view glang-galaxy-conf/gembassy/greporiter.xml @ 2:8947fca5f715 draft default tip

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<tool id="EMBOSS: greporiter" name="greporiter" version="1.0.2">
  <description>Gets the positions of replication origin and terminus</description>
  <command>greporiter -sequence $input1 -oriloc $oriloc -gcskew $gcskew -difthreshold $difthreshold -dbonly $dbonly -auto -noaccid -outfile $out_file1</command>
  <inputs>
  <param format="data" name="input1" type="data">
    <label>Sequence</label>
  </param>
    <param name="oriloc" type="select" value="no">
      <label>Include Oriloc for prediction</label>
      <option value="no">No</option>
      <option value="yes">Yes</option>
    </param>
    <param name="gcskew" type="select" value="no">
      <label>Include to use GC skew shift-point for prediction</label>
      <option value="no">No</option>
      <option value="yes">Yes</option>
    </param>
    <param name="difthreshold" size="4" type="integer" value="">
      <label>Distance between the GC skew shift point and predicted dif site expressed as the precentage of genome size, used as a threshold to retrieve dif sequence from the database</label>
    </param>
    <param name="dbonly" type="select" value="no">
      <label>Include to only use values available in databases and to suppress prediction</label>
      <option value="no">No</option>
      <option value="yes">Yes</option>
    </param>

  </inputs>
  <outputs>
    <data format="txt" name="out_file1" label="${tool.name} for ${input1.name}" />    
  </outputs>
</tool>