Mercurial > repos > yufei-luo > s_mart

comparison SMART/galaxy/getExons.xml @ 18:94ab73e8a190

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author m-zytnicki
date Mon, 29 Apr 2013 03:20:15 -0400
parents 440ceca58672
children 0ab839023fe4
comparison
equal deleted inserted replaced
17:b0e8584489e6 18:94ab73e8a190
1 <tool id="getExons" name="get exons"> 1 <tool id="getExons" name="get exons">
2 <description>Get the exons of a set of transcripts.</description> 2 <description>Get the exons of a set of transcripts.</description>
3 <requirements>
4 <requirement type="set_environment">PYTHONPATH</requirement>
5 </requirements>
3 <command interpreter="python"> 6 <command interpreter="python">
4 ../Java/Python/getExons.py -i $formatType.inputFileName 7 ../Java/Python/getExons.py -i $formatType.inputFileName
5 #if $formatType.FormatInputFileName == 'bed': 8 #if $formatType.FormatInputFileName == 'bed':
6 -f bed 9 -f bed
7 #elif $formatType.FormatInputFileName == 'gff': 10 #elif $formatType.FormatInputFileName == 'gff':
65 </when> 68 </when>
66 </conditional> 69 </conditional>
67 </inputs> 70 </inputs>
68 71
69 <outputs> 72 <outputs>
70 <data format="gff3" name="outputFileGff" label="[getExons -> gff3] Output File"/> 73 <data format="gff3" name="outputFileGff" label="[get exons] output file"/>
71 </outputs> 74 </outputs>
72 <tests> 75 <tests>
73 <test> 76 <test>
74 <param name="FormatInputFileName" value="gtf" /> 77 <param name="FormatInputFileName" value="gtf" />
75 <param name="inputFileName" value="genes.gtf" /> 78 <param name="inputFileName" value="genes.gtf" />