[med-svn] r15682 - trunk/packages/R/r-bioc-gviz/trunk/debian

[Andreas Tille]

Author: tille
Date: 2013-12-31 08:13:51 +0000 (Tue, 31 Dec 2013)
New Revision: 15682

Added:
   trunk/packages/R/r-bioc-gviz/trunk/debian/README.source
Modified:
   trunk/packages/R/r-bioc-gviz/trunk/debian/README.test
   trunk/packages/R/r-bioc-gviz/trunk/debian/control
   trunk/packages/R/r-bioc-gviz/trunk/debian/rules
Log:
start editing README.source to describe rda files as required by ftpmaster.  Needs to be continued


Added: trunk/packages/R/r-bioc-gviz/trunk/debian/README.source
===================================================================
--- trunk/packages/R/r-bioc-gviz/trunk/debian/README.source	                        (rev 0)
+++ trunk/packages/R/r-bioc-gviz/trunk/debian/README.source	2013-12-31 08:13:51 UTC (rev 15682)
@@ -0,0 +1,38 @@
+Explanation for binary files inside source package according to
+  http://lists.debian.org/debian-devel/2013/09/msg00332.html
+
+Files: data/biomTrack.rda
+  The documentation inst/doc/Gviz.Rnw describes this file as a minimalistic
+  example how to use the BiomartGeneRegionTrack class of Gviz.
+
+Files: data/bmTrack.rda
+  The documentation man/BiomartGeneRegionTrack-class.Rd uses this
+  minimalistic example for several demonstration purposes.
+
+Files: data/collapseTrack.rda
+  The documentation inst/doc/Gviz.Rnw describes this file as a minimalistic
+  example how to Gviz tries to avoid unreadable plots by collapsing
+  overlapping ranges
+
+Files: data/cpgIslands.rda
+  The documentation inst/doc/Gviz.Rnw describes this file as a minimalistic
+  example containing a run-length encoded vector as sample set of CpG
+  island coordinates to demonstrate the AnnotationTrack function.
+
+Files: data/cyp2b10.rda
+  The documentation man/GenomeAxisTrack-class.Rd describes this file as a
+  minimalistic example to demonstrate the GenomeAxisTrack class and methods.
+
+Files: data/denseAnnTrack.rda
+Files: data/dtHoriz.rda
+Files: data/geneDetails.rda
+Files: data/geneModels.rda
+Files: data/idTrack.rda
+Files: data/itrack.rda
+Files: data/twoGroups.rda
+Files: data/ucscItems.rda
+
+
+
+ -- Andreas Tille <tille at debian.org>  Sun, 29 Dec 2013 18:56:22 +0100
+

Modified: trunk/packages/R/r-bioc-gviz/trunk/debian/README.test
===================================================================
--- trunk/packages/R/r-bioc-gviz/trunk/debian/README.test	2013-12-31 07:54:03 UTC (rev 15681)
+++ trunk/packages/R/r-bioc-gviz/trunk/debian/README.test	2013-12-31 08:13:51 UTC (rev 15682)
@@ -2,4 +2,4 @@
 ────────────────────────────────────────
 
 This package can be tested by loading it into R with the command
-‘library(gviz)’ in order to confirm its integrity.
+‘library(Gviz)’ in order to confirm its integrity.

Modified: trunk/packages/R/r-bioc-gviz/trunk/debian/control
===================================================================
--- trunk/packages/R/r-bioc-gviz/trunk/debian/control	2013-12-31 07:54:03 UTC (rev 15681)
+++ trunk/packages/R/r-bioc-gviz/trunk/debian/control	2013-12-31 08:13:51 UTC (rev 15682)
@@ -8,6 +8,7 @@
                r-base-dev,
                r-cran-lattice,
                r-cran-rcolorbrewer,
+               r-cran-latticeextra,
                r-bioc-biobase,
                r-bioc-biocgenerics,
                r-bioc-iranges,
@@ -26,6 +27,7 @@
          ${misc:Depends},
          r-cran-lattice,
          r-cran-rcolorbrewer,
+         r-cran-latticeextra,
          r-bioc-biobase,
          r-bioc-biocgenerics,
          r-bioc-iranges,

Modified: trunk/packages/R/r-bioc-gviz/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-bioc-gviz/trunk/debian/rules	2013-12-31 07:54:03 UTC (rev 15681)
+++ trunk/packages/R/r-bioc-gviz/trunk/debian/rules	2013-12-31 08:13:51 UTC (rev 15682)
@@ -2,3 +2,7 @@
 
 debRreposname=bioc
 include /usr/share/R/debian/r-cran.mk
+
+install/$(package)::
+	chmod -x debian/$(package)/usr/lib/R/site-library/$(cranNameOrig)/scripts/*.R
+