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comparison SMART/galaxy/WrappGetLetterDistribution.xml @ 6:769e306b7933

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author yufei-luo
date Fri, 18 Jan 2013 04:54:14 -0500
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children 440ceca58672
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5:ea3082881bf8 6:769e306b7933
1 <tool id="getLetterDistribution1" name="Get Letter Distribution">
2 <description>Calculate distribution for each nucleotide per position for all short reads (S-MART)</description>
3 <command interpreter="python">
4 WrappGetLetterDistribution.py -i $inputFileName
5 #if $formatType.FormatInputFileName == 'fasta':
6 -f fasta
7 #else :
8 -f fastq
9 #end if
10 -c $ouputFileNameCSV -a $ouputFileNamePNG1 -b $ouputFileNamePNG2
11 </command>
12 <inputs>
13 <conditional name="formatType">
14 <param name="FormatInputFileName" type="select" label="Input File Format">
15 <option value="fasta">fasta</option>
16 <option value="fastq" selected="true">fastq</option>
17 </param>
18 <when value="fasta">
19 <param name="inputFileName" format="fasta" type="data" label="Fasta Input File"/>
20 </when>
21 <when value="fastq">
22 <param name="inputFileName" format="fastq" type="data" label="Fastq Input File"/>
23 </when>
24 </conditional>
25 </inputs>
26
27 <outputs>
28 <data name="ouputFileNameCSV" format="tabular" label="[getLetterDistribution] CSV File"/>
29 <data name="ouputFileNamePNG1" format="png" label="[getLetterDistribution] PNG File 1"/>
30 <data name="ouputFileNamePNG2" format="png" label="[getLetterDistribution] PNG File 2"/>
31 </outputs>
32 </tool>
33