[med-svn] r2110 - in trunk/packages/t-coffee/trunk/debian: . patches

[plessy at alioth.debian.org]

Author: plessy
Date: 2008-06-30 13:54:55 +0000 (Mon, 30 Jun 2008)
New Revision: 2110

Removed:
   trunk/packages/t-coffee/trunk/debian/patches/Makefiles.patch
Modified:
   trunk/packages/t-coffee/trunk/debian/copyright
   trunk/packages/t-coffee/trunk/debian/patches/dmcoffee.patch
   trunk/packages/t-coffee/trunk/debian/patches/series
   trunk/packages/t-coffee/trunk/debian/patches/unicode.diff
   trunk/packages/t-coffee/trunk/debian/rules
Log:
Updated patches (dropping when possible), and copyright.


Modified: trunk/packages/t-coffee/trunk/debian/copyright
===================================================================
--- trunk/packages/t-coffee/trunk/debian/copyright	2008-06-30 13:48:22 UTC (rev 2109)
+++ trunk/packages/t-coffee/trunk/debian/copyright	2008-06-30 13:54:55 UTC (rev 2110)
@@ -1,8 +1,8 @@
-Format-Specification: http://wiki.debian.org/Proposals/CopyrightFormat?action=recall&rev=103
-Debianized-By: Steffen Moeller <moeller at debian.org>
-Debianized-Date: Fri, 13 May 2005 10:52:14 +0200
+Format-Specification: http://wiki.debian.org/Proposals/CopyrightFormat?action=recall&rev=129
+Upstream-Author: Cédric Notredame <cedric.notredame at europe.com>
+Packaged-By: Steffen Moeller <moeller at debian.org>
+Packaged-Date: Fri, 13 May 2005 10:52:14 +0200
 Original-Source-Location: http://www.tcoffee.org/Packages/T-COFFEE_distribution_Version_5.65.tar.gz
-Upstream-Author: Cédric Notredame <cedric.notredame at europe.com>
 
 Files: *
 Copyright: Centre National de la Recherche Scientifique (CNRS) 

Deleted: trunk/packages/t-coffee/trunk/debian/patches/Makefiles.patch
===================================================================
--- trunk/packages/t-coffee/trunk/debian/patches/Makefiles.patch	2008-06-30 13:48:22 UTC (rev 2109)
+++ trunk/packages/t-coffee/trunk/debian/patches/Makefiles.patch	2008-06-30 13:54:55 UTC (rev 2110)
@@ -1,10 +0,0 @@
-Index: t-coffee-5.05/t_coffee_source/makefile
-===================================================================
---- t-coffee-5.05.orig/t_coffee_source/makefile	2007-09-24 15:26:47.028236512 +0200
-+++ t-coffee-5.05/t_coffee_source/makefile	2007-09-24 15:27:26.136696266 +0200
-@@ -6,4 +6,4 @@
- all:  t_coffee
- 
- clean:
--	rm *.o
-+	rm -f *.o t_coffee

Modified: trunk/packages/t-coffee/trunk/debian/patches/dmcoffee.patch
===================================================================
--- trunk/packages/t-coffee/trunk/debian/patches/dmcoffee.patch	2008-06-30 13:48:22 UTC (rev 2109)
+++ trunk/packages/t-coffee/trunk/debian/patches/dmcoffee.patch	2008-06-30 13:54:55 UTC (rev 2110)
@@ -1,4 +1,10 @@
-If we do not hardcode these paths, dmcoffee will not work out of the box.
+Author: Charles Plessy <plessy at debian.org>
+Forwarded: Soon
+Description: To make (D)M-COFFEE work out of the bok on Debian.
+ The path to dialign-tx and to the blosum matrix of POA are hardcoded
+ through this patch, so that (D)M-COFFEE work without manual copying
+ and/or linking.
+License: Same as T-COFFEE itself.
 --- a/t_coffee_source/util_constraints_list.c
 +++ b/t_coffee_source/util_constraints_list.c
 @@ -1368,13 +1368,13 @@

Modified: trunk/packages/t-coffee/trunk/debian/patches/series
===================================================================
--- trunk/packages/t-coffee/trunk/debian/patches/series	2008-06-30 13:48:22 UTC (rev 2109)
+++ trunk/packages/t-coffee/trunk/debian/patches/series	2008-06-30 13:54:55 UTC (rev 2110)
@@ -1,3 +1,2 @@
 dmcoffee.patch
-Makefiles.patch
 unicode.diff

Modified: trunk/packages/t-coffee/trunk/debian/patches/unicode.diff
===================================================================
--- trunk/packages/t-coffee/trunk/debian/patches/unicode.diff	2008-06-30 13:48:22 UTC (rev 2109)
+++ trunk/packages/t-coffee/trunk/debian/patches/unicode.diff	2008-06-30 13:54:55 UTC (rev 2110)
@@ -1,3 +1,8 @@
+Author: Charles Plessy <plessy at debian.org>
+Forwarded: Soon
+Description: converts the encoding of some output of T-COFFEE to Unicode
+ (Unicode is now the default encoding in Debian).
+License: Same as t-coffee itself.
 --- a/doc/t_coffee_technical.txt
 +++ b/doc/t_coffee_technical.txt
 @@ -4,7 +4,7 @@

Modified: trunk/packages/t-coffee/trunk/debian/rules
===================================================================
--- trunk/packages/t-coffee/trunk/debian/rules	2008-06-30 13:48:22 UTC (rev 2109)
+++ trunk/packages/t-coffee/trunk/debian/rules	2008-06-30 13:54:55 UTC (rev 2110)
@@ -10,8 +10,7 @@
 # Is messing with /usr/share/cdbs/1/rules/patchsys-quilt.mk
 
 DEB_MAKE_BUILD_TARGET	= -C t_coffee_source -i USER_BIN=../bin/ all
-DEB_MAKE_CLEAN_TARGET	= -C t_coffee_source clean
 
 clean::
-	dh_clean  bin/t_coffee $(shell find example/ -size 0)
+	dh_clean  t_coffee_source/*.o t_coffee_source/t_coffee bin/t_coffee $(shell find example/ -size 0)
 	chmod 644 example/*