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comparison shuffling.xml @ 0:fae6527990af draft

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Imported from capsule None
author iuc
date Thu, 21 May 2015 03:58:09 -0400
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children f29e21388219
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-1:000000000000 0:fae6527990af
1 <tool id="vsearch_shuffling" name="VSearch shuffling" version="@VERSION@.0">
2 <description></description>
3 <macros>
4 <import>vsearch_macros.xml</import>
5 </macros>
6 <expand macro="requirements" />
7 <expand macro="stdio" />
8 <expand macro="version_command" />
9 <command>
10 <![CDATA[
11 vsearch
12 @GENERAL@
13 --output $outfile
14 --seed $seed
15 --shuffle $infile
16 --topn $topn
17 ]]>
18 </command>
19 <inputs>
20 <param name="infile" type="data" format="fasta" label="Select your FASTA file" help="(--shuffle)" />
21 <param name="seed" type="integer" value="0" label="Seed"
22 help="Zero to use random data source. (--seed)"/>
23 <expand macro="topn" />
24 </inputs>
25 <outputs>
26 <data name="outfile" format="fasta" label="${tool.name} on ${on_string}" />
27 </outputs>
28 <tests>
29 <test>
30 <param name="infile" value="db.fasta" ftype="fasta" />
31 <param name="seed" value="1"/>
32 <param name="topn" value="5"/>
33 <output name="outfile" file="shuffling_result1.fasta" ftype="fasta" />
34 </test>
35 </tests>
36 <help>
37 <![CDATA[
38 **What it does**
39
40 Sequence shuffling to obtain new random sequences.
41
42 Shuffling options
43 --output FILENAME output to specified FASTA file
44 --seed INT seed for PRNG, zero to use random data source (0)
45 --shuffle FILENAME shuffle order of sequences pseudo-randomly
46 --topn INT output just first n sequences
47
48
49 @EXTERNAL_DOCUMENTATION@
50
51 -------
52
53 @REFERENCES@
54
55
56 ]]>
57 </help>
58 <expand macro="citations" />
59 </tool>