view vcfflatten.xml @ 2:5f4be9e020d9 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/vcflib/vcfflatten commit c2af291b241e37e0a55adbc1fc72a9fa37d93582

<tool id="vcfflatten2" name="VCFflatten:" version="@WRAPPER_VERSION@+galaxy0">
  <description>Removes multi-allelic sites by picking the most common alternate</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements"/>
  <expand macro="stdio" />
  <command>vcfflatten "${input1}" > "${out_file1}"</command>
  <inputs>
    <param format="vcf" name="input1" type="data" label="Select VCF dataset"/>
  </inputs>
  <outputs>
    <data format="vcf" name="out_file1" />
  </outputs>
  <tests>
    <test>
      <param name="input1" value="vcfflatten-input1.vcf"/>
      <output name="out_file1" file="vcfflatten-test1.vcf"/>
    </test>
    </tests>
  <help>

Removes multi-allelic sites by picking the most common alternate.  Requires allele frequency specification 'AF' and use of 'G' and 'A' to specify the fields which vary according to the Allele or Genotype.

----

Vcfflatten @IS_PART_OF_VCFLIB@
</help>
  <expand macro="citations" />
</tool>