view multiple_to_gd_genotype.xml @ 27:8997f2ca8c7a

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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children 184d14e4270d
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<tool id="gd_multiple_to_gd_genotype" name="Multiple" version="1.0.0">
  <description>: to gd_genotype</description>

  <command interpreter="python">
    #import base64
    #set species_arg = base64.b64encode(str($species))
    multiple_to_gd_genotype.py --input '$input' --output '$output' --dbkey '$dbkey' --species '$species_arg' --format '$input_format'
  </command>

  <inputs>
    <param name="input" type="data" format="txt" label="Input dataset" />

    <param name="input_format" type="select" label="Input format">
      <option value="csv" selected="true">csv</option>
      <option value="fstat">fstat</option>
      <option value="genepop">genepop</option>
      <option value="vcf">vcf</option>
    </param>

    <param name="species" type="text" label="Species">
      <sanitizer>
        <valid initial="string.printable"/>
      </sanitizer>
    </param>

    <param name="dbkey" type="genomebuild" label="Genome" />
  </inputs>

  <outputs>
    <data name="output" format="gd_genotype" />
  </outputs>

  <!--
  <tests>
    <test>
      <param name="input" value="test_in/sample.gd_snp" ftype="gd_snp" />
      <param name="p1_input" value="test_in/a.gd_indivs" ftype="gd_indivs" />
      <param name="lo_coverage" value="0" />
      <param name="hi_coverage" value="1000" />
      <param name="low_ind_cov" value="3" />
      <param name="lo_quality" value="30" />
      <output name="output" file="test_out/modify_snp_table/modify.gd_snp" />
    </test>
  </tests>
  -->

  <help>

**Dataset formats**

-----

**What it does**

-----

**Example**

  </help>
</tool>