--- a/CADDSuite/galaxyconfigs/tools/MolCombine.xml	Tue Jul 12 10:29:49 2011 -0400
+++ b/CADDSuite/galaxyconfigs/tools/MolCombine.xml	Fri Sep 02 08:48:21 2011 -0400
@@ -1,6 +1,6 @@
 
 <!--This is a configuration file for the integration of a CADDSuite tool into Galaxy (http://usegalaxy.org). This file was automatically generated using GalaxyConfigGenerator, so do not bother to make too many manual modifications.-->
-<tool id="molcombine" name="MolCombine" version="0.95">
+<tool id="molcombine" name="MolCombine" version="0.9.6">
     <description>combine molecular files</description>
     <command interpreter="bash"><![CDATA[../../MolCombine 
 #if str( $i1 ) != ''  and str( $i1 ) != 'None' :
@@ -21,6 +21,9 @@
 #if str( $replace_prop ) != ''  and str( $replace_prop ) != 'None' :
    -replace_prop
 #end if
+#if str( $rm ) != ''  and str( $rm ) != 'None' :
+   -rm
+#end if
  | tail -n 5
 ]]></command>
     <inputs>
@@ -33,6 +36,7 @@
         </param>
         <param name="ignH" optional="true" label="ignore hydrogens, i.e. match molecules to any protonation state." type="boolean" truevalue="true" falsevalue="" checked="true"/>
         <param name="replace_prop" optional="true" label="replace properties from file 1 w/ those from file 2" type="boolean" truevalue="true" falsevalue=""/>
+        <param name="rm" optional="true" label="remove input files when finished" type="boolean" truevalue="true" falsevalue=""/>
     </inputs>
     <outputs>
         <data name="o" format="mol2/sdf/drf" format_source="i1"/>