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 <tool id="covacs_tabix" name="covacs_tabix" version="0.2.6">
  <description> tabix wrapper for covacs </description>
  <macros>
  </macros>
  <requirements>
  	<requirement type="package" version="0.2.6" >tabix</requirement>
  </requirements>
  <command>
    <![CDATA[
	
        ln -s $input1 covacs.vcf &&

	bgzip covacs.vcf &&
	tabix covacs.vcf.gz           

	]]>
  </command>
  <inputs>
    <param format="vcf" name="input1" label="input vcf " type="data" optional="true" />
  </inputs>
  <outputs>
    <data format="bgzip" name="bgzip_output" from_work_dir="covacs.vcf.gz" label="bgzip on ${on_string}"/>
    <data format="tabix" name="tabix_output" from_work_dir="covacs.vcf.gz.tbi" label="tabix on ${on_string}"/>
  </outputs>
  <help>
The final output of the wrapper  consists of two files

- file.vcf.gz from bgzip
- file.vcf.gz.tbi from tabix

**more informations** at http://www.htslib.org/doc/tabix.html
  </help>
  <citations>
        <citation type="doi">10.1186/s12864-018-4508-1</citation>
        <citation type="doi">10.1093/bioinformatics/btq671</citation>
  </citations>
</tool>