[med-svn] r3994 - in trunk/packages/emboss/trunk/debian: . patches

[Charles Plessy]

Author: plessy
Date: 2009-09-17 04:05:04 +0000 (Thu, 17 Sep 2009)
New Revision: 3994

Added:
   trunk/packages/emboss/trunk/debian/patches/transient-vectorstrip.patch
Modified:
   trunk/packages/emboss/trunk/debian/changelog
   trunk/packages/emboss/trunk/debian/patches/series
Log:
I will be using this patch at work (hence the strange version number in the changelog).

I am considering to keep it in the next update of our package if it is
not integrated to the next officialy released patch set.


Modified: trunk/packages/emboss/trunk/debian/changelog
===================================================================
--- trunk/packages/emboss/trunk/debian/changelog	2009-09-16 15:59:53 UTC (rev 3993)
+++ trunk/packages/emboss/trunk/debian/changelog	2009-09-17 04:05:04 UTC (rev 3994)
@@ -1,8 +1,9 @@
-emboss (6.1.0-5) UNRELEASED; urgency=low
+emboss (6.1.0-5~unreleased) UNRELEASED; urgency=low
 
   * debian/changelog: corrected an error on a progam name (vectorstrip).
+  * debian/patches/transient-vectorstrip.patch: keep quality scores.
 
- -- Charles Plessy <plessy at debian.org>  Wed, 16 Sep 2009 15:43:41 +0900
+ -- Charles Plessy <plessy at debian.org>  Thu, 17 Sep 2009 11:45:08 +0900
 
 emboss (6.1.0-4) unstable; urgency=low
 

Modified: trunk/packages/emboss/trunk/debian/patches/series
===================================================================
--- trunk/packages/emboss/trunk/debian/patches/series	2009-09-16 15:59:53 UTC (rev 3993)
+++ trunk/packages/emboss/trunk/debian/patches/series	2009-09-17 04:05:04 UTC (rev 3994)
@@ -1,2 +1,3 @@
 using-pager-in-tfm.patch
 official-upstream-patch.patch
+transient-vectorstrip.patch

Added: trunk/packages/emboss/trunk/debian/patches/transient-vectorstrip.patch
===================================================================
--- trunk/packages/emboss/trunk/debian/patches/transient-vectorstrip.patch	                        (rev 0)
+++ trunk/packages/emboss/trunk/debian/patches/transient-vectorstrip.patch	2009-09-17 04:05:04 UTC (rev 3994)
@@ -0,0 +1,19 @@
+Description: keeps quality scores.
+ This is a transient patch for my personal use, but that I would like to share with others.
+ I will discuss with Upstream about the possibiltiy to have it in the next official patch release.
+Origin: http://lists.open-bio.org/pipermail/emboss/2009-September/003735.html
+--- emboss-6.1.0.orig/ajax/ajseq.c
++++ emboss-6.1.0/ajax/ajseq.c
+@@ -782,6 +782,12 @@
+     if (seq->Fttable)
+ 	pthis->Fttable = ajFeattableCopy(seq->Fttable);
+ 
++    if (seq->Accuracy)
++    {
++        AJCNEW0(pthis->Accuracy,seq->Seq->Len);
++        memmove(pthis->Accuracy,seq->Accuracy,seq->Seq->Len*sizeof(float));
++    }
++
+     return pthis;
+ }
+