Package eu.isas.peptideshaker.followup

Class PepXmlExport

java.lang.Object
eu.isas.peptideshaker.followup.PepXmlExport
public class PepXmlExport extends Object
Export to PepXML.
Author:
Marc Vaudel

  • Constructor Summary

    Constructors
    Constructor
    Description
    PepXmlExport()
    Constructor.

  • Method Summary

    Modifier and Type
    Method
    Description
    void
    writePepXmlFile(com.compomics.util.experiment.identification.Identification identification, com.compomics.util.parameters.identification.IdentificationParameters identificationParameters, com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, File destinationFile, String peptideShakerVersion, com.compomics.util.waiting.WaitingHandler waitingHandler, com.compomics.util.exceptions.ExceptionHandler exceptionHandler)
    Writes the PSM results to the given file in the PepXML format.

    Methods inherited from class java.lang.Object

    clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

  • Constructor Details

    • PepXmlExport

      public PepXmlExport()
      Constructor.

  • Method Details

    • writePepXmlFile

      public void writePepXmlFile(com.compomics.util.experiment.identification.Identification identification, com.compomics.util.parameters.identification.IdentificationParameters identificationParameters, com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, File destinationFile, String peptideShakerVersion, com.compomics.util.waiting.WaitingHandler waitingHandler, com.compomics.util.exceptions.ExceptionHandler exceptionHandler) throws IOException
      Writes the PSM results to the given file in the PepXML format.
      Parameters:
      identification - the identification object containing the identification results
      identificationParameters - the identification parameters
      spectrumProvider - the spectrum provider
      destinationFile - the file where to write
      peptideShakerVersion - the PeptideShaker version
      waitingHandler - a waiting handler to display progress and allow interrupting the process
      exceptionHandler - a handler for exceptions
      Throws:
      IOException - exception thrown whenever an error is encountered while reading or writing a file