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annotate vcfcombine.xml @ 2:18f9f2624bd6 draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/vcflib/vcfcombine commit 0b9b6512272b82637c2f1e831367e89aed77ae79
author devteam
date Thu, 15 Sep 2016 16:04:40 -0400
parents 55ca04702702
children 53edb91ed051
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18f9f2624bd6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/vcflib/vcfcombine commit 0b9b6512272b82637c2f1e831367e89aed77ae79
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1 <tool id="vcfcombine" name="VCFcombine:" version="@WRAPPER_VERSION@.0">
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2 <description>Combine multiple VCF datasets</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 </macros>
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6 <expand macro="requirements"/>
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7 <expand macro="stdio" />
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8 <command>
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9 vcfcombine
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11 #for $input_vcf in $input_vcfs:
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12 "${input_vcf}"
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13 #end for
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15 > "${out_file1}"
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17 </command>
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18 <inputs>
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devteam
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19 <param name="input_vcfs" type="data" format="vcf" label="Select VCF Datasets" min="2" multiple="True"/>
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20 </inputs>
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21 <outputs>
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22 <data format="vcf" name="out_file1" />
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23 </outputs>
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24 <tests>
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25 <test>
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26 <param name="input_vcfs" value="vcflib.vcf,vcflib.vcf" ftype="vcf"/>
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27 <output name="out_file1" file="vcfcombine-test1.vcf"/>
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28 </test>
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29 </tests>
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30 <help>
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18f9f2624bd6 planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/vcflib/vcfcombine commit 0b9b6512272b82637c2f1e831367e89aed77ae79
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32 Combines VCF files positionally, combining samples when sites and alleles are identical. Any number of VCF files may be combined. The INFO field and other columns are taken from one of the files, which are combined when records in multiple files match. Alleles must have identical ordering to be combined into one record. If they do not, multiple records will be emitted.
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34 -----
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36 Vcfcombine @IS_PART_OF_VCFLIB@
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37 </help>
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38 <expand macro="citations" />
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39 </tool>