# HG changeset patch
# User iracooke
# Date 1445924726 14400
# Node ID 29e2df3edf1150071bdf7358082014a461cc7e83
# Parent  63b15b77e56c753214b81871b3e71e40b4b4e331
Check exit code

diff -r 63b15b77e56c -r 29e2df3edf11 tandem.xml
--- a/tandem.xml	Wed Oct 21 18:08:29 2015 -0400
+++ b/tandem.xml	Tue Oct 27 01:45:26 2015 -0400
@@ -5,6 +5,9 @@
         <requirement type="package" version="1.4.3">protk</requirement>
         <requirement type="package" version="4.8.0">trans_proteomic_pipeline</requirement>
     </requirements>
+    <stdio>
+        <exit_code range="1:" level="fatal" description="Failure" />
+    </stdio>
     <command>
         #if $database.source_select=="built_in":
             tandem_search.rb -d $database.dbkey 
diff -r 63b15b77e56c -r 29e2df3edf11 tandem_to_pepxml.xml
--- a/tandem_to_pepxml.xml	Wed Oct 21 18:08:29 2015 -0400
+++ b/tandem_to_pepxml.xml	Tue Oct 27 01:45:26 2015 -0400
@@ -5,6 +5,9 @@
         <requirement type="package" version="1.4.3">protk</requirement>
         <requirement type="package" version="4.8.0">trans_proteomic_pipeline</requirement>
     </requirements>
+    <stdio>
+        <exit_code range="1:" level="fatal" description="Failure" />
+    </stdio>
     <command>
         tandem_to_pepxml.rb $input_file -o $output 
     </command>
diff -r 63b15b77e56c -r 29e2df3edf11 tool_dependencies.xml
--- a/tool_dependencies.xml	Wed Oct 21 18:08:29 2015 -0400
+++ b/tool_dependencies.xml	Tue Oct 27 01:45:26 2015 -0400
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="protk" version="1.4.3">
-        <repository changeset_revision="74bf855be117" name="package_protk_1_4_3" owner="iracooke" toolshed="https://toolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="991797b02976" name="package_protk_1_4_3" owner="iracooke" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
     <package name="trans_proteomic_pipeline" version="4.8.0">
         <repository changeset_revision="a7273394d858" name="package_tpp_4_8_0" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />