--- a/plotwithscale.xml	Wed Jun 14 15:20:56 2017 -0400
+++ b/plotwithscale.xml	Mon Jun 19 12:08:59 2017 -0400
@@ -4,18 +4,8 @@
     <import>macros.xml</import>
   </macros>
   <expand macro="requirements" />
-  <stdio>
-    <exit_code range="-1" level="fatal" description="Missing IWTomics package. Please be sure to have it installed before using this tool." />
-    <exit_code range="10" level="fatal" description="Wrong test ids." />
-    <exit_code range="20" level="fatal" description="Wrong feature ids." />
-    <exit_code range="30" level="fatal" description="Two scale thresholds selected for the same test and feature." />
-    <exit_code range="40" level="fatal" description="Scale threshold too high." />
-    <exit_code range="50" level="fatal" description="Group by 'test' but selected features with different resolution." />
-    <exit_code range="60" level="fatal" description="Summary plot error. Please try again." />
-    <regex match="Error" source="both" level="fatal" description="An error has occurred. Please try again." />
-  </stdio>
-
-  <command>
+  
+  <command detect_errors="exit_code">
 <![CDATA[
     Rscript '$__tool_directory__/plotwithscale.R' adjustedpvalue='${adjustedpvalue}' iwtomicsrespdf='${iwtomicsrespdf}' iwtomicssumpdf='${iwtomicssumpdf}'
       iwtomicsrdata='${rdata}'