Mercurial > repos > davidvanzessen > combined_immune_repertoire_pipeline

diff combined.xml @ 3:2b1d3d6843e8 draft

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author davidvanzessen
date Fri, 22 Nov 2013 08:12:46 -0500
parents 4e3df2384422
children
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--- a/combined.xml	Fri Nov 22 08:12:40 2013 -0500
+++ b/combined.xml	Fri Nov 22 08:12:46 2013 -0500
@@ -6,13 +6,20 @@
 			${f.file}
 			${f.id}
 		#end for
-		$out_file $out_file.files_path
+		"$clonaltype_select" $out_file $out_file.files_path
 	</command>
 	<inputs>
 		<repeat name="files" title="File" min="1" default="1">
 			<param name="file" format="fasta" type="data" label="Data to Process" />
 			<param name="id" type="text" label="ID" />
 		</repeat>
+		<param name="clonaltype_select" type="select" label="Clonal Type Definition">
+			<option value="Top.V.Gene,CDR3.Seq">Top.V.Gene, CDR3.Seq</option>
+			<option value="Top.V.Gene,CDR3.Seq.DNA">Top.V.Gene, CDR3.Seq.DNA</option>
+			<option value="Top.V.Gene,Top.J.Gene,CDR3.Seq">Top.V.Gene, Top.J.Gene, CDR3.Seq</option>
+			<option value="Top.V.Gene,Top.J.Gene,CDR3.Seq.DNA">Top.V.Gene, Top.J.Gene, CDR3.Seq.DNA</option>
+			<option value="Top.V.Gene,Top.D.Gene,Top.J.Gene,CDR3.Seq.DNA">Top.V.Gene, Top.D.Gene, Top.J.Gene, CDR3.Seq.DNA</option>
+		</param>
 	</inputs>
 	<outputs>
 		<data format="html" name="out_file" />