[med-svn] r21936 - in trunk/packages/R: . r-bioc-ensembldb r-bioc-ensembldb/trunk r-bioc-ensembldb/trunk/debian r-bioc-ensembldb/trunk/debian/source

[Andreas Tille]

Author: tille
Date: 2016-05-11 15:03:23 +0000 (Wed, 11 May 2016)
New Revision: 21936

Added:
   trunk/packages/R/r-bioc-ensembldb/
   trunk/packages/R/r-bioc-ensembldb/trunk/
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/changelog
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/compat
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/control
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/copyright
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/rules
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/source/
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/source/format
   trunk/packages/R/r-bioc-ensembldb/trunk/debian/watch
Log:
Inject r-bioc-ensembldb


Added: trunk/packages/R/r-bioc-ensembldb/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-bioc-ensembldb/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/R/r-bioc-ensembldb/trunk/debian/changelog	2016-05-11 15:03:23 UTC (rev 21936)
@@ -0,0 +1,7 @@
+r-bioc-ensembldb (1.4.0-1) UNRELEASED; urgency=low
+
+  * Initial release (closes: #???)
+    TODO:
+        svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-annotationhub/trunk/
+
+ -- Andreas Tille <tille at debian.org>  Wed, 11 May 2016 15:29:00 +0200

Added: trunk/packages/R/r-bioc-ensembldb/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-bioc-ensembldb/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/R/r-bioc-ensembldb/trunk/debian/compat	2016-05-11 15:03:23 UTC (rev 21936)
@@ -0,0 +1 @@
+9

Added: trunk/packages/R/r-bioc-ensembldb/trunk/debian/control
===================================================================
--- trunk/packages/R/r-bioc-ensembldb/trunk/debian/control	                        (rev 0)
+++ trunk/packages/R/r-bioc-ensembldb/trunk/debian/control	2016-05-11 15:03:23 UTC (rev 21936)
@@ -0,0 +1,29 @@
+Source: r-bioc-ensembldb
+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-bioc-genomicfeatures
+Standards-Version: 3.9.8
+Vcs-Browser: https://anonscm.debian.org/viewvc/debian-med/trunk/packages/R/r-bioc-ensembldb/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-ensembldb/trunk/
+Homepage: http://bioconductor.org/packages/release/bioc/html/ensembldb.html
+
+Package: r-bioc-ensembldb
+Architecture: all
+Depends: ${R:Depends},
+         ${misc:Depends},
+         r-bioc-genomicfeatures
+Description: GNU R utilities to create and use an Ensembl based annotation database
+ The package provides functions to create and use transcript centric
+ annotation databases/packages. The annotation for the databases are
+ directly fetched from Ensembl using their Perl API. The functionality
+ and data is similar to that of the TxDb packages from the
+ GenomicFeatures package, but, in addition to retrieve all
+ gene/transcript models and annotations from the database, the ensembldb
+ package provides also a filter framework allowing to retrieve
+ annotations for specific entries like genes encoded on a chromosome
+ region or transcript models of lincRNA genes.

Added: trunk/packages/R/r-bioc-ensembldb/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-bioc-ensembldb/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/R/r-bioc-ensembldb/trunk/debian/copyright	2016-05-11 15:03:23 UTC (rev 21936)
@@ -0,0 +1,17 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: ensembldb
+Upstream-Contact: Johannes Rainer <johannes.rainer at eurac.edu> 
+Source: http://bioconductor.org/packages/release/bioc/html/ensembldb.html
+
+Files: *
+Copyright: 2006-2016 Johannes Rainer <johannes.rainer at eurac.edu>,
+                     Tim Triche <tim.triche at usc.edu> 
+License: LGPL-2.1+
+
+Files: debian/*
+Copyright: 2016 Andreas Tille <tille at debian.org>
+License: LGPL-2.1+
+
+License: LGPL-2.1+
+ On Debian GNU/Linux system you can find the complete text of the
+ LGPL license in '/usr/share/common-licenses/LGPL-2.1'.

Added: trunk/packages/R/r-bioc-ensembldb/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-bioc-ensembldb/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/R/r-bioc-ensembldb/trunk/debian/rules	2016-05-11 15:03:23 UTC (rev 21936)
@@ -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-ensembldb/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/R/r-bioc-ensembldb/trunk/debian/source/format
===================================================================
--- trunk/packages/R/r-bioc-ensembldb/trunk/debian/source/format	                        (rev 0)
+++ trunk/packages/R/r-bioc-ensembldb/trunk/debian/source/format	2016-05-11 15:03:23 UTC (rev 21936)
@@ -0,0 +1 @@
+3.0 (quilt)

Added: trunk/packages/R/r-bioc-ensembldb/trunk/debian/watch
===================================================================
--- trunk/packages/R/r-bioc-ensembldb/trunk/debian/watch	                        (rev 0)
+++ trunk/packages/R/r-bioc-ensembldb/trunk/debian/watch	2016-05-11 15:03:23 UTC (rev 21936)
@@ -0,0 +1,3 @@
+version=3
+opts=downloadurlmangle=s?^(.*)\.\.?http:$1packages/release/bioc? \
+ http://www.bioconductor.org/packages/release/bioc/html/ensembldb.html .*/ensembldb_([\d\.]+)\.tar\.gz