# HG changeset patch
# User bornea
# Date 1469650899 14400
# Node ID fc8b0358acac0aff578eab2d60b0e5d21426c554
# Parent  ac70e256399c9904531040dfde2731e6ab263b48
Uploaded

diff -r ac70e256399c -r fc8b0358acac MergeFiles.xml
--- a/MergeFiles.xml	Tue Jul 26 16:17:25 2016 -0400
+++ b/MergeFiles.xml	Wed Jul 27 16:21:39 2016 -0400
@@ -1,9 +1,6 @@
 <tool id="MergeScaffold" name="Merge Scaffold">
   <description></description>
-  <command interpreter="python">MergeFiles.py $input1 $input2 $input3 $baitfile $merged \$INSTALL_RUN_PATH/</command>
-  <requirements>
-    <requirement type="set_environment">INSTALL_RUN_PATH</requirement>
-  </requirements>
+  <command interpreter="python">MergeFiles.py $input1 $input2 $input3 $baitfile $merged</command>
   <inputs>
     <param format="txt" name="input1" type="data" label="Scaffold Output 1"/>
     <param format="txt" name="input2" type="data" label="Scaffold Output 2"/>
@@ -34,14 +31,6 @@
     </test>
   </tests>
   <help>
-Query CRAPome
--------------
-This program will read in a SAINT formatted *Prey* file or a single column list (no column name) of Uniprot accessions (e.g. "P00533" or "EGFR_HUMAN"), query the  CRAPome database (v1.1) http://crapome.org, and return a file specifying the prevalence of each protein in the CRAPome.
-
-**1) Input File**
-SAINT formatted *Prey* file or a single column list (no column name) of Uniprot accessions.
-
-**2) Species**
-Please specify species. Supported species are Human and Yeast.
+    This program will merge either 2 or 3 scaffold sample report files together.
   </help>
 </tool>
\ No newline at end of file