[med-svn] r13466 - in trunk/packages/R/r-cran-genabel/tags: . 1.7-4-1/debian
Charles Plessy
plessy at alioth.debian.org
Wed May 1 06:09:53 UTC 2013
Author: plessy
Date: 2013-05-01 06:09:53 +0000 (Wed, 01 May 2013)
New Revision: 13466
Added:
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/changelog
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/control
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/copyright
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/rules
Removed:
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/changelog
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/control
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/copyright
trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/rules
Log:
[svn-buildpackage] Tagging r-cran-genabel 1.7-4-1
Deleted: trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/changelog
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/changelog 2013-05-01 04:10:07 UTC (rev 13456)
+++ trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/changelog 2013-05-01 06:09:53 UTC (rev 13466)
@@ -1,76 +0,0 @@
-r-cran-genabel (1.7-3-1) UNRELEASED; urgency=low
-
- * New upstream version
- * Replace debian/README.Debian by debian/README.test
- * DEP5 copyright
- * Standards-Version: 3.9.4 (no changes needed)
- * debhelper 9 (control+compat)
-
- -- Andreas Tille <tille at debian.org> Sat, 02 Feb 2013 12:32:39 +0100
-
-r-cran-genabel (1.7-0-3) testing-proposed-updates; urgency=low
-
- * Upload to testing-proposed-updates
-
- -- Andreas Tille <tille at debian.org> Sat, 02 Feb 2013 07:08:19 +0000
-
-r-cran-genabel (1.7-0-2) unstable; urgency=low
-
- * Fixing the problem which prevents the package from loading while
- checking the version on CRAN
- Closes: #699260
-
- -- Andreas Tille <tille at debian.org> Wed, 30 Jan 2013 13:11:06 +0100
-
-r-cran-genabel (1.7-0-1) unstable; urgency=low
-
- * New upstream release.
- * Depends and Suggests packages according to DESCRIPTION (debian/control).
- * Corrected VCS URLs (debian/control).
- * Conforms with Policy 3.9.2 (debian/control, no other changes needed).
- * Build-Depend on r-cran-mass instead of the whole r-recommended.
-
- -- Charles Plessy <plessy at debian.org> Fri, 13 Jan 2012 13:56:32 +0900
-
-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.
-
- -- Charles Plessy <plessy at debian.org> Fri, 01 Apr 2011 13:46:37 +0900
-
-r-cran-genabel (1.6-4-1) unstable; urgency=low
-
- * New upstream release.
- * The package has now arrived in CRAN and is taken from there,
- which according to the R policy is also reflected by the name change.
- * Switch to source/format 3.0 (quilt)
- * Bumped policy-standard to 3.9.1.
-
- -- Steffen Moeller <moeller at debian.org> Sat, 05 Feb 2011 18:06:24 +0100
-
-r-other-genabel (1.4-0-1) unstable; urgency=low
-
- * Initial release (Closes: #492044).
-
- -- Steffen Moeller <moeller at debian.org> Wed, 23 Jul 2008 15:43:37 +0200
Copied: trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/changelog (from rev 13465, trunk/packages/R/r-cran-genabel/trunk/debian/changelog)
===================================================================
--- trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/changelog (rev 0)
+++ trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/changelog 2013-05-01 06:09:53 UTC (rev 13466)
@@ -0,0 +1,88 @@
+r-cran-genabel (1.7-4-1) unstable; urgency=low
+
+ * New upstream version
+ * Updated qvalue package name (moved from CRAN to Bioconductor).
+ * Drop references to old name r-other-genabel.
+ * Drop build-dependance on package only suggested.
+ * Normalised VCS URLs following Lintian's standard.
+ * Acquire R:Depends directly from r-base-dev.
+ * Normalised control file with cme.
+
+ -- Charles Plessy <plessy at debian.org> Wed, 01 May 2013 14:58:43 +0900
+
+r-cran-genabel (1.7-3-1) unstable; urgency=low
+
+ * New upstream version
+ * Replace debian/README.Debian by debian/README.test
+ * DEP5 copyright
+ * Standards-Version: 3.9.4 (no changes needed)
+ * debhelper 9 (control+compat)
+
+ -- Andreas Tille <tille at debian.org> Sat, 02 Feb 2013 12:32:39 +0100
+
+r-cran-genabel (1.7-0-3) testing-proposed-updates; urgency=low
+
+ * Upload to testing-proposed-updates
+
+ -- Andreas Tille <tille at debian.org> Sat, 02 Feb 2013 07:08:19 +0000
+
+r-cran-genabel (1.7-0-2) unstable; urgency=low
+
+ * Fixing the problem which prevents the package from loading while
+ checking the version on CRAN
+ Closes: #699260
+
+ -- Andreas Tille <tille at debian.org> Wed, 30 Jan 2013 13:11:06 +0100
+
+r-cran-genabel (1.7-0-1) unstable; urgency=low
+
+ * New upstream release.
+ * Depends and Suggests packages according to DESCRIPTION (debian/control).
+ * Corrected VCS URLs (debian/control).
+ * Conforms with Policy 3.9.2 (debian/control, no other changes needed).
+ * Build-Depend on r-cran-mass instead of the whole r-recommended.
+
+ -- Charles Plessy <plessy at debian.org> Fri, 13 Jan 2012 13:56:32 +0900
+
+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.
+
+ -- Charles Plessy <plessy at debian.org> Fri, 01 Apr 2011 13:46:37 +0900
+
+r-cran-genabel (1.6-4-1) unstable; urgency=low
+
+ * New upstream release.
+ * The package has now arrived in CRAN and is taken from there,
+ which according to the R policy is also reflected by the name change.
+ * Switch to source/format 3.0 (quilt)
+ * Bumped policy-standard to 3.9.1.
+
+ -- Steffen Moeller <moeller at debian.org> Sat, 05 Feb 2011 18:06:24 +0100
+
+r-other-genabel (1.4-0-1) unstable; urgency=low
+
+ * Initial release (Closes: #492044).
+
+ -- Steffen Moeller <moeller at debian.org> Wed, 23 Jul 2008 15:43:37 +0200
Deleted: trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/control
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/control 2013-05-01 04:10:07 UTC (rev 13456)
+++ trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/control 2013-05-01 06:09:53 UTC (rev 13466)
@@ -1,33 +0,0 @@
-Source: r-cran-genabel
-Section: gnu-r
-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>,
- Charles Plessy <plessy at debian.org>
-Build-Depends: debhelper (>= 9), cdbs, r-base-dev (>= 2.10), r-cran-mass, r-cran-genetics, r-cran-haplo.stats, r-cran-qvalue
-Standards-Version: 3.9.4
-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-cran-genabel/trunk/
-Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/R/r-cran-genabel/trunk/
-Homepage: http://www.genabel.org/
-
-Package: r-cran-genabel
-Architecture: any
-Depends: ${shlibs:Depends}, ${R:Depends}, r-cran-mass
-Suggests: 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
- association analysis. Additional input commonly comes from DNA mircoarray
- experiments, performed on every individual, that determine differences
- (polymorphisms) in the population. GenABEL finds associations between
- quantitative or binary traits and single-nucleiotide polymorphisms
- (SNPs).
- .
- When publishing work based to which this package has contributed please
- 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.
Copied: trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/control (from rev 13464, trunk/packages/R/r-cran-genabel/trunk/debian/control)
===================================================================
--- trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/control (rev 0)
+++ trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/control 2013-05-01 06:09:53 UTC (rev 13466)
@@ -0,0 +1,38 @@
+Source: r-cran-genabel
+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>,
+ Charles Plessy <plessy at debian.org>
+Section: gnu-r
+Priority: optional
+Build-Depends: debhelper (>= 9),
+ cdbs,
+ r-base-dev,
+ r-cran-mass
+Standards-Version: 3.9.4
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/R/r-cran-genabel/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-cran-genabel/trunk/
+Homepage: http://www.genabel.org/
+
+Package: r-cran-genabel
+Architecture: any
+Depends: ${shlibs:Depends},
+ ${R:Depends},
+ r-cran-mass
+Suggests: r-cran-genetics,
+ r-cran-haplo.stats,
+ r-bioc-qvalue
+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
+ association analysis. Additional input commonly comes from DNA mircoarray
+ experiments, performed on every individual, that determine differences
+ (polymorphisms) in the population. GenABEL finds associations between
+ quantitative or binary traits and single-nucleiotide polymorphisms
+ (SNPs).
+ .
+ When publishing work based to which this package has contributed please
+ 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.
+
Deleted: trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/copyright
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/copyright 2013-05-01 04:10:07 UTC (rev 13456)
+++ trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/copyright 2013-05-01 06:09:53 UTC (rev 13466)
@@ -1,24 +0,0 @@
-Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
-Source: http://cran.r-project.org/src/contrib/GenABEL_1.7-0.tar.gz
-
-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.
-
Copied: trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/copyright (from rev 13457, trunk/packages/R/r-cran-genabel/trunk/debian/copyright)
===================================================================
--- trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/copyright (rev 0)
+++ trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/copyright 2013-05-01 06:09:53 UTC (rev 13466)
@@ -0,0 +1,24 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Source: http://cran.r-project.org/src/contrib/GenABEL_1.7-4.tar.gz
+
+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.
+
Deleted: trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/rules
===================================================================
--- trunk/packages/R/r-cran-genabel/trunk/debian/rules 2013-05-01 04:10:07 UTC (rev 13456)
+++ trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/rules 2013-05-01 06:09:53 UTC (rev 13466)
@@ -1,15 +0,0 @@
-#!/usr/bin/make -f
-# -*- makefile -*-
-# debian/rules file for the Debian/GNU Linux r-cran-genabel package
-# Copyright 2008-2011 by Steffen Moeller <moeller at debian.org>
-# 2011 by Andreas Tille <tille at debian.org>
-
-debRreposname=cran
-include /usr/share/R/debian/r-cran.mk
-
-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
- find debian/$(package)/usr/lib/R/site-library/GenABEL/ -type f -exec chmod 644 \{\} \;
-
-DEB_INSTALL_CHANGELOGS_ALL = CHANGES.LOG
Copied: trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/rules (from rev 13463, trunk/packages/R/r-cran-genabel/trunk/debian/rules)
===================================================================
--- trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/rules (rev 0)
+++ trunk/packages/R/r-cran-genabel/tags/1.7-4-1/debian/rules 2013-05-01 06:09:53 UTC (rev 13466)
@@ -0,0 +1,9 @@
+#!/usr/bin/make -f
+
+debRreposname=cran
+include /usr/share/R/debian/r-cran.mk
+
+install/$(package)::
+ find debian/$(package)/usr/lib/R/site-library/GenABEL/ -type f -exec chmod 644 \{\} \;
+
+DEB_INSTALL_CHANGELOGS_ALL = CHANGES.LOG
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