# HG changeset patch
# User iracooke
# Date 1362442805 18000
# Node ID 7005346b534d38e6b6b73ba1d97b017e5508e744
# Parent  97f1c89cd831ab5ba250eb057fa02adf5f22e911
Uploaded

diff -r 97f1c89cd831 -r 7005346b534d protein_prophet.xml
--- a/protein_prophet.xml	Mon Mar 04 19:09:54 2013 -0500
+++ b/protein_prophet.xml	Mon Mar 04 19:20:05 2013 -0500
@@ -8,7 +8,7 @@
 
 
 <!-- Note .. the input file is assumed to be the first argument -->
-  <command>protein_prophet_wrapper.rb --galaxy $input_file -r $iproph $nooccam $groupwts $normprotlen $logprobs $confem $allpeps $unmapped $instances $delude --minprob=$minprob --minindep=$minindep </command>
+  <command interpreter="ruby">protein_prophet_wrapper.rb --galaxy $input_file -r $iproph $nooccam $groupwts $normprotlen $logprobs $confem $allpeps $unmapped $instances $delude --minprob=$minprob --minindep=$minindep </command>
   <inputs>
 	
     <param name="input_file" type="data" format="peptideprophet_pepxml,interprophet_pepxml" multiple="false" label="Peptide Prophet Results" help="These files will typically be outputs from peptide prophet or interprophet"/>