Mercurial > repos > yufei-luo > s_mart

diff smart_toolShed/SMART/galaxy/ConvertTranscriptFile_BedToGff3.xml @ 0:e0f8dcca02ed

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
author yufei-luo
date Thu, 17 Jan 2013 10:52:14 -0500
parents
children
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/smart_toolShed/SMART/galaxy/ConvertTranscriptFile_BedToGff3.xml	Thu Jan 17 10:52:14 2013 -0500
@@ -0,0 +1,15 @@
+<tool id="ConvertTranscriptFile_BedToGff3" name="Bed -> Gff3">
+  <description>Convert Bed File to Gff3 File.</description>
+  <command interpreter="python"> ../Java/Python/convertTranscriptFile.py -i $inputFile -f bed -o $outputFile -g gff3 yes 2>$logFile </command>
+  <inputs>
+    <param name="inputFile" type="data" label="Input File" format="bed"/>
+  </inputs>
+
+  <outputs>
+    <data format="gff3" name="outputFile" label="[bed -> gff3] Output File"/>
+    <data format="txt" name="logFile" label="[bed -> gff3] Log File"/>
+  </outputs>
+
+  <help>
+  </help>
+</tool>