[med-svn] r19489 - in trunk/packages/R: . r-bioc-aroma.light r-bioc-aroma.light/trunk r-bioc-aroma.light/trunk/debian r-bioc-aroma.light/trunk/debian/source r-bioc-aroma.light/trunk/debian/upstream

Fri Jul 3 19:49:01 UTC 2015

Author: tille
Date: 2015-07-03 19:49:00 +0000 (Fri, 03 Jul 2015)
New Revision: 19489

Added:
   trunk/packages/R/r-bioc-aroma.light/
   trunk/packages/R/r-bioc-aroma.light/trunk/
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/changelog
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/compat
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/control
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/copyright
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/rules
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/source/
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/source/format
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/upstream/
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/upstream/metadata
   trunk/packages/R/r-bioc-aroma.light/trunk/debian/watch
Log:
Add r-bioc-aroma.light


Added: trunk/packages/R/r-bioc-aroma.light/trunk/debian/changelog
===================================================================

--- trunk/packages/R/r-bioc-aroma.light/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/R/r-bioc-aroma.light/trunk/debian/changelog	2015-07-03 19:49:00 UTC (rev 19489)
@@ -0,0 +1,6 @@
+r-bioc-aroma.light (2.4.0-1) UNRELEASED; urgency=low
+
+  * Initial release (closes: #???)
+  TODO: ERROR: dependencies 'R.oo', 'R.utils' are not available for package 'aroma.light'
+
+ -- Andreas Tille <tille at debian.org>  Fri, 03 Jul 2015 21:35:53 +0200

Added: trunk/packages/R/r-bioc-aroma.light/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-bioc-aroma.light/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/R/r-bioc-aroma.light/trunk/debian/compat	2015-07-03 19:49:00 UTC (rev 19489)
@@ -0,0 +1 @@
+9

Added: trunk/packages/R/r-bioc-aroma.light/trunk/debian/control
===================================================================
--- trunk/packages/R/r-bioc-aroma.light/trunk/debian/control	                        (rev 0)
+++ trunk/packages/R/r-bioc-aroma.light/trunk/debian/control	2015-07-03 19:49:00 UTC (rev 19489)
@@ -0,0 +1,29 @@
+Source: r-bioc-aroma.light
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Andreas Tille <tille at debian.org>
+Section: gnu-r
+Priority: optional
+Build-Depends: debhelper (>= 9),
+               cdbs,
+               r-base-dev,
+               r-cran-r.methodss3,
+               r-cran-matrixstats
+Standards-Version: 3.9.6
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/R/r-bioc-aroma.light/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-aroma.light/trunk/
+Homepage: http://bioconductor.org/packages/release/bioc/html/aroma.light.html
+
+Package: r-bioc-aroma.light
+Architecture: all
+Depends: ${R:Depends},
+         ${misc:Depends},
+         r-cran-r.methodss3,
+         r-cran-matrixstats
+Description: BioConductor methods normalization and visualization of microarray data
+ This BioConductor module provides light-weight methods for
+ normalization and VIsualization of microarray data using only basic R
+ data types.
+ .
+ Methods for microarray analysis that take basic data types such as
+ matrices and lists of vectors. These methods can be used standalone, be
+ utilized in other packages, or be wrapped up in higher-level classes.

Added: trunk/packages/R/r-bioc-aroma.light/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-bioc-aroma.light/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/R/r-bioc-aroma.light/trunk/debian/copyright	2015-07-03 19:49:00 UTC (rev 19489)
@@ -0,0 +1,26 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: aroma.light
+Upstream-Contact: Henrik Bengtsson <henrikb at braju.com> 
+Source: http://www.bioconductor.org/packages/release/bioc/html/aroma.light.html
+
+Files: *
+Copyright: 2006-2015 Henrik Bengtsson <henrikb at braju.com> 
+License: GPL-2+
+
+Files: debian/*
+Copyright: 2015 Andreas Tille <tille at debian.org>
+License: GPL-2+
+
+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.
+ .
+ On Debian systems, the complete text of the GNU General Public
+ License version 2 can be found in ‘/usr/share/common-licenses/GPL-2’.

Added: trunk/packages/R/r-bioc-aroma.light/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-bioc-aroma.light/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/R/r-bioc-aroma.light/trunk/debian/rules	2015-07-03 19:49:00 UTC (rev 19489)
@@ -0,0 +1,4 @@
+#!/usr/bin/make -f
+
+debRreposname=bioc
+include /usr/share/R/debian/r-cran.mk


Property changes on: trunk/packages/R/r-bioc-aroma.light/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/R/r-bioc-aroma.light/trunk/debian/source/format
===================================================================
--- trunk/packages/R/r-bioc-aroma.light/trunk/debian/source/format	                        (rev 0)
+++ trunk/packages/R/r-bioc-aroma.light/trunk/debian/source/format	2015-07-03 19:49:00 UTC (rev 19489)
@@ -0,0 +1 @@
+3.0 (quilt)

Added: trunk/packages/R/r-bioc-aroma.light/trunk/debian/upstream/metadata
===================================================================
--- trunk/packages/R/r-bioc-aroma.light/trunk/debian/upstream/metadata	                        (rev 0)
+++ trunk/packages/R/r-bioc-aroma.light/trunk/debian/upstream/metadata	2015-07-03 19:49:00 UTC (rev 19489)
@@ -0,0 +1,11 @@
+Reference:
+  Author:  Henrik Bengtsson and Pierre Neuvial and Terence P. Speed
+  Title: "TumorBoost: Normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays"
+  Journal: BMC Bioinformatics
+  Year: 2010
+  Volume: 11
+  Pages: 245
+  DOI: 10.1186/1471-2105-11-245
+  PMID: 20462408
+  URL: http://www.biomedcentral.com/1471-2105/11/245/
+  eprint: http://www.biomedcentral.com/content/pdf/1471-2105-11-245.pdf

Added: trunk/packages/R/r-bioc-aroma.light/trunk/debian/watch
===================================================================
--- trunk/packages/R/r-bioc-aroma.light/trunk/debian/watch	                        (rev 0)
+++ trunk/packages/R/r-bioc-aroma.light/trunk/debian/watch	2015-07-03 19:49:00 UTC (rev 19489)
@@ -0,0 +1,3 @@
+version=3
+opts=downloadurlmangle=s/\.\./packages\/release\/bioc/ \
+ http://www.bioconductor.org/packages/release/bioc/html/aroma.light.html .*/aroma.light_([\d\.]+)\.tar\.gz


