comparison MassTraceExtractor.xml @ 7:e059a211406b draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5

6:bdf1c3332205

    <import>macros.xml</import>
  </macros>
  <expand macro="references"/>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command>MassTraceExtractor

#if $param_in:
  -in $param_in
#end if
#if $param_out:

#end if
    #if $adv_opts.param_algorithm_epd_masstrace_snr_filtering:
  -algorithm:epd:masstrace_snr_filtering
#end if
#end if
</command>
  <inputs>
    <param name="param_in" type="data" format="mzml" optional="False" label="input centroided mzML file" help="(-in) "/>
    <param name="param_out_type" display="radio" type="select" optional="True" label="output file type -- default: determined from file extension or content" help="(-out_type) ">
      <option value="featureXML">featureXML</option>
      <option value="consensusXML">consensusXML</option>

    <data name="param_out" format="featurexml"/>
  </outputs>
  <help>Detects mass traces in centroided LC-MS data.


For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_MassTraceExtractor.html</help>
</tool>

7:e059a211406b

    <import>macros.xml</import>
  </macros>
  <expand macro="references"/>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command detect_errors="aggressive"><![CDATA[MassTraceExtractor

#if $param_in:
  -in $param_in
#end if
#if $param_out:

#end if
    #if $adv_opts.param_algorithm_epd_masstrace_snr_filtering:
  -algorithm:epd:masstrace_snr_filtering
#end if
#end if
]]></command>
  <inputs>
    <param name="param_in" type="data" format="mzml" optional="False" label="input centroided mzML file" help="(-in) "/>
    <param name="param_out_type" display="radio" type="select" optional="True" label="output file type -- default: determined from file extension or content" help="(-out_type) ">
      <option value="featureXML">featureXML</option>
      <option value="consensusXML">consensusXML</option>

    <data name="param_out" format="featurexml"/>
  </outputs>
  <help>Detects mass traces in centroided LC-MS data.


For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_MassTraceExtractor.html</help>
</tool>