<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/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>