[med-svn] r6414 - trunk/packages/R/r-cran-genabel/trunk/debian
Charles Plessy
plessy at alioth.debian.org
Fri Apr 1 04:54:17 UTC 2011
Author: plessy
Date: 2011-04-01 04:54:15 +0000 (Fri, 01 Apr 2011)
New Revision: 6414
Added:
trunk/packages/R/r-cran-genabel/trunk/debian/TODO
trunk/packages/R/r-cran-genabel/trunk/debian/compat
Modified:
trunk/packages/R/r-cran-genabel/trunk/debian/changelog
trunk/packages/R/r-cran-genabel/trunk/debian/control
trunk/packages/R/r-cran-genabel/trunk/debian/copyright
trunk/packages/R/r-cran-genabel/trunk/debian/rules
Log:
r-cran-genabel (1.6-5-1) unstable; urgency=low
* New upstream release, buildable with R > 2.12 (closes: #620269).
[ Andreas Tille ]
* debian/control:
- added myself to uploaders
- changed section to gnu-r
- Depend on ${R:Depends}
* debian/rules:
- fix permissions of files that should not be executable
- Require a number equal or superior than the R version the package
was built with, using a R:Depends substvar
[ Charles Plessy ]
* debian/control:
- Added myself to uploaders.
- Use debhelper 8 (debian/compat).
- Build-depend on R > 2.10 according to DESCRIPTION.
- Replaces r-other-genabel.
- Added Vcs-Browser and Vcs-Svn fields.
- Updated homepage.
* Install CHANGES.LOG as upstream changelog (debian/rules).
* Converted debian/copyright to DEP-5 format.
Added: trunk/packages/R/r-cran-genabel/trunk/debian/TODO
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/TODO (rev 0)
+++ trunk/packages/R/r-cran-genabel/trunk/debian/TODO 2011-04-01 04:54:15 UTC (rev 6414)
@@ -0,0 +1 @@
+Split arch independent docs into separate package.
Modified: trunk/packages/R/r-cran-genabel/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/changelog 2011-04-01 03:50:17 UTC (rev 6413)
+++ trunk/packages/R/r-cran-genabel/trunk/debian/changelog 2011-04-01 04:54:15 UTC (rev 6414)
@@ -1,23 +1,29 @@
-r-cran-genabel (1.6-4-2) UNRELEASED; urgency=low
+r-cran-genabel (1.6-5-1) unstable; urgency=low
+ * New upstream release, buildable with R > 2.12 (closes: #620269).
+
+ [ Andreas Tille ]
* debian/control:
- added myself to uploaders
- - debhelper 7
- changed section to gnu-r
+ - Depend on ${R:Depends}
* debian/rules:
- fix permissions of files that should not be executable
- - Added *commented* code which enables to require a number equal or
- superior than the R version the package was built with which is
- used in other Debian Med maintained R packages
- * debian/TODO:
- Removed because it is done
+ - Require a number equal or superior than the R version the package
+ was built with, using a R:Depends substvar
- REMARK: I'd consider two further changes:
- - require a number equal or superior than the R version the package was
- built with which is used in other Debian Med maintained R packages
- - splitting arch independent docs into separate package
+ [ Charles Plessy ]
+ * debian/control:
+ - Added myself to uploaders.
+ - Use debhelper 8 (debian/compat).
+ - Build-depend on R > 2.10 according to DESCRIPTION.
+ - Replaces r-other-genabel.
+ - Added Vcs-Browser and Vcs-Svn fields.
+ - Updated homepage.
+ * Install CHANGES.LOG as upstream changelog (debian/rules).
+ * Converted debian/copyright to DEP-5 format.
- -- Andreas Tille <tille at debian.org> Sat, 05 Feb 2011 20:00:13 +0100
+ -- Charles Plessy <plessy at debian.org> Fri, 01 Apr 2011 13:46:37 +0900
r-cran-genabel (1.6-4-1) unstable; urgency=low
Added: trunk/packages/R/r-cran-genabel/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/compat (rev 0)
+++ trunk/packages/R/r-cran-genabel/trunk/debian/compat 2011-04-01 04:54:15 UTC (rev 6414)
@@ -0,0 +1 @@
+8
Modified: trunk/packages/R/r-cran-genabel/trunk/debian/control
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/control 2011-04-01 03:50:17 UTC (rev 6413)
+++ trunk/packages/R/r-cran-genabel/trunk/debian/control 2011-04-01 04:54:15 UTC (rev 6414)
@@ -3,16 +3,20 @@
Priority: optional
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Uploaders: Steffen Moeller <moeller at debian.org>,
- Andreas Tille <tille at debian.org>
-Build-Depends: debhelper (>= 7), cdbs, r-base-dev (>= 2.7.0~20080408), r-recommended, r-cran-genetics, r-cran-haplo.stats, r-cran-qvalue
+ Andreas Tille <tille at debian.org>,
+ Charles Plessy <plessy at debian.org>
+Build-Depends: debhelper (>= 8), cdbs, r-base-dev (>= 2.10), r-recommended, r-cran-genetics, r-cran-haplo.stats, r-cran-qvalue
Standards-Version: 3.9.1
-Homepage: http://mga.bionet.nsc.ru/nlru/GenABEL/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-cran-genabel/trunk/?rev=0&sc=0
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/R/r-cran-genabel/trunk/
+Homepage: http://www.genabel.org/
Package: r-cran-genabel
Architecture: any
-Depends: ${shlibs:Depends}, r-base-core (>= 2.7.0), r-recommended, r-cran-genetics, r-cran-haplo.stats, r-cran-qvalue
+Depends: ${shlibs:Depends}, ${R:Depends}, r-recommended, r-cran-genetics, r-cran-haplo.stats, r-cran-qvalue
Provides: r-other-genabel
Conflicts: r-other-genabel
+Replaces: r-other-genabel
Description: GNU R package for genome-wide SNP association analysis
The package offers the R library GenABEL for the hunt of genetic contributions
to a disease (or any other pheonypical trait) by so called genome-wide
@@ -26,4 +30,3 @@
cite: Yurii S. Aulchenko, Stephan Ripke, Aaron Isaacs, Cornelia M. van Duijn
(2007) "GenABEL: an R library for genome-wide association analysis"
Bioinformatics 2007 23(10):1294-1296.
-
Modified: trunk/packages/R/r-cran-genabel/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/copyright 2011-04-01 03:50:17 UTC (rev 6413)
+++ trunk/packages/R/r-cran-genabel/trunk/debian/copyright 2011-04-01 04:54:15 UTC (rev 6414)
@@ -1,25 +1,23 @@
-This is the Debian GNU/Linux r-cran-genabel (formerly r-other-geneabel)
-package of GenABEL, performing statistical analyses of genome-wide
-SNP association studies. GenABEL is maintained by Yurii Aulchenko
-<i.aoultchenko at erasmusmc.nl>. It was written by Yurii Aulchenko, Maksim
-Struchalin, with contributions from Stephan Ripke, Terry Therneau and
-Toby Johnson.
+Format: http://dep.debian.net/deps/dep5/
+Source: http://cran.r-project.org/src/contrib/GenABEL_1.6-5.tar.gz
-This Debian package was created by Steffen Moeller <moeller at debian.org>,
-based on work for the r-cran-rodbc package of Dirk Eddelbuettel
-<edd at debian.org>. The code associated with packaging is distributed
-under the terms of the GPL version 2 or later.
-
-The sources were previously downloaded from http://mga.bionet.nsc.ru/nlru/GenABEL
-and now from the CRAN (cran.r-project.org) repository.
-
-The package was renamed from its upstream name 'GenABEL' to
-'r-cran-genabel' to highlight the fact that is it a package for R
-in CRAN, and to match Debian's convention of lowercase package names.
-
-GenABEL is copyright 2006-2008 of Yurii Aulchenko, Maksim Struchalin, with
-contributions from Stephan Ripke, Terry Therneau and Toby Johnson and
-released under version 2 or later of the GNU General Public License (GPL).
-
-On a Debian GNU/Linux system, the GPL license is included in the file
-/usr/share/common-licenses/GPL.
+Files: *
+Copyright: GenABEL is copyright 2006-2008 of Yurii Aulchenko, Maksim Struchalin, with
+ contributions from Stephan Ripke, Terry Therneau and Toby Johnson and
+ released under version 2 or later of the GNU General Public License (GPL).
+License: GPL-2+
+ This program is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 2 of the License, or
+ (at your option) any later version.
+ .
+ This program is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License along
+ with this program; if not, write to the Free Software Foundation, Inc.,
+ 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
+Comment: On a Debian GNU/Linux system, the GPL license version 2 is included
+ in the file /usr/share/common-licenses/GPL-2.
Modified: trunk/packages/R/r-cran-genabel/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/rules 2011-04-01 03:50:17 UTC (rev 6413)
+++ trunk/packages/R/r-cran-genabel/trunk/debian/rules 2011-04-01 04:54:15 UTC (rev 6414)
@@ -9,5 +9,7 @@
install/$(package)::
## Require a number equal or superior than the R version the package was built with.
- # echo "R:Depends=r-base-core (>= $(shell R --version | head -n1 | perl -ne 'print / +([0-9]\.[0-9]+\.[0-9])/')~)" >> debian/$(package).substvars
+ echo "R:Depends=r-base-core (>= $(shell R --version | head -n1 | perl -ne 'print / +([0-9]\.[0-9]+\.[0-9])/')~)" >> debian/$(package).substvars
find debian/$(package)/usr/lib/R/site-library/GenABEL/ -type f -exec chmod 644 \{\} \;
+
+DEB_INSTALL_CHANGELOGS_ALL = CHANGES.LOG
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