view PTPredict.xml @ 1:17e8c91b70d5 draft

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<?xml version='1.0' encoding='UTF-8'?>
<tool id="PTPredict" name="PTPredict" version="1.12.0">
  <description>predicts the likelihood of peptides to be proteotypic via svm_model which is trained by PTModel</description>
  <macros>
    <token name="@EXECUTABLE@">PTPredict</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command>PTPredict

-in ${param_in}
-out ${param_out}
-svm_model ${param_svm_model}
-max_number_of_peptides ${param_max_number_of_peptides}
-threads \${GALAXY_SLOTS:-24} 
</command>
  <inputs>
    <param name="param_in" type="data" format="idXML" optional="False" label="input file " help="(-in)"/>
    <param name="param_svm_model" type="data" format="txt" optional="False" label="svm model in libsvm format (can be produced by PTModel)" help="(-svm_model)"/>
    <param name="param_max_number_of_peptides" type="integer" value="100000" label="the maximum number of peptides considered at once (bigger number will lead to faster results but needs more memory).#br#" help="(-max_number_of_peptides)"/>
  </inputs>
  <outputs>
    <data name="param_out" label="output file#br#" format="idXML"/>
  </outputs>
  <help>**What it does**

predicts the likelihood of peptides to be proteotypic via svm_model which is trained by PTModel


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

@REFERENCES@
</help>
</tool>