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OpenMS
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#include <OpenMS/APPLICATIONS/SearchEngineBase.h>#include <OpenMS/ANALYSIS/ID/PercolatorFeatureSetHelper.h>#include <OpenMS/ANALYSIS/ID/PeptideIndexing.h>#include <OpenMS/DATASTRUCTURES/DefaultParamHandler.h>#include <OpenMS/FORMAT/MzMLFile.h>#include <OpenMS/FORMAT/PepXMLFile.h>#include <OpenMS/FORMAT/FileHandler.h>#include <OpenMS/FORMAT/HANDLERS/IndexedMzMLDecoder.h>#include <OpenMS/FORMAT/DATAACCESS/MSDataWritingConsumer.h>#include <OpenMS/METADATA/SpectrumMetaDataLookup.h>#include <OpenMS/KERNEL/MSSpectrum.h>#include <OpenMS/METADATA/PeptideIdentification.h>#include <OpenMS/CHEMISTRY/ModificationsDB.h>#include <OpenMS/CHEMISTRY/ProteaseDB.h>#include <OpenMS/CHEMISTRY/ResidueDB.h>#include <OpenMS/CHEMISTRY/ResidueModification.h>#include <OpenMS/SYSTEM/File.h>#include <fstream>#include <QStringList>#include <QRegularExpression>