comparison ProteinQuantifier.xml @ 11:bb1e75938909 draft

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

10:8a45fd5a608a

      <param name="replacement" argument="-format:replacement" type="text" optional="true" value="_" label="If 'quoting' is 'none', used to replace occurrences of the separator in strings before writing" help="">
        <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="out_FLAG">out (If 'quoting' is 'none', used to replace occurrences of the separator in strings before writing)</option>
      <option value="peptide_out_FLAG">peptide_out (If 'quoting' is 'none', used to replace occurrences of the separator in strings before writing)</option>
      <option value="mztab_FLAG">mztab (If 'quoting' is 'none', used to replace occurrences of the separator in strings before writing)</option>
      <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
    </param>
  </inputs>
  <outputs>
    <data name="out" label="${tool.name} on ${on_string}: out" format="csv">

    <expand macro="manutest_ProteinQuantifier"/>
  </tests>
  <help><![CDATA[Compute peptide and protein abundances


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

11:bb1e75938909

      <param name="replacement" argument="-format:replacement" type="text" optional="true" value="_" label="If 'quoting' is 'none', used to replace occurrences of the separator in strings before writing" help="">
        <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="out_FLAG">out (Output file for protein abundances)</option>
      <option value="peptide_out_FLAG">peptide_out (Output file for peptide abundances)</option>
      <option value="mztab_FLAG">mztab (Output file (mzTab))</option>
      <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
    </param>
  </inputs>
  <outputs>
    <data name="out" label="${tool.name} on ${on_string}: out" format="csv">

    <expand macro="manutest_ProteinQuantifier"/>
  </tests>
  <help><![CDATA[Compute peptide and protein abundances


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