diff protein_prophet.xml @ 14:d90c8bc10a9c draft

Docker support and update for protk 1.4

--- a/protein_prophet.xml	Tue Jul 01 11:16:41 2014 -0400
+++ b/protein_prophet.xml	Thu Mar 26 19:55:19 2015 -0400
@@ -1,7 +1,8 @@
-<tool id="proteomics_search_protein_prophet_1" name="Protein Prophet" version="1.0.1">
+<tool id="proteomics_search_protein_prophet_1" name="Protein Prophet" version="1.1.0">
 	<requirements>
-	    <requirement type="package" version="1.3">protk</requirement>
-	    <requirement type="package" version="4.6.3">trans_proteomic_pipeline</requirement>
+            <container type="docker">iracooke/protk-1.4.1</container>
+	    <requirement type="package" version="1.4">protk</requirement>
+	    <requirement type="package" version="4.8.0">trans_proteomic_pipeline</requirement>
    </requirements>
 
   <description>Calculate Protein Prophet statistics on search results</description>
@@ -35,7 +36,6 @@
 	
     <param name="input_file" type="data" format="peptideprophet_pepxml,interprophet_pepxml" multiple="false" label="Peptide Prophet Results" help="These files will typically be outputs from peptide prophet or interprophet"/>
 
-
 	<param name="iproph" selected="true" type="boolean" label="Inputs are from iProphet" truevalue="--iprophet-input" falsevalue=""/>
 	<param name="nooccam" type="boolean" label="Don't apply Occam's razor" help="When selected no attempt will be made to derive the simplest protein list explaining observed peptides" truevalue="--no-occam" falsevalue=""/>
 	<param name="groupwts" type="boolean" label="Use group weights" help="Check peptide's total weight (rather than actual weight) in the Protein Group against the threshold" truevalue="--group-wts" falsevalue=""/>