comparison ProteinResolver.xml @ 11:95f90fab5ce8 draft

"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 55a2aeba8bfd8a6910630721de9857dcdfe05d3c"

10:f7ef238cc21e

        <option value="whitespace">whitespace</option>
        <expand macro="list_string_san"/>
      </param>
    </section>
    <expand macro="adv_opts_macro">
      <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overwrite tool specific checks" help=""/>
      <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help="">
        <expand macro="list_string_san"/>
      </param>
    </expand>
    <param name="OPTIONAL_OUTPUTS" type="select" multiple="true" label="Optional outputs" optional="false">
      <option value="protein_groups_FLAG">protein_groups (Separator, which should be used to split a row into columns)</option>
      <option value="peptide_table_FLAG">peptide_table (Separator, which should be used to split a row into columns)</option>
      <option value="protein_table_FLAG">protein_table (Separator, which should be used to split a row into columns)</option>
      <option value="additional_info_FLAG">additional_info (Separator, which should be used to split a row into columns)</option>
      <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
    </param>
  </inputs>
  <outputs>
    <data name="protein_groups" label="${tool.name} on ${on_string}: protein_groups" format="csv">

    <expand macro="manutest_ProteinResolver"/>
  </tests>
  <help><![CDATA[protein inference


For more information, visit http://www.openms.de/documentation/TOPP_ProteinResolver.html]]></help>
  <expand macro="references"/>
</tool>

11:95f90fab5ce8

        <option value="whitespace">whitespace</option>
        <expand macro="list_string_san"/>
      </param>
    </section>
    <expand macro="adv_opts_macro">
      <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/>
      <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help="">
        <expand macro="list_string_san"/>
      </param>
    </expand>
    <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs">
      <option value="protein_groups_FLAG">protein_groups (output file. Contains all protein groups)</option>
      <option value="peptide_table_FLAG">peptide_table (output file)</option>
      <option value="protein_table_FLAG">protein_table (output file. Contains one protein per line)</option>
      <option value="additional_info_FLAG">additional_info (output file for additional info)</option>
      <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
    </param>
  </inputs>
  <outputs>
    <data name="protein_groups" label="${tool.name} on ${on_string}: protein_groups" format="csv">

    <expand macro="manutest_ProteinResolver"/>
  </tests>
  <help><![CDATA[protein inference


For more information, visit http://www.openms.de/doxygen/release/2.6.0/html/TOPP_ProteinResolver.html]]></help>
  <expand macro="references"/>
</tool>