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

<tool id="EMBOSS: iep45" name="iep" version="5.0.0">
  <description>Calculates the isoelectric point of a protein</description>
  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
  <command>iep -sequence $input1 -outfile $out_file1 -step $step -amino $amino -graph png -termini $termini -auto</command>
  <inputs>
    <param format="data" name="input1" type="data">
      <label>Sequences</label>
    </param>
    <param name="step" size="5" type="text" value=".5">
      <label>Step value for pH</label>
    </param>
    <param name="amino" size="5" type="text" value="1">
      <label>Number of N-termini</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="iep" name="out_file1" />
  </outputs>
  <tests>
    <test>
      <param name="input1" value="2.fasta"/>
      <param name="step" value="0.5"/>
      <param name="amino" value="1"/>
      <param name="termini" value="yes"/>
      <output name="out_file1" file="emboss_iep_out.iep"/>
    </test>
  </tests>
  <help>
    You can view the original documentation here_.
    
    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/iep.html
  </help>
</tool>