root/galaxy-central/tools/emboss_5/emboss_chips.xml

<tool id="EMBOSS: chips10" name="chips" version="5.0.0">
  <description>Codon usage statistics</description>
  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
  <command>chips -seqall $input1 -outfile $out_file1 -sum $sum -auto</command>
  <inputs>
    <param format="data" name="input1" type="data">
      <label>On query</label>
    </param>
    <param name="sum" type="select">
      <label>Sum codons over all sequences</label>
      <option value="yes">Yes</option>
      <option value="no">No</option>
    </param>
  </inputs>
  <outputs>
    <data format="chips" name="out_file1" />
  </outputs>
  <tests>
    <test>
      <param name="input1" value="2.fasta"/>
      <param name="sum" value="yes"/>
      <output name="out_file1" file="emboss_chips_out.chips"/>
    </test>
  </tests>
  <help>
    You can view the original documentation here_.
    
    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/chips.html
  </help>
</tool>