[med-svn] r23061 - in trunk/packages/R: . r-cran-rentrez r-cran-rentrez/trunk r-cran-rentrez/trunk/debian r-cran-rentrez/trunk/debian/source r-cran-rentrez/trunk/debian/tests

Sun Nov 13 20:50:25 UTC 2016

Author: tille
Date: 2016-11-13 20:50:24 +0000 (Sun, 13 Nov 2016)
New Revision: 23061

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


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

--- trunk/packages/R/r-cran-rentrez/trunk/debian/README.test	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/README.test	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,8 @@
+Notes on how this package can be tested.
+────────────────────────────────────────
+
+To run the unit tests provided by the package you can do
+
+   sh  run-unit-test
+
+in this directory.

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/changelog	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,5 @@
+r-cran-rentrez (1.0.4-1) UNRELEASED; urgency=medium
+
+  * Initial release (closes: #xxxxxx)
+
+ -- Andreas Tille <tille at debian.org>  Sun, 13 Nov 2016 21:23:17 +0100

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/compat	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1 @@
+9

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/control
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/control	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/control	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,26 @@
+Source: r-cran-rentrez
+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),
+               dh-r,
+               r-base-dev,
+               r-cran-xml,
+               r-cran-httr,
+               r-cran-jsonlite
+Standards-Version: 3.9.8
+Vcs-Browser: https://anonscm.debian.org/viewvc/debian-med/trunk/packages/R/r-cran-rentrez/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/R/r-cran-rentrez/trunk/
+Homepage: https://cran.r-project.org/package=rentrez
+
+Package: r-cran-rentrez
+Architecture: all
+Depends: ${R:Depends},
+         ${misc:Depends}
+Recommends: ${R:Recommends}
+Suggests: ${R:Suggests}
+Description: GNU R interface to the NCBI's EUtils API
+ Provides an R interface to the NCBI's EUtils API allowing users to
+ search databases like GenBank and PubMed, process the results of those
+ searches and pull data into their R sessions.

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/copyright	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,32 @@
+Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: rentrez
+Upstream-Contact: David Winter <david.winter at gmail.com>
+Source: https://cran.r-project.org/package=rentrez
+
+Files: *
+Copyright: 2012-2016 David Winter, Scott Chamberlain, Han Guangchun
+License: MIT
+
+Files: debian/*
+Copyright: 2016 Andreas Tille <tille at debian.org>
+License: MIT
+
+License: MIT
+ Permission is hereby granted, free of charge, to any person obtaining
+ a copy of this software and associated documentation files (the
+ "Software"), to deal in the Software without restriction, including
+ without limitation the rights to use, copy, modify, merge, publish,
+ distribute, sublicense, and/or sell copies of the Software, and to
+ permit persons to whom the Software is furnished to do so, subject to
+ the following conditions:
+ .
+ The above copyright notice and this permission notice shall be
+ included in all copies or substantial portions of the Software.
+ .
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+ EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+ MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
+ NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE
+ LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION
+ OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION
+ WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/docs
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/docs	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/docs	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,3 @@
+tests
+debian/README.test
+debian/tests/run-unit-test

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/rules	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,5 @@
+#!/usr/bin/make -f
+
+%:
+	dh $@ --buildsystem R
+


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

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/source/format
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/source/format	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/source/format	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1 @@
+3.0 (quilt)

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/tests/control
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/tests/control	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/tests/control	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,3 @@
+Tests: run-unit-test
+Depends: @, r-cran-testthat
+Restrictions: allow-stderr

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/tests/run-unit-test
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/tests/run-unit-test	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/tests/run-unit-test	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,13 @@
+#!/bin/sh -e
+
+oname=rentrez
+pkg=r-cran-`echo $oname | tr '[A-Z]' '[a-z]'`
+
+if [ "$ADTTMP" = "" ] ; then
+  ADTTMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
+  trap "rm -rf $ADTTMP" 0 INT QUIT ABRT PIPE TERM
+fi
+cd $ADTTMP
+cp -a /usr/share/doc/${pkg}/tests/* $ADTTMP
+find . -name "*.gz" -exec gunzip \{\} \;
+LC_ALL=C R --no-save < test-all.R 

Added: trunk/packages/R/r-cran-rentrez/trunk/debian/watch
===================================================================
--- trunk/packages/R/r-cran-rentrez/trunk/debian/watch	                        (rev 0)
+++ trunk/packages/R/r-cran-rentrez/trunk/debian/watch	2016-11-13 20:50:24 UTC (rev 23061)
@@ -0,0 +1,2 @@
+version=4
+https://cran.r-project.org/src/contrib/rentrez_([-\d.]*)\.tar\.gz


