Mercurial > repos > yufei-luo > s_mart

diff SMART/galaxy/ConvertTranscriptFile_SamToGff2.xml @ 6:769e306b7933

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author yufei-luo
date Fri, 18 Jan 2013 04:54:14 -0500
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/SMART/galaxy/ConvertTranscriptFile_SamToGff2.xml	Fri Jan 18 04:54:14 2013 -0500
@@ -0,0 +1,15 @@
+<tool id="ConvertTranscriptFile_SamToGff2" name="Sam -> Gff2">
+  <description>Convert Sam File to Gff2 File.</description>
+  <command interpreter="python"> ../Java/Python/convertTranscriptFile.py -i $inputFile -f sam -o $outputFile -g gff2 yes 2>$logFile </command>
+  <inputs>
+    <param name="inputFile" type="data" label="Input File" format="sam"/>
+  </inputs>
+
+  <outputs>
+    <data format="gff" name="outputFile" label="[sam -> gff2] Output File"/>
+    <data format="txt" name="logFile" label="[sam -> gff2] Log File"/>
+  </outputs>
+
+  <help>
+  </help>
+</tool>