[med-svn] r21573 - in trunk/packages/R: . r-cran-phylobase r-cran-phylobase/trunk r-cran-phylobase/trunk/debian r-cran-phylobase/trunk/debian/source r-cran-phylobase/trunk/debian/tests

Wed Mar 23 10:11:40 UTC 2016

Author: tille
Date: 2016-03-23 10:11:39 +0000 (Wed, 23 Mar 2016)
New Revision: 21573

Added:
   trunk/packages/R/r-cran-phylobase/
   trunk/packages/R/r-cran-phylobase/trunk/
   trunk/packages/R/r-cran-phylobase/trunk/debian/
   trunk/packages/R/r-cran-phylobase/trunk/debian/README.test
   trunk/packages/R/r-cran-phylobase/trunk/debian/changelog
   trunk/packages/R/r-cran-phylobase/trunk/debian/compat
   trunk/packages/R/r-cran-phylobase/trunk/debian/control
   trunk/packages/R/r-cran-phylobase/trunk/debian/copyright
   trunk/packages/R/r-cran-phylobase/trunk/debian/docs
   trunk/packages/R/r-cran-phylobase/trunk/debian/rules
   trunk/packages/R/r-cran-phylobase/trunk/debian/source/
   trunk/packages/R/r-cran-phylobase/trunk/debian/source/format
   trunk/packages/R/r-cran-phylobase/trunk/debian/tests/
   trunk/packages/R/r-cran-phylobase/trunk/debian/tests/control
   trunk/packages/R/r-cran-phylobase/trunk/debian/tests/run-unit-test
   trunk/packages/R/r-cran-phylobase/trunk/debian/watch
Log:
Inject r-cran-phylobase


Added: trunk/packages/R/r-cran-phylobase/trunk/debian/README.test
===================================================================

--- trunk/packages/R/r-cran-phylobase/trunk/debian/README.test	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/README.test	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,9 @@
+Notes on how this package can be tested.
+────────────────────────────────────────
+
+This package can be tested by running the provided test:
+
+cd tests
+LC_ALL=C R --no-save < test-all.R
+
+in order to confirm its integrity.

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/changelog	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,6 @@
+r-cran-phylobase (0.8.2-1) UNRELEASED; urgency=low
+
+  * Initial release (Closes: #<bug>)
+  TODO: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-cran-rnexml/trunk/
+
+ -- Andreas Tille <tille at debian.org>  Tue, 22 Mar 2016 12:05:59 +0100

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/compat	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1 @@
+9

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/control
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/control	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/control	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,31 @@
+Source: r-cran-phylobase
+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-cran-ape,
+               r-cran-ade4,
+               r-cran-rcpp,
+               r-cran-rncl,
+               r-cran-rnexml
+Standards-Version: 3.9.7
+Vcs-Browser: https://anonscm.debian.org/viewvc/debian-med/trunk/packages/R/r-cran-phylobase/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-cran-phylobase/trunk/
+Homepage: https://cran.r-project.org/web/packages/phylobase/
+
+Package: r-cran-phylobase
+Architecture: any
+Depends: ${misc:Depends},
+         ${shlibs:Depends},
+         ${R:Depends},
+         r-cran-ape,
+         r-cran-ade4,
+         r-cran-rncl,
+         r-cran-rnexml
+Description: GNU R base package for phylogenetic structures and comparative data
+ This R package provides a base S4 class for comparative methods,
+ incorporating one or more trees and trait data as these are used in
+ other packages dealing with phylogenetic structures and comparative data.

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/copyright	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,15 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Contact: Francois Michonneau <francois.michonneau at gmail.com>
+Source: https://cran.r-project.org/web/packages/phylobase/
+
+Files: *
+Copyright: 2013-2015 Ben Bolker, Marguerite Butler, Peter Cowan,
+                     Damien de Vienne, Dirk Eddelbuettel, Mark Holder,
+                     Thibaut Jombart, Steve Kembel, Francois Michonneau,
+                     David Orme, Brian O'Meara, Emmanuel Paradis,
+                     Jim Regetz, Derrick Zwickl
+License: GPL-2+
+
+Files: debian/*
+Copyright: 2016 Andreas Tille <tille at debian.org>
+License: GPL-2+

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/docs
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/docs	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/docs	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,3 @@
+tests
+debian/README.test
+debian/tests/run-unit-test

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/rules	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,3 @@
+#!/usr/bin/make -f
+
+include /usr/share/R/debian/r-cran.mk


Property changes on: trunk/packages/R/r-cran-phylobase/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/source/format
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/source/format	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/source/format	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1 @@
+3.0 (quilt)

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/tests/control
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/tests/control	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/tests/control	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,3 @@
+Tests: run-unit-test
+Depends: @, r-cran-testthat
+Restrictions: allow-stderr

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/tests/run-unit-test
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/tests/run-unit-test	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/tests/run-unit-test	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,12 @@
+#!/bin/sh -e
+
+oname=phylobase
+pkg=r-cran-`echo $oname | tr [A-Z] [a-z]`
+
+if [ "$ADTTMP" = "" ] ; then
+  ADTTMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
+fi
+cd $ADTTMP
+cp -a /usr/share/doc/${pkg}/tests/* $ADTTMP
+LC_ALL=C R --no-save < test-all.R
+rm -fr $ADTTMP/*

Added: trunk/packages/R/r-cran-phylobase/trunk/debian/watch
===================================================================
--- trunk/packages/R/r-cran-phylobase/trunk/debian/watch	                        (rev 0)
+++ trunk/packages/R/r-cran-phylobase/trunk/debian/watch	2016-03-23 10:11:39 UTC (rev 21573)
@@ -0,0 +1,3 @@
+version=3
+http://cran.r-project.org/src/contrib/phylobase_([-0-9\.]*).tar.gz
+


