Package eu.isas.peptideshaker.processing

Class PsmProcessorRunnable

java.lang.Object
eu.isas.peptideshaker.processing.PsmProcessorRunnable
All Implemented Interfaces:
Runnable
public class PsmProcessorRunnable extends Object implements Runnable
This class processes PSMs.
Author:
Marc Vaudel

  • Constructor Summary

    Constructors
    Constructor
    Description
    PsmProcessorRunnable(ConcurrentLinkedQueue<Long> spectrumMatchKeysIterator, com.compomics.util.experiment.identification.Identification identification, com.compomics.util.parameters.identification.IdentificationParameters identificationParameters, InputMap inputMap, MatchesValidator matchesValidator, ModificationLocalizationScorer modificationLocalizationScorer, com.compomics.util.experiment.io.biology.protein.SequenceProvider sequenceProvider, com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, com.compomics.util.experiment.biology.modifications.ModificationProvider modificationProvider, HashMap<String,Integer> proteinCount, com.compomics.util.waiting.WaitingHandler waitingHandler, com.compomics.util.exceptions.ExceptionHandler exceptionHandler)
    Constructor.

  • Method Summary

    Modifier and Type
    Method
    Description
    void
    run()
     

    Methods inherited from class java.lang.Object

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

  • Constructor Details

    • PsmProcessorRunnable

      public PsmProcessorRunnable(ConcurrentLinkedQueue<Long> spectrumMatchKeysIterator, com.compomics.util.experiment.identification.Identification identification, com.compomics.util.parameters.identification.IdentificationParameters identificationParameters, InputMap inputMap, MatchesValidator matchesValidator, ModificationLocalizationScorer modificationLocalizationScorer, com.compomics.util.experiment.io.biology.protein.SequenceProvider sequenceProvider, com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, com.compomics.util.experiment.biology.modifications.ModificationProvider modificationProvider, HashMap<String,Integer> proteinCount, com.compomics.util.waiting.WaitingHandler waitingHandler, com.compomics.util.exceptions.ExceptionHandler exceptionHandler)
      Constructor.
      Parameters:
      spectrumMatchKeysIterator - Iterator for the spectrum match keys.
      identification - The identification object.
      identificationParameters - The identification parameters.
      inputMap - The input map.
      matchesValidator - The matches validator.
      modificationLocalizationScorer - The post-translational modification localization scorer.
      sequenceProvider - The protein sequences provider.
      spectrumProvider - The spectrum provider.
      modificationProvider - The modification provider to use.
      proteinCount - The protein count.
      waitingHandler - The waiting handler.
      exceptionHandler - The exception handler.

  • Method Details

    • run

      public void run()
      Specified by:
      run in interface Runnable