Mercurial > repos > miller-lab > genome_diversity
comparison modify_snp_table.xml @ 7:e29f4d801bb0
change wsf -> snp; wpf -> sap
author | Richard Burhans <burhans@bx.psu.edu> |
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date | Wed, 18 Apr 2012 11:12:21 -0400 |
parents | 2c498d40ecde |
children | 9b92372de9f6 |
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6:626b714f72bb | 7:e29f4d801bb0 |
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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="wsf" label="SNP table" /> | 18 <param name="input" type="data" format="snp" 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="wsf" metadata_source="input" /> | 36 <data name="output" format="snp" 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.wsf" ftype="wsf" /> | 41 <param name="input" value="test_in/sample.snp" ftype="snp" /> |
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.wsf" /> | 48 <output name="output" file="test_out/modify_snp_table/modify.snp" /> |
49 </test> | 49 </test> |
50 </tests> | 50 </tests> |
51 | 51 |
52 <help> | 52 <help> |
53 **What it does** | 53 **What it does** |