[med-svn] r2229 - in trunk/packages/plink/trunk/debian: . patches

[smoe-guest at alioth.debian.org]

Author: smoe-guest
Date: 2008-07-14 16:28:46 +0000 (Mon, 14 Jul 2008)
New Revision: 2229

Added:
   trunk/packages/plink/trunk/debian/patches/
   trunk/packages/plink/trunk/debian/patches/dynamic.patch
   trunk/packages/plink/trunk/debian/patches/series
Removed:
   trunk/packages/plink/trunk/debian/patches/
Modified:
   trunk/packages/plink/trunk/debian/changelog
   trunk/packages/plink/trunk/debian/control
   trunk/packages/plink/trunk/debian/copyright
   trunk/packages/plink/trunk/debian/rules
Log:
Preparing for upload.


Modified: trunk/packages/plink/trunk/debian/changelog
===================================================================
--- trunk/packages/plink/trunk/debian/changelog	2008-07-13 19:55:18 UTC (rev 2228)
+++ trunk/packages/plink/trunk/debian/changelog	2008-07-14 16:28:46 UTC (rev 2229)
@@ -1,6 +1,6 @@
-plink (1.02-1) unstable; urgency=low
+plink (1.03p1-1) unstable; urgency=low
 
-  * Initial release (Closes: #nnnn).
+  * Initial release (Closes: #490832).
 
- -- Steffen Moeller <moeller at debian.org>  Tue, 08 Apr 2008 17:49:32 +0200
+ -- Steffen Moeller <moeller at debian.org>  Mon, 14 Jul 2008 17:36:22 +0200
 

Modified: trunk/packages/plink/trunk/debian/control
===================================================================
--- trunk/packages/plink/trunk/debian/control	2008-07-13 19:55:18 UTC (rev 2228)
+++ trunk/packages/plink/trunk/debian/control	2008-07-14 16:28:46 UTC (rev 2229)
@@ -3,8 +3,8 @@
 Priority: optional
 Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
 Uploaders: Steffen Moeller <moeller at debian.org>
-Build-Depends: debhelper (>= 5), quilt, g++-3.3
-Standards-Version: 3.7.3
+Build-Depends: debhelper (>= 5)
+Standards-Version: 3.8.0
 Homepage: http://pngu.mgh.harvard.edu/~purcell/plink/
 
 Package: plink
@@ -17,3 +17,8 @@
  It finds associations of single or pairs of DNA
  variations with a phenotype and can retrieve 
  SNP annotation from an online source.
+ .
+ SNPs can evaluated individually or as pairs for their
+ association with the disease phenotypes. The joint
+ investigation of copy number variations is supported.
+ A variety of statistical tests have been implemented.

Modified: trunk/packages/plink/trunk/debian/copyright
===================================================================
--- trunk/packages/plink/trunk/debian/copyright	2008-07-13 19:55:18 UTC (rev 2228)
+++ trunk/packages/plink/trunk/debian/copyright	2008-07-14 16:28:46 UTC (rev 2229)
@@ -1,5 +1,5 @@
 This package was debianized by Steffen Moeller <moeller at debian.org> on
-Tue, 08 Apr 2008 17:49:32 +0200.
+Mon, 14 Jul 2008 17:30:41 +0200
 
 It was downloaded from http://pngu.mgh.harvard.edu/~purcell/plink
 
@@ -13,7 +13,7 @@
 	
  	Copyright (C) 2004 Simon Urbanek, All rights reserved.
 
-    All other code (dcdflib.cpp has no copyright information):
+    All other code (dcdflib.cpp has no explicit copyright information):
 
     	Copyright (C) 2005-2008  Shaun Purcell <plink at chgr.mgh.harvard.edu>
 
@@ -22,8 +22,7 @@
 
     This package is free software; you can redistribute it and/or modify
     it under the terms of the GNU General Public License as published by
-    the Free Software Foundation; either version 2 of the License, or
-    (at your option) any later version.
+    the Free Software Foundation; either version 2 of the License.
  
     This package is distributed in the hope that it will be useful,
     but WITHOUT ANY WARRANTY; without even the implied warranty of
@@ -34,6 +33,9 @@
     along with this package; if not, write to the Free Software
     Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA  02110-1301 USA
 
+A neglectable minority of the source files also allow the redistribution
+under a later license of the GPL.
+
 On Debian systems, the complete text of the GNU General
 Public License can be found in `/usr/share/common-licenses/GPL'.
 

Added: trunk/packages/plink/trunk/debian/patches/dynamic.patch
===================================================================
--- trunk/packages/plink/trunk/debian/patches/dynamic.patch	                        (rev 0)
+++ trunk/packages/plink/trunk/debian/patches/dynamic.patch	2008-07-14 16:28:46 UTC (rev 2229)
@@ -0,0 +1,13 @@
+Index: plink-1.03p1/Makefile
+===================================================================
+--- plink-1.03p1.orig/Makefile	2008-07-14 18:18:53.000000000 +0200
++++ plink-1.03p1/Makefile	2008-07-14 18:19:09.000000000 +0200
+@@ -44,7 +44,7 @@
+ endif
+ 
+ ifeq ($(SYS),UNIX)
+- CXXFLAGS += -DUNIX -static
++ CXXFLAGS += -DUNIX
+  CXX = $(CXX_UNIX)
+ endif
+ 

Added: trunk/packages/plink/trunk/debian/patches/series
===================================================================
--- trunk/packages/plink/trunk/debian/patches/series	                        (rev 0)
+++ trunk/packages/plink/trunk/debian/patches/series	2008-07-14 16:28:46 UTC (rev 2229)
@@ -0,0 +1 @@
+dynamic.patch

Modified: trunk/packages/plink/trunk/debian/rules
===================================================================
--- trunk/packages/plink/trunk/debian/rules	2008-07-13 19:55:18 UTC (rev 2228)
+++ trunk/packages/plink/trunk/debian/rules	2008-07-14 16:28:46 UTC (rev 2229)
@@ -5,12 +5,13 @@
 
 build: patch build-stamp
 build-stamp:
-	$(MAKE) CXX_UNIX=g++-3.3 CXXFLAGS=$(CFLAGS)
+	$(MAKE) CXX_UNIX=g++ WITH_R_PLUGINS=1
 	touch $@
 
 clean: unpatch
 	dh_testdir
 	dh_testroot
+	$(MAKE) clean
 	dh_clean build-stamp install-stamp
 
 install: install-stamp