--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/SMART/DiffExpAnal/countNumber_parallel.xml	Tue Apr 30 14:33:21 2013 -0400
@@ -0,0 +1,19 @@
+<tool id="countNumber_parallel" name="countNumber (for DEA)">
+
+	<description>Calculate the number of reads(annotations) overlapping for each transcript.</description>
+	<command interpreter="python"> countNumber_parallel.py -i $inputTxt -o $outputTxt $tar $outputTarFile
+	</command>
+
+	<inputs>
+		<param name="inputTxt" type="data" format="txt" label="Please choose your txt format file (which contains a list of gff3 overlapping results files)."/>		
+		<param name="tar" type="boolean" truevalue="-t" falsevalue="" checked="False" label="tar option" help="This option creates a tar file for all out results" />
+	</inputs>
+
+	<outputs>
+		<data format="txt" name="outputTxt" label="countNumber Output"/>
+		<data name="outputTarFile" format="tar">
+			<filter>tar</filter>
+		</data>
+	</outputs>
+
+</tool>