Mercurial > repos > miller-lab > genome_diversity

comparison modify_snp_table.xml @ 10:9b92372de9f6

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
rename snp to gsSnp, sap to gdSap
author Richard Burhans <burhans@bx.psu.edu>
date Tue, 04 Sep 2012 12:49:53 -0400
parents e29f4d801bb0
children
comparison
equal deleted inserted replaced
9:22fe0154fa54 10:9b92372de9f6
13 "$arg" 13 "$arg"
14 #end for 14 #end for
15 </command> 15 </command>
16 16
17 <inputs> 17 <inputs>
18 <param name="input" type="data" format="snp" label="SNP table" /> 18 <param name="input" type="data" format="gdSnp" label="SNP table" />
19 <param name="p1_input" type="data" format="ind" label="Population individuals" /> 19 <param name="p1_input" type="data" format="ind" label="Population individuals" />
20 <conditional name="limit_coverage"> 20 <conditional name="limit_coverage">
21 <param name="choice" type="select" format="integer" label="Option"> 21 <param name="choice" type="select" format="integer" label="Option">
22 <option value="0" selected="true">add columns to the SNP table</option> 22 <option value="0" selected="true">add columns to the SNP table</option>
23 <option value="1">discard some SNPs</option> 23 <option value="1">discard some SNPs</option>
31 </when> 31 </when>
32 </conditional> 32 </conditional>
33 </inputs> 33 </inputs>
34 34
35 <outputs> 35 <outputs>
36 <data name="output" format="snp" metadata_source="input" /> 36 <data name="output" format="gdSnp" metadata_source="input" />
37 </outputs> 37 </outputs>
38 38
39 <tests> 39 <tests>
40 <test> 40 <test>
41 <param name="input" value="test_in/sample.snp" ftype="snp" /> 41 <param name="input" value="test_in/sample.gdSnp" ftype="gdSnp" />
42 <param name="p1_input" value="test_in/a.ind" ftype="ind" /> 42 <param name="p1_input" value="test_in/a.ind" ftype="ind" />
43 <param name="choice" value="1" /> 43 <param name="choice" value="1" />
44 <param name="lo_coverage" value="0" /> 44 <param name="lo_coverage" value="0" />
45 <param name="hi_coverage" value="1000" /> 45 <param name="hi_coverage" value="1000" />
46 <param name="low_ind_cov" value="3" /> 46 <param name="low_ind_cov" value="3" />
47 <param name="lo_quality" value="30" /> 47 <param name="lo_quality" value="30" />
48 <output name="output" file="test_out/modify_snp_table/modify.snp" /> 48 <output name="output" file="test_out/modify_snp_table/modify.gdSnp" />
49 </test> 49 </test>
50 </tests> 50 </tests>
51 51
52 <help> 52 <help>
53 **What it does** 53 **What it does**