[med-svn] r17637 - trunk/packages/R/r-bioc-rtracklayer/trunk/debian

[Andreas Tille]

Author: tille
Date: 2014-08-08 11:42:55 +0000 (Fri, 08 Aug 2014)
New Revision: 17637

Removed:
   trunk/packages/R/r-bioc-rtracklayer/trunk/debian/tests/
Modified:
   trunk/packages/R/r-bioc-rtracklayer/trunk/debian/README.test
   trunk/packages/R/r-bioc-rtracklayer/trunk/debian/changelog
   trunk/packages/R/r-bioc-rtracklayer/trunk/debian/control
Log:
Drop autopkgtest after realising that an 800MB data package would be needed to pass the test successfully and rather document how the package can be tested.


Modified: trunk/packages/R/r-bioc-rtracklayer/trunk/debian/README.test
===================================================================
--- trunk/packages/R/r-bioc-rtracklayer/trunk/debian/README.test	2014-08-08 09:37:37 UTC (rev 17636)
+++ trunk/packages/R/r-bioc-rtracklayer/trunk/debian/README.test	2014-08-08 11:42:55 UTC (rev 17637)
@@ -1,11 +1,25 @@
 Notes on how this package can be tested.
 ────────────────────────────────────────
 
-This package can be tested by running the provided test:
+This package can be tested if you install
 
+   http://bioconductor.org/packages/release/data/annotation/html/BSgenome.Hsapiens.UCSC.hg19.html
+
+To simplify the installation you can use the Debian packaging which is
+prepared at
+
+   svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-bsgenome.hsapiens.ucsc.hg19/trunk/
+
+and create a Debian packagage.  Once you installed this data you can
+run the provided test:
+
 LC_ALL=C R --no-save <<EOT
 require("rtracklayer") || stop("unable to load rtracklayer package")
 rtracklayer:::.test()
 EOT
 
-in order to confirm its integrity.
+to confirm its integrity.
+
+Without the data package only 2 out of 7 tests will pass.
+
+ -- Andreas Tille <tille at debian.org>  Fri, 08 Aug 2014 13:37:40 +0200

Modified: trunk/packages/R/r-bioc-rtracklayer/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-bioc-rtracklayer/trunk/debian/changelog	2014-08-08 09:37:37 UTC (rev 17636)
+++ trunk/packages/R/r-bioc-rtracklayer/trunk/debian/changelog	2014-08-08 11:42:55 UTC (rev 17637)
@@ -1,18 +1,13 @@
-r-bioc-rtracklayer (1.24.2-1) UNRELEASED; urgency=medium
+r-bioc-rtracklayer (1.24.2-1) unstable; urgency=medium
 
-  [ Martin Pitt ]
-  * debian/tests/control: Add missing r-cran-runit test dependency, and allow
-    stderr output.
-
-  [ Andreas Tille ]
   * New upstream version
-  TODO:
-    Closes: #735543  ????
   * Moved debian/upstream to debian/upstream/metadata
-  TODO: needs
-      svn://anonscm.debian.org/debian-med/trunk/packages/R/r-bioc-genomicalignments/trunk/
+  * (Build-)Depends: r-bioc-genomicalignments
+  * Drop autopkgtest that would need 800MB data package
+    r-bioc-bsgenome.hsapiens.ucsc.hg19 to run successfully.
+    Closes: #735543
 
- -- Andreas Tille <tille at debian.org>  Wed, 18 Jun 2014 11:11:50 +0200
+ -- Andreas Tille <tille at debian.org>  Fri, 08 Aug 2014 13:37:40 +0200
 
 r-bioc-rtracklayer (1.22.0-1) unstable; urgency=low
 

Modified: trunk/packages/R/r-bioc-rtracklayer/trunk/debian/control
===================================================================
--- trunk/packages/R/r-bioc-rtracklayer/trunk/debian/control	2014-08-08 09:37:37 UTC (rev 17636)
+++ trunk/packages/R/r-bioc-rtracklayer/trunk/debian/control	2014-08-08 11:42:55 UTC (rev 17637)
@@ -2,7 +2,6 @@
 Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
 Uploaders: Andreas Tille <tille at debian.org>
 Section: gnu-r
-XS-Testsuite: autopkgtest
 Priority: optional
 Build-Depends: debhelper (>= 9),
                cdbs,