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comparison multiple_to_gd_genotype.xml @ 27:8997f2ca8c7a

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Update to Miller Lab devshed revision bae0d3306d3b
author Richard Burhans <burhans@bx.psu.edu>
date Mon, 15 Jul 2013 10:47:35 -0400
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26:91e835060ad2 27:8997f2ca8c7a
1 <tool id="gd_multiple_to_gd_genotype" name="Multiple" version="1.0.0">
2 <description>: to gd_genotype</description>
3
4 <command interpreter="python">
5 #import base64
6 #set species_arg = base64.b64encode(str($species))
7 multiple_to_gd_genotype.py --input '$input' --output '$output' --dbkey '$dbkey' --species '$species_arg' --format '$input_format'
8 </command>
9
10 <inputs>
11 <param name="input" type="data" format="txt" label="Input dataset" />
12
13 <param name="input_format" type="select" label="Input format">
14 <option value="csv" selected="true">csv</option>
15 <option value="fstat">fstat</option>
16 <option value="genepop">genepop</option>
17 <option value="vcf">vcf</option>
18 </param>
19
20 <param name="species" type="text" label="Species">
21 <sanitizer>
22 <valid initial="string.printable"/>
23 </sanitizer>
24 </param>
25
26 <param name="dbkey" type="genomebuild" label="Genome" />
27 </inputs>
28
29 <outputs>
30 <data name="output" format="gd_genotype" />
31 </outputs>
32
33 <!--
34 <tests>
35 <test>
36 <param name="input" value="test_in/sample.gd_snp" ftype="gd_snp" />
37 <param name="p1_input" value="test_in/a.gd_indivs" ftype="gd_indivs" />
38 <param name="lo_coverage" value="0" />
39 <param name="hi_coverage" value="1000" />
40 <param name="low_ind_cov" value="3" />
41 <param name="lo_quality" value="30" />
42 <output name="output" file="test_out/modify_snp_table/modify.gd_snp" />
43 </test>
44 </tests>
45 -->
46
47 <help>
48
49 **Dataset formats**
50
51 -----
52
53 **What it does**
54
55 -----
56
57 **Example**
58
59 </help>
60 </tool>