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

<tool id="EMBOSS: pepstats71" name="pepstats" version="5.0.0">
  <description>Protein statistics</description>
  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
  <command>pepstats -sequence $input1 -outfile $out_file1 -termini $termini -auto</command>
  <inputs>
    <param format="data" name="input1" type="data">
      <label>Sequence</label>
    </param>
    <param name="termini" type="select">
      <label>Include charge at N and C terminus</label>
      <option value="yes">Yes</option>
      <option value="no">No</option>
    </param>
  </inputs>
  <outputs>
    <data format="pepstats" name="out_file1" />
  </outputs>
  <tests>
    <test>
      <param name="input1" value="2.fasta"/>
      <param name="termini" value="yes"/>
      <output name="out_file1" file="emboss_pepstats_out.pepstats"/>
    </test>
  </tests>
  <help>
    You can view the original documentation here_.
    
    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/pepstats.html
  </help>
</tool>