Mercurial > repos > yufei-luo > differential_expression_analysis_pipeline_for_rnaseq_data

diff deseq/differential_expression_analysis_pipeline_for_rnaseq_data-a03838a6eb54/DiffExpAnal/countNumber_parallel.xml @ 10:6e573fd3c41b draft

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author yufei-luo
date Mon, 13 May 2013 10:06:30 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/deseq/differential_expression_analysis_pipeline_for_rnaseq_data-a03838a6eb54/DiffExpAnal/countNumber_parallel.xml	Mon May 13 10:06:30 2013 -0400
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+<tool id="countNumber_parallel" name="countNumber_parallel">
+
+	<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>