view emboss_pepcoil.xml @ 10:d49956b87f7e draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1

<tool id="EMBOSS: pepcoil68" name="pepcoil" version="5.0.0.1">
  <description>Predicts coiled coil regions</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements" />
  <command>pepcoil -sequence '$input1' -outfile '$out_file1' -window $window -coil $coil -frame $frame -other $other -auto</command>
  <inputs>
    <param name="input1" type="data" format="data" label="Sequence" />
    <param name="window" type="integer" value="28" label="Window size" />
    <param name="coil" type="select" label="Report coiled coil regions">
      <option value="yes">Yes</option>
      <option value="no">No</option>
    </param>
    <param name="frame" type="select" label="Show coil frameshifts">
      <option value="yes">Yes</option>
      <option value="no">No</option>
    </param>
    <param name="other" type="select" label="Report non coiled coil regions">
      <option value="yes">Yes</option>
      <option value="no">No</option>
    </param>
  </inputs>
  <outputs>
    <data name="out_file1" format="pepcoil" />
  </outputs>
  <tests>
    <test>
      <param name="input1" value="2.fasta"/>
      <param name="window" value="28"/>
      <param name="coil" value="yes"/>
      <param name="frame" value="yes"/>
      <param name="other" value="yes"/>
      <output name="out_file1" file="emboss_pepcoil_out.pepcoil"/>
    </test>
  </tests>
  <help>
    You can view the original documentation here_.

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