[med-svn] r4117 - trunk/packages/bioperl-run/trunk/debian

[Charles Plessy]

Author: plessy
Date: 2009-10-02 05:17:11 +0000 (Fri, 02 Oct 2009)
New Revision: 4117

Modified:
   trunk/packages/bioperl-run/trunk/debian/changelog
   trunk/packages/bioperl-run/trunk/debian/control
   trunk/packages/bioperl-run/trunk/debian/rules
Log:
New upstream release in preparation.


Modified: trunk/packages/bioperl-run/trunk/debian/changelog
===================================================================
--- trunk/packages/bioperl-run/trunk/debian/changelog	2009-10-02 04:28:53 UTC (rev 4116)
+++ trunk/packages/bioperl-run/trunk/debian/changelog	2009-10-02 05:17:11 UTC (rev 4117)
@@ -1,3 +1,16 @@
+bioperl-run (1.6.1+rc1-1) UNRELEASED; urgency=low
+
+  TODO: make renamed EMBOSS programs accessible.
+
+  * New upstream release in preparation.
+  * debian/rules:
+    - Re-enabled the tests.
+  * debian/control:
+    - Refreshed the list of packages for which wrappers are provided, in the
+      Suggests field as well as in an experimental Build-Recommends field.
+
+ -- Charles Plessy <plessy at debian.org>  Fri, 02 Oct 2009 13:34:41 +0900
+
 bioperl-run (1.6.1-1) unstable; urgency=low
 
   * New upstream release.

Modified: trunk/packages/bioperl-run/trunk/debian/control
===================================================================
--- trunk/packages/bioperl-run/trunk/debian/control	2009-10-02 04:28:53 UTC (rev 4116)
+++ trunk/packages/bioperl-run/trunk/debian/control	2009-10-02 05:17:11 UTC (rev 4117)
@@ -4,6 +4,13 @@
 Build-Depends: debhelper (>= 7.0.50), libmodule-build-perl
 Build-Depends-Indep: perl, bioperl (>= 1.6.0), libalgorithm-diff-perl, libipc-run-perl, libio-string-perl, libxml-twig-perl,
  libarray-compare-perl, libtree-dagnode-perl
+# Here is a list of all the packages and prospective packages for which wrappers are provided.
+XS-Build-Recommends: coils, emboss, eponine, footprinter, wise, genscan, hmmer,
+ pise, ensembl, fingerprintscan, prscan, repeatmasker, seg, signalp, tmhmm,
+ tribe, paml, molphy, phylip, clustalw, sim4, t-coffee, blast2, fasta, lagan,
+ vista-align, amap-align, blat,
+# This Perl library is needed for the network tests.
+ libwww-perl
 Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
 DM-Upload-Allowed: yes
 Uploaders: Charles Plessy <plessy at debian.org>
@@ -15,8 +22,11 @@
 Package: bioperl-run
 Architecture: all
 Depends: ${misc:Depends}, bioperl (>= 1.6.0)
-Recommends: libalgorithm-diff-perl, libipc-run-perl, libio-string-perl, libxml-twig-perl
-Suggests: amap-align, emboss, hmmer, wise, molphy, phylip, clustalw, sim4, t-coffee, blast2, exonerate
+Recommends: libalgorithm-diff-perl, libipc-run-perl, libio-string-perl, libxml-twig-perl, libwww-perl
+Suggests: coils, emboss, eponine, footprinter, wise, genscan, hmmer, pise,
+ ensembl, fingerprintscan, prscan, repeatmasker, seg, signalp, tmhmm, tribe,
+ paml, molphy, phylip, clustalw, sim4, t-coffee, blast2, fasta, lagan,
+ vista-align, amap-align, blat
 Description: Wrapper modules for BioPerl
  Contains modules that provide a Perl interface to various
  bioinformatics applications to allow them to be

Modified: trunk/packages/bioperl-run/trunk/debian/rules
===================================================================
--- trunk/packages/bioperl-run/trunk/debian/rules	2009-10-02 04:28:53 UTC (rev 4116)
+++ trunk/packages/bioperl-run/trunk/debian/rules	2009-10-02 05:17:11 UTC (rev 4117)
@@ -5,8 +5,8 @@
 	dh build
 	touch $@
 
-# Test suite is failing on buildds because it does not detect correctly the absence of the Eponine program.
 override_dh_auto_test:
+	PATH=$$PATH:/usr/lib/emboss dh_auto_test
 
 clean:
 	dh $@