[med-svn] [SCM] cufflinks branch, master, updated. debian/1.2.1-1-7-g3a3fa73

[Alexandre Mestiashvili]

The following commit has been merged in the master branch:
commit 3a3fa73638fd5086e17ff6b626052ddc3502571f
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Thu Jan 5 15:14:31 2012 +0100

    Fixed spelling error.

diff --git a/debian/patches/0001-fix_spelling.patch b/debian/patches/0001-fix_spelling.patch
index 79af4f2..d3cca57 100644
--- a/debian/patches/0001-fix_spelling.patch
+++ b/debian/patches/0001-fix_spelling.patch
@@ -1,5 +1,5 @@
 From: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Date: Sat, 10 Dec 2011 12:02:53 +0100
+Date: 2012-01-05
 Subject: fix_spelling
 
 ---
@@ -7,11 +7,9 @@ Subject: fix_spelling
  src/locfit/lfd.c   |    2 +-
  2 files changed, 2 insertions(+), 2 deletions(-)
 
-diff --git a/src/locfit/arith.c b/src/locfit/arith.c
-index 536a78c..2a6c66c 100644
---- a/src/locfit/arith.c
-+++ b/src/locfit/arith.c
-@@ -410,7 +410,7 @@ double (*f)();
+--- cufflinks.orig/src/locfit/arith.c
++++ cufflinks/src/locfit/arith.c
+@@ -410,7 +410,7 @@
      INT i;
      if (l==NULL) 
      {
@@ -20,11 +18,9 @@ index 536a78c..2a6c66c 100644
          return NULL;
      }
      v = createvar("_vvec1",STHIDDEN,l->n,VDOUBLE);
-diff --git a/src/locfit/lfd.c b/src/locfit/lfd.c
-index 4a6b74b..912670a 100644
---- a/src/locfit/lfd.c
-+++ b/src/locfit/lfd.c
-@@ -78,7 +78,7 @@ INT fp;
+--- cufflinks.orig/src/locfit/lfd.c
++++ cufflinks/src/locfit/lfd.c
+@@ -78,7 +78,7 @@
          }
        }
        if (access("LFData",W_OK)==-1)
@@ -33,4 +29,14 @@ index 4a6b74b..912670a 100644
          return(0);
        }
      }
--- 
+--- cufflinks.orig/src/abundances.cpp
++++ cufflinks/src/abundances.cpp
+@@ -1751,7 +1751,7 @@
+ 	
+ 	vector<double> gammas;
+ 	
+-	verbose_msg( "Calculating intial MLE\n");
++	verbose_msg( "Calculating initial MLE\n");
+ 	
+ 	AbundanceStatus mle_success = gamma_mle(mapped_transcripts,
+                                                   nr_alignments,

-- 
Transcript assembly, differential expression, and differential regulation for RNA-Seq.