# HG changeset patch
# User rnateam
# Date 1450367899 18000
# Node ID 65103aba4e5fb1659a079c6845685e3cce355d84
# Parent  3d608b751bc47011854265f513e92d1c0b6e422a
fix xml

diff -r 3d608b751bc4 -r 65103aba4e5f flexbar_dsc.xml
--- a/flexbar_dsc.xml	Thu Dec 17 10:53:09 2015 -0500
+++ b/flexbar_dsc.xml	Thu Dec 17 10:58:19 2015 -0500
@@ -14,6 +14,8 @@
 
     <version_command>flexbar --version</version_command>
 
+    <command><![CDATA[
+
         flexbar
 
         --threads \${GALAXY_SLOTS:-1}
@@ -138,10 +140,7 @@
         --target FlexbarOutput &&
         for f in *_1.fastq; do mv "\$f" "`basename \$f _1.fastq`_forward.fastq"; done &&
         for f in *_2.fastq; do mv "\$f" "`basename \$f _2.fastq`_reverse.fastq"; done
-
-
-
-    </command>
+    ]]></command>
 
 
     <inputs>
@@ -430,6 +429,7 @@
       -->
         <discover_datasets pattern="FlexbarOutput_(?P&lt;identifier_0&gt;[^_]+)_(?P&lt;identifier_1&gt;[^_]+)\.fastq" metadata_source="reads" visible="true" />
         <!--<data format="txt" name="output" metadata_source="reads"/>-->
+        </collection>
     </outputs>