[med-svn] r12515 - trunk/packages/babraham/fastqc/trunk/debian/patches

[Andreas Tille]

Author: tille
Date: 2012-11-08 10:28:02 +0000 (Thu, 08 Nov 2012)
New Revision: 12515

Modified:
   trunk/packages/babraham/fastqc/trunk/debian/patches/fastqc.patch
Log:
Fix wrapper script to properly call jar file (thanks to Olivier Sallou)


Modified: trunk/packages/babraham/fastqc/trunk/debian/patches/fastqc.patch
===================================================================
--- trunk/packages/babraham/fastqc/trunk/debian/patches/fastqc.patch	2012-11-07 21:08:20 UTC (rev 12514)
+++ trunk/packages/babraham/fastqc/trunk/debian/patches/fastqc.patch	2012-11-08 10:28:02 UTC (rev 12515)
@@ -20,3 +20,23 @@
  
  my @java_args;
  my @files;
+@@ -177,10 +177,10 @@ if (@files or $version or $help) {
+ 
+ 
+ if ($java_bin ne 'java') {
+-	system $java_bin, at java_args, "uk.ac.babraham.FastQC.FastQCApplication", @files;
++	system $java_bin, at java_args,"-jar","/usr/share/fastqc/fastqc.jar", @files;
+ }
+ else {
+-	exec $java_bin, at java_args, "uk.ac.babraham.FastQC.FastQCApplication", @files;
++	exec $java_bin, at java_args,"-jar","/usr/share/fastqc/fastqc.jar", @files;
+ }
+ 
+ __DATA__
+@@ -273,4 +273,4 @@ BUGS
+     Any bugs in fastqc should be reported either to simon.andrews at babraham.ac.uk
+     or in www.bioinformatics.babraham.ac.uk/bugzilla/
+                    
+-    
+\ No newline at end of file
++