view IDExtractor.xml @ 3:ec62782f6c68 draft

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<?xml version='1.0' encoding='UTF-8'?>
<tool id="IDExtractor" name="IDExtractor" version="1.12.0">
  <description>Extracts 'n' peptides randomly or best 'n' from idXML files.</description>
  <macros>
    <token name="@EXECUTABLE@">IDExtractor</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command>IDExtractor

-in ${param_in}
-out ${param_out}
-number_of_peptides ${param_number_of_peptides}
-number_of_rand_invokations ${param_number_of_rand_invokations}
${param_best_hits}
-threads \${GALAXY_SLOTS:-24} 
</command>
  <inputs>
    <param name="param_in" type="data" format="idXML" optional="False" label="input file" help="(-in)"/>
    <param name="param_number_of_peptides" type="integer" min="1" optional="True" value="10" label="Number of randomly chosen peptides" help="(-number_of_peptides)"/>
    <param name="param_number_of_rand_invokations" type="integer" min="0" optional="True" value="0" label="Number of rand invocations before random draw" help="(-number_of_rand_invokations)"/>
    <param name="param_best_hits" type="boolean" truevalue="-best_hits true" falsevalue="-best_hits false" checked="false" optional="True" label="If this flag is set the best n peptides are chosen." help="(-best_hits)"/>
  </inputs>
  <outputs>
    <data name="param_out" label="output file" format="idXML"/>
  </outputs>
  <help>**What it does**

Extracts 'n' peptides randomly or best 'n' from idXML files.


For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_IDExtractor.html

@REFERENCES@
</help>
</tool>