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comparison sixframe_translate.xml @ 0:d3850859bc50 draft

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author iracooke
date Sat, 14 Jun 2014 18:22:33 -0400
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1 <tool id="sixframe_translate" name="Generate 6-frame translation" version="1.0.0">
2 <requirements>
3 <requirement type="package" version="1.3">protk</requirement>
4 </requirements>
5
6 <description>Translates DNA/RNA to protein</description>
7
8 <command>
9 sixframe.rb $fasta_file -o $output $strip_header $coords
10 </command>
11
12
13
14
15 <stdio>
16 <exit_code range="1:" level="fatal" description="Failure" />
17 </stdio>
18
19 <inputs>
20 <param name="fasta_file" type="data" format="fasta" label="Uploaded FASTA file" />
21 <param name="strip_header" type="boolean" label="Strip header info" help="" truevalue="--strip-header" falsevalue="" />
22 <param name="coords" type="boolean" label="Write genomic coordinates" help="" truevalue="--coords" falsevalue="" />
23 </inputs>
24
25 <outputs>
26 <data format="fasta" name="output" />
27 </outputs>
28
29
30 <help>
31
32 **What it does**
33
34 Generates 6 frame translations suitable for proteogenomics workflows
35
36 ----
37
38 **References**
39
40
41 </help>
42
43 </tool>