64.deb) ...
-Selecting previously unselected package libtiff4:amd64.
-Unpacking libtiff4:amd64 (from .../libtiff4_3.9.6-2_amd64.deb) ...
+Selecting previously unselected package libjbig0:amd64.
+Unpacking libjbig0:amd64 (from .../libjbig0_2.0-2_amd64.deb) ...
+Selecting previously unselected package libtiff5:amd64.
+Unpacking libtiff5:amd64 (from .../libtiff5_4.0.3-1_amd64.deb) ...
Selecting previously unselected package libunistring0:amd64.
Unpacking libunistring0:amd64 (from .../libunistring0_0.9.3-5_amd64.deb) ...
-Selecting previously unselected package libxext6:amd64.
-Unpacking libxext6:amd64 (from .../libxext6_2%3a1.3.0-3_amd64.deb) ...
+Selecting previously unselected package libxft2:amd64.
+Unpacking libxft2:amd64 (from .../libxft2_2.3.1-1_amd64.deb) ...
Selecting previously unselected package libxss1:amd64.
-Unpacking libxss1:amd64 (from .../libxss1_1%3a1.2.1-2_amd64.deb) ...
+Unpacking libxss1:amd64 (from .../libxss1_1%3a1.2.2-1_amd64.deb) ...
Selecting previously unselected package libxt6:amd64.
-Unpacking libxt6:amd64 (from .../libxt6_1%3a1.1.1-2_amd64.deb) ...
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-Selecting previously unselected package man-db.
-Unpacking man-db (from .../man-db_2.6.1-2_amd64.deb) ...
+Unpacking libxt6:amd64 (from .../libxt6_1%3a1.1.3-1+deb7u1_amd64.deb) ...
Selecting previously unselected package file.
-Unpacking file (from .../archives/file_5.11-1_amd64.deb) ...
+Unpacking file (from .../file_1%3a5.14-2_amd64.deb) ...
Selecting previously unselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_amd64.deb) ...
+Unpacking gettext-base (from .../gettext-base_0.18.3-1_amd64.deb) ...
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-Unpacking cdbs (from .../archives/cdbs_0.4.109_all.deb) ...
-Selecting previously unselected package html2text.
-Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
+Unpacking cdbs (from .../archives/cdbs_0.4.122_all.deb) ...
Selecting previously unselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-5_amd64.deb) ...
+Unpacking gettext (from .../gettext_0.18.3-1_amd64.deb) ...
Selecting previously unselected package intltool-debian.
Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
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Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2_all.deb) ...
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-Selecting previously unselected package gfortran-4.6.
-Unpacking gfortran-4.6 (from .../gfortran-4.6_4.6.3-3_amd64.deb) ...
+Unpacking debhelper (from .../debhelper_9.20130630_all.deb) ...
+Selecting previously unselected package libgfortran-4.8-dev:amd64.
+Unpacking libgfortran-4.8-dev:amd64 (from .../libgfortran-4.8-dev_4.8.1-8_amd64.deb) ...
+Selecting previously unselected package gfortran-4.8.
+Unpacking gfortran-4.8 (from .../gfortran-4.8_4.8.1-8_amd64.deb) ...
Selecting previously unselected package gfortran.
-Unpacking gfortran (from .../gfortran_4%3a4.6.3-4_amd64.deb) ...
-Selecting previously unselected package libblas3gf.
-Unpacking libblas3gf (from .../libblas3gf_1.2.20110419-2_amd64.deb) ...
+Unpacking gfortran (from .../gfortran_4%3a4.8.1-2_amd64.deb) ...
+Selecting previously unselected package libblas3.
+Unpacking libblas3 (from .../libblas3_1.2.20110419-5_amd64.deb) ...
Selecting previously unselected package libblas-dev.
-Unpacking libblas-dev (from .../libblas-dev_1.2.20110419-2_amd64.deb) ...
+Unpacking libblas-dev (from .../libblas-dev_1.2.20110419-5_amd64.deb) ...
Selecting previously unselected package libbz2-dev:amd64.
-Unpacking libbz2-dev:amd64 (from .../libbz2-dev_1.0.6-1_amd64.deb) ...
+Unpacking libbz2-dev:amd64 (from .../libbz2-dev_1.0.6-4_amd64.deb) ...
Selecting previously unselected package libjpeg8-dev:amd64.
Unpacking libjpeg8-dev:amd64 (from .../libjpeg8-dev_8d-1_amd64.deb) ...
-Selecting previously unselected package liblapack3gf.
-Unpacking liblapack3gf (from .../liblapack3gf_3.3.1-1_amd64.deb) ...
+Selecting previously unselected package liblapack3.
+Unpacking liblapack3 (from .../liblapack3_3.4.2+dfsg-1_amd64.deb) ...
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-Unpacking liblapack-dev (from .../liblapack-dev_3.3.1-1_amd64.deb) ...
+Unpacking liblapack-dev (from .../liblapack-dev_3.4.2+dfsg-1_amd64.deb) ...
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-Unpacking libpaper1 (from .../libpaper1_1.1.24+nmu1_amd64.deb) ...
+Unpacking libtinfo-dev:amd64 (from .../libtinfo-dev_5.9+20130608-1_amd64.deb) ...
+Selecting previously unselected package libncurses5-dev:amd64.
+Unpacking libncurses5-dev:amd64 (from .../libncurses5-dev_5.9+20130608-1_amd64.deb) ...
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-Unpacking libpaper-utils (from .../libpaper-utils_1.1.24+nmu1_amd64.deb) ...
-Selecting previously unselected package libpcre3-dev.
-Unpacking libpcre3-dev (from .../libpcre3-dev_1%3a8.30-4_amd64.deb) ...
+Unpacking libpaper-utils (from .../libpaper-utils_1.1.24+nmu2_amd64.deb) ...
+Selecting previously unselected package libpcre3-dev:amd64.
+Unpacking libpcre3-dev:amd64 (from .../libpcre3-dev_1%3a8.31-2_amd64.deb) ...
Selecting previously unselected package zlib1g-dev:amd64.
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+Unpacking zlib1g-dev:amd64 (from .../zlib1g-dev_1%3a1.2.8.dfsg-1_amd64.deb) ...
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-Unpacking libpng12-dev (from .../libpng12-dev_1.2.49-1_amd64.deb) ...
+Unpacking libpng12-dev (from .../libpng12-dev_1.2.49-4_amd64.deb) ...
Selecting previously unselected package libreadline6-dev:amd64.
-Unpacking libreadline6-dev:amd64 (from .../libreadline6-dev_6.2-8_amd64.deb) ...
+Unpacking libreadline6-dev:amd64 (from .../libreadline6-dev_6.2+dfsg-0.1_amd64.deb) ...
Selecting previously unselected package libreadline-dev:amd64.
-Unpacking libreadline-dev:amd64 (from .../libreadline-dev_6.2-8_amd64.deb) ...
+Unpacking libreadline-dev:amd64 (from .../libreadline-dev_6.2+dfsg-0.1_amd64.deb) ...
Selecting previously unselected package zip.
-Unpacking zip (from .../archives/zip_3.0-4_amd64.deb) ...
+Unpacking zip (from .../archives/zip_3.0-7_amd64.deb) ...
Selecting previously unselected package unzip.
-Unpacking unzip (from .../archives/unzip_6.0-6_amd64.deb) ...
+Unpacking unzip (from .../archives/unzip_6.0-9_amd64.deb) ...
Selecting previously unselected package xdg-utils.
-Unpacking xdg-utils (from .../xdg-utils_1.1.0~rc1+git20111210-6_all.deb) ...
+Unpacking xdg-utils (from .../xdg-utils_1.1.0~rc1+git20111210-7_all.deb) ...
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-Unpacking tcl8.5 (from .../tcl8.5_8.5.11-1_amd64.deb) ...
+Unpacking tcl8.5 (from .../tcl8.5_8.5.14-2_amd64.deb) ...
Selecting previously unselected package tk8.5.
-Unpacking tk8.5 (from .../tk8.5_8.5.11-1_amd64.deb) ...
+Unpacking tk8.5 (from .../tk8.5_8.5.14-2_amd64.deb) ...
Selecting previously unselected package r-base-core.
-Unpacking r-base-core (from .../r-base-core_2.15.0-1_amd64.deb) ...
+Unpacking r-base-core (from .../r-base-core_3.0.1-6_amd64.deb) ...
Selecting previously unselected package r-base-dev.
-Unpacking r-base-dev (from .../r-base-dev_2.15.0-1_all.deb) ...
+Unpacking r-base-dev (from .../r-base-dev_3.0.1-6_all.deb) ...
Selecting previously unselected package sbuild-build-depends-r-bioc-limma-dummy.
Unpacking sbuild-build-depends-r-bioc-limma-dummy (from .../sbuild-build-depends-r-bioc-limma-dummy.deb) ...
-Setting up libpipeline1:amd64 (1.2.1-1) ...
-Setting up libmagic1:amd64 (5.11-1) ...
-Setting up libpcre3:amd64 (1:8.30-4) ...
-Setting up libexpat1:amd64 (2.1.0-1) ...
-Setting up libfreetype6:amd64 (2.4.9-1) ...
-Setting up ttf-dejavu-core (2.33-2) ...
-Setting up fontconfig-config (2.8.0-3.1) ...
-Setting up libfontconfig1:amd64 (2.8.0-3.1) ...
-Setting up libpixman-1-0:amd64 (0.24.4-1) ...
-Setting up libxau6:amd64 (1:1.0.7-1) ...
-Setting up libxdmcp6:amd64 (1:1.1.0-4) ...
-Setting up libxcb1:amd64 (1.8.1-1) ...
-Setting up libx11-data (2:1.4.4-4) ...
-Setting up libx11-6:amd64 (2:1.4.4-4) ...
-Setting up libxcb-render0:amd64 (1.8.1-1) ...
-Setting up libxcb-shm0:amd64 (1.8.1-1) ...
-Setting up libxrender1:amd64 (1:0.9.6-2) ...
-Setting up libcairo2:amd64 (1.12.0-2) ...
-Setting up libffi5:amd64 (3.0.10-3) ...
-Setting up libglib2.0-0:amd64 (2.32.0-4) ...
+Setting up libpipeline1:amd64 (1.2.4-1) ...
+Setting up libudev0:amd64 (175-7.2) ...
+Setting up groff-base (1.22.2-3) ...
+Setting up man-db (2.6.5-2) ...
+Not building database; man-db/auto-update is not 'true'.
+Setting up libasprintf0c2:amd64 (0.18.3-1) ...
+Setting up libmagic1:amd64 (1:5.14-2) ...
+Setting up libxml2:amd64 (2.9.1+dfsg1-2) ...
+Setting up libdrm2:amd64 (2.4.45-3) ...
+Setting up libffi6:amd64 (3.0.13-4) ...
+Setting up libglapi-mesa:amd64 (9.1.4-1) ...
+Setting up libllvm3.2:amd64 (1:3.2repack-10) ...
+Setting up libxau6:amd64 (1:1.0.8-1) ...
+Setting up libxdmcp6:amd64 (1:1.1.1-1) ...
+Setting up libxcb1:amd64 (1.9.1-3) ...
+Setting up libxcb-dri2-0:amd64 (1.9.1-3) ...
+Setting up libgbm1:amd64 (9.1.4-1) ...
+Setting up libwayland-client0:amd64 (1.1.0-2) ...
+Setting up libwayland-server0:amd64 (1.1.0-2) ...
+Setting up libx11-data (2:1.6.0-1) ...
+Setting up libx11-6:amd64 (2:1.6.0-1) ...
+Setting up libx11-xcb1:amd64 (2:1.6.0-1) ...
+Setting up libxcb-render0:amd64 (1.9.1-3) ...
+Setting up libxcb-shape0:amd64 (1.9.1-3) ...
+Setting up libxcb-xfixes0:amd64 (1.9.1-3) ...
+Setting up libegl1-mesa:amd64 (9.1.4-1) ...
+Setting up libexpat1:amd64 (2.1.0-4) ...
+Setting up libfreetype6:amd64 (2.4.9-1.1) ...
+Setting up ucf (3.0027+nmu1) ...
+Setting up fonts-dejavu-core (2.33+svn2514-3) ...
+Setting up ttf-dejavu-core (2.33+svn2514-3) ...
+Setting up fontconfig-config (2.10.2-2) ...
+Setting up libfontconfig1:amd64 (2.10.2-2) ...
+Setting up libxcb-glx0:amd64 (1.9.1-3) ...
+Setting up libxfixes3:amd64 (1:5.0.1-1) ...
+Setting up libxdamage1:amd64 (1:1.1.4-1) ...
+Setting up libxext6:amd64 (2:1.3.2-1) ...
+Setting up libxxf86vm1:amd64 (1:1.1.2-1+deb7u1) ...
+Setting up libgl1-mesa-glx:amd64 (9.1.4-1) ...
+Setting up libpixman-1-0:amd64 (0.30.0-3) ...
+Setting up libxcb-shm0:amd64 (1.9.1-3) ...
+Setting up libxrender1:amd64 (1:0.9.8-1) ...
+Setting up libcairo2:amd64 (1.12.14-5) ...
+Setting up libglib2.0-0:amd64 (2.36.3-3) ...
No schema files found: doing nothing.
-Setting up libxml2 (2.7.8.dfsg-7) ...
-Setting up libcroco3:amd64 (0.6.5-1) ...
-Setting up libdatrie1:amd64 (0.2.5-3) ...
-Setting up libgfortran3:amd64 (4.7.0-3) ...
-Setting up x11-common (1:7.6+12) ...
+Setting up libcroco3:amd64 (0.6.8-2) ...
+Setting up libdatrie1:amd64 (0.2.6-2) ...
+Setting up libgfortran3:amd64 (4.8.1-8) ...
+Setting up libgraphite2-3:amd64 (1.2.3-1) ...
+Setting up libharfbuzz0a:amd64 (0.9.19-1) ...
+Setting up x11-common (1:7.7+3) ...
+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:amd64 (2:1.0.8-2) ...
Setting up libjpeg8:amd64 (8d-1) ...
-Setting up libthai-data (0.1.17-1) ...
-Setting up libthai0:amd64 (0.1.17-1) ...
-Setting up libxft2:amd64 (2.2.0-3) ...
-Setting up fontconfig (2.8.0-3.1) ...
-Cleaning up old fontconfig caches... done.
+Setting up libthai-data (0.1.19-2) ...
+Setting up libthai0:amd64 (0.1.19-2) ...
+Setting up fontconfig (2.10.2-2) ...
Regenerating fonts cache... done.
-Setting up libpango1.0-0:amd64 (1.30.0-1) ...
-Setting up libpcrecpp0:amd64 (1:8.30-4) ...
+Setting up libpango-1.0-0:amd64 (1.32.5-5+b1) ...
+Setting up libpangoft2-1.0-0:amd64 (1.32.5-5+b1) ...
+Setting up libpangocairo-1.0-0:amd64 (1.32.5-5+b1) ...
+Setting up libpaper1:amd64 (1.1.24+nmu2) ...
+
+Creating config file /etc/papersize with new version
+Setting up libpcrecpp0:amd64 (1:8.31-2) ...
Setting up libsm6:amd64 (2:1.2.1-2) ...
-Setting up libtiff4:amd64 (3.9.6-2) ...
+Setting up libjbig0:amd64 (2.0-2) ...
+Setting up libtiff5:amd64 (4.0.3-1) ...
Setting up libunistring0:amd64 (0.9.3-5) ...
-Setting up libxext6:amd64 (2:1.3.0-3) ...
-Setting up libxss1:amd64 (1:1.2.1-2) ...
-Setting up libxt6:amd64 (1:1.1.1-2) ...
-Setting up groff-base (1.21-7) ...
-Setting up man-db (2.6.1-2) ...
-Building database of manual pages ...
-Setting up file (5.11-1) ...
-Setting up gettext-base (0.18.1.1-5) ...
-Setting up cdbs (0.4.109) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up gettext (0.18.1.1-5) ...
+Setting up libxft2:amd64 (2.3.1-1) ...
+Setting up libxss1:amd64 (1:1.2.2-1) ...
+Setting up libxt6:amd64 (1:1.1.3-1+deb7u1) ...
+Setting up file (1:5.14-2) ...
+Setting up gettext-base (0.18.3-1) ...
+Setting up cdbs (0.4.122) ...
+Setting up gettext (0.18.3-1) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu2) ...
-Setting up debhelper (9.20120410) ...
-Setting up dpatch (2.0.35) ...
-Setting up gfortran-4.6 (4.6.3-3) ...
-Setting up gfortran (4:4.6.3-4) ...
-update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode.
-Setting up libblas3gf (1.2.20110419-2) ...
-update-alternatives: using /usr/lib/libblas/libblas.so.3gf to provide /usr/lib/libblas.so.3gf (libblas.so.3gf) in auto mode.
-Setting up libblas-dev (1.2.20110419-2) ...
-update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode.
-Setting up libbz2-dev:amd64 (1.0.6-1) ...
+Setting up debhelper (9.20130630) ...
+Setting up libgfortran-4.8-dev:amd64 (4.8.1-8) ...
+Setting up gfortran-4.8 (4.8.1-8) ...
+Setting up gfortran (4:4.8.1-2) ...
+update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
+Setting up libblas3 (1.2.20110419-5) ...
+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 (1.2.20110419-5) ...
+update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
+Setting up libbz2-dev:amd64 (1.0.6-4) ...
Setting up libjpeg8-dev:amd64 (8d-1) ...
-Setting up liblapack3gf (3.3.1-1) ...
-update-alternatives: using /usr/lib/lapack/liblapack.so.3gf to provide /usr/lib/liblapack.so.3gf (liblapack.so.3gf) in auto mode.
-Setting up liblapack-dev (3.3.1-1) ...
-update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode.
-Setting up libtinfo-dev:amd64 (5.9-6) ...
-Setting up libncurses5-dev (5.9-6) ...
-Setting up libpaper1 (1.1.24+nmu1) ...
-
-Creating config file /etc/papersize with new version
-Setting up libpaper-utils (1.1.24+nmu1) ...
-Setting up libpcre3-dev (1:8.30-4) ...
-Setting up zlib1g-dev:amd64 (1:1.2.6.dfsg-2) ...
-Setting up libpng12-dev (1.2.49-1) ...
-Setting up libreadline6-dev:amd64 (6.2-8) ...
-Setting up libreadline-dev:amd64 (6.2-8) ...
-Setting up zip (3.0-4) ...
-Setting up unzip (6.0-6) ...
-Setting up xdg-utils (1.1.0~rc1+git20111210-6) ...
-Setting up tcl8.5 (8.5.11-1) ...
-update-alternatives: using /usr/bin/tclsh8.5 to provide /usr/bin/tclsh (tclsh) in auto mode.
-Setting up tk8.5 (8.5.11-1) ...
-update-alternatives: using /usr/bin/wish8.5 to provide /usr/bin/wish (wish) in auto mode.
-Setting up r-base-core (2.15.0-1) ...
-Setting R_PAPERSIZE_USER default to 'a4'
+Setting up liblapack3 (3.4.2+dfsg-1) ...
+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 (3.4.2+dfsg-1) ...
+update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
+Setting up libtinfo-dev:amd64 (5.9+20130608-1) ...
+Setting up libncurses5-dev:amd64 (5.9+20130608-1) ...
+Setting up libpaper-utils (1.1.24+nmu2) ...
+Setting up libpcre3-dev:amd64 (1:8.31-2) ...
+Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-1) ...
+Setting up libpng12-dev (1.2.49-4) ...
+Setting up libreadline6-dev:amd64 (6.2+dfsg-0.1) ...
+Setting up libreadline-dev:amd64 (6.2+dfsg-0.1) ...
+Setting up zip (3.0-7) ...
+Setting up unzip (6.0-9) ...
+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 (3.0.1-6) ...
Creating config file /etc/R/Renviron with new version
-Setting up r-base-dev (2.15.0-1) ...
+Setting up r-base-dev (3.0.1-6) ...
Setting up sbuild-build-depends-r-bioc-limma-dummy (0.invalid.0) ...
+Processing triggers for libc-bin ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
-Kernel: Linux 2.6.39-bpo.2-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.22-6 dpkg-dev_1.16.2 g++-4.6_4.6.3-3 gcc-4.6_4.6.3-3 libc6-dev_2.13-27 libstdc++6_4.7.0-3 libstdc++6-4.6-dev_4.6.3-3 linux-libc-dev_3.2.14-1
-Package versions: apt_0.8.15.10 base-files_6.7 base-passwd_3.5.24 bash_4.2-2 binutils_2.22-6 bsdmainutils_9.0.1 bsdutils_1:2.20.1-4 build-essential_11.5 bzip2_1.0.6-1 cdbs_0.4.109 coreutils_8.13-3.1 cpp_4:4.6.3-4 cpp-4.6_4.6.3-3 dash_0.5.7-3 debconf_1.5.42 debfoster_2.7-1.1 debhelper_9.20120410 debian-archive-keyring_2010.08.28 debianutils_4.3 diffutils_1:3.2-2 dpatch_2.0.35 dpkg_1.16.2 dpkg-dev_1.16.2 e2fslibs_1.42.2-2 e2fsprogs_1.42.2-2 fakeroot_1.18.2-1 file_5.11-1 findutils_4.4.2-4 fontconfig_2.8.0-3.1 fontconfig-config_2.8.0-3.1 g++_4:4.6.3-4 g++-4.6_4.6.3-3 gcc_4:4.6.3-4 gcc-4.6_4.6.3-3 gcc-4.6-base_4.6.3-3 gcc-4.7-base_4.7.0-3 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gfortran_4:4.6.3-4 gfortran-4.6_4.6.3-3 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.10-1 groff-base_1.21-7 gzip_1.4-5 hostname_3.11 html2text_1.3.2a-15 initscripts_2.88dsf-22.1 insserv_1.14.0-3 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-5 libattr1_1:2.4.46-5 libblas-dev_1.2.20110419-2 libblas3gf_1.2.20110419-2 libblkid1_2.20.1-4 libbz2-1.0_1.0.6-1 libbz2-dev_1.0.6-1 libc-bin_2.13-27 libc-dev-bin_2.13-27 libc6_2.13-27 libc6-dev_2.13-27 libcairo2_1.12.0-2 libclass-isa-perl_0.36-3 libcomerr2_1.42.2-2 libcroco3_0.6.5-1 libdatrie1_0.2.5-3 libdb5.1_5.1.29-1 libdpkg-perl_1.16.2 libexpat1_2.1.0-1 libffi5_3.0.10-3 libfile-fcntllock-perl_0.14-1+b1 libfontconfig1_2.8.0-3.1 libfreetype6_2.4.9-1 libgc1c2_1:7.1-8 libgcc1_1:4.7.0-3 libgdbm3_1.8.3-10 libgfortran3_4.7.0-3 libglib2.0-0_2.32.0-4 libgmp10_2:5.0.4+dfsg-1 libgomp1_4.7.0-3 libgpm2_1.20.4-4 libice6_2:1.0.8-2 libjpeg8_8d-1 libjpeg8-dev_8d-1 liblapack-dev_3.3.1-1 liblapack3gf_3.3.1-1 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.11-1 libmount1_2.20.1-4 libmpc2_0.9-4 libmpfr4_3.1.0-4 libncurses5_5.9-6 libncurses5-dev_5.9-6 libpam-modules_1.1.3-7 libpam-modules-bin_1.1.3-7 libpam-runtime_1.1.3-7 libpam0g_1.1.3-7 libpango1.0-0_1.30.0-1 libpaper-utils_1.1.24+nmu1 libpaper1_1.1.24+nmu1 libpcre3_1:8.30-4 libpcre3-dev_1:8.30-4 libpcrecpp0_1:8.30-4 libpipeline1_1.2.1-1 libpixman-1-0_0.24.4-1 libpng12-0_1.2.49-1 libpng12-dev_1.2.49-1 libpod-plainer-perl_1.03-1 libquadmath0_4.7.0-3 libreadline-dev_6.2-8 libreadline6_6.2-8 libreadline6-dev_6.2-8 libselinux1_2.1.9-4 libsemanage-common_2.1.6-5 libsemanage1_2.1.6-5 libsepol1_2.1.4-3 libslang2_2.2.4-7 libsm6_2:1.2.1-2 libss2_1.42.2-2 libstdc++6_4.7.0-3 libstdc++6-4.6-dev_4.6.3-3 libswitch-perl_2.16-2 libthai-data_0.1.17-1 libthai0_0.1.17-1 libtiff4_3.9.6-2 libtimedate-perl_1.2000-1 libtinfo-dev_5.9-6 libtinfo5_5.9-6 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-21 libustr-1.0-1_1.0.4-2 libuuid1_2.20.1-4 libx11-6_2:1.4.4-4 libx11-data_2:1.4.4-4 libxau6_1:1.0.7-1 libxcb-render0_1.8.1-1 libxcb-shm0_1.8.1-1 libxcb1_1.8.1-1 libxdmcp6_1:1.1.0-4 libxext6_2:1.3.0-3 libxft2_2.2.0-3 libxml2_2.7.8.dfsg-7 libxrender1_1:0.9.6-2 libxss1_1:1.2.1-2 libxt6_1:1.1.1-2 linux-libc-dev_3.2.14-1 login_1:4.1.5-1 lsb-base_4.1+Debian0 make_3.81-8.1 man-db_2.6.1-2 mawk_1.3.3-17 mount_2.20.1-4 multiarch-support_2.13-27 ncurses-base_5.9-6 ncurses-bin_5.9-6 passwd_1:4.1.5-1 patch_2.6.1-3 perl_5.14.2-9 perl-base_5.14.2-9 perl-modules_5.14.2-9 po-debconf_1.0.16+nmu2 r-base-core_2.15.0-1 r-base-dev_2.15.0-1 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-limma-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-22.1 sysvinit_2.88dsf-22.1 sysvinit-utils_2.88dsf-22.1 tar_1.26-4 tcl8.5_8.5.11-1 tk8.5_8.5.11-1 ttf-dejavu-core_2.33-2 tzdata_2012b-1 ucf_3.0025+nmu2 unzip_6.0-6 util-linux_2.20.1-4 x11-common_1:7.6+12 xdg-utils_1.1.0~rc1+git20111210-6 xz-utils_5.1.1alpha+20110809-3 zip_3.0-4 zlib1g_1:1.2.6.dfsg-2 zlib1g-dev_1:1.2.6.dfsg-2
+Kernel: Linux 3.2.0-4-amd64 amd64 (x86_64)
+Toolchain package versions: binutils_2.23.52.20130727-1 dpkg-dev_1.17.1 g++-4.7_4.7.3-6 g++-4.8_4.8.1-8 gcc-4.7_4.7.3-6 gcc-4.8_4.8.1-8 libc6-dev_2.17-92 libstdc++-4.8-dev_4.8.1-8 libstdc++6_4.8.1-8 libstdc++6-4.7-dev_4.7.3-6 linux-libc-dev_3.10.3-1
+Package versions: apt_0.9.9.4 base-files_7.2 base-passwd_3.5.26 bash_4.2+dfsg-1 binutils_2.23.52.20130727-1 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.5 build-essential_11.6 bzip2_1.0.6-4 cdbs_0.4.122 coreutils_8.21-1 cpp_4:4.8.1-2 cpp-4.7_4.7.3-6 cpp-4.8_4.8.1-8 dash_0.5.7-3 debconf_1.5.50 debfoster_2.7-1.2 debhelper_9.20130630 debian-archive-keyring_2012.4 debianutils_4.4 diffutils_1:3.2-8 dpkg_1.17.1 dpkg-dev_1.17.1 e2fslibs_1.42.8-1 e2fsprogs_1.42.8-1 fakeroot_1.19-2 file_1:5.14-2 findutils_4.4.2-6 fontconfig_2.10.2-2 fontconfig-config_2.10.2-2 fonts-dejavu-core_2.33+svn2514-3 g++_4:4.8.1-2 g++-4.7_4.7.3-6 g++-4.8_4.8.1-8 gcc_4:4.8.1-2 gcc-4.7_4.7.3-6 gcc-4.7-base_4.7.3-6 gcc-4.8_4.8.1-8 gcc-4.8-base_4.8.1-8 gettext_0.18.3-1 gettext-base_0.18.3-1 gfortran_4:4.8.1-2 gfortran-4.8_4.8.1-8 gnupg_1.4.14-1 gpgv_1.4.14-1 grep_2.14-2 groff-base_1.22.2-3 gzip_1.6-1 hostname_3.13 initscripts_2.88dsf-43 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 libacl1_2.2.52-1 libapt-pkg4.12_0.9.9.4 libasan0_4.8.1-8 libasprintf0c2_0.18.3-1 libatomic1_4.8.1-8 libattr1_1:2.4.47-1 libblas-dev_1.2.20110419-5 libblas3_1.2.20110419-5 libblkid1_2.20.1-5.5 libbz2-1.0_1.0.6-4 libbz2-dev_1.0.6-4 libc-bin_2.17-92 libc-dev-bin_2.17-92 libc6_2.17-92 libc6-dev_2.17-92 libcairo2_1.12.14-5 libcap2_1:2.22-1.2 libclass-isa-perl_0.36-5 libcloog-isl4_0.18.0-2 libcloog-ppl1_0.16.1-3 libcomerr2_1.42.8-1 libcroco3_0.6.8-2 libdatrie1_0.2.6-2 libdb5.1_5.1.29-6 libdpkg-perl_1.17.1 libdrm2_2.4.45-3 libegl1-mesa_9.1.4-1 libexpat1_2.1.0-4 libffi6_3.0.13-4 libfile-fcntllock-perl_0.14-2 libfontconfig1_2.10.2-2 libfreetype6_2.4.9-1.1 libgbm1_9.1.4-1 libgc1c2_1:7.2d-5 libgcc-4.7-dev_4.7.3-6 libgcc-4.8-dev_4.8.1-8 libgcc1_1:4.8.1-8 libgdbm3_1.8.3-12 libgfortran-4.8-dev_4.8.1-8 libgfortran3_4.8.1-8 libgl1-mesa-glx_9.1.4-1 libglapi-mesa_9.1.4-1 libglib2.0-0_2.36.3-3 libgmp10_2:5.1.2+dfsg-2 libgmpxx4ldbl_2:5.1.2+dfsg-2 libgomp1_4.8.1-8 libgpm2_1.20.4-6.1 libgraphite2-3_1.2.3-1 libharfbuzz0a_0.9.19-1 libice6_2:1.0.8-2 libisl10_0.11.2-1 libitm1_4.8.1-8 libjbig0_2.0-2 libjpeg8_8d-1 libjpeg8-dev_8d-1 liblapack-dev_3.4.2+dfsg-1 liblapack3_3.4.2+dfsg-1 libllvm3.2_1:3.2repack-10 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.14-2 libmount1_2.20.1-5.5 libmpc2_0.9-4 libmpc3_1.0.1-1 libmpfr4_3.1.1-1 libncurses5_5.9+20130608-1 libncurses5-dev_5.9+20130608-1 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_1.32.5-5+b1 libpangocairo-1.0-0_1.32.5-5+b1 libpangoft2-1.0-0_1.32.5-5+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_1.2.4-1 libpixman-1-0_0.30.0-3 libpng12-0_1.2.49-4 libpng12-dev_1.2.49-4 libpod-plainer-perl_1.03-1 libppl-c4_1:1.0-7 libppl12_1:1.0-7 libquadmath0_4.8.1-8 libreadline-dev_6.2+dfsg-0.1 libreadline6_6.2+dfsg-0.1 libreadline6-dev_6.2+dfsg-0.1 libselinux1_2.1.13-2 libsemanage-common_2.1.10-2 libsemanage1_2.1.10-2 libsepol1_2.1.9-2 libslang2_2.2.4-15 libsm6_2:1.2.1-2 libss2_1.42.8-1 libstdc++-4.8-dev_4.8.1-8 libstdc++6_4.8.1-8 libstdc++6-4.7-dev_4.7.3-6 libswitch-perl_2.16-2 libthai-data_0.1.19-2 libthai0_0.1.19-2 libtiff5_4.0.3-1 libtimedate-perl_1.2000-1 libtinfo-dev_5.9+20130608-1 libtinfo5_5.9+20130608-1 libtsan0_4.8.1-8 libudev0_175-7.2 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.2 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.5 libwayland-client0_1.1.0-2 libwayland-server0_1.1.0-2 libx11-6_2:1.6.0-1 libx11-data_2:1.6.0-1 libx11-xcb1_2:1.6.0-1 libxau6_1:1.0.8-1 libxcb-dri2-0_1.9.1-3 libxcb-glx0_1.9.1-3 libxcb-render0_1.9.1-3 libxcb-shape0_1.9.1-3 libxcb-shm0_1.9.1-3 libxcb-xfixes0_1.9.1-3 libxcb1_1.9.1-3 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+dfsg1-2 libxrender1_1:0.9.8-1 libxss1_1:1.2.2-1 libxt6_1:1.1.3-1+deb7u1 libxxf86vm1_1:1.1.2-1+deb7u1 linux-libc-dev_3.10.3-1 login_1:4.1.5.1-1 lsb-base_4.1+Debian12 make_3.81-8.2 man-db_2.6.5-2 mawk_1.3.3-17 mount_2.20.1-5.5 multiarch-support_2.17-92 ncurses-base_5.9+20130608-1 ncurses-bin_5.9+20130608-1 passwd_1:4.1.5.1-1 patch_2.7.1-3 perl_5.14.2-21 perl-base_5.14.2-21 perl-modules_5.14.2-21 po-debconf_1.0.16+nmu2 r-base-core_3.0.1-6 r-base-dev_3.0.1-6 readline-common_6.2+dfsg-0.1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-bioc-limma-dummy_0.invalid.0 sed_4.2.2-2 sensible-utils_0.0.9 sysv-rc_2.88dsf-43 sysvinit_2.88dsf-43 sysvinit-utils_2.88dsf-43 tar_1.26+dfsg-6 tcl8.5_8.5.14-2 tk8.5_8.5.14-2 ttf-dejavu-core_2.33+svn2514-3 tzdata_2013d-1 ucf_3.0027+nmu1 unzip_6.0-9 util-linux_2.20.1-5.5 x11-common_1:7.7+3 xdg-utils_1.1.0~rc1+git20111210-7 xz-utils_5.1.1alpha+20120614-2 zip_3.0-7 zlib1g_1:1.2.8.dfsg-1 zlib1g-dev_1:1.2.8.dfsg-1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -428,10 +557,10 @@ Package versions: apt_0.8.15.10 base-files_6.7 base-passwd_3.5.24 bash_4.2-2 bin
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (r-bioc-limma_3.12.0~dfsg-1.dsc)
-dpkg-source: info: extracting r-bioc-limma in r-bioc-limma-3.12.0~dfsg
-dpkg-source: info: unpacking r-bioc-limma_3.12.0~dfsg.orig.tar.gz
-dpkg-source: info: applying r-bioc-limma_3.12.0~dfsg-1.diff.gz
+dpkg-source: warning: extracting unsigned source package (r-bioc-limma_3.16.7~dfsg-1.dsc)
+dpkg-source: info: extracting r-bioc-limma in r-bioc-limma-3.16.7~dfsg
+dpkg-source: info: unpacking r-bioc-limma_3.16.7~dfsg.orig.tar.gz
+dpkg-source: info: unpacking r-bioc-limma_3.16.7~dfsg-1.debian.tar.gz
Check disc space
────────────────
@@ -444,11 +573,12 @@ User Environment
HOME=/sbuild-nonexistent
LOGNAME=charles
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
+SCHROOT_ALIAS_NAME=unstable
SCHROOT_CHROOT_NAME=sid-amd64-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=1000
SCHROOT_GROUP=charles
-SCHROOT_SESSION_ID=sid-amd64-sbuild-b38d27c1-20f1-4265-900b-a1e78d65d190
+SCHROOT_SESSION_ID=sid-amd64-sbuild-a5d45d11-4123-4f17-9654-8779a0f98df7
SCHROOT_UID=31051
SCHROOT_USER=charles
SHELL=/bin/sh
@@ -460,28 +590,13 @@ dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package r-bioc-limma
-dpkg-buildpackage: source version 3.12.0~dfsg-1
+dpkg-buildpackage: source version 3.16.7~dfsg-1
+dpkg-buildpackage: source distribution unstable
dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
- dpkg-source --before-build r-bioc-limma-3.12.0~dfsg
+ dpkg-source --before-build r-bioc-limma-3.16.7~dfsg
dpkg-buildpackage: host architecture amd64
fakeroot debian/rules clean
-/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
test -x debian/rules
-dh_testroot
-/usr/bin/make -f debian/rules reverse-config
-/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
-make[1]: Entering directory `/«PKGBUILDDIR»'
-make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«PKGBUILDDIR»'
-if [ "reverse-patches" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
-patches:
-if [ "reverse-patches" != "reverse-patches" ]; then touch debian/stamp-patched; fi
-if [ "reverse-patches" != "reverse-patches" ] ; then \
- /usr/bin/make -f debian/rules update-config ; \
- fi
-for dir in debian/patches ; do \
- rm -f $dir/*.log ; \
- done
dh_clean
rm -f debian/r-bioc-limma.substvars
rm -f debian/r-bioc-limma.*.debhelper
@@ -497,37 +612,19 @@ dh_clean
\( -type d -a -name autom4te.cache -prune -exec rm -rf {} \; \) \)
rm -f *-stamp
if test -d src; then \
- find src -regex ".*\..*o" | \
+ find src -regex ".*\.o" | \
xargs --no-run-if-empty -r rm; \
fi
rm -f config.log config.status
- dpkg-source -b r-bioc-limma-3.12.0~dfsg
-dpkg-source: warning: no source format specified in debian/source/format, see dpkg-source(1)
-dpkg-source: info: using source format `1.0'
-dpkg-source: info: building r-bioc-limma using existing r-bioc-limma_3.12.0~dfsg.orig.tar.gz
-dpkg-source: info: building r-bioc-limma in r-bioc-limma_3.12.0~dfsg-1.diff.gz
-dpkg-source: info: building r-bioc-limma in r-bioc-limma_3.12.0~dfsg-1.dsc
+ dpkg-source -b r-bioc-limma-3.16.7~dfsg
+dpkg-source: info: using source format `3.0 (quilt)'
+dpkg-source: info: building r-bioc-limma using existing ./r-bioc-limma_3.16.7~dfsg.orig.tar.gz
+dpkg-source: info: building r-bioc-limma in r-bioc-limma_3.16.7~dfsg-1.debian.tar.gz
+dpkg-source: info: building r-bioc-limma in r-bioc-limma_3.16.7~dfsg-1.dsc
debian/rules build
-/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
test -x debian/rules
mkdir -p "."
-/usr/bin/make -f debian/rules reverse-config
-/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
-make[1]: Entering directory `/«PKGBUILDDIR»'
-make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«PKGBUILDDIR»'
-if [ "debian/stamp-patched" = "reverse-patches" ]; then rm -f debian/stamp-patched; fi
-patches:
-if [ "debian/stamp-patched" != "reverse-patches" ]; then touch debian/stamp-patched; fi
-if [ "debian/stamp-patched" != "reverse-patches" ] ; then \
- /usr/bin/make -f debian/rules update-config ; \
- fi
-/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
-make[1]: Entering directory `/«PKGBUILDDIR»'
-make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/«PKGBUILDDIR»'
fakeroot debian/rules binary
-/usr/share/cdbs/1/rules/simple-patchsys.mk:31: WARNING: simple-patchsys.mk is deprecated - please use source format 3.0 (quilt) instead
test -x debian/rules
dh_testroot
dh_prep
@@ -539,7 +636,7 @@ dh_installdirs -A
mkdir -p "."
dh_installdirs usr/lib/R/site-library
install -d debian/r-bioc-limma/usr/lib/R/site-library
-echo "R:Depends=r-base-core (>= 2.15.0-1)" >> debian/r-bioc-limma.substvars
+echo "R:Depends=r-base-core (>= 3.0.1-6)" >> debian/r-bioc-limma.substvars
if test -f /usr/bin/xvfb-run; then \
xvfb-run -a \
R CMD INSTALL -l /«PKGBUILDDIR»/debian/r-bioc-limma/usr/lib/R/site-library --clean \
@@ -554,6 +651,8 @@ make[1]: Entering directory `/«PKGBUILDDIR»/src'
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -O3 -pipe -g -c normexp.c -o normexp.o
normexp.c: In function 'fit_saddle_nelder_mead':
normexp.c:153:3: warning: floating constant exceeds range of 'double' [-Woverflow]
+ double abstol = -1e500; // infinity
+ ^
gcc -std=gnu99 -shared -o limma.so normexp.o -L/usr/lib/R/lib -lR
make[1]: Leaving directory `/«PKGBUILDDIR»/src'
make[1]: Entering directory `/«PKGBUILDDIR»/src'
@@ -566,9 +665,7 @@ installing to /«PKGBUILDDIR»/debian/r-bioc-limma/usr/lib/R/site-library/limma/
*** installing help indices
** building package indices
** installing vignettes
- 'limma.Rnw'
** testing if installed package can be loaded
-
* DONE (limma)
rm -vf /«PKGBUILDDIR»/debian/r-bioc-limma/usr/lib/R/site-library/R.css \
/«PKGBUILDDIR»/debian/r-bioc-limma/usr/lib/R/site-library/limma/COPYING \
@@ -580,8 +677,15 @@ if test -f debian/overrides; then \
fi
Adding cdbs dependencies to debian/r-bioc-limma.substvars
dh_installdirs -pr-bioc-limma
+chmod 644 debian/r-bioc-limma/usr/lib/R/site-library/limma/CITATION
+chmod 644 debian/r-bioc-limma/usr/lib/R/site-library/limma/doc/*
dh_installdocs -pr-bioc-limma
install -g 0 -o 0 -d debian/r-bioc-limma/usr/share/doc/r-bioc-limma
+ cd 'tests/..' && find 'tests' \( -type f -or -type l \) -and ! -empty -exec cp --parents -dp {} /«PKGBUILDDIR»/debian/r-bioc-limma/usr/share/doc/r-bioc-limma \;
+ cp -a debian/README.test debian/r-bioc-limma/usr/share/doc/r-bioc-limma
+ chown -R 0:0 debian/r-bioc-limma/usr/share/doc
+ chmod -R go=rX debian/r-bioc-limma/usr/share/doc
+ chmod -R u\+rw debian/r-bioc-limma/usr/share/doc
install -g 0 -o 0 -m 644 -p debian/README.Debian debian/r-bioc-limma/usr/share/doc/r-bioc-limma/README.Debian
install -g 0 -o 0 -m 644 -p debian/copyright debian/r-bioc-limma/usr/share/doc/r-bioc-limma/copyright
dh_installexamples -pr-bioc-limma
@@ -613,8 +717,8 @@ dh_strip -pr-bioc-limma
strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/r-bioc-limma/usr/lib/R/site-library/limma/libs/limma.so
dh_compress -pr-bioc-limma
cd debian/r-bioc-limma
- chmod a-x usr/share/doc/r-bioc-limma/changelog.Debian usr/share/doc/r-bioc-limma/changelog
- gzip -9nf usr/share/doc/r-bioc-limma/changelog.Debian usr/share/doc/r-bioc-limma/changelog
+ chmod a-x usr/share/doc/r-bioc-limma/changelog.Debian usr/share/doc/r-bioc-limma/changelog usr/share/doc/r-bioc-limma/tests/limma-Tests.Rout.save usr/share/doc/r-bioc-limma/tests/limma-Tests.R
+ gzip -9nf usr/share/doc/r-bioc-limma/changelog.Debian usr/share/doc/r-bioc-limma/changelog usr/share/doc/r-bioc-limma/tests/limma-Tests.Rout.save usr/share/doc/r-bioc-limma/tests/limma-Tests.R
cd '/«PKGBUILDDIR»'
dh_fixperms -pr-bioc-limma
find debian/r-bioc-limma -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
@@ -645,13 +749,13 @@ dh_md5sums -pr-bioc-limma
chown 0:0 debian/r-bioc-limma/DEBIAN/md5sums
dh_builddeb -pr-bioc-limma
dpkg-deb --build debian/r-bioc-limma ..
-dpkg-deb: building package `r-bioc-limma' in `../r-bioc-limma_3.12.0~dfsg-1_amd64.deb'.
- dpkg-genchanges >../r-bioc-limma_3.12.0~dfsg-1_amd64.changes
+dpkg-deb: building package `r-bioc-limma' in `../r-bioc-limma_3.16.7~dfsg-1_amd64.deb'.
+ dpkg-genchanges >../r-bioc-limma_3.16.7~dfsg-1_amd64.changes
dpkg-genchanges: including full source code in upload
- dpkg-source --after-build r-bioc-limma-3.12.0~dfsg
+ dpkg-source --after-build r-bioc-limma-3.16.7~dfsg
dpkg-buildpackage: full upload (original source is included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20120412-1143
+Build finished at 20130804-1736
Finished
────────
@@ -659,19 +763,211 @@ Finished
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build Chroot │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+lintian
+───────
+
+Merged Build-Depends: lintian
+Filtered Build-Depends: lintian
+dpkg-deb: building package `sbuild-build-depends-lintian-dummy' in `/«BUILDDIR»/resolver-H5l8T8/apt_archive/sbuild-build-depends-lintian-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install lintian build dependencies (apt-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Installing build dependencies
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ g++-4.7 libstdc++6-4.7-dev
+Use 'apt-get autoremove' to remove them.
+The following extra packages will be installed:
+ diffstat hardening-includes libapt-pkg-perl libarchive-zip-perl
+ libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl
+ libfile-basedir-perl libio-pty-perl libio-socket-inet6-perl
+ libio-socket-ssl-perl libio-string-perl libipc-run-perl
+ liblist-moreutils-perl liblocale-gettext-perl libmailtools-perl
+ libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl
+ libnet-ssleay-perl libparse-debianchangelog-perl libsocket6-perl libssl1.0.0
+ libsub-name-perl libtext-levenshtein-perl liburi-perl lintian netbase
+ patchutils t1utils
+Suggested packages:
+ libwww-perl binutils-multiarch libtext-template-perl
+Recommended packages:
+ libauthen-sasl-perl libhtml-parser-perl libhtml-template-perl
+ libxml-simple-perl libperlio-gzip-perl ifupdown
+The following NEW packages will be installed:
+ diffstat hardening-includes libapt-pkg-perl libarchive-zip-perl
+ libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl
+ libfile-basedir-perl libio-pty-perl libio-socket-inet6-perl
+ libio-socket-ssl-perl libio-string-perl libipc-run-perl
+ liblist-moreutils-perl liblocale-gettext-perl libmailtools-perl
+ libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl
+ libnet-ssleay-perl libparse-debianchangelog-perl libsocket6-perl libssl1.0.0
+ libsub-name-perl libtext-levenshtein-perl liburi-perl lintian netbase
+ patchutils sbuild-build-depends-lintian-dummy t1utils
+0 upgraded, 33 newly installed, 0 to remove and 0 not upgraded.
+Need to get 4002 kB/4035 kB of archives.
+After this operation, 11.3 MB of additional disk space will be used.
+Get:1 http://ftp.jp.debian.org/debian/ sid/main libssl1.0.0 amd64 1.0.1e-3 [1242 kB]
+Get:2 http://ftp.jp.debian.org/debian/ sid/main libnet-ssleay-perl amd64 1.55-1 [339 kB]
+Get:3 http://ftp.jp.debian.org/debian/ sid/main netbase all 5.1 [20.3 kB]
+Get:4 http://ftp.jp.debian.org/debian/ sid/main libio-socket-ssl-perl all 1.93-2 [90.3 kB]
+Get:5 http://ftp.jp.debian.org/debian/ sid/main libnet-smtp-ssl-perl all 1.01-3 [5996 B]
+Get:6 http://ftp.jp.debian.org/debian/ sid/main libmailtools-perl all 2.12-1 [98.3 kB]
+Get:7 http://ftp.jp.debian.org/debian/ sid/main libdigest-hmac-perl all 1.03+dfsg-1 [12.3 kB]
+Get:8 http://ftp.jp.debian.org/debian/ sid/main libnet-ip-perl all 1.26-1 [33.2 kB]
+Get:9 http://ftp.jp.debian.org/debian/ sid/main libsocket6-perl amd64 0.23-1+b2 [26.4 kB]
+Get:10 http://ftp.jp.debian.org/debian/ sid/main libio-socket-inet6-perl all 2.69-2 [17.1 kB]
+Get:11 http://ftp.jp.debian.org/debian/ sid/main libnet-dns-perl amd64 0.68-1.1 [316 kB]
+Get:12 http://ftp.jp.debian.org/debian/ sid/main libnet-domain-tld-perl all 1.69-1 [11.4 kB]
+Get:13 http://ftp.jp.debian.org/debian/ sid/main libemail-valid-perl all 0.190-1 [20.9 kB]
+Get:14 http://ftp.jp.debian.org/debian/ sid/main diffstat amd64 1.55-3 [30.0 kB]
+Get:15 http://ftp.jp.debian.org/debian/ sid/main hardening-includes all 2.3 [17.8 kB]
+Get:16 http://ftp.jp.debian.org/debian/ sid/main libapt-pkg-perl amd64 0.1.29 [90.2 kB]
+Get:17 http://ftp.jp.debian.org/debian/ sid/main libarchive-zip-perl all 1.30-7 [96.5 kB]
+Get:18 http://ftp.jp.debian.org/debian/ sid/main libsub-name-perl amd64 0.05-1+b2 [10.2 kB]
+Get:19 http://ftp.jp.debian.org/debian/ sid/main libclass-accessor-perl all 0.34-1 [25.9 kB]
+Get:20 http://ftp.jp.debian.org/debian/ sid/main libclone-perl amd64 0.34-1 [14.6 kB]
+Get:21 http://ftp.jp.debian.org/debian/ sid/main libfile-basedir-perl all 0.03-1 [10.4 kB]
+Get:22 http://ftp.jp.debian.org/debian/ sid/main libio-pty-perl amd64 1:1.08-1+b2 [40.0 kB]
+Get:23 http://ftp.jp.debian.org/debian/ sid/main libipc-run-perl all 0.92-1 [110 kB]
+Get:24 http://ftp.jp.debian.org/debian/ sid/main liblist-moreutils-perl amd64 0.33-1+b1 [52.5 kB]
+Get:25 http://ftp.jp.debian.org/debian/ sid/main libparse-debianchangelog-perl all 1.2.0-1 [62.3 kB]
+Get:26 http://ftp.jp.debian.org/debian/ sid/main libtext-levenshtein-perl all 0.06~01-2 [6890 B]
+Get:27 http://ftp.jp.debian.org/debian/ sid/main liburi-perl all 1.60-1 [100 kB]
+Get:28 http://ftp.jp.debian.org/debian/ sid/main patchutils amd64 0.3.2-2 [109 kB]
+Get:29 http://ftp.jp.debian.org/debian/ sid/main t1utils amd64 1.37-2 [138 kB]
+Get:30 http://ftp.jp.debian.org/debian/ sid/main lintian all 2.5.15 [854 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 4002 kB in 1s (2126 kB/s)
+Selecting previously unselected package libssl1.0.0:amd64.
+(Reading database ... 15984 files and directories currently installed.)
+Unpacking libssl1.0.0:amd64 (from .../libssl1.0.0_1.0.1e-3_amd64.deb) ...
+Selecting previously unselected package liblocale-gettext-perl.
+Unpacking liblocale-gettext-perl (from .../liblocale-gettext-perl_1.05-7+b1_amd64.deb) ...
+Selecting previously unselected package libnet-ssleay-perl.
+Unpacking libnet-ssleay-perl (from .../libnet-ssleay-perl_1.55-1_amd64.deb) ...
+Selecting previously unselected package netbase.
+Unpacking netbase (from .../archives/netbase_5.1_all.deb) ...
+Selecting previously unselected package libio-socket-ssl-perl.
+Unpacking libio-socket-ssl-perl (from .../libio-socket-ssl-perl_1.93-2_all.deb) ...
+Selecting previously unselected package libnet-smtp-ssl-perl.
+Unpacking libnet-smtp-ssl-perl (from .../libnet-smtp-ssl-perl_1.01-3_all.deb) ...
+Selecting previously unselected package libmailtools-perl.
+Unpacking libmailtools-perl (from .../libmailtools-perl_2.12-1_all.deb) ...
+Selecting previously unselected package libdigest-hmac-perl.
+Unpacking libdigest-hmac-perl (from .../libdigest-hmac-perl_1.03+dfsg-1_all.deb) ...
+Selecting previously unselected package libnet-ip-perl.
+Unpacking libnet-ip-perl (from .../libnet-ip-perl_1.26-1_all.deb) ...
+Selecting previously unselected package libsocket6-perl.
+Unpacking libsocket6-perl (from .../libsocket6-perl_0.23-1+b2_amd64.deb) ...
+Selecting previously unselected package libio-socket-inet6-perl.
+Unpacking libio-socket-inet6-perl (from .../libio-socket-inet6-perl_2.69-2_all.deb) ...
+Selecting previously unselected package libnet-dns-perl.
+Unpacking libnet-dns-perl (from .../libnet-dns-perl_0.68-1.1_amd64.deb) ...
+Selecting previously unselected package libnet-domain-tld-perl.
+Unpacking libnet-domain-tld-perl (from .../libnet-domain-tld-perl_1.69-1_all.deb) ...
+Selecting previously unselected package libemail-valid-perl.
+Unpacking libemail-valid-perl (from .../libemail-valid-perl_0.190-1_all.deb) ...
+Selecting previously unselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.55-3_amd64.deb) ...
+Selecting previously unselected package hardening-includes.
+Unpacking hardening-includes (from .../hardening-includes_2.3_all.deb) ...
+Selecting previously unselected package libapt-pkg-perl.
+Unpacking libapt-pkg-perl (from .../libapt-pkg-perl_0.1.29_amd64.deb) ...
+Selecting previously unselected package libarchive-zip-perl.
+Unpacking libarchive-zip-perl (from .../libarchive-zip-perl_1.30-7_all.deb) ...
+Selecting previously unselected package libsub-name-perl.
+Unpacking libsub-name-perl (from .../libsub-name-perl_0.05-1+b2_amd64.deb) ...
+Selecting previously unselected package libclass-accessor-perl.
+Unpacking libclass-accessor-perl (from .../libclass-accessor-perl_0.34-1_all.deb) ...
+Selecting previously unselected package libclone-perl.
+Unpacking libclone-perl (from .../libclone-perl_0.34-1_amd64.deb) ...
+Selecting previously unselected package libfile-basedir-perl.
+Unpacking libfile-basedir-perl (from .../libfile-basedir-perl_0.03-1_all.deb) ...
+Selecting previously unselected package libio-pty-perl.
+Unpacking libio-pty-perl (from .../libio-pty-perl_1%3a1.08-1+b2_amd64.deb) ...
+Selecting previously unselected package libio-string-perl.
+Unpacking libio-string-perl (from .../libio-string-perl_1.08-2_all.deb) ...
+Selecting previously unselected package libipc-run-perl.
+Unpacking libipc-run-perl (from .../libipc-run-perl_0.92-1_all.deb) ...
+Selecting previously unselected package liblist-moreutils-perl.
+Unpacking liblist-moreutils-perl (from .../liblist-moreutils-perl_0.33-1+b1_amd64.deb) ...
+Selecting previously unselected package libparse-debianchangelog-perl.
+Unpacking libparse-debianchangelog-perl (from .../libparse-debianchangelog-perl_1.2.0-1_all.deb) ...
+Selecting previously unselected package libtext-levenshtein-perl.
+Unpacking libtext-levenshtein-perl (from .../libtext-levenshtein-perl_0.06~01-2_all.deb) ...
+Selecting previously unselected package liburi-perl.
+Unpacking liburi-perl (from .../liburi-perl_1.60-1_all.deb) ...
+Selecting previously unselected package patchutils.
+Unpacking patchutils (from .../patchutils_0.3.2-2_amd64.deb) ...
+Selecting previously unselected package t1utils.
+Unpacking t1utils (from .../t1utils_1.37-2_amd64.deb) ...
+Selecting previously unselected package lintian.
+Unpacking lintian (from .../lintian_2.5.15_all.deb) ...
+Selecting previously unselected package sbuild-build-depends-lintian-dummy.
+Unpacking sbuild-build-depends-lintian-dummy (from .../sbuild-build-depends-lintian-dummy.deb) ...
+Processing triggers for man-db ...
+Not building database; man-db/auto-update is not 'true'.
+Setting up libssl1.0.0:amd64 (1.0.1e-3) ...
+Setting up liblocale-gettext-perl (1.05-7+b1) ...
+Setting up libnet-ssleay-perl (1.55-1) ...
+Setting up netbase (5.1) ...
+Setting up libio-socket-ssl-perl (1.93-2) ...
+Setting up libnet-smtp-ssl-perl (1.01-3) ...
+Setting up libmailtools-perl (2.12-1) ...
+Setting up libdigest-hmac-perl (1.03+dfsg-1) ...
+Setting up libnet-ip-perl (1.26-1) ...
+Setting up libsocket6-perl (0.23-1+b2) ...
+Setting up libio-socket-inet6-perl (2.69-2) ...
+Setting up libnet-dns-perl (0.68-1.1) ...
+Setting up libnet-domain-tld-perl (1.69-1) ...
+Setting up libemail-valid-perl (0.190-1) ...
+Setting up diffstat (1.55-3) ...
+Setting up hardening-includes (2.3) ...
+Setting up libapt-pkg-perl (0.1.29) ...
+Setting up libarchive-zip-perl (1.30-7) ...
+Setting up libsub-name-perl (0.05-1+b2) ...
+Setting up libclass-accessor-perl (0.34-1) ...
+Setting up libclone-perl (0.34-1) ...
+Setting up libfile-basedir-perl (0.03-1) ...
+Setting up libio-pty-perl (1:1.08-1+b2) ...
+Setting up libio-string-perl (1.08-2) ...
+Setting up libipc-run-perl (0.92-1) ...
+Setting up liblist-moreutils-perl (0.33-1+b1) ...
+Setting up libparse-debianchangelog-perl (1.2.0-1) ...
+Setting up libtext-levenshtein-perl (0.06~01-2) ...
+Setting up liburi-perl (1.60-1) ...
+Setting up patchutils (0.3.2-2) ...
+Setting up t1utils (1.37-2) ...
+Setting up lintian (2.5.15) ...
+Setting up sbuild-build-depends-lintian-dummy (0.invalid.0) ...
+Processing triggers for libc-bin ...
+W: r-bioc-limma: hardening-no-relro usr/lib/R/site-library/limma/libs/limma.so
+
+I: Lintian run was successful.
+
+┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
-r-bioc-limma_3.12.0~dfsg-1_amd64.changes:
+r-bioc-limma_3.16.7~dfsg-1_amd64.changes:
─────────────────────────────────────────
Format: 1.8
-Date: Thu, 12 Apr 2012 11:40:40 +0900
+Date: Sun, 04 Aug 2013 17:28:41 +0900
Source: r-bioc-limma
Binary: r-bioc-limma
Architecture: source amd64
-Version: 3.12.0~dfsg-1
+Version: 3.16.7~dfsg-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
@@ -679,48 +975,45 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
r-bioc-limma - linear models for microarray data
Changes:
- r-bioc-limma (3.12.0~dfsg-1) unstable; urgency=low
+ r-bioc-limma (3.16.7~dfsg-1) unstable; urgency=low
.
- [ Charles Plessy ]
- 2d3420e Imported Upstream version 3.12.0~dfsg
- 4bbb8e4 Document LIMMA's copyright as a whole.
- .
- [ Andreas Tille ]
- 8a61a4c Obtain references from inst/CITATION
+ be4e6a5 Imported Upstream version 3.16.7~dfsg
+ 5d10f8d Normalised VCS URLs.
+ 3ed3572 Signal the presence of autopkgtest suite with a XS-Testsuite field.
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Files:
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- e257693c72260d1ca3eb8602c442642e 282812 gnu-r optional r-bioc-limma_3.12.0~dfsg.orig.tar.gz
- a465d356326fb766d6f5cf6501ae4744 3098 gnu-r optional r-bioc-limma_3.12.0~dfsg-1.diff.gz
- 690f9c13fe136bd849b136ce088134f8 805696 gnu-r optional r-bioc-limma_3.12.0~dfsg-1_amd64.deb
+ c1b5499eb04cfc989be46847970b003c 1194 gnu-r optional r-bioc-limma_3.16.7~dfsg-1.dsc
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+ afcad26e2daafc45236d3ed157e724a2 4179 gnu-r optional r-bioc-limma_3.16.7~dfsg-1.debian.tar.gz
+ 07ac6fcd59c69e1bf73e43216a4b8075 839742 gnu-r optional r-bioc-limma_3.16.7~dfsg-1_amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-r-bioc-limma_3.12.0~dfsg-1_amd64.deb
+r-bioc-limma_3.16.7~dfsg-1_amd64.deb
────────────────────────────────────
new debian package, version 2.0.
- size 805696 bytes: control archive= 1546 bytes.
+ size 839742 bytes: control archive=1633 bytes.
775 bytes, 16 lines control
- 2290 bytes, 30 lines md5sums
+ 2539 bytes, 33 lines md5sums
Package: r-bioc-limma
- Version: 3.12.0~dfsg-1
+ Version: 3.16.7~dfsg-1
Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 981
- Depends: libc6 (>= 2.2.5), r-base-core (>= 2.15.0-1)
+ Installed-Size: 1061
+ Depends: libc6 (>= 2.2.5), r-base-core (>= 3.0.1-6)
Section: gnu-r
Priority: optional
Homepage: http://bioinf.wehi.edu.au/limma/
@@ -732,51 +1025,55 @@ r-bioc-limma_3.12.0~dfsg-1_amd64.deb
apply to all array platforms and treat Affymetrix, single channel and two
channel experiments in a unified way.
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/site-library/
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/site-library/limma/
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/site-library/limma/R/
--rw-r--r-- root/root 202031 2012-04-12 11:43 ./usr/lib/R/site-library/limma/R/limma.rdb
--rw-r--r-- root/root 3821 2012-04-12 11:43 ./usr/lib/R/site-library/limma/R/limma.rdx
--rw-r--r-- root/root 383 2012-04-12 11:43 ./usr/lib/R/site-library/limma/R/limma
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/site-library/limma/help/
--rw-r--r-- root/root 468540 2012-04-12 11:43 ./usr/lib/R/site-library/limma/help/limma.rdb
--rw-r--r-- root/root 6317 2012-04-12 11:43 ./usr/lib/R/site-library/limma/help/AnIndex
--rw-r--r-- root/root 3346 2012-04-12 11:43 ./usr/lib/R/site-library/limma/help/limma.rdx
--rw-r--r-- root/root 2431 2012-04-12 11:43 ./usr/lib/R/site-library/limma/help/aliases.rds
--rw-r--r-- root/root 1362 2012-04-12 11:43 ./usr/lib/R/site-library/limma/help/paths.rds
--rwxr-xr-x root/root 1230 2012-04-12 11:43 ./usr/lib/R/site-library/limma/CITATION
--rw-r--r-- root/root 1901 2012-04-12 11:43 ./usr/lib/R/site-library/limma/NAMESPACE
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/site-library/limma/html/
--rw-r--r-- root/root 35015 2012-04-12 11:43 ./usr/lib/R/site-library/limma/html/00Index.html
--rw-r--r-- root/root 1179 2012-04-12 11:43 ./usr/lib/R/site-library/limma/html/R.css
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/site-library/limma/Meta/
--rw-r--r-- root/root 6157 2012-04-12 11:43 ./usr/lib/R/site-library/limma/Meta/Rd.rds
--rw-r--r-- root/root 5727 2012-04-12 11:43 ./usr/lib/R/site-library/limma/Meta/hsearch.rds
--rw-r--r-- root/root 521 2012-04-12 11:43 ./usr/lib/R/site-library/limma/Meta/nsInfo.rds
--rw-r--r-- root/root 2943 2012-04-12 11:43 ./usr/lib/R/site-library/limma/Meta/links.rds
--rw-r--r-- root/root 220 2012-04-12 11:43 ./usr/lib/R/site-library/limma/Meta/vignette.rds
--rw-r--r-- root/root 1054 2012-04-12 11:43 ./usr/lib/R/site-library/limma/Meta/package.rds
--rw-r--r-- root/root 3989 2012-04-12 11:43 ./usr/lib/R/site-library/limma/NEWS.Rd
--rw-r--r-- root/root 966 2012-04-12 11:43 ./usr/lib/R/site-library/limma/DESCRIPTION
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/site-library/limma/libs/
--rw-r--r-- root/root 10904 2012-04-12 11:43 ./usr/lib/R/site-library/limma/libs/limma.so
--rw-r--r-- root/root 9754 2012-04-12 11:43 ./usr/lib/R/site-library/limma/INDEX
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/lib/R/site-library/limma/doc/
--rwxr-xr-x root/root 673 2012-04-12 11:43 ./usr/lib/R/site-library/limma/doc/index.html
--rw-r--r-- root/root 42743 2012-04-12 11:43 ./usr/lib/R/site-library/limma/doc/limma.pdf
--rwxr-xr-x root/root 91993 2012-04-12 11:43 ./usr/lib/R/site-library/limma/doc/changelog.txt
--rwxr-xr-x root/root 1711 2012-04-12 11:43 ./usr/lib/R/site-library/limma/doc/limma.Rnw
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/share/
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/share/doc/
-drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/share/doc/r-bioc-limma/
--rw-r--r-- root/root 27996 2012-03-31 07:32 ./usr/share/doc/r-bioc-limma/changelog.gz
--rw-r--r-- root/root 2457 2012-04-12 11:42 ./usr/share/doc/r-bioc-limma/copyright
--rw-r--r-- root/root 683 2012-04-12 11:42 ./usr/share/doc/r-bioc-limma/changelog.Debian.gz
--rw-r--r-- root/root 264 2012-04-12 11:42 ./usr/share/doc/r-bioc-limma/README.Debian
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/R/
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/R/site-library/
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/R/site-library/limma/
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/R/site-library/limma/R/
+-rw-r--r-- root/root 207868 2013-08-04 17:36 ./usr/lib/R/site-library/limma/R/limma.rdb
+-rw-r--r-- root/root 4122 2013-08-04 17:36 ./usr/lib/R/site-library/limma/R/limma.rdx
+-rw-r--r-- root/root 1056 2013-08-04 17:36 ./usr/lib/R/site-library/limma/R/limma
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/R/site-library/limma/help/
+-rw-r--r-- root/root 492653 2013-08-04 17:36 ./usr/lib/R/site-library/limma/help/limma.rdb
+-rw-r--r-- root/root 6742 2013-08-04 17:36 ./usr/lib/R/site-library/limma/help/AnIndex
+-rw-r--r-- root/root 3445 2013-08-04 17:36 ./usr/lib/R/site-library/limma/help/limma.rdx
+-rw-r--r-- root/root 2577 2013-08-04 17:36 ./usr/lib/R/site-library/limma/help/aliases.rds
+-rw-r--r-- root/root 1393 2013-08-04 17:36 ./usr/lib/R/site-library/limma/help/paths.rds
+-rw-r--r-- root/root 963 2013-08-04 17:36 ./usr/lib/R/site-library/limma/CITATION
+-rw-r--r-- root/root 2095 2013-08-04 17:36 ./usr/lib/R/site-library/limma/NAMESPACE
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+-rw-r--r-- root/root 37564 2013-08-04 17:36 ./usr/lib/R/site-library/limma/html/00Index.html
+-rw-r--r-- root/root 1179 2013-08-04 17:36 ./usr/lib/R/site-library/limma/html/R.css
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/R/site-library/limma/Meta/
+-rw-r--r-- root/root 6386 2013-08-04 17:36 ./usr/lib/R/site-library/limma/Meta/Rd.rds
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+-rw-r--r-- root/root 542 2013-08-04 17:36 ./usr/lib/R/site-library/limma/Meta/nsInfo.rds
+-rw-r--r-- root/root 3098 2013-08-04 17:36 ./usr/lib/R/site-library/limma/Meta/links.rds
+-rw-r--r-- root/root 219 2013-08-04 17:36 ./usr/lib/R/site-library/limma/Meta/vignette.rds
+-rw-r--r-- root/root 1071 2013-08-04 17:36 ./usr/lib/R/site-library/limma/Meta/package.rds
+-rw-r--r-- root/root 11214 2013-08-04 17:36 ./usr/lib/R/site-library/limma/NEWS.Rd
+-rw-r--r-- root/root 987 2013-08-04 17:36 ./usr/lib/R/site-library/limma/DESCRIPTION
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/R/site-library/limma/libs/
+-rw-r--r-- root/root 10712 2013-08-04 17:36 ./usr/lib/R/site-library/limma/libs/limma.so
+-rw-r--r-- root/root 10085 2013-08-04 17:36 ./usr/lib/R/site-library/limma/INDEX
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/lib/R/site-library/limma/doc/
+-rw-r--r-- root/root 673 2013-08-04 17:36 ./usr/lib/R/site-library/limma/doc/index.html
+-rw-r--r-- root/root 45597 2013-08-04 17:36 ./usr/lib/R/site-library/limma/doc/limma.pdf
+-rw-r--r-- root/root 104280 2013-08-04 17:36 ./usr/lib/R/site-library/limma/doc/changelog.txt
+-rw-r--r-- root/root 1711 2013-08-04 17:36 ./usr/lib/R/site-library/limma/doc/limma.Rnw
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/share/
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/share/doc/
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/share/doc/r-bioc-limma/
+-rw-r--r-- root/root 31495 2013-07-30 04:26 ./usr/share/doc/r-bioc-limma/changelog.gz
+-rw-r--r-- root/root 437 2012-08-06 14:47 ./usr/share/doc/r-bioc-limma/README.test
+-rw-r--r-- root/root 1601 2013-08-04 17:19 ./usr/share/doc/r-bioc-limma/copyright
+drwxr-xr-x root/root 0 2013-08-04 17:36 ./usr/share/doc/r-bioc-limma/tests/
+-rw-r--r-- root/root 2097 2013-04-04 07:18 ./usr/share/doc/r-bioc-limma/tests/limma-Tests.R.gz
+-rw-r--r-- root/root 14649 2013-04-04 07:18 ./usr/share/doc/r-bioc-limma/tests/limma-Tests.Rout.save.gz
+-rw-r--r-- root/root 1247 2013-08-04 17:29 ./usr/share/doc/r-bioc-limma/changelog.Debian.gz
+-rw-r--r-- root/root 264 2012-08-06 14:39 ./usr/share/doc/r-bioc-limma/README.Debian
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -784,18 +1081,6 @@ drwxr-xr-x root/root 0 2012-04-12 11:43 ./usr/share/doc/r-bioc-limma/
└──────────────────────────────────────────────────────────────────────────────┘
-lintian
-───────
-
-I: r-bioc-limma source: missing-debian-source-format
-W: r-bioc-limma: copyright-without-copyright-notice
-W: r-bioc-limma: executable-not-elf-or-script usr/lib/R/site-library/limma/doc/index.html
-W: r-bioc-limma: executable-not-elf-or-script usr/lib/R/site-library/limma/doc/changelog.txt
-W: r-bioc-limma: executable-not-elf-or-script usr/lib/R/site-library/limma/CITATION
-W: r-bioc-limma: executable-not-elf-or-script usr/lib/R/site-library/limma/doc/limma.Rnw
-
-I: Lintian run was successful.
-
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
@@ -807,19 +1092,21 @@ Not cleaning session: cloned chroot in use
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
-Architecture: amd64
-Build-Space: 3528
+Build Architecture: amd64
+Build-Space: 3840
Build-Time: 10
Distribution: unstable
-Install-Time: 26
-Job: r-bioc-limma_3.12.0~dfsg-1.dsc
+Host Architecture: amd64
+Install-Time: 32
+Job: r-bioc-limma_3.16.7~dfsg-1.dsc
Lintian: pass
+Machine Architecture: amd64
Package: r-bioc-limma
-Package-Time: 38
-Source-Version: 3.12.0~dfsg-1
-Space: 3528
+Package-Time: 45
+Source-Version: 3.16.7~dfsg-1
+Space: 3840
Status: successful
-Version: 3.12.0~dfsg-1
+Version: 3.16.7~dfsg-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20120412-1143
-Build needed 00:00:38, 3528k disc space
+Finished at 20130804-1736
+Build needed 00:00:45, 3840k disc space
diff --git a/dsc b/dsc
index 3157310..c1bc800 100644
--- a/dsc
+++ b/dsc
@@ -1,45 +1,24 @@
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Source: r-bioc-limma
Binary: r-bioc-limma
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-Version: 3.12.0~dfsg-1
+Version: 3.16.7~dfsg-1
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Charles Plessy <plessy at debian.org>
-Dm-Upload-Allowed: yes
+Uploaders: Charles Plessy <plessy at debian.org>, Andreas Tille <tille at debian.org>
Homepage: http://bioinf.wehi.edu.au/limma/
-Standards-Version: 3.9.3
-Vcs-Browser: http://git.debian.org/?p=debian-med/r-bioc-limma.git
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-Build-Depends: debhelper (>= 8), cdbs, r-base-dev (>= 2.14.2~20120222)
+Standards-Version: 3.9.4
+Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/r-bioc-limma.git
+Vcs-Git: git://anonscm.debian.org/debian-med/r-bioc-limma.git
+Build-Depends: debhelper (>= 9), cdbs, r-base-dev
Package-List:
r-bioc-limma deb gnu-r optional
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------END PGP SIGNATURE-----
+ 52b146dd234554f70934e5644590f15d 309741 r-bioc-limma_3.16.7~dfsg.orig.tar.gz
+ afcad26e2daafc45236d3ed157e724a2 4179 r-bioc-limma_3.16.7~dfsg-1.debian.tar.gz
+Testsuite: autopkgtest
diff --git a/upload b/upload
index ca589d2..85b2f7a 100644
--- a/upload
+++ b/upload
@@ -1,6 +1,6 @@
-u r-bioc-limma_3.12.0~dfsg.orig.tar.gz ftp.upload.debian.org Thu Apr 12 11:45:48 2012
-u r-bioc-limma_3.12.0~dfsg-1.dsc ftp.upload.debian.org Thu Apr 12 11:45:50 2012
-u r-bioc-limma_3.12.0~dfsg-1.diff.gz ftp.upload.debian.org Thu Apr 12 11:45:51 2012
-u r-bioc-limma_3.12.0~dfsg-1_amd64.deb ftp.upload.debian.org Thu Apr 12 11:45:54 2012
-u r-bioc-limma_3.12.0~dfsg-1_amd64.changes ftp.upload.debian.org Thu Apr 12 11:45:55 2012
-s r-bioc-limma_3.12.0~dfsg-1_amd64.changes ftp.upload.debian.org Thu Apr 12 11:45:55 2012
+u r-bioc-limma_3.16.7~dfsg-1_amd64.deb ftp.upload.debian.org Sun Aug 4 17:50:30 2013
+u r-bioc-limma_3.16.7~dfsg-1.debian.tar.gz ftp.upload.debian.org Sun Aug 4 17:50:32 2013
+u r-bioc-limma_3.16.7~dfsg-1.dsc ftp.upload.debian.org Sun Aug 4 17:50:33 2013
+u r-bioc-limma_3.16.7~dfsg.orig.tar.gz ftp.upload.debian.org Sun Aug 4 17:50:35 2013
+u r-bioc-limma_3.16.7~dfsg-1_amd64.changes ftp.upload.debian.org Sun Aug 4 17:50:37 2013
+s r-bioc-limma_3.16.7~dfsg-1_amd64.changes ftp.upload.debian.org Sun Aug 4 17:50:37 2013
--
linear models for microarray data
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