# HG changeset patch
# User pieter.lukasse@wur.nl
# Date 1396014226 -3600
# Node ID d56c18ed0f77eec821b64f20b60e837473f955e4
# Parent  33962926e2605ca1cd973f5b76cc16d0f2eb1e5b
fix in comment and in configuration

diff -r 33962926e260 -r d56c18ed0f77 napq.xml
--- a/napq.xml	Fri Mar 21 14:28:27 2014 +0100
+++ b/napq.xml	Fri Mar 28 14:43:46 2014 +0100
@@ -20,7 +20,7 @@
 	
 	<inputs>
 
-   		<repeat name="identificationFileList" title="Peptide identification files" help="Full set of MS/MS peptide identification files, including peptides that could not be quantified.">
+   		<repeat name="identificationFileList" title="Peptide identification files" help="Set of MS/MS peptide identification files that have some form of quantification data coupled to it (e.g. MSE identifications&amp;intensity).">
    			<param name="identificationsFile" type="data" format="apml,mzidentml,prims.fileset.zip" label="Identifications file (APML or MZIDENTML or MZIDENTML fileSet)" />
    		</repeat>
 
@@ -50,7 +50,7 @@
 		<configfile name="identificationsConfigFile">## start comment
 		## iterate over the selected files and store their names in the config file
 		#for $i, $s in enumerate( $identificationFileList )
-			${s.identificationsFile}|${s.spectraFile}
+			${s.identificationsFile}
 			## also print out the datatype in the next line, based on previously configured datatype
 			#if isinstance( $s.identificationsFile.datatype, $__app__.datatypes_registry.get_datatype_by_extension('apml').__class__):
 				apml