root/galaxy-central/tools/emboss_5/emboss_antigenic.xml

リビジョン 2, 2.0 KB (コミッタ: hatakeyama, 14 年 前)

import galaxy-central

行番号 
1<tool id="EMBOSS: antigenic1" name="antigenic" version="5.0.0">
2  <description>Predicts potentially antigenic regions of a protein sequence, using the method of Kolaskar and Tongaonkar.</description>
3  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
4  <command>antigenic -sequence $input1 -outfile $out_file1 -minlen $minlen -rformat2 $out_format1 -auto</command>
5  <inputs>
6    <param format="data" name="input1" type="data">
7      <label>On query</label>
8    </param>
9    <param name="minlen" size="4" type="text" value="6">
10      <label>Minimum Length of region</label>
11    </param>
12    <param name="out_format1" type="select">
13      <label>Output format</label>
14      <option value="gff">GFF</option>
15      <option value="pir">PIR</option>
16      <option value="swiss">SwissProt</option>
17      <option value="dbmotif">DbMotif</option>
18      <option value="diffseq">diffseq</option>
19      <option value="excel">Excel (TAB Delimited)</option>
20      <option value="feattable">FeatTable</option>
21      <option value="motif">Motif</option>
22      <option value="nametable">NameTable</option>
23      <option value="regions">Regions</option>
24      <option value="seqtable">SeqTable</option>
25      <option value="simple">SRS simple</option>
26      <option value="srs">SRS</option>
27      <option value="table">Table</option>
28      <option value="tagseq">Tagseq</option>
29      <option value="antigenic">Antigenic Output File</option>
30    </param>
31  </inputs>
32  <outputs>
33    <data format="antigenic" name="out_file1" />
34  </outputs>
35  <tests>
36    <test>
37      <param name="input1" value="2.fasta"/>
38      <param name="minlen" value="6"/>
39      <param name="out_format1" value="excel"/>
40      <output name="out_file1" file="emboss_antigenic_out.tabular"/>
41    </test>
42  </tests>
43  <code file="emboss_format_corrector.py" />
44  <help>
45    You can view the original documentation here_.
46   
47    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/antigenic.html
48  </help>
49</tool>
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