# HG changeset patch
# User iracooke
# Date 1362461398 18000
# Node ID 0c2ee2a5561351ddd3a230fa5e161f2c3577e282
# Parent  4facf54f380c3d8fc5a798a8c8c828fc57c83427
Uploaded

diff -r 4facf54f380c -r 0c2ee2a55613 README
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/README	Tue Mar 05 00:29:58 2013 -0500
@@ -0,0 +1,5 @@
+This package installs a wrapper script for the X!Tandem search engine 
+
+Requirements:
+This package depends on the galaxy_protk and protk_trans_proteomic_pipeline packages
+Please see instructions for those packages before installing
diff -r 4facf54f380c -r 0c2ee2a55613 repository_dependencies.xml
--- a/repository_dependencies.xml	Mon Mar 04 18:41:50 2013 -0500
+++ b/repository_dependencies.xml	Tue Mar 05 00:29:58 2013 -0500
@@ -5,11 +5,11 @@
  -->
 <repositories description="Proteomics datatypes and the TPP">
  
-     <repository toolshed="http://toolshed.g2.bx.psu.edu" name="proteomics_datatypes" owner="iracooke" changeset_revision="f74290b136fc"/>
+     <repository toolshed="http://toolshed.g2.bx.psu.edu" name="proteomics_datatypes" owner="iracooke" changeset_revision="463328a6967f"/>
 
-	<repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="51f7c347c955"/>
+	<repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="dac478a72c1d"/>
 
-     <repository toolshed="http://toolshed.g2.bx.psu.edu" name="protk_trans_proteomic_pipeline" owner="iracooke" changeset_revision="f302406a0297"/>
+     <repository toolshed="http://toolshed.g2.bx.psu.edu" name="protk_trans_proteomic_pipeline" owner="iracooke" changeset_revision="cedd5e884349"/>
 
 
  </repositories>
diff -r 4facf54f380c -r 0c2ee2a55613 tandem.xml
--- a/tandem.xml	Mon Mar 04 18:41:50 2013 -0500
+++ b/tandem.xml	Tue Mar 05 00:29:58 2013 -0500
@@ -1,7 +1,7 @@
-<tool id="proteomics_search_tandem_1" name="X!Tandem MSMS Search" version="1.0.0">
+<tool id="proteomics_search_tandem_1" name="X!Tandem MSMS Search" version="1.0.1">
 
    <requirements>
-    <requirement type="package" version="1.1.9">galaxy_protk</requirement>
+    <requirement type="package" version="1.2.0">galaxy_protk</requirement>
     <requirement type="package" version="4.6.1">trans_proteomic_pipeline</requirement>
    </requirements>
 
@@ -9,8 +9,8 @@
 
 	<command>
 		#if $database.source_select=="built_in":
-		rvm 1.9.3@protk-1.1.9 do tandem_search.rb -d $database.dbkey 
-		#else #rvm 1.9.3@protk-1.1.9 do tandem_search.rb -d $database.fasta_file
+		rvm 1.9.3@protk-1.2.0 do tandem_search.rb -d $database.dbkey 
+		#else #rvm 1.9.3@protk-1.2.0 do tandem_search.rb -d $database.fasta_file
 		#end if
 
 		--var-mods='
diff -r 4facf54f380c -r 0c2ee2a55613 tool_dependencies.xml
--- a/tool_dependencies.xml	Mon Mar 04 18:41:50 2013 -0500
+++ b/tool_dependencies.xml	Tue Mar 05 00:29:58 2013 -0500
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <tool_dependency>
-<!--     <package name="galaxy_protk" version="1.1.9">
+<!--     <package name="galaxy_protk" version="1.2.0">
 	     <repository toolshed="http://10.211.55.28:9009" name="galaxy_protk" owner="iracooke" changeset_revision="5610168f3b53"/>
     </package>
 
@@ -8,12 +8,12 @@
         <repository toolshed="http://10.211.55.28:9009" name="protk_tpp" owner="iracooke" changeset_revision="e44f0d3bb9dd" />
     </package>
  -->
-    <package name="galaxy_protk" version="1.1.9">
-	     <repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="51f7c347c955"/>
+    <package name="galaxy_protk" version="1.2.0">
+	     <repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="dac478a72c1d"/>
     </package>
 
     <package name="trans_proteomic_pipeline" version="4.6.1">
-        <repository toolshed="http://toolshed.g2.bx.psu.edu" name="protk_trans_proteomic_pipeline" owner="iracooke" changeset_revision="f302406a0297" />
+        <repository toolshed="http://toolshed.g2.bx.psu.edu" name="protk_trans_proteomic_pipeline" owner="iracooke" changeset_revision="cedd5e884349" />
     </package>