view emboss_tcode.xml @ 17:bde3097ac0f6 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit d5dfff2cd58b094e0e4a6f8dc475de5facd9700b"

<tool id="EMBOSS: tcode97" name="tcode" version="@VERSION@.1">
  <description>Fickett TESTCODE statistic to identify protein-coding DNA</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements" />
  <code file="emboss_format_corrector.py" />
  <command>tcode -sequence '$input1' -outfile '$out_file1' -window $window -step $step -rformat $out_format1 -auto</command>
  <inputs>
    <param name="input1" type="data" format="data" label="Sequence" />
    <param name="window" type="integer" value="200" label="Window size" />
    <param name="step" type="integer" value="3" label="Step size" />
    <param name="out_format1" type="select" label="Output report file format">
      <option value="table">Table</option>
      <option value="embl">EMBL</option>
      <option value="genbank">GENBANK</option>
      <option value="gff">GFF</option>
      <option value="pir">PIR</option>
      <option value="swiss">SwissProt</option>
      <option value="dbmotif">DbMotif</option>
      <option value="diffseq">Diffseq</option>
      <option value="excel">Excel (tab delimited)</option>
      <option value="feattable">FeatTable</option>
      <option value="motif">Motif</option>
      <option value="regions">Regions</option>
      <option value="seqtable">SeqTable</option>
      <option value="simple">SRS Simple</option>
      <option value="srs">SRS</option>
      <option value="tagseq">TagSeq</option>
    </param>
  </inputs>
  <outputs>
    <data name="out_file1" format="table" />
  </outputs>
  <help>
    You can view the original documentation here_.

    .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/tcode.html
  </help>
  <expand macro="citations" />
</tool>