# HG changeset patch
# User modencode-dcc
# Date 1358785305 18000
# Node ID 24055dbb63b22e6cc0fbc1c6c56dfc8ca9ce6419
# Parent  b033e60826118d2f0768d1deaa090c1b2370144a
Uploaded

diff -r b033e6082611 -r 24055dbb63b2 idrToolDef.xml
--- a/idrToolDef.xml	Mon Jan 21 11:16:57 2013 -0500
+++ b/idrToolDef.xml	Mon Jan 21 11:21:45 2013 -0500
@@ -17,7 +17,7 @@
     <requirement type="set_environment">SCRIPT_PATH</requirement>
   </requirements>
   <description>Consistency Analysis on a pair of narrowPeak files</description>
-  <command interpreter="Rscript">batch-consistency-analysis.r $input1 $input2 $halfwidth $overlap $option $sigvalue $gtable $rout $aboveIDR $ratio $emSav $uriSav $SCRIPT_PATH</command>
+  <command interpreter="Rscript">batch-consistency-analysis.r \$SCRIPT_PATH $input1 $input2 $halfwidth $overlap $option $sigvalue $gtable $rout $aboveIDR $ratio $emSav $uriSav </command>
   <inputs>
     <param format="narrowPeak" name="input1" type="data" label="First NarrowPeak File"/>
     <param format="narrowPeak" name="input2" type="data" label="Second NarrowPeak File"/>