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comparison SMART/galaxy/CountReadGCPercent.xml @ 31:0ab839023fe4

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author m-zytnicki
date Tue, 30 Apr 2013 14:33:21 -0400
parents 94ab73e8a190
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30:5677346472b5 31:0ab839023fe4
1 <tool id="CountReadGCPercent" name="count read GC percent"> 1 <tool id="CountReadGCPercent" name="count read GCpercent">
2 <description>Count GC percent for each read against a genome.</description> 2 <description>Count GC percent for each read against a genome.</description>
3 <requirements>
4 <requirement type="set_environment">PYTHONPATH</requirement>
5 </requirements>
6 <command interpreter="python"> ../Java/Python/CountReadGCPercent.py -i $inputFastaFile -j $inputGffFile -o $outputFile</command> 3 <command interpreter="python"> ../Java/Python/CountReadGCPercent.py -i $inputFastaFile -j $inputGffFile -o $outputFile</command>
7 <inputs> 4 <inputs>
8 <param name="inputFastaFile" type="data" label="Input reference fasta File" format="fasta"/> 5 <param name="inputFastaFile" type="data" label="Input reference fasta File" format="fasta"/>
9 <param name="inputGffFile" type="data" label="Input File" format="gff3"/> 6 <param name="inputGffFile" type="data" label="Input File" format="gff3"/>
10 </inputs> 7 </inputs>
11 8
12 <outputs> 9 <outputs>
13 <data format="gff3" name="outputFile" label="[count read GC percent] Output File"/> 10 <data format="gff3" name="outputFile" label="[CountReadGCPercent] Output File"/>
14 </outputs> 11 </outputs>
15 12
16 <help> 13 <help>
17 Count the GC% of a FASTA file.
18 </help> 14 </help>
19 </tool> 15 </tool>
20 16