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annotate 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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children 184d14e4270d
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1 <tool id="gd_multiple_to_gd_genotype" name="Multiple" version="1.0.0">
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2 <description>: to gd_genotype</description>
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3
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4 <command interpreter="python">
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5 #import base64
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6 #set species_arg = base64.b64encode(str($species))
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7 multiple_to_gd_genotype.py --input '$input' --output '$output' --dbkey '$dbkey' --species '$species_arg' --format '$input_format'
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8 </command>
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9
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10 <inputs>
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11 <param name="input" type="data" format="txt" label="Input dataset" />
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12
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13 <param name="input_format" type="select" label="Input format">
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14 <option value="csv" selected="true">csv</option>
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15 <option value="fstat">fstat</option>
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16 <option value="genepop">genepop</option>
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17 <option value="vcf">vcf</option>
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18 </param>
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19
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20 <param name="species" type="text" label="Species">
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21 <sanitizer>
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22 <valid initial="string.printable"/>
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23 </sanitizer>
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24 </param>
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25
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26 <param name="dbkey" type="genomebuild" label="Genome" />
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27 </inputs>
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28
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29 <outputs>
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30 <data name="output" format="gd_genotype" />
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31 </outputs>
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32
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33 <!--
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34 <tests>
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35 <test>
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36 <param name="input" value="test_in/sample.gd_snp" ftype="gd_snp" />
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37 <param name="p1_input" value="test_in/a.gd_indivs" ftype="gd_indivs" />
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38 <param name="lo_coverage" value="0" />
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39 <param name="hi_coverage" value="1000" />
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40 <param name="low_ind_cov" value="3" />
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41 <param name="lo_quality" value="30" />
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42 <output name="output" file="test_out/modify_snp_table/modify.gd_snp" />
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43 </test>
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44 </tests>
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45 -->
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46
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47 <help>
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48
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49 **Dataset formats**
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50
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51 -----
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52
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53 **What it does**
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54
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55 -----
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56
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57 **Example**
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58
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59 </help>
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60 </tool>