# HG changeset patch
# User bjoern-gruening
# Date 1364152126 14400
# Node ID c6de70bc43ee9785573d92afc2b89dcfa2e4c846
# Parent  2fd029916856401d824af3094fdad16f71237679
Small fix for rrbs data.

diff -r 2fd029916856 -r c6de70bc43ee trim_galore_wrapper.xml
--- a/trim_galore_wrapper.xml	Tue Dec 25 05:55:53 2012 -0500
+++ b/trim_galore_wrapper.xml	Sun Mar 24 15:08:46 2013 -0400
@@ -1,4 +1,4 @@
-<tool id="trim_galore" name="Trim Galore" version="0.2.4.0">
+<tool id="trim_galore" name="Trim Galore" version="0.2.4.1">
     <!-- Wrapper compatible with Trim Galore version 0.2.4.0 -->
     <description>adaptive quality and adapter trimmer</description>
     <version_command interpreter="perl">trim_galore --version</version_command>
@@ -49,8 +49,8 @@
 
         #if $rrbs.settingsType == "custom":
 
-            $rrbs
-            $non_directional
+            $rrbs.rrbs
+            $rrbs.non_directional
 
         #end if
 
@@ -204,11 +204,11 @@
                 </conditional>  <!-- retain_unpaired -->
 
             </when>  <!-- full -->
-      </conditional>  <!-- params -->
+        </conditional>  <!-- params -->
 
         <conditional name="rrbs">
             <param name="settingsType" type="select" label="RRBS specific settings">
-              <option value="default">Use Defaults</option>
+              <option value="default">Use Defaults (no RRBS)</option>
               <option value="custom">Full parameter list</option>
             </param>
             <when value="default" />