# HG changeset patch
# User pieter.lukasse@wur.nl
# Date 1388657841 -3600
# Node ID 8cc1f1e012325cfc4e2ae86745ea2cd2dd875a75
# Parent  7f32cebfdf8538e200b422f45b5805e5d98be616
fixed fileset file type

diff -r 7f32cebfdf85 -r 8cc1f1e01232 msfilt.xml
--- a/msfilt.xml	Tue Dec 31 12:39:29 2013 +0100
+++ b/msfilt.xml	Thu Jan 02 11:17:21 2014 +0100
@@ -37,8 +37,8 @@
    		               SEDMAT or Quantiline tools." />
    		
    		<repeat name="annotationSourceFiles" title="(Optional) Peptide identification files" help="Full set of MS/MS peptide identification files, including peptides that could not be quantified.">
-   			<param name="identificationsFile" type="data" format="apml,mzidentml,mscfileset" label="Identifications file (APML or MZIDENTML or MZIDENTML fileSet)" />
-   			<param name="spectraFile" type="data" format="mzidentml,mscfileset" optional="true" label="(Optional) Spectra fileSet (mzml file or fileSet)"
+   			<param name="identificationsFile" type="data" format="apml,mzidentml,prims.fileset.zip" label="Identifications file (APML or MZIDENTML or MZIDENTML fileSet)" />
+   			<param name="spectraFile" type="data" format="mzidentml,prims.fileset.zip" optional="true" label="(Optional) Spectra fileSet (mzml file or fileSet)"
    				   help="Select this in case your Identifications file is MZIDENTML or MZIDENTML fileSet" />
    		</repeat>
    		
diff -r 7f32cebfdf85 -r 8cc1f1e01232 napq.xml
--- a/napq.xml	Tue Dec 31 12:39:29 2013 +0100
+++ b/napq.xml	Thu Jan 02 11:17:21 2014 +0100
@@ -21,8 +21,8 @@
 	<inputs>
 
    		<repeat name="identificationFileList" title="Peptide identification files" help="Full set of MS/MS peptide identification files, including peptides that could not be quantified.">
-   			<param name="identificationsFile" type="data" format="apml,mzidentml,mscfileset" label="Identifications file (APML or MZIDENTML or MZIDENTML fileSet)" />
-   			<param name="spectraFile" type="data" format="mzidentml,mscfileset" optional="true" label="(Optional) Spectra fileSet (mzml file or fileSet)"
+   			<param name="identificationsFile" type="data" format="apml,mzidentml,prims.fileset.zip" label="Identifications file (APML or MZIDENTML or MZIDENTML fileSet)" />
+   			<param name="spectraFile" type="data" format="mzidentml,prims.fileset.zip" optional="true" label="(Optional) Spectra fileSet (mzml file or fileSet)"
    				   help="Select this in case your Identifications file is MZIDENTML or MZIDENTML fileSet" />
    		</repeat>
 
diff -r 7f32cebfdf85 -r 8cc1f1e01232 quantiline.xml
--- a/quantiline.xml	Tue Dec 31 12:39:29 2013 +0100
+++ b/quantiline.xml	Thu Jan 02 11:17:21 2014 +0100
@@ -17,8 +17,8 @@
 	</command>
 	<inputs>
 	 	
-	 	<param name="ppidsFileName" type="data" format="mscfileset" label="MS/MS peptide identifications fileSet (N mzidentml files)"/>
-	 	<param name="spectraDataFile" type="data" format="mscfileset" label="MS/MS spectra fileSet (N mzml files)"/>
+	 	<param name="ppidsFileName" type="data" format="prims.fileset.zip" label="MS/MS peptide identifications fileSet (N mzidentml files)"/>
+	 	<param name="spectraDataFile" type="data" format="prims.fileset.zip" label="MS/MS spectra fileSet (N mzml files)"/>
 		      		
 	 	<param name="labelMzValues" type="text" size="20" label="Label m/z values" 
 	 	help="e.g. for 4plexed iTRAQ : 114.0,115.0,116.0,117.0"/>
diff -r 7f32cebfdf85 -r 8cc1f1e01232 sedmat.xml
--- a/sedmat.xml	Tue Dec 31 12:39:29 2013 +0100
+++ b/sedmat.xml	Thu Jan 02 11:17:21 2014 +0100
@@ -73,8 +73,8 @@
 			    	<option value="mzid" selected="true">mzIdentML on mzML</option>
 				</param>
 				<when value="mzid">
-		      		<param name="spectraDataFile" type="data" format="mscfileset" label="MS/MS spectra fileSet (N mzml files)"/>
-		      		<param name="ppidsFile" type="data" format="mscfileset" label="MS/MS peptide identifications fileSet (N mzidentml files)"/>
+		      		<param name="spectraDataFile" type="data" format="prims.fileset.zip" label="MS/MS spectra fileSet (N mzml files)"/>
+		      		<param name="ppidsFile" type="data" format="prims.fileset.zip" label="MS/MS peptide identifications fileSet (N mzidentml files)"/>
 		      	</when>
 		      </conditional>
 		    </when>