[med-svn] [r-bioc-edger] 02/02: r-bioc-edger (3.2.4~dfsg-1) unstable; urgency=low
Charles Plessy
plessy at alioth.debian.org
Mon Aug 5 10:36:07 UTC 2013
This is an automated email from the git hooks/post-receive script.
plessy pushed a commit to branch meta
in repository r-bioc-edger.
commit 7b5723691be8b16c32da423909678a6eaac07d7a
Author: Charles Plessy <plessy at debian.org>
Date: Mon Aug 5 19:34:43 2013 +0900
r-bioc-edger (3.2.4~dfsg-1) unstable; urgency=low
543a589 Imported Upstream version 3.2.4~dfsg
846128f Normalised VCS URLs.
735a2e9 Signal autopkgtest suite with XS-Testsuite field.
a429231 Correct the autopkgtest as the test files are compressed.
-- Charles Plessy <plessy at debian.org> Mon, 05 Aug 2013 19:26:22 +0900
---
amd64.changes | 65 ++--
amd64.log | 1182 +++++++++++++++++++++++++++++++++++----------------------
dsc | 54 +--
upload | 12 +-
4 files changed, 801 insertions(+), 512 deletions(-)
diff --git a/amd64.changes b/amd64.changes
index ec22575..4f6757b 100644
--- a/amd64.changes
+++ b/amd64.changes
@@ -2,11 +2,11 @@
Hash: SHA256
Format: 1.8
-Date: Tue, 01 May 2012 12:58:10 +0900
+Date: Mon, 05 Aug 2013 19:26:22 +0900
Source: r-bioc-edger
Binary: r-bioc-edger
-Architecture: source all
-Version: 2.6.1~dfsg-1
+Architecture: source amd64
+Version: 3.2.4~dfsg-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
@@ -14,39 +14,42 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
r-bioc-edger - Empirical analysis of digital gene expression data in R
Changes:
- r-bioc-edger (2.6.1~dfsg-1) unstable; urgency=low
+ r-bioc-edger (3.2.4~dfsg-1) unstable; urgency=low
.
- 43f7a83 Imported Upstream version 2.6.1~dfsg
+ 543a589 Imported Upstream version 3.2.4~dfsg
+ 846128f Normalised VCS URLs.
+ 735a2e9 Signal autopkgtest suite with XS-Testsuite field.
+ a429231 Correct the autopkgtest as the test files are compressed.
Checksums-Sha1:
- 4b8474eeff59d50feee3806d63b0547851837e23 2081 r-bioc-edger_2.6.1~dfsg-1.dsc
- b1b7fbbd744983f2c37ce5af3d4124a901c141b1 412736 r-bioc-edger_2.6.1~dfsg.orig.tar.gz
- affd8555bd2798897638dcc956ff6a5f48037ace 3277 r-bioc-edger_2.6.1~dfsg-1.diff.gz
- 9333b40e569de5bb676eb73b692ee1181477774d 573442 r-bioc-edger_2.6.1~dfsg-1_all.deb
+ 1f1ccba61f8f7c6eba88339f686150cb48fafee7 2120 r-bioc-edger_3.2.4~dfsg-1.dsc
+ 8c3dcbaa709899a4352bce78833611fa77080796 421866 r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+ 4509304634ffcef8488f6cd8b39e8ee862043eb7 4414 r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
+ 07f661e2db54616e49296ad16e98031b8e173ea2 584498 r-bioc-edger_3.2.4~dfsg-1_amd64.deb
Checksums-Sha256:
- 91c15751ff0ee73929c23f4a97a2b2edcde4cc88c3b5e2e8baf4b1f53176c831 2081 r-bioc-edger_2.6.1~dfsg-1.dsc
- f5facaedfe339098695e62ada83bf4f889c51962be61a84c56a3e5cd5306a24d 412736 r-bioc-edger_2.6.1~dfsg.orig.tar.gz
- 238c896764e20c7223c614fb9d90a6a060b30066805938f2084b6528e774da81 3277 r-bioc-edger_2.6.1~dfsg-1.diff.gz
- 66091282f936f15cc747c6bb850c80f37d07e412b351c6687cd30e177a178c86 573442 r-bioc-edger_2.6.1~dfsg-1_all.deb
+ a0d79f67eba5e999cf9263815024fd77bfc9364475a4119b54a99095c3514c6d 2120 r-bioc-edger_3.2.4~dfsg-1.dsc
+ 75dc5d96c5a7a96065b0522f421586ecd9605742bde8cda22d90fcb2eca9bd61 421866 r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+ 55b8027b398cfcee504dc9448d0eb54c0b1111bcae9d126255c25272792bafca 4414 r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
+ ec4a6e859913eae76977ea7942928f252d05b633bc50c26a37be60b0e7bd8dec 584498 r-bioc-edger_3.2.4~dfsg-1_amd64.deb
Files:
- 835ccb6c28c32c71c9607b4c6dda0176 2081 gnu-r optional r-bioc-edger_2.6.1~dfsg-1.dsc
- 5924c6d25f9a8f004804236d5f1bee7a 412736 gnu-r optional r-bioc-edger_2.6.1~dfsg.orig.tar.gz
- 902efbd2153c9112c7569a7893794264 3277 gnu-r optional r-bioc-edger_2.6.1~dfsg-1.diff.gz
- cb904f3a25c09d9c6fde71abcb8f9745 573442 gnu-r optional r-bioc-edger_2.6.1~dfsg-1_all.deb
+ a93350e55198bfd28ef6e1f223b82111 2120 gnu-r optional r-bioc-edger_3.2.4~dfsg-1.dsc
+ c2495c24f15835a62ce2ed61decfae00 421866 gnu-r optional r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+ 79b7e2cc5f7c0293aa4bd5933fc4b833 4414 gnu-r optional r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
+ d477c91ba22d4662bfcc7223ce64dd49 584498 gnu-r optional r-bioc-edger_3.2.4~dfsg-1_amd64.deb
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diff --git a/amd64.log b/amd64.log
index bc249a0..14706bf 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-edger 2.6.1~dfsg-1 (amd64) 02 May 2012 14:41 ║
+║ r-bioc-edger 3.2.4~dfsg-1 (amd64) 05 Aug 2013 19:28 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: r-bioc-edger
-Version: 2.6.1~dfsg-1
-Source Version: 2.6.1~dfsg-1
+Version: 3.2.4~dfsg-1
+Source Version: 3.2.4~dfsg-1
Distribution: unstable
-Architecture: amd64
+Machine Architecture: amd64
+Host Architecture: amd64
+Build Architecture: amd64
-I: NOTICE: Log filtering will replace 'build/r-bioc-edger-C86wKH/r-bioc-edger-2.6.1~dfsg' with '«PKGBUILDDIR»'
-I: NOTICE: Log filtering will replace 'build/r-bioc-edger-C86wKH' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-5357535c-cc24-4441-bb31-18b538fd9002' with '«CHROOT»'
+I: NOTICE: Log filtering will replace 'build/r-bioc-edger-cuq7k_/r-bioc-edger-3.2.4~dfsg' with '«PKGBUILDDIR»'
+I: NOTICE: Log filtering will replace 'build/r-bioc-edger-cuq7k_' with '«BUILDDIR»'
+I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-e173c25d-726f-4a29-9aa8-a7f064253954' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
@@ -20,8 +22,7 @@ I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-53
Hit http://ftp.jp.debian.org sid InRelease
Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
-Get:1 http://ftp.jp.debian.org sid/main Translation-en/DiffIndex [7876 B]
-Fetched 7876 B in 0s (10.5 kB/s)
+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-edger_2.6.1~dfsg-1.dsc exists in .; copying to chroot
+r-bioc-edger_3.2.4~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-UNDVpJ/apt_archive/sbuild-build-depends-core-dummy.deb'.
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-7ggtCh/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), r-bioc-limma
-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), r-bioc-limma
-dpkg-deb: building package `sbuild-build-depends-r-bioc-edger-dummy' in `/«BUILDDIR»/resolver-GpJv5i/apt_archive/sbuild-build-depends-r-bioc-edger-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, r-bioc-limma
+Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), cdbs, r-base-dev, r-bioc-limma
+dpkg-deb: building package `sbuild-build-depends-r-bioc-edger-dummy' in `/«BUILDDIR»/resolver-FbnzKI/apt_archive/sbuild-build-depends-r-bioc-edger-dummy.deb'.
OK
Reading package lists...
@@ -71,380 +75,483 @@ 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 libasprintf0c2
- libblas-dev libblas3gf libbz2-dev libcairo2 libcroco3 libdatrie1 libexpat1
- libffi5 libfontconfig1 libfreetype6 libgettextpo0 libgfortran3 libglib2.0-0
- libice6 libjbig0 libjpeg8 libjpeg8-dev liblapack-dev liblapack3gf libmagic1
- libncurses5-dev libpango1.0-0 libpaper-utils libpaper1 libpcre3 libpcre3-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 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 r-bioc-limma tcl8.5 tk8.5 ttf-dejavu-core
- unzip x11-common xdg-utils zip zlib1g-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 r-bioc-limma tcl8.5 tk8.5 ttf-dejavu-core ucf unzip
+ x11-common xdg-utils zip zlib1g-dev
Suggested packages:
- devscripts dh-make curl 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 libasprintf0c2
- libblas-dev libblas3gf libbz2-dev libcairo2 libcroco3 libdatrie1 libexpat1
- libffi5 libfontconfig1 libfreetype6 libgettextpo0 libgfortran3 libglib2.0-0
- libice6 libjbig0 libjpeg8 libjpeg8-dev liblapack-dev liblapack3gf libmagic1
- libncurses5-dev libpango1.0-0 libpaper-utils libpaper1 libpcre3 libpcre3-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 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 r-bioc-limma
- sbuild-build-depends-r-bioc-edger-dummy tcl8.5 tk8.5 ttf-dejavu-core unzip
- x11-common xdg-utils zip zlib1g-dev
-0 upgraded, 79 newly installed, 0 to remove and 0 not upgraded.
-Need to get 47.0 MB/59.7 MB of archives.
-After this operation, 129 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 libasprintf0c2 amd64 0.18.1.1-6 [26.5 kB]
-Get:3 http://ftp.jp.debian.org/debian/ sid/main libmagic1 amd64 5.11-1 [250 kB]
-Get:4 http://ftp.jp.debian.org/debian/ sid/main libpcre3 amd64 1:8.30-4 [242 kB]
-Get:5 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-9 [895 kB]
-Get:6 http://ftp.jp.debian.org/debian/ sid/main libexpat1 amd64 2.1.0-1 [141 kB]
-Get:7 http://ftp.jp.debian.org/debian/ sid/main libfreetype6 amd64 2.4.9-1 [450 kB]
-Get:8 http://ftp.jp.debian.org/debian/ sid/main fontconfig-config all 2.9.0-2 [230 kB]
-Get:9 http://ftp.jp.debian.org/debian/ sid/main libfontconfig1 amd64 2.9.0-2 [299 kB]
-Get:10 http://ftp.jp.debian.org/debian/ sid/main libpixman-1-0 amd64 0.24.4-1 [406 kB]
-Get:11 http://ftp.jp.debian.org/debian/ sid/main libxau6 amd64 1:1.0.7-1 [18.8 kB]
-Get:12 http://ftp.jp.debian.org/debian/ sid/main libxdmcp6 amd64 1:1.1.1-1 [26.3 kB]
-Get:13 http://ftp.jp.debian.org/debian/ sid/main libxcb1 amd64 1.8.1-1 [50.0 kB]
-Get:14 http://ftp.jp.debian.org/debian/ sid/main libx11-data all 2:1.4.99.901-2 [186 kB]
-Get:15 http://ftp.jp.debian.org/debian/ sid/main libx11-6 amd64 2:1.4.99.901-2 [898 kB]
-Get:16 http://ftp.jp.debian.org/debian/ sid/main libxcb-render0 amd64 1.8.1-1 [18.4 kB]
-Get:17 http://ftp.jp.debian.org/debian/ sid/main libxcb-shm0 amd64 1.8.1-1 [10.1 kB]
-Get:18 http://ftp.jp.debian.org/debian/ sid/main libxrender1 amd64 1:0.9.7-1 [32.2 kB]
-Get:19 http://ftp.jp.debian.org/debian/ sid/main libcairo2 amd64 1.12.2-1 [913 kB]
-Get:20 http://ftp.jp.debian.org/debian/ sid/main libglib2.0-0 amd64 2.32.2-1 [2076 kB]
-Get:21 http://ftp.jp.debian.org/debian/ sid/main libcroco3 amd64 0.6.5-1 [151 kB]
-Get:22 http://ftp.jp.debian.org/debian/ sid/main libdatrie1 amd64 0.2.5-3 [28.6 kB]
-Get:23 http://ftp.jp.debian.org/debian/ sid/main libgettextpo0 amd64 0.18.1.1-6 [142 kB]
-Get:24 http://ftp.jp.debian.org/debian/ sid/main libgfortran3 amd64 4.7.0-6 [352 kB]
-Get:25 http://ftp.jp.debian.org/debian/ sid/main x11-common all 1:7.6+12 [283 kB]
-Get:26 http://ftp.jp.debian.org/debian/ sid/main libice6 amd64 2:1.0.8-2 [63.1 kB]
-Get:27 http://ftp.jp.debian.org/debian/ sid/main libjpeg8 amd64 8d-1 [134 kB]
-Get:28 http://ftp.jp.debian.org/debian/ sid/main libthai-data all 0.1.17-1 [205 kB]
-Get:29 http://ftp.jp.debian.org/debian/ sid/main libthai0 amd64 0.1.17-1 [44.8 kB]
-Get:30 http://ftp.jp.debian.org/debian/ sid/main fontconfig amd64 2.9.0-2 [349 kB]
-Get:31 http://ftp.jp.debian.org/debian/ sid/main libpango1.0-0 amd64 1.30.0-1 [461 kB]
-Get:32 http://ftp.jp.debian.org/debian/ sid/main libpcrecpp0 amd64 1:8.30-4 [125 kB]
-Get:33 http://ftp.jp.debian.org/debian/ sid/main libsm6 amd64 2:1.2.1-2 [34.2 kB]
-Get:34 http://ftp.jp.debian.org/debian/ sid/main libjbig0 amd64 2.0-2 [32.2 kB]
-Get:35 http://ftp.jp.debian.org/debian/ sid/main libtiff4 amd64 3.9.6-5 [201 kB]
-Get:36 http://ftp.jp.debian.org/debian/ sid/main libxext6 amd64 2:1.3.1-2 [55.3 kB]
-Get:37 http://ftp.jp.debian.org/debian/ sid/main libxss1 amd64 1:1.2.2-1 [17.5 kB]
-Get:38 http://ftp.jp.debian.org/debian/ sid/main libxt6 amd64 1:1.1.3-1 [211 kB]
-Get:39 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-7 [1151 kB]
-Get:40 http://ftp.jp.debian.org/debian/ sid/main man-db amd64 2.6.1-2 [1057 kB]
-Get:41 http://ftp.jp.debian.org/debian/ sid/main file amd64 5.11-1 [53.2 kB]
-Get:42 http://ftp.jp.debian.org/debian/ sid/main gettext-base amd64 0.18.1.1-6 [152 kB]
-Get:43 http://ftp.jp.debian.org/debian/ sid/main cdbs all 0.4.111 [79.7 kB]
-Get:44 http://ftp.jp.debian.org/debian/ sid/main gettext amd64 0.18.1.1-6 [1966 kB]
-Get:45 http://ftp.jp.debian.org/debian/ sid/main debhelper all 9.20120419 [694 kB]
-Get:46 http://ftp.jp.debian.org/debian/ sid/main dpatch all 2.0.35 [95.2 kB]
-Get:47 http://ftp.jp.debian.org/debian/ sid/main gfortran-4.6 amd64 4.6.3-4 [5564 kB]
-Get:48 http://ftp.jp.debian.org/debian/ sid/main gfortran amd64 4:4.6.3-4 [1134 B]
-Get:49 http://ftp.jp.debian.org/debian/ sid/main libbz2-dev amd64 1.0.6-1 [32.1 kB]
-Get:50 http://ftp.jp.debian.org/debian/ sid/main libjpeg8-dev amd64 8d-1 [242 kB]
-Get:51 http://ftp.jp.debian.org/debian/ sid/main libtinfo-dev amd64 5.9-7 [103 kB]
-Get:52 http://ftp.jp.debian.org/debian/ sid/main libncurses5-dev amd64 5.9-7 [223 kB]
-Get:53 http://ftp.jp.debian.org/debian/ sid/main libpcre3-dev amd64 1:8.30-4 [348 kB]
-Get:54 http://ftp.jp.debian.org/debian/ sid/main zlib1g-dev amd64 1:1.2.6.dfsg-2 [213 kB]
-Get:55 http://ftp.jp.debian.org/debian/ sid/main libpng12-dev amd64 1.2.49-1 [266 kB]
-Get:56 http://ftp.jp.debian.org/debian/ sid/main libreadline6-dev amd64 6.2-8 [264 kB]
-Get:57 http://ftp.jp.debian.org/debian/ sid/main libreadline-dev amd64 6.2-8 [890 B]
-Get:58 http://ftp.jp.debian.org/debian/ sid/main unzip amd64 6.0-6 [194 kB]
-Get:59 http://ftp.jp.debian.org/debian/ sid/main xdg-utils all 1.1.0~rc1+git20111210-6 [83.7 kB]
-Get:60 http://ftp.jp.debian.org/debian/ sid/main tcl8.5 amd64 8.5.11-1 [1633 kB]
-Get:61 http://ftp.jp.debian.org/debian/ sid/main tk8.5 amd64 8.5.11-1 [1183 kB]
-Get:62 http://ftp.jp.debian.org/debian/ sid/main r-base-core amd64 2.15.0-1 [20.5 MB]
-Get:63 http://ftp.jp.debian.org/debian/ sid/main r-base-dev all 2.15.0-1 [3900 B]
-Get:64 http://ftp.jp.debian.org/debian/ sid/main r-bioc-limma amd64 3.12.0~dfsg-1 [806 kB]
+ 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 r-bioc-limma sbuild-build-depends-r-bioc-edger-dummy
+ tcl8.5 tk8.5 ttf-dejavu-core ucf unzip x11-common xdg-utils zip zlib1g-dev
+0 upgraded, 99 newly installed, 0 to remove and 0 not upgraded.
+Need to get 71.5 MB/72.2 MB of archives.
+After this operation, 161 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+dfsg1-3 [791 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 2.36.3-4 [2051 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]
+Get:95 http://ftp.jp.debian.org/debian/ sid/main r-bioc-limma amd64 3.16.7~dfsg-1 [840 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 47.0 MB in 13s (3535 kB/s)
+Fetched 71.5 MB in 19s (3724 kB/s)
Selecting previously unselected package libpipeline1:amd64.
-(Reading database ... 10893 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_0.18.1.1-6_amd64.deb) ...
+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) ...
+Unpacking libmagic1:amd64 (from .../libmagic1_1%3a5.14-2_amd64.deb) ...
Selecting previously unselected package libxml2:amd64.
-Unpacking libxml2:amd64 (from .../libxml2_2.7.8.dfsg-9_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_2.9.0-2_all.deb) ...
-Selecting previously unselected package libfontconfig1:amd64.
-Unpacking libfontconfig1:amd64 (from .../libfontconfig1_2.9.0-2_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 libxml2:amd64 (from .../libxml2_2.9.1+dfsg1-3_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%3a1.1.1-1_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.
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+Moving old data out of the way
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+Selecting previously unselected package libpixman-1-0:amd64.
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+Selecting previously unselected package libpangocairo-1.0-0:amd64.
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+Unpacking libpaper1:amd64 (from .../libpaper1_1.1.24+nmu2_amd64.deb) ...
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+Unpacking libtiff5:amd64 (from .../libtiff5_4.0.3-1_amd64.deb) ...
+Selecting previously unselected package libunistring0:amd64.
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+Unpacking libxft2:amd64 (from .../libxft2_2.3.1-1_amd64.deb) ...
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+Unpacking libpaper-utils (from .../libpaper-utils_1.1.24+nmu2_amd64.deb) ...
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-Setting up libpipeline1:amd64 (1.2.1-1) ...
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-Setting up libfreetype6:amd64 (2.4.9-1) ...
-Setting up ttf-dejavu-core (2.33-2) ...
-Setting up fontconfig-config (2.9.0-2) ...
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-Setting up libpixman-1-0:amd64 (0.24.4-1) ...
-Setting up libxau6:amd64 (1:1.0.7-1) ...
+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+dfsg1-3) ...
+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) ...
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-Setting up libffi5:amd64 (3.0.10-3) ...
-Setting up libglib2.0-0:amd64 (2.32.2-1) ...
+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 (2.36.3-4) ...
No schema files found: doing nothing.
-Setting up libcroco3:amd64 (0.6.5-1) ...
-Setting up libdatrie1:amd64 (0.2.5-3) ...
-Setting up libunistring0:amd64 (0.9.3-5) ...
-Setting up libgettextpo0:amd64 (0.18.1.1-6) ...
-Setting up libgfortran3:amd64 (4.7.0-6) ...
-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 (2.9.0-2) ...
-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 libjbig0:amd64 (2.0-2) ...
-Setting up libtiff4:amd64 (3.9.6-5) ...
-Setting up libxext6:amd64 (2:1.3.1-2) ...
+Setting up libtiff5:amd64 (4.0.3-1) ...
+Setting up libunistring0:amd64 (0.9.3-5) ...
+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) ...
-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 (0.18.1.1-6) ...
-Setting up cdbs (0.4.111) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up gettext (0.18.1.1-6) ...
+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 (9.20120419) ...
-Setting up dpatch (2.0.35) ...
-Setting up gfortran-4.6 (4.6.3-4) ...
-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 (5.9-7) ...
-Setting up libncurses5-dev (5.9-7) ...
-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-bioc-limma (3.12.0~dfsg-1) ...
+Setting up r-base-dev (3.0.1-6) ...
+Setting up r-bioc-limma (3.16.7~dfsg-1) ...
Setting up sbuild-build-depends-r-bioc-edger-dummy (0.invalid.0) ...
+Processing triggers for libc-bin ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
-Kernel: Linux 2.6.39-bpo.2-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.22-6 dpkg-dev_1.16.3 g++-4.6_4.6.3-4 gcc-4.6_4.6.3-4 libc6-dev_2.13-31 libstdc++6_4.7.0-6 libstdc++6-4.6-dev_4.6.3-4 linux-libc-dev_3.2.16-1
-Package versions: apt_0.9.2 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_0.4.111 coreutils_8.13-3.1 cpp_4:4.6.3-4 cpp-4.6_4.6.3-4 dash_0.5.7-3 debconf_1.5.42 debfoster_2.7-1.1 debhelper_9.20120419 debian-archive-keyring_2010.08.28 debianutils_4.3 diffutils_1:3.2-6 dpatch_2.0.35 dpkg_1.16.3 dpkg-dev_1.16.3 e2fslibs_1.42.2-2 e2fsprogs_1.42.2-2 fakeroot_1.18.3-1 file_5.11-1 findutils_4.4.2-4 fontc [...]
+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 findut [...]
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -454,10 +561,10 @@ Package versions: apt_0.9.2 base-files_6.7 base-passwd_3.5.24 bash_4.2-2 binutil
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (r-bioc-edger_2.6.1~dfsg-1.dsc)
-dpkg-source: info: extracting r-bioc-edger in r-bioc-edger-2.6.1~dfsg
-dpkg-source: info: unpacking r-bioc-edger_2.6.1~dfsg.orig.tar.gz
-dpkg-source: info: applying r-bioc-edger_2.6.1~dfsg-1.diff.gz
+dpkg-source: warning: extracting unsigned source package (r-bioc-edger_3.2.4~dfsg-1.dsc)
+dpkg-source: info: extracting r-bioc-edger in r-bioc-edger-3.2.4~dfsg
+dpkg-source: info: unpacking r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+dpkg-source: info: unpacking r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
Check disc space
────────────────
@@ -470,11 +577,12 @@ 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-5357535c-cc24-4441-bb31-18b538fd9002
+SCHROOT_SESSION_ID=sid-amd64-sbuild-e173c25d-726f-4a29-9aa8-a7f064253954
SCHROOT_UID=31051
SCHROOT_USER=charles
SHELL=/bin/sh
@@ -486,28 +594,13 @@ dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package r-bioc-edger
-dpkg-buildpackage: source version 2.6.1~dfsg-1
+dpkg-buildpackage: source version 3.2.4~dfsg-1
+dpkg-buildpackage: source distribution unstable
dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
- dpkg-source --before-build r-bioc-edger-2.6.1~dfsg
+ dpkg-source --before-build r-bioc-edger-3.2.4~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-edger.substvars
rm -f debian/r-bioc-edger.*.debhelper
@@ -523,38 +616,20 @@ 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-edger-2.6.1~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-edger using existing r-bioc-edger_2.6.1~dfsg.orig.tar.gz
-dpkg-source: info: building r-bioc-edger in r-bioc-edger_2.6.1~dfsg-1.diff.gz
-dpkg-source: info: building r-bioc-edger in r-bioc-edger_2.6.1~dfsg-1.dsc
+ dpkg-source -b r-bioc-edger-3.2.4~dfsg
+dpkg-source: info: using source format `3.0 (quilt)'
+dpkg-source: info: building r-bioc-edger using existing ./r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+dpkg-source: info: building r-bioc-edger in r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
+dpkg-source: info: building r-bioc-edger in r-bioc-edger_3.2.4~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/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
-/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
@@ -567,7 +642,7 @@ mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
dh_installdirs usr/lib/R/site-library
install -d debian/r-bioc-edger/usr/lib/R/site-library
-echo "R:Depends=r-base-core (>= 2.15.0-1)" >> debian/r-bioc-edger.substvars
+echo "R:Depends=r-base-core (>= 3.0.1-6)" >> debian/r-bioc-edger.substvars
if test -f /usr/bin/xvfb-run; then \
xvfb-run -a \
R CMD INSTALL -l /«PKGBUILDDIR»/debian/r-bioc-edger/usr/lib/R/site-library --clean \
@@ -577,6 +652,25 @@ if test -f /usr/bin/xvfb-run; then \
--clean . ;\
fi
* installing *source* package 'edgeR' ...
+** libs
+make[1]: Entering directory `/«PKGBUILDDIR»/src'
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_exact_test_by_deviance.cpp -o R_exact_test_by_deviance.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_loess_by_col.cpp -o R_loess_by_col.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_cr_adjust.cpp -o R_cr_adjust.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_levenberg.cpp -o R_levenberg.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_maximize_interpolant.cpp -o R_maximize_interpolant.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_one_group.cpp -o R_one_group.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c R_simple_good_turing.cpp -o R_simple_good_turing.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/adj_coxreid.cpp -o core/adj_coxreid.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/glm_levenberg.cpp -o core/glm_levenberg.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/glm_one_group.cpp -o core/glm_one_group.o
+g++ -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/interpolator.cpp -o core/interpolator.o
+gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I./core -I. -fpic -O3 -pipe -g -c core/fmm_spline.c -o core/fmm_spline.o
+g++ -shared -o edgeR.so R_exact_test_by_deviance.o R_loess_by_col.o R_cr_adjust.o R_levenberg.o R_maximize_interpolant.o R_one_group.o R_simple_good_turing.o core/adj_coxreid.o core/glm_levenberg.o core/glm_one_group.o core/interpolator.o core/fmm_spline.o -llapack -lblas -lgfortran -lm -lquadmath -L/usr/lib/R/lib -lR
+make[1]: Leaving directory `/«PKGBUILDDIR»/src'
+make[1]: Entering directory `/«PKGBUILDDIR»/src'
+make[1]: Leaving directory `/«PKGBUILDDIR»/src'
+installing to /«PKGBUILDDIR»/debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs
** R
** data
** inst
@@ -585,9 +679,7 @@ if test -f /usr/bin/xvfb-run; then \
*** installing help indices
** building package indices
** installing vignettes
- 'edgeR.Rnw'
** testing if installed package can be loaded
-
* DONE (edgeR)
rm -vf /«PKGBUILDDIR»/debian/r-bioc-edger/usr/lib/R/site-library/R.css \
/«PKGBUILDDIR»/debian/r-bioc-edger/usr/lib/R/site-library/edgeR/COPYING \
@@ -599,6 +691,7 @@ if test -f debian/overrides; then \
fi
Adding cdbs dependencies to debian/r-bioc-edger.substvars
dh_installdirs -pr-bioc-edger
+chmod 644 debian/r-bioc-edger/usr/lib/R/site-library/edgeR/doc/*
dh_installdocs -pr-bioc-edger
install -g 0 -o 0 -d debian/r-bioc-edger/usr/share/doc/r-bioc-edger
cd 'tests/..' && find 'tests' \( -type f -or -type l \) -and ! -empty -exec cp --parents -dp {} /«PKGBUILDDIR»/debian/r-bioc-edger/usr/share/doc/r-bioc-edger \;
@@ -633,10 +726,11 @@ dh_link -pr-bioc-edger
dh_installmime -pr-bioc-edger
dh_installgsettings -pr-bioc-edger
dh_strip -pr-bioc-edger
+ strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs/edgeR.so
dh_compress -pr-bioc-edger
cd debian/r-bioc-edger
- chmod a-x usr/share/doc/r-bioc-edger/changelog.Debian usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save
- gzip -9nf usr/share/doc/r-bioc-edger/changelog.Debian usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save
+ chmod a-x usr/share/doc/r-bioc-edger/changelog.Debian usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R
+ gzip -9nf usr/share/doc/r-bioc-edger/changelog.Debian usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R
cd '/«PKGBUILDDIR»'
dh_fixperms -pr-bioc-edger
find debian/r-bioc-edger -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
@@ -655,6 +749,9 @@ dh_makeshlibs -pr-bioc-edger
dh_installdeb -pr-bioc-edger
dh_perl -pr-bioc-edger
dh_shlibdeps -pr-bioc-edger
+ dpkg-shlibdeps -Tdebian/r-bioc-edger.substvars debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs/edgeR.so
+dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs/edgeR.so was not linked against libquadmath.so.0 (it uses none of the library's symbols)
+dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-bioc-edger/usr/lib/R/site-library/edgeR/libs/edgeR.so was not linked against libgfortran.so.3 (it uses none of the library's symbols)
dh_gencontrol -pr-bioc-edger
echo misc:Depends= >> debian/r-bioc-edger.substvars
dpkg-gencontrol -ldebian/changelog -Tdebian/r-bioc-edger.substvars -Pdebian/r-bioc-edger
@@ -666,13 +763,13 @@ dh_md5sums -pr-bioc-edger
chown 0:0 debian/r-bioc-edger/DEBIAN/md5sums
dh_builddeb -pr-bioc-edger -- -Z xz
dpkg-deb -Z xz --build debian/r-bioc-edger ..
-dpkg-deb: building package `r-bioc-edger' in `../r-bioc-edger_2.6.1~dfsg-1_all.deb'.
- dpkg-genchanges >../r-bioc-edger_2.6.1~dfsg-1_amd64.changes
+dpkg-deb: building package `r-bioc-edger' in `../r-bioc-edger_3.2.4~dfsg-1_amd64.deb'.
+ dpkg-genchanges >../r-bioc-edger_3.2.4~dfsg-1_amd64.changes
dpkg-genchanges: including full source code in upload
- dpkg-source --after-build r-bioc-edger-2.6.1~dfsg
+ dpkg-source --after-build r-bioc-edger-3.2.4~dfsg
dpkg-buildpackage: full upload (original source is included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20120502-1442
+Build finished at 20130805-1929
Finished
────────
@@ -680,19 +777,212 @@ 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-Z697sC/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 2s (1746 kB/s)
+Selecting previously unselected package libssl1.0.0:amd64.
+(Reading database ... 16026 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-edger: hardening-no-relro usr/lib/R/site-library/edgeR/libs/edgeR.so
+P: r-bioc-edger: no-upstream-changelog
+
+I: Lintian run was successful.
+
+┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
-r-bioc-edger_2.6.1~dfsg-1_amd64.changes:
+r-bioc-edger_3.2.4~dfsg-1_amd64.changes:
────────────────────────────────────────
Format: 1.8
-Date: Tue, 01 May 2012 12:58:10 +0900
+Date: Mon, 05 Aug 2013 19:26:22 +0900
Source: r-bioc-edger
Binary: r-bioc-edger
-Architecture: source all
-Version: 2.6.1~dfsg-1
+Architecture: source amd64
+Version: 3.2.4~dfsg-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
@@ -700,44 +990,46 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
r-bioc-edger - Empirical analysis of digital gene expression data in R
Changes:
- r-bioc-edger (2.6.1~dfsg-1) unstable; urgency=low
+ r-bioc-edger (3.2.4~dfsg-1) unstable; urgency=low
.
- 43f7a83 Imported Upstream version 2.6.1~dfsg
+ 543a589 Imported Upstream version 3.2.4~dfsg
+ 846128f Normalised VCS URLs.
+ 735a2e9 Signal autopkgtest suite with XS-Testsuite field.
+ a429231 Correct the autopkgtest as the test files are compressed.
Checksums-Sha1:
- 7292d002f198d5d055bffb02cda966da1762dd30 1195 r-bioc-edger_2.6.1~dfsg-1.dsc
- b1b7fbbd744983f2c37ce5af3d4124a901c141b1 412736 r-bioc-edger_2.6.1~dfsg.orig.tar.gz
- affd8555bd2798897638dcc956ff6a5f48037ace 3277 r-bioc-edger_2.6.1~dfsg-1.diff.gz
- 9333b40e569de5bb676eb73b692ee1181477774d 573442 r-bioc-edger_2.6.1~dfsg-1_all.deb
+ 9fb77a99bfcc62231c8ef67db5b97005133bbd44 1234 r-bioc-edger_3.2.4~dfsg-1.dsc
+ 8c3dcbaa709899a4352bce78833611fa77080796 421866 r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+ 4509304634ffcef8488f6cd8b39e8ee862043eb7 4414 r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
+ 07f661e2db54616e49296ad16e98031b8e173ea2 584498 r-bioc-edger_3.2.4~dfsg-1_amd64.deb
Checksums-Sha256:
- db54a2cc3bcca881f6662f8cb59c671966da627b2344bc32903c63a6879defba 1195 r-bioc-edger_2.6.1~dfsg-1.dsc
- f5facaedfe339098695e62ada83bf4f889c51962be61a84c56a3e5cd5306a24d 412736 r-bioc-edger_2.6.1~dfsg.orig.tar.gz
- 238c896764e20c7223c614fb9d90a6a060b30066805938f2084b6528e774da81 3277 r-bioc-edger_2.6.1~dfsg-1.diff.gz
- 66091282f936f15cc747c6bb850c80f37d07e412b351c6687cd30e177a178c86 573442 r-bioc-edger_2.6.1~dfsg-1_all.deb
+ 85b17db8547431d6d8952f45dde3202509c7bc5b9020068b4e6aa942f4b1dc0f 1234 r-bioc-edger_3.2.4~dfsg-1.dsc
+ 75dc5d96c5a7a96065b0522f421586ecd9605742bde8cda22d90fcb2eca9bd61 421866 r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+ 55b8027b398cfcee504dc9448d0eb54c0b1111bcae9d126255c25272792bafca 4414 r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
+ ec4a6e859913eae76977ea7942928f252d05b633bc50c26a37be60b0e7bd8dec 584498 r-bioc-edger_3.2.4~dfsg-1_amd64.deb
Files:
- 3f6bb8def45960edfd2f2d39403520c5 1195 gnu-r optional r-bioc-edger_2.6.1~dfsg-1.dsc
- 5924c6d25f9a8f004804236d5f1bee7a 412736 gnu-r optional r-bioc-edger_2.6.1~dfsg.orig.tar.gz
- 902efbd2153c9112c7569a7893794264 3277 gnu-r optional r-bioc-edger_2.6.1~dfsg-1.diff.gz
- cb904f3a25c09d9c6fde71abcb8f9745 573442 gnu-r optional r-bioc-edger_2.6.1~dfsg-1_all.deb
+ a395f2b2288210d0984e5ca020bef1fb 1234 gnu-r optional r-bioc-edger_3.2.4~dfsg-1.dsc
+ c2495c24f15835a62ce2ed61decfae00 421866 gnu-r optional r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+ 79b7e2cc5f7c0293aa4bd5933fc4b833 4414 gnu-r optional r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
+ d477c91ba22d4662bfcc7223ce64dd49 584498 gnu-r optional r-bioc-edger_3.2.4~dfsg-1_amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-r-bioc-edger_2.6.1~dfsg-1_all.deb
-─────────────────────────────────
+r-bioc-edger_3.2.4~dfsg-1_amd64.deb
+───────────────────────────────────
new debian package, version 2.0.
- size 573442 bytes: control archive= 1738 bytes.
- 814 bytes, 18 lines control
- 2765 bytes, 36 lines md5sums
+ size 584498 bytes: control archive=1837 bytes.
+ 981 bytes, 17 lines control
+ 2845 bytes, 37 lines md5sums
Package: r-bioc-edger
- Version: 2.6.1~dfsg-1
- Architecture: all
+ Version: 3.2.4~dfsg-1
+ Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 1574
- Pre-Depends: dpkg (>= 1.15.6)
- Depends: r-base-core (>= 2.15.0-1), r-bioc-limma
+ Installed-Size: 1622
+ Depends: r-base-core (>= 3.0.1-6), r-bioc-limma, libblas3 | libblas.so.3 | libatlas3-base, libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), libgfortran3 (>= 4.3), liblapack3 | liblapack.so.3 | libatlas3-base, libquadmath0 (>= 4.6), libstdc++6 (>= 4.2.1)
Suggests: r-cran-mass
Section: gnu-r
Priority: optional
@@ -750,58 +1042,60 @@ r-bioc-edger_2.6.1~dfsg-1_all.deb
distribution. It is also useful for differential signal analysis with
other types of genome-scale count data.
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/site-library/
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/R/
--rw-r--r-- root/root 124473 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/R/edgeR.rdb
--rw-r--r-- root/root 383 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/R/edgeR
--rw-r--r-- root/root 2278 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/R/edgeR.rdx
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/help/
--rw-r--r-- root/root 3685 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/help/AnIndex
--rw-r--r-- root/root 215068 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/help/edgeR.rdb
--rw-r--r-- root/root 1321 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/help/aliases.rds
--rw-r--r-- root/root 794 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/help/paths.rds
--rw-r--r-- root/root 1798 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/help/edgeR.rdx
--rw-r--r-- root/root 1588 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/CITATION
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/data/
--rw-r--r-- root/root 248500 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/data/NC1.txt
--rw-r--r-- root/root 19 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/data/datalist
--rw-r--r-- root/root 318545 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/data/Tu102.txt
--rw-r--r-- root/root 263571 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/data/Tu98.txt
--rw-r--r-- root/root 228426 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/data/NC2.txt
--rw-r--r-- root/root 680 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/NAMESPACE
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/html/
--rw-r--r-- root/root 22142 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/html/00Index.html
--rw-r--r-- root/root 1179 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/html/R.css
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/Meta/
--rw-r--r-- root/root 3641 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/Meta/Rd.rds
--rw-r--r-- root/root 3447 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/Meta/hsearch.rds
--rw-r--r-- root/root 335 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/Meta/nsInfo.rds
--rw-r--r-- root/root 159 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/Meta/data.rds
--rw-r--r-- root/root 1618 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/Meta/links.rds
--rw-r--r-- root/root 194 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/Meta/vignette.rds
--rw-r--r-- root/root 927 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/Meta/package.rds
--rw-r--r-- root/root 6547 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/NEWS.Rd
--rw-r--r-- root/root 1041 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/DESCRIPTION
--rw-r--r-- root/root 6952 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/INDEX
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/doc/
--rw-r--r-- root/root 691 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/doc/index.html
--rwxr-xr-x root/root 2726 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/doc/edgeR.Rnw
--rw-r--r-- root/root 67216 2012-05-02 14:42 ./usr/lib/R/site-library/edgeR/doc/edgeR.pdf
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/share/
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/share/doc/
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/share/doc/r-bioc-edger/
--rw-r--r-- root/root 717 2012-05-02 14:42 ./usr/share/doc/r-bioc-edger/README.test
--rw-r--r-- root/root 1387 2012-05-02 14:42 ./usr/share/doc/r-bioc-edger/copyright
-drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/share/doc/r-bioc-edger/tests/
--rw-r--r-- root/root 5453 2012-04-29 09:03 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save.gz
--rw-r--r-- root/root 2619 2012-03-31 07:32 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R
--rw-r--r-- root/root 854 2012-05-02 14:42 ./usr/share/doc/r-bioc-edger/changelog.Debian.gz
--rw-r--r-- root/root 274 2012-05-02 14:42 ./usr/share/doc/r-bioc-edger/README.Debian
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/R/
+-rw-r--r-- root/root 116233 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/R/edgeR.rdb
+-rw-r--r-- root/root 1056 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/R/edgeR
+-rw-r--r-- root/root 2289 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/R/edgeR.rdx
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/help/
+-rw-r--r-- root/root 3768 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/help/AnIndex
+-rw-r--r-- root/root 231410 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/help/edgeR.rdb
+-rw-r--r-- root/root 1321 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/help/aliases.rds
+-rw-r--r-- root/root 778 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/help/paths.rds
+-rw-r--r-- root/root 1760 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/help/edgeR.rdx
+-rw-r--r-- root/root 2057 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/CITATION
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/data/
+-rw-r--r-- root/root 248500 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/data/NC1.txt
+-rw-r--r-- root/root 19 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/data/datalist
+-rw-r--r-- root/root 318545 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/data/Tu102.txt
+-rw-r--r-- root/root 263571 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/data/Tu98.txt
+-rw-r--r-- root/root 228426 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/data/NC2.txt
+-rw-r--r-- root/root 827 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/NAMESPACE
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/html/
+-rw-r--r-- root/root 22632 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/html/00Index.html
+-rw-r--r-- root/root 1179 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/html/R.css
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/Meta/
+-rw-r--r-- root/root 3637 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/Meta/Rd.rds
+-rw-r--r-- root/root 3469 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/Meta/hsearch.rds
+-rw-r--r-- root/root 367 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/Meta/nsInfo.rds
+-rw-r--r-- root/root 161 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/Meta/data.rds
+-rw-r--r-- root/root 1632 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/Meta/links.rds
+-rw-r--r-- root/root 228 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/Meta/vignette.rds
+-rw-r--r-- root/root 993 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/Meta/package.rds
+-rw-r--r-- root/root 14719 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/NEWS.Rd
+-rw-r--r-- root/root 1108 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/DESCRIPTION
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/libs/
+-rw-r--r-- root/root 46512 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/libs/edgeR.so
+-rw-r--r-- root/root 6806 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/INDEX
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/doc/
+-rw-r--r-- root/root 691 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/doc/index.html
+-rw-r--r-- root/root 1826 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/doc/edgeR.Rnw
+-rw-r--r-- root/root 49354 2013-08-05 19:29 ./usr/lib/R/site-library/edgeR/doc/edgeR.pdf
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/share/
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/share/doc/
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/share/doc/r-bioc-edger/
+-rw-r--r-- root/root 437 2013-08-05 19:25 ./usr/share/doc/r-bioc-edger/README.test
+-rw-r--r-- root/root 1377 2013-08-05 19:08 ./usr/share/doc/r-bioc-edger/copyright
+drwxr-xr-x root/root 0 2013-08-05 19:29 ./usr/share/doc/r-bioc-edger/tests/
+-rw-r--r-- root/root 5706 2013-04-08 09:02 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.Rout.save.gz
+-rw-r--r-- root/root 1392 2013-04-04 07:17 ./usr/share/doc/r-bioc-edger/tests/edgeR-Tests.R.gz
+-rw-r--r-- root/root 1493 2013-08-05 19:26 ./usr/share/doc/r-bioc-edger/changelog.Debian.gz
+-rw-r--r-- root/root 274 2013-08-05 19:02 ./usr/share/doc/r-bioc-edger/README.Debian
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -809,16 +1103,6 @@ drwxr-xr-x root/root 0 2012-05-02 14:42 ./usr/share/doc/r-bioc-edger/tes
└──────────────────────────────────────────────────────────────────────────────┘
-lintian
-───────
-
-I: r-bioc-edger source: missing-debian-source-format
-P: r-bioc-edger: no-upstream-changelog
-W: r-bioc-edger: copyright-without-copyright-notice
-W: r-bioc-edger: executable-not-elf-or-script usr/lib/R/site-library/edgeR/doc/edgeR.Rnw
-
-I: Lintian run was successful.
-
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
@@ -830,19 +1114,21 @@ Not cleaning session: cloned chroot in use
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
-Architecture: amd64
-Build-Space: 4544
-Build-Time: 10
+Build Architecture: amd64
+Build-Space: 4744
+Build-Time: 12
Distribution: unstable
-Install-Time: 26
-Job: r-bioc-edger_2.6.1~dfsg-1.dsc
+Host Architecture: amd64
+Install-Time: 28
+Job: r-bioc-edger_3.2.4~dfsg-1.dsc
Lintian: pass
+Machine Architecture: amd64
Package: r-bioc-edger
-Package-Time: 40
-Source-Version: 2.6.1~dfsg-1
-Space: 4544
+Package-Time: 43
+Source-Version: 3.2.4~dfsg-1
+Space: 4744
Status: successful
-Version: 2.6.1~dfsg-1
+Version: 3.2.4~dfsg-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20120502-1442
-Build needed 00:00:40, 4544k disc space
+Finished at 20130805-1929
+Build needed 00:00:43, 4744k disc space
diff --git a/dsc b/dsc
index f99d376..ac21fea 100644
--- a/dsc
+++ b/dsc
@@ -1,45 +1,45 @@
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
-Format: 1.0
+Format: 3.0 (quilt)
Source: r-bioc-edger
Binary: r-bioc-edger
-Architecture: all
-Version: 2.6.1~dfsg-1
+Architecture: any
+Version: 3.2.4~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://www.bioconductor.org/packages/release/bioc/html/edgeR.html
-Standards-Version: 3.9.3
+Standards-Version: 3.9.4
Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/r-bioc-edger.git
Vcs-Git: git://anonscm.debian.org/debian-med/r-bioc-edger.git
-Build-Depends: debhelper (>= 8), cdbs, r-base-dev (>= 2.14.2~20120222), r-bioc-limma
+Build-Depends: debhelper (>= 9), cdbs, r-base-dev, r-bioc-limma
Package-List:
r-bioc-edger deb gnu-r optional
Checksums-Sha1:
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- affd8555bd2798897638dcc956ff6a5f48037ace 3277 r-bioc-edger_2.6.1~dfsg-1.diff.gz
+ 8c3dcbaa709899a4352bce78833611fa77080796 421866 r-bioc-edger_3.2.4~dfsg.orig.tar.gz
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Checksums-Sha256:
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- 238c896764e20c7223c614fb9d90a6a060b30066805938f2084b6528e774da81 3277 r-bioc-edger_2.6.1~dfsg-1.diff.gz
+ 75dc5d96c5a7a96065b0522f421586ecd9605742bde8cda22d90fcb2eca9bd61 421866 r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+ 55b8027b398cfcee504dc9448d0eb54c0b1111bcae9d126255c25272792bafca 4414 r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
Files:
- 5924c6d25f9a8f004804236d5f1bee7a 412736 r-bioc-edger_2.6.1~dfsg.orig.tar.gz
- 902efbd2153c9112c7569a7893794264 3277 r-bioc-edger_2.6.1~dfsg-1.diff.gz
+ c2495c24f15835a62ce2ed61decfae00 421866 r-bioc-edger_3.2.4~dfsg.orig.tar.gz
+ 79b7e2cc5f7c0293aa4bd5933fc4b833 4414 r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz
+Testsuite: autopkgtest
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diff --git a/upload b/upload
index 58f3858..d9a60f5 100644
--- a/upload
+++ b/upload
@@ -1,6 +1,6 @@
-u r-bioc-edger_2.6.1~dfsg-1.dsc ftp.upload.debian.org Wed May 2 14:59:43 2012
-u r-bioc-edger_2.6.1~dfsg-1.diff.gz ftp.upload.debian.org Wed May 2 14:59:44 2012
-u r-bioc-edger_2.6.1~dfsg-1_all.deb ftp.upload.debian.org Wed May 2 14:59:47 2012
-u r-bioc-edger_2.6.1~dfsg.orig.tar.gz ftp.upload.debian.org Wed May 2 14:59:49 2012
-u r-bioc-edger_2.6.1~dfsg-1_amd64.changes ftp.upload.debian.org Wed May 2 14:59:50 2012
-s r-bioc-edger_2.6.1~dfsg-1_amd64.changes ftp.upload.debian.org Wed May 2 14:59:50 2012
+u r-bioc-edger_3.2.4~dfsg-1_amd64.deb ftp.upload.debian.org Mon Aug 5 19:34:22 2013
+u r-bioc-edger_3.2.4~dfsg-1.debian.tar.gz ftp.upload.debian.org Mon Aug 5 19:34:23 2013
+u r-bioc-edger_3.2.4~dfsg.orig.tar.gz ftp.upload.debian.org Mon Aug 5 19:34:26 2013
+u r-bioc-edger_3.2.4~dfsg-1.dsc ftp.upload.debian.org Mon Aug 5 19:34:28 2013
+u r-bioc-edger_3.2.4~dfsg-1_amd64.changes ftp.upload.debian.org Mon Aug 5 19:34:29 2013
+s r-bioc-edger_3.2.4~dfsg-1_amd64.changes ftp.upload.debian.org Mon Aug 5 19:34:29 2013
--
Alioth's /git/debian-med/git-commit-notice on /srv/git.debian.org/git/debian-med/r-bioc-edger.git
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