[med-svn] r23047 - trunk/packages/R/r-bioc-phyloseq/trunk/debian

[Andreas Tille]

Author: tille
Date: 2016-11-11 09:55:40 +0000 (Fri, 11 Nov 2016)
New Revision: 23047

Modified:
   trunk/packages/R/r-bioc-phyloseq/trunk/debian/changelog
   trunk/packages/R/r-bioc-phyloseq/trunk/debian/control
   trunk/packages/R/r-bioc-phyloseq/trunk/debian/copyright
   trunk/packages/R/r-bioc-phyloseq/trunk/debian/rules
   trunk/packages/R/r-bioc-phyloseq/trunk/debian/watch
Log:
  TODO: Sort out not fullfilled ade4 (>= 1.7.2) (ade has version 1.7-4)
  * New upstream version
  * Convert to dh-r
  * Generic BioConductor homepage
  * d/watch: version=4



Modified: trunk/packages/R/r-bioc-phyloseq/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-bioc-phyloseq/trunk/debian/changelog	2016-11-11 09:00:56 UTC (rev 23046)
+++ trunk/packages/R/r-bioc-phyloseq/trunk/debian/changelog	2016-11-11 09:55:40 UTC (rev 23047)
@@ -1,3 +1,13 @@
+r-bioc-phyloseq (1.18.0-1) UNRELEASED; urgency=medium
+
+  TODO: Sort out not fullfilled ade4 (>= 1.7.2) (ade has version 1.7-4)
+  * New upstream version
+  * Convert to dh-r
+  * Generic BioConductor homepage
+  * d/watch: version=4
+
+ -- Andreas Tille <tille at debian.org>  Fri, 11 Nov 2016 10:41:03 +0100
+
 r-bioc-phyloseq (1.16.2-1) unstable; urgency=low
 
   * Initial release (closes: #837600)

Modified: trunk/packages/R/r-bioc-phyloseq/trunk/debian/control
===================================================================
--- trunk/packages/R/r-bioc-phyloseq/trunk/debian/control	2016-11-11 09:00:56 UTC (rev 23046)
+++ trunk/packages/R/r-bioc-phyloseq/trunk/debian/control	2016-11-11 09:55:40 UTC (rev 23047)
@@ -4,7 +4,7 @@
 Section: gnu-r
 Priority: optional
 Build-Depends: debhelper (>= 9),
-               cdbs,
+               dh-r,
                r-base-dev,
                r-bioc-biobase,
                r-bioc-biostrings,
@@ -20,23 +20,14 @@
 Standards-Version: 3.9.8
 Vcs-Browser: https://anonscm.debian.org/viewvc/debian-med/trunk/packages/R/r-bioc-phyloseq/trunk/
 Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-phyloseq/trunk/
-Homepage: http://bioconductor.org/packages/release/bioc/html/phyloseq.html
+Homepage: https://bioconductor.org/packages/phyloseq/
 
 Package: r-bioc-phyloseq
 Architecture: all
 Depends: ${R:Depends},
-         ${misc:Depends},
-         r-bioc-biobase,
-         r-bioc-biostrings,
-         r-bioc-biomformat,
-         r-bioc-multtest,
-         r-cran-ade4,
-         r-cran-ape,
-         r-cran-data.table,
-         r-cran-foreach,
-         r-cran-ggplot2,
-         r-cran-igraph,
-         r-cran-vegan
+         ${misc:Depends}
+Recommends: ${R:Recommends}
+Suggests: ${R:Suggests}
 Description: GNU R handling and analysis of high-throughput microbiome census data
  The Bioconductor module phyloseq provides a set of classes and tools to
  facilitate the import, storage, analysis, and graphical display of

Modified: trunk/packages/R/r-bioc-phyloseq/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-bioc-phyloseq/trunk/debian/copyright	2016-11-11 09:00:56 UTC (rev 23046)
+++ trunk/packages/R/r-bioc-phyloseq/trunk/debian/copyright	2016-11-11 09:55:40 UTC (rev 23047)
@@ -1,7 +1,7 @@
 Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
 Upstream-Name: phyloseq
 Upstream-Contact: Paul J. McMurdie <mcmurdie at stanford.edu>
-Source: http://bioconductor.org/packages/release/bioc/html/phyloseq.html
+Source: https://bioconductor.org/packages/phyloseq/
 
 Files: *
 Copyright: 2013-2016 Paul J. McMurdie <mcmurdie at stanford.edu>

Modified: trunk/packages/R/r-bioc-phyloseq/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-bioc-phyloseq/trunk/debian/rules	2016-11-11 09:00:56 UTC (rev 23046)
+++ trunk/packages/R/r-bioc-phyloseq/trunk/debian/rules	2016-11-11 09:55:40 UTC (rev 23047)
@@ -1,4 +1,4 @@
 #!/usr/bin/make -f
 
-debRreposname=bioc
-include /usr/share/R/debian/r-cran.mk
+%:
+	dh $@ --buildsystem R

Modified: trunk/packages/R/r-bioc-phyloseq/trunk/debian/watch
===================================================================
--- trunk/packages/R/r-bioc-phyloseq/trunk/debian/watch	2016-11-11 09:00:56 UTC (rev 23046)
+++ trunk/packages/R/r-bioc-phyloseq/trunk/debian/watch	2016-11-11 09:55:40 UTC (rev 23047)
@@ -1,3 +1,3 @@
-version=3
+version=4
 opts=downloadurlmangle=s?^(.*)\.\.?http:$1packages/release/bioc? \
  http://www.bioconductor.org/packages/release/bioc/html/phyloseq.html .*/phyloseq_([\d\.]+)\.tar\.gz