# HG changeset patch
# User jasper
# Date 1484080830 18000
# Node ID 313b8c47015dc88f251009d1253f077bd7101f99
# Parent  7e97b325aa41e22de508a182715a4a184eeacd4c
Uploaded

diff -r 7e97b325aa41 -r 313b8c47015d PathID.xml
--- a/PathID.xml	Sun Jan 08 20:52:43 2017 -0500
+++ b/PathID.xml	Tue Jan 10 15:40:30 2017 -0500
@@ -3,9 +3,7 @@
 <requirements>
     <requirement type="package" version="2.0.6">pathoscope</requirement>
 </requirements>
-<command interpreter="python">pathoscope2.py ID -alignFile $aligh_file -expTag 3852 -tableFile $tableFile
-  -thetaPrior $thetaPrior -piPrior $piPrior --noUpdatedAlignFile $updatedAlignFile --noDisplayCutoff $displayCutoff
-  -scoreCutoff $scoreCutoff -reAlignFile $realignFile </command>
+<command> <![CDATA[pathoscope -h]]>  </command>
   <inputs>
     <param format="sam" name="aligh_file" type="data" label="Align File"/>
     <param name="file_type" type="select" label="Choose file type">