view vcfdistance.xml @ 2:5822b40f3037 draft default tip

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/vcflib/vcfdistance commit 36e9065027cc7bf721e9d203208477ee88906c57"

<tool id="vcfdistance" name="VCFdistance:" version="@WRAPPER_VERSION@+galaxy0">
  <description>Calculate distance to the nearest variant</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements"/>
  <expand macro="stdio" />
  <command>cat '${input1}' | vcfdistance > '${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="vcflib.vcf"/>
      <output name="out_file1" file="vcfdistance-test1.vcf"/>
    </test>
    </tests>
  <help>

Adds a value to each VCF record indicating the distance to the nearest variant in the file.

.. class:: infomark

The dataset used as input to this tool must be coordinate sorted. This can be achieved by either using the VCFsort utility or Galaxy's general purpose sort tool (in this case sort on the first and the second column in ascending order).

----

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