[med-svn] r17154 - in trunk/packages/R: . r-bioc-biocparallel r-bioc-biocparallel/trunk r-bioc-biocparallel/trunk/debian r-bioc-biocparallel/trunk/debian/source r-bioc-biocparallel/trunk/debian/tests r-bioc-genomicalignments/trunk/debian

Fri Jun 13 15:23:35 UTC 2014

Author: tille
Date: 2014-06-13 15:23:35 +0000 (Fri, 13 Jun 2014)
New Revision: 17154

Added:
   trunk/packages/R/r-bioc-biocparallel/
   trunk/packages/R/r-bioc-biocparallel/trunk/
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/README.test
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/changelog
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/compat
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/control
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/copyright
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/docs
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/rules
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/source/
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/source/format
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/control
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/run-unit-test
   trunk/packages/R/r-bioc-biocparallel/trunk/debian/watch
Modified:
   trunk/packages/R/r-bioc-genomicalignments/trunk/debian/control
Log:
Keep on following the chain of dependencies (again)


Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/README.test
===================================================================

--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/README.test	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/README.test	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1,10 @@
+Notes on how this package can be tested.
+────────────────────────────────────────
+
+This package can be tested by running the provided test:
+
+LC_ALL=C R --no-save <<EOT
+BiocGenerics:::testPackage("BiocParallel")
+EOT
+
+in order to confirm its integrity.

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/changelog	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1,10 @@
+r-bioc-biocparallel (0.6.1-1) UNRELEASED; urgency=medium
+
+  Needed by svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-genomicalignments/trunk/
+  * Initial release (closes: #?)
+  TODO: needs
+     http://cran.r-project.org/web/packages/BBmisc/index.html
+     http://cran.r-project.org/web/packages/BatchJobs/index.html
+  
+
+ -- Andreas Tille <tille at debian.org>  Sun, 08 Jun 2014 18:33:04 +0200

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/compat	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1 @@
+9

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/control
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/control	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/control	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1,26 @@
+Source: r-bioc-biocparallel
+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
+XS-Testsuite: autopkgtest
+Build-Depends: debhelper (>= 9),
+               cdbs,
+               r-base-dev,
+               r-cran-foreach,
+               r-bioc-biocgenerics
+Standards-Version: 3.9.5
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/R/r-bioc-biocparallel/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-biocparallel/trunk/
+Homepage: http://bioconductor.org/packages/release/bioc/html/BiocParallel.html
+
+Package: r-bioc-biocparallel
+Architecture: all
+Depends: ${R:Depends},
+         ${misc:Depends},
+         r-cran-foreach,
+         r-bioc-biocgenerics
+Description: BioConductor facilities for parallel evaluation
+ This BioConductor package provides modified versions and novel
+ implementation of functions for parallel evaluation, tailored to use
+ with Bioconductor objects.

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/copyright	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1,30 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: BiocParallel
+Upstream-Contact: Bioconductor Package Maintainer <maintainer at bioconductor.org>
+Source: http://bioconductor.org/packages/release/bioc/html/BiocParallel.html
+
+Files: *
+Copyright: © 2006-2014 Martin Morgan, Michel Lang, Ryan Thompson
+License: GPLv2
+
+Files: debian/*
+Copyright: 2014 Andreas Tille <tille at debian.org>
+License: 
+
+License: GPLv2
+    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.
+ .
+ You can find the text of GNU General Public License version 2.0
+ at /usr/share/common-licenses/GPL-2.

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/docs
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/docs	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/docs	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1 @@
+debian/README.test

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/rules	2014-06-13 15:23:35 UTC (rev 17154)
@@ -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-biocparallel/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/source/format
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/source/format	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/source/format	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1 @@
+3.0 (quilt)

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/control
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/control	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/control	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1,3 @@
+Tests: run-unit-test
+Depends: @, r-cran-runit
+Restrictions: allow-stderr

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/run-unit-test
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/run-unit-test	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/tests/run-unit-test	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1,6 @@
+#!/bin/sh -e
+
+LC_ALL=C R --no-save <<EOT
+BiocGenerics:::testPackage("BiocParallel")
+EOT
+

Added: trunk/packages/R/r-bioc-biocparallel/trunk/debian/watch
===================================================================
--- trunk/packages/R/r-bioc-biocparallel/trunk/debian/watch	                        (rev 0)
+++ trunk/packages/R/r-bioc-biocparallel/trunk/debian/watch	2014-06-13 15:23:35 UTC (rev 17154)
@@ -0,0 +1,3 @@
+version=3
+opts=downloadurlmangle=s/\.\./packages\/release\/bioc/ \
+ http://www.bioconductor.org/packages/release/bioc/html/BiocParallel.html .*/BiocParallel_([\d\.]+)\.tar\.gz

Modified: trunk/packages/R/r-bioc-genomicalignments/trunk/debian/control
===================================================================
--- trunk/packages/R/r-bioc-genomicalignments/trunk/debian/control	2014-06-13 13:53:55 UTC (rev 17153)
+++ trunk/packages/R/r-bioc-genomicalignments/trunk/debian/control	2014-06-13 15:23:35 UTC (rev 17154)
@@ -7,7 +7,7 @@
 Build-Depends: debhelper (>= 9),
                cdbs,
                r-base-dev,
-               r-bioc-BiocGenerics,
+               r-bioc-biocgenerics,
                r-bioc-iranges,
                r-bioc-genomicranges,
                r-bioc-biostrings,
@@ -23,7 +23,7 @@
 Architecture: all
 Depends: ${R:Depends},
          ${misc:Depends},
-         r-bioc-BiocGenerics,
+         r-bioc-biocgenerics,
          r-bioc-iranges,
          r-bioc-genomicranges,
          r-bioc-biostrings,


