[med-svn] r17636 - in trunk/packages/R: . r-bioc-bsgenome.hsapiens.ucsc.hg19 r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/source
Andreas Tille
tille at moszumanska.debian.org
Fri Aug 8 09:37:37 UTC 2014
Author: tille
Date: 2014-08-08 09:37:37 +0000 (Fri, 08 Aug 2014)
New Revision: 17636
Added:
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/README.test
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/changelog
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/compat
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/control
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/copyright
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/rules
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/source/
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/source/format
trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/watch
Log:
BioC people said that this data set is needed to run the test suite of rtracklayers. While I have doubt about this I simply try while it is not intended to really upload this as Debian package
Added: trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/README.test
===================================================================
--- trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/README.test (rev 0)
+++ trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/README.test 2014-08-08 09:37:37 UTC (rev 17636)
@@ -0,0 +1,5 @@
+Notes on how this package can be tested.
+────────────────────────────────────────
+
+This package can be tested by loading it into R with the command
+‘library(BSgenome.Hsapiens.UCSC.hg19)’ in order to confirm its integrity.
Added: trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/changelog (rev 0)
+++ trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/changelog 2014-08-08 09:37:37 UTC (rev 17636)
@@ -0,0 +1,5 @@
+r-bioc-bsgenome.hsapiens.ucsc.hg19 (1.3.1000-1) UNRELEASED; urgency=low
+
+ * Initial release (closes: #???)
+
+ -- Andreas Tille <tille at debian.org> Fri, 08 Aug 2014 11:31:46 +0200
Added: trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/compat (rev 0)
+++ trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/compat 2014-08-08 09:37:37 UTC (rev 17636)
@@ -0,0 +1 @@
+9
Added: trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/control
===================================================================
--- trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/control (rev 0)
+++ trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/control 2014-08-08 09:37:37 UTC (rev 17636)
@@ -0,0 +1,24 @@
+Source: r-bioc-bsgenome.hsapiens.ucsc.hg19
+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-annotationdbi,
+ r-bioc-genomicfeatures
+Standards-Version: 3.9.5
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/
+Homepage: http://bioconductor.org/packages/release/data/annotation/html/BSgenome.Hsapiens.UCSC.hg19.html
+
+Package: r-bioc-bsgenome.hsapiens.ucsc.hg19
+Architecture: all
+Depends: ${R:Depends},
+ ${misc:Depends},
+ r-bioc-annotationdbi,
+ r-bioc-genomicfeatures
+Description: Full genome sequences for Homo sapiens (UCSC version hg19)
+ Full genome sequences for Homo sapiens (Human) as provided by UCSC
+ (hg19, Feb. 2009) and stored in Biostrings objects.
Added: trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/copyright (rev 0)
+++ trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/copyright 2014-08-08 09:37:37 UTC (rev 17636)
@@ -0,0 +1,134 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: BSgenome.Hsapiens.UCSC.hg19
+Upstream-Contact: Bioconductor Package Maintainer <maintainer at bioconductor.org>
+Source: http://bioconductor.org/packages/release/data/annotation/html/BSgenome.Hsapiens.UCSC.hg19.html
+
+Files: *
+Copyright: © 2006-2014 Marc Carlson
+License: Artistic-2.0
+
+Files: debian/*
+Copyright: 2014 Andreas Tille <tille at debian.org>
+License: Artistic-2.0
+
+License: Artistic-2.0
+ Permission for Use and Modification Without Distribution
+ .
+ (1) You are permitted to use the Standard Version and create and use
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+ of the original copyright notices and associated disclaimers. At your
+ discretion, such verbatim copies may or may not include a Compiled form
+ of the Package.
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+ (3) You may apply any bug fixes, portability changes, and other
+ modifications made available from the Copyright Holder. The resulting
+ Package will still be considered the Standard Version, and as such will
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+ (4) You may Distribute your Modified Version as Source (either gratis
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+ Modified Versions is governed by this Artistic License. By using,
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Added: trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/rules (rev 0)
+++ trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/rules 2014-08-08 09:37:37 UTC (rev 17636)
@@ -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-bsgenome.hsapiens.ucsc.hg19/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
+ *
Added: trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/source/format
===================================================================
--- trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/source/format (rev 0)
+++ trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/source/format 2014-08-08 09:37:37 UTC (rev 17636)
@@ -0,0 +1 @@
+3.0 (quilt)
Added: trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/watch
===================================================================
--- trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/watch (rev 0)
+++ trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/debian/watch 2014-08-08 09:37:37 UTC (rev 17636)
@@ -0,0 +1,3 @@
+version=3
+opts=downloadurlmangle=s/\.\./packages\/release\/data\/annotation/ \
+ http://www.bioconductor.org/packages/release/data/annotation/html/BSgenome.Hsapiens.UCSC.hg19.html .*/BSgenome\.Hsapiens\.UCSC\.hg19_([\d\.]+)\.tar\.gz
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