<tool id="macs2npk" name="mac2npk">
  <description>Convert MACS output peak file to ENCODE narrowPeak format</description>
  <command interpreter="bash">macs2npk.sh $input1 $output1</command>
  <inputs>
    <param format="narrowPeak" name="input1" type="data" label="Input MACS peak  file"/>
  </inputs>
  <outputs>
    <data format="txt" name="output1"/>
  </outputs>
  <tests>
    <test>
<!--
      <param name="input" value="fa_gc_content_input.fa"/>
      <output name="out_file1" file="fa_gc_content_output.txt"/>
-->
    </test>
  </tests>
  <help>
Convert MACS output peak files ( _peaks.xls ) to ENCODE narrowPeak format ( http://genome.ucsc.edu/FAQ/FAQformat#format12 ).  mac2npk is a part of the IDR package.  For more information about IDR, see https://sites.google.com/site/anshulkundaje/projects/idr.
  </help>
</tool>