Mercurial > repos > iracooke > tpp_prophets

changeset 1:a9f016a531a5

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Fix
author Ira Cooke <iracooke@gmail.com>
date Thu, 06 Jun 2013 15:37:51 +1000
parents adf8ac7aa6c8
children 5674c9c2e0d0
files interprophet.xml peptide_prophet.xml pepxml_to_table.xml protein_prophet.xml repository_dependencies.xml tool_dependencies.xml
diffstat 6 files changed, 11 insertions(+), 11 deletions(-) [+]
line wrap: on
line diff
--- a/interprophet.xml	Thu Jun 06 01:33:00 2013 -0400
+++ b/interprophet.xml	Thu Jun 06 15:37:51 2013 +1000
@@ -1,7 +1,7 @@
 <tool id="proteomics_search_interprophet_1" name="InterProphet" version="1.0.1">
 	
 	<requirements>
-	    <requirement type="package" version="1.2.0">galaxy_protk</requirement>
+	    <requirement type="package" version="1.2.2">galaxy_protk</requirement>
 	    <requirement type="package" version="4.6.1">trans_proteomic_pipeline</requirement>
    </requirements>
 
--- a/peptide_prophet.xml	Thu Jun 06 01:33:00 2013 -0400
+++ b/peptide_prophet.xml	Thu Jun 06 15:37:51 2013 +1000
@@ -1,6 +1,6 @@
 <tool id="proteomics_search_peptide_prophet_1" name="Peptide Prophet" version="1.0.1">
     <requirements>
-        <requirement type="package" version="1.2.0">galaxy_protk</requirement>
+        <requirement type="package" version="1.2.2">galaxy_protk</requirement>
         <requirement type="package" version="4.6.1">trans_proteomic_pipeline</requirement>
    </requirements>
    
--- a/pepxml_to_table.xml	Thu Jun 06 01:33:00 2013 -0400
+++ b/pepxml_to_table.xml	Thu Jun 06 15:37:51 2013 +1000
@@ -1,7 +1,7 @@
 <tool id="pepxml_to_table_1" name="PepXML to Table" version="1.0.1">
 
 	<requirements>
-	    <requirement type="package" version="1.2.0">galaxy_protk</requirement>
+	    <requirement type="package" version="1.2.2">galaxy_protk</requirement>
    </requirements>
 
 
@@ -10,7 +10,7 @@
 
 
 <!-- Note .. the input file is assumed to be the first argument -->
-<command>rvm 1.9.3@protk-1.2.0 do pepxml_to_table.rb $input_file -o $output</command>
+<command>rvm 1.9.3@protk-1.2.2 do pepxml_to_table.rb $input_file -o $output</command>
 
 
 <inputs>
--- a/protein_prophet.xml	Thu Jun 06 01:33:00 2013 -0400
+++ b/protein_prophet.xml	Thu Jun 06 15:37:51 2013 +1000
@@ -1,6 +1,6 @@
 <tool id="proteomics_search_protein_prophet_1" name="Protein Prophet" version="1.0.1">
 	<requirements>
-	    <requirement type="package" version="1.2.0">galaxy_protk</requirement>
+	    <requirement type="package" version="1.2.2">galaxy_protk</requirement>
 	    <requirement type="package" version="4.6.1">trans_proteomic_pipeline</requirement>
    </requirements>
 
--- a/repository_dependencies.xml	Thu Jun 06 01:33:00 2013 -0400
+++ b/repository_dependencies.xml	Thu Jun 06 15:37:51 2013 +1000
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <repositories description="Proteomics datatypes and the TPP">
-	<repository toolshed="http://10.211.55.35:9009" name="galaxy_protk" owner="iracooke" changeset_revision="0a2b3dcc986c" prior_installation_required="True"/>
-   	<repository toolshed="http://10.211.55.35:9009" name="protk_trans_proteomic_pipeline" owner="iracooke" changeset_revision="1b05413630b2"/>
-	<repository toolshed="http://10.211.55.35:9009" name="proteomics_datatypes" owner="iracooke" changeset_revision="7049ac401bf6"/>
+	<repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="32c643142290" prior_installation_required="True"/>
+   	<repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="protk_trans_proteomic_pipeline" owner="iracooke" changeset_revision="5894fb541275"/>
+	<repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="proteomics_datatypes" owner="iracooke" changeset_revision="7101f7e4b00b"/>
  </repositories>
--- a/tool_dependencies.xml	Thu Jun 06 01:33:00 2013 -0400
+++ b/tool_dependencies.xml	Thu Jun 06 15:37:51 2013 +1000
@@ -1,11 +1,11 @@
 <?xml version="1.0"?>
 <tool_dependency>
-	<package name="galaxy_protk" version="1.2.0">
-         <repository toolshed="http://10.211.55.35:9009" name="galaxy_protk" owner="iracooke" changeset_revision="0a2b3dcc986c" prior_installation_required="True"/>
+	<package name="galaxy_protk" version="1.2.2">
+         <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="32c643142290" prior_installation_required="True"/>
     </package>
     
 	<package name="trans_proteomic_pipeline" version="4.6.1">
-        <repository toolshed="http://10.211.55.35:9009" name="protk_trans_proteomic_pipeline" owner="iracooke" changeset_revision="1b05413630b2"/>
+        <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="protk_trans_proteomic_pipeline" owner="iracooke" changeset_revision="5894fb541275"/>
     </package>
 
 </tool_dependency>