# HG changeset patch
# User iracooke
# Date 1394680213 14400
# Node ID 0eadb9f0852b03a75f2ce1b7110216d17a939d44
# Parent  ccf5e85155528756c95fc568a1899ff145c66274
Uploaded

diff -r ccf5e8515552 -r 0eadb9f0852b tandem.xml
--- a/tandem.xml	Wed Mar 12 23:09:56 2014 -0400
+++ b/tandem.xml	Wed Mar 12 23:10:13 2014 -0400
@@ -1,16 +1,17 @@
 <tool id="proteomics_search_tandem_1" name="X!Tandem MSMS Search" version="1.0.1">
 
    <requirements>
-    <requirement type="package" version="1.2.2">galaxy_protk</requirement>
-    <requirement type="package" version="4.6.1">trans_proteomic_pipeline</requirement>
+    <requirement type="package" version="1.2.6">protk</requirement>
+    <requirement type="package" version="4.6.3">trans_proteomic_pipeline</requirement>
    </requirements>
 
 	<description>Run an X!Tandem Search</description>
 
 	<command>
 		#if $database.source_select=="built_in":
-		rvm 1.9.3@protk-1.2.2 do tandem_search.rb -d $database.dbkey 
-		#else #rvm 1.9.3@protk-1.2.2 do tandem_search.rb -d $database.fasta_file
+		tandem_search.rb -d $database.dbkey 
+		#else 
+		tandem_search.rb -d $database.fasta_file
 		#end if
 
 		--var-mods='