# HG changeset patch
# User pieter.lukasse@wur.nl
# Date 1418289977 -3600
# Node ID 5b1adc49700dc07ca128ffbcca2a8c8642a4a547
# Parent  684d2341968cfbce2e86ad7a8b88abae88a8950b
small adjustment

diff -r 684d2341968c -r 5b1adc49700d metams_lcms_pick_and_group.xml
--- a/metams_lcms_pick_and_group.xml	Thu Dec 11 10:10:18 2014 +0100
+++ b/metams_lcms_pick_and_group.xml	Thu Dec 11 10:26:17 2014 +0100
@@ -9,7 +9,7 @@
 	    $customMetaMSsettings
 	    $outputFile 
 	    $xsetOut
-	    $findAdducts_polarity
+	    $polarity
 	    $htmlReportFile
 	    $htmlReportFile.files_path
 	    $outputLog
@@ -20,6 +20,12 @@
 	<param name="protocolName" type="text" size="30" label="protocolName" value="e.g. Synapt.QTOF.RP" 
 		help="Choose a name to give for the specific settings in the parameters below"/><!-- TODO - let user choose this -->
 	
+	<param name="polarity" type="select" size="30" label="polarity" 
+		help="Which polarity mode was used for measuring of the ms sample">
+		<option value="positive" selected="true">positive</option>
+		<option value="negative" >negative</option>
+	</param>
+	
 	
 	<!-- ===========NB : if peak picking, alignment OR CAMERA settings have to be reused for runGC wrapper in the future, we can use Galaxy macro expansions here
 	                     to avoid defining these parameters again in the runGC wrapper ========================= -->
@@ -178,11 +184,6 @@
 	<param name="findIsotopes_minfrac" type="float" size="10" value="0.5" label="(findIsotopes)minfrac" 
 		help="The ratio for the number of samples, which must satisfy the C12/C13 rule for isotope annotation" />					
 	
-	<param name="findAdducts_polarity" type="select" size="30" label="(findAdducts)polarity" 
-		help="Which polarity mode was used for measuring of the ms sample">
-		<option value="positive" selected="true">positive</option>
-		<option value="negative" >negative</option>
-	</param>
 
 	<param name="findAdducts_multiplier" type="integer" size="10" value="3" label="(findAdducts)multiplier" 
 			help="If no ruleset is provided, calculate ruleset with max. number n of [nM+x] clusterions" />