Mercurial > repos > jjkoehorst > sapp

diff sappDocker/ipath.xml @ 31:957156367442 draft

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author jjkoehorst
date Wed, 29 Jun 2016 01:36:58 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/sappDocker/ipath.xml	Wed Jun 29 01:36:58 2016 -0400
@@ -0,0 +1,39 @@
+<tool id="DIPath" name="iPath" version="2.01">
+	<description>iPath Generator</description>
+	<requirements>
+		<container type="docker">jjkoehorst/sappdocker:IPATH</container>
+	</requirements>
+	<command interpreter="docker">java -jar /ipath/target/iPath-0.0.1-SNAPSHOT-jar-with-dependencies.jar 
+		#if $conditional.source_select==&quot;single&quot;
+			-group1 '$conditional.input'
+		#else
+			-group1 $conditional.input1
+			-group2 $conditional.input2
+		#end if
+		-o &quot;$outfile&quot; -format TURTLE
+	</command>
+	<inputs>
+		<param label="Priam E-Value cutoff" name="Evalue" optional="False" size="60" type="float" value="1E-1"/>
+		<conditional name="conditional">
+			<param label="Analysis method" name="source_select" type="select">
+				<option value="single">Single genome</option>
+				<option value="group">Group comparison</option>
+			</param>
+			<when value="single">
+				<param format="ttl" label="RDF Genome file" name="input" type="data"/>
+			</when>
+			<when value="group">
+				<param format="rdf" label="RDF Genome file for group 1" multiple="True" name="input1" type="data"/>
+				<param format="rdf" label="RDF Genome file for group 2" multiple="True" name="input2" type="data"/>
+			</when>
+		</conditional>
+	</inputs>
+	<outputs>
+		<data format="tsv" label="iPath comparison" name="outfile"/>
+	</outputs>
+	<help>GROUP 1: #FF0000
+GROUP 2: #0000FF
+BOTH: #00FF00
+
+</help>
+</tool>
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