[med-svn] r5177 - in trunk/packages/bioperl/branches: . bioperl-1.2.3/debian

[Steffen Möller]

Author: moeller
Date: 2010-08-20 22:57:12 +0000 (Fri, 20 Aug 2010)
New Revision: 5177

Added:
   trunk/packages/bioperl/branches/bioperl-1.2.3/
Removed:
   trunk/packages/bioperl/branches/bioperl-1.2.3/debian/watch
Modified:
   trunk/packages/bioperl/branches/bioperl-1.2.3/debian/changelog
   trunk/packages/bioperl/branches/bioperl-1.2.3/debian/control
   trunk/packages/bioperl/branches/bioperl-1.2.3/debian/rules
Log:
Updating version of bioperl1.2.3.


Modified: trunk/packages/bioperl/branches/bioperl-1.2.3/debian/changelog
===================================================================
--- trunk/packages/bioperl/trunk/debian/changelog	2010-08-18 13:44:23 UTC (rev 5141)
+++ trunk/packages/bioperl/branches/bioperl-1.2.3/debian/changelog	2010-08-20 22:57:12 UTC (rev 5177)
@@ -1,3 +1,9 @@
+bioperl1.2.3 (1.2.3-1) unstable; urgency=low
+
+  * Branching from 1.6 to accommodate the Ensembl suite (Closes: #593588)
+
+ -- Richard Holland <holland at eaglegenomics.com>  Thu, 19 Aug 2010 15:30:11 +0200
+
 bioperl (1.6.1-2) unstable; urgency=low
 
   * Removed bibliographic information from the long description

Modified: trunk/packages/bioperl/branches/bioperl-1.2.3/debian/control
===================================================================
--- trunk/packages/bioperl/trunk/debian/control	2010-08-18 13:44:23 UTC (rev 5141)
+++ trunk/packages/bioperl/branches/bioperl-1.2.3/debian/control	2010-08-20 22:57:12 UTC (rev 5177)
@@ -1,10 +1,11 @@
-Source: bioperl
+Source: bioperl1.2.3
 Section: science
 Priority: optional
 Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
 DM-Upload-Allowed: yes
 Uploaders: Charles Plessy <plessy at debian.org>,
  Steffen Moeller <moeller at debian.org>,
+ Richard Holland <holland at eaglegenomics.com>
 Build-Depends: debhelper (>= 7)
 Build-Depends-Indep: perl, perl-modules (>= 5.10.1),
  libio-string-perl,
@@ -42,18 +43,17 @@
  libxml-simple-perl,
  libxml-writer-perl,
  libxml-libxml-perl,
- libwww-perl,
+ libwww-perl5.808-perl|libwww-perl,
 # Needed to avoid downloading DTDs during the tests and therefore fail when network is not available:
  libxml-sax-expatxs-perl
-Standards-Version: 3.8.4
+Standards-Version: 3.9.1
 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/bioperl/trunk/?rev=0&sc=0
 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/bioperl/trunk/
 Homepage: http://www.bioperl.org/
 
-Package: bioperl
+Package: bioperl1.2.3
 Architecture: all
 Depends: libio-string-perl, libdata-stag-perl, ${misc:Depends}, ${perl:Depends}
-Recommends: bioperl-run ( >= 1.6.0 ),
 # Recommended in Build.PL
  libace-perl,
  libalgorithm-munkres-perl,
@@ -86,7 +86,7 @@
  libxml-twig-perl,
  libxml-writer-perl,
  libxml-libxml-perl,
- libwww-perl
+ libwww-perl5.808-perl|libwww-perl
 Suggests: libmath-random-perl,
 # libmath-random-perl is non-free.
  libxml-sax-expatxs-perl

Modified: trunk/packages/bioperl/branches/bioperl-1.2.3/debian/rules
===================================================================
--- trunk/packages/bioperl/trunk/debian/rules	2010-08-18 13:44:23 UTC (rev 5141)
+++ trunk/packages/bioperl/branches/bioperl-1.2.3/debian/rules	2010-08-20 22:57:12 UTC (rev 5177)
@@ -7,11 +7,8 @@
 build: build-stamp
 build-stamp:
 	dh_testdir
-	perl Build.PL $(NETWORK) < /dev/null # non-interactive, uses defaults
-	./Build
-ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
-	./Build test
-endif
+	no | perl Makefile.PL $(NETWORK) 
+	$(MAKE)
 	touch build-stamp
 
 clean:
@@ -26,17 +23,21 @@
 	dh_testdir
 	dh_testroot
 	dh_prep
-	./Build install                                      \
-		--install_base  /usr                         \
-		--install_path  lib=/usr/share/perl5         \
-	        --install_path  bindoc=/usr/share/man/man1   \
-	        --install_path  libdoc=/usr/share/man/man3   \
-		--destdir       $(CURDIR)/debian/bioperl
+	$(MAKE) DESTDIR=$(CURDIR)/debian/bioperl/ SITEPREFIX=/usr INSTALLSITELIB=/usr/share/perl5 install
+#		--install_base  /usr                         \
+#		--install_path  lib=/usr/share/perl5         \
+#	        --install_path  bindoc=/usr/share/man/man1   \
+#	        --install_path  libdoc=/usr/share/man/man3   \
+#		--destdir       $(CURDIR)/debian/bioperl
 	find debian/bioperl -type f -name .packlist | xargs rm
 	find $(CURDIR)/debian/bioperl -type d -empty -delete
 	# prename is the rename utility written in perl usually available as /usr/bin/rename in Debian.
-	prename s/.pl$$// debian/bioperl/usr/bin/*pl
+	# no binaries in 1.2.3?
+	#prename s/.pl$$// debian/bioperl/usr/bin/*pl
 	prename s/.pl.1p$$/.1p/ debian/bioperl/usr/share/man/man1/*1p
+	chmod +x debian/bioperl/usr/share/perl5/bptutorial.pl
+	rm -r debian/bioperl/usr/lib/perl
+	find debian -name perllocal.pod | xargs -r rm -f
 	touch install-stamp
 
 binary-indep: build install

Deleted: trunk/packages/bioperl/branches/bioperl-1.2.3/debian/watch
===================================================================
--- trunk/packages/bioperl/trunk/debian/watch	2010-08-18 13:44:23 UTC (rev 5141)
+++ trunk/packages/bioperl/branches/bioperl-1.2.3/debian/watch	2010-08-20 22:57:12 UTC (rev 5177)
@@ -1,2 +0,0 @@
-version=3
-http://www.bioperl.org/DIST/BioPerl-([\d\.]+)\.tar\.gz