C# Class Morpheus.DatabaseSearcher

Show file Open project: cwenger/Morpheus Class Usage Examples

Public Methods

Method	Description
DatabaseSearcher ( IList dataFilepaths, int minimumAssumedPrecursorChargeState, int maximumAssumedPrecursorChargeState, double absoluteThreshold, double relativeThresholdPercent, int maximumNumberOfPeaks, bool assignChargeStates, bool deisotope, string proteomeDatabaseFilepath, bool onTheFlyDecoys, Protease protease, int maximumMissedCleavages, InitiatorMethionineBehavior initiatorMethionineBehavior, IEnumerable fixedModifications, IEnumerable variableModifications, int maximumVariableModificationIsoforms, MassTolerance precursorMassTolerance, MassType precursorMassType, IEnumerable acceptedPrecursorMassErrors, MassTolerance productMassTolerance, MassType productMassType, double maximumFalseDiscoveryRate, bool considerModifiedFormsAsUniquePeptides, int maximumThreads, bool minimizeMemoryUsage, string outputFolder ) : System
Search ( ) : void

Protected Methods

Method	Description
OnFinished ( EventArgs e ) : void
OnFinishedFile ( FilepathEventArgs e ) : void
OnReportTaskWithProgress ( EventArgs e ) : void
OnReportTaskWithoutProgress ( EventArgs e ) : void
OnStarting ( EventArgs e ) : void
OnStartingFile ( FilepathEventArgs e ) : void
OnThrowException ( ExceptionEventArgs e ) : void
OnUpdateProgress ( ProgressEventArgs e ) : void
OnUpdateStatus ( StatusEventArgs e ) : void

Private Methods

Method	Description
DetermineSemiAggregateParentFolders ( ICollection dataFilepaths ) : HashSet>.SortedList
DoSearch ( ) : void
HandleReportTaskWithProgress ( object sender, EventArgs e ) : void
HandleReportTaskWithoutProgress ( object sender, EventArgs e ) : void
HandleUpdateProgress ( object sender, ProgressEventArgs e ) : void

Method Details

DatabaseSearcher() public method

public DatabaseSearcher ( IList dataFilepaths, int minimumAssumedPrecursorChargeState, int maximumAssumedPrecursorChargeState, double absoluteThreshold, double relativeThresholdPercent, int maximumNumberOfPeaks, bool assignChargeStates, bool deisotope, string proteomeDatabaseFilepath, bool onTheFlyDecoys, Protease protease, int maximumMissedCleavages, InitiatorMethionineBehavior initiatorMethionineBehavior, IEnumerable fixedModifications, IEnumerable variableModifications, int maximumVariableModificationIsoforms, MassTolerance precursorMassTolerance, MassType precursorMassType, IEnumerable acceptedPrecursorMassErrors, MassTolerance productMassTolerance, MassType productMassType, double maximumFalseDiscoveryRate, bool considerModifiedFormsAsUniquePeptides, int maximumThreads, bool minimizeMemoryUsage, string outputFolder ) : System
dataFilepaths	IList
minimumAssumedPrecursorChargeState	int
maximumAssumedPrecursorChargeState	int
absoluteThreshold	double
relativeThresholdPercent	double
maximumNumberOfPeaks	int
assignChargeStates	bool
deisotope	bool
proteomeDatabaseFilepath	string
onTheFlyDecoys	bool
protease	Protease
maximumMissedCleavages	int
initiatorMethionineBehavior	InitiatorMethionineBehavior
fixedModifications	IEnumerable
variableModifications	IEnumerable
maximumVariableModificationIsoforms	int
precursorMassTolerance	MassTolerance
precursorMassType	MassType
acceptedPrecursorMassErrors	IEnumerable
productMassTolerance	MassTolerance
productMassType	MassType
maximumFalseDiscoveryRate	double
considerModifiedFormsAsUniquePeptides	bool
maximumThreads	int
minimizeMemoryUsage	bool
outputFolder	string
return	System

OnFinished() protected method

protected OnFinished ( EventArgs e ) : void
e	System.EventArgs
return	void

OnFinishedFile() protected method

protected OnFinishedFile ( FilepathEventArgs e ) : void
e	FilepathEventArgs
return	void

OnReportTaskWithProgress() protected method

protected OnReportTaskWithProgress ( EventArgs e ) : void
e	System.EventArgs
return	void

OnReportTaskWithoutProgress() protected method

protected OnReportTaskWithoutProgress ( EventArgs e ) : void
e	System.EventArgs
return	void

OnStarting() protected method

protected OnStarting ( EventArgs e ) : void
e	System.EventArgs
return	void

OnStartingFile() protected method

protected OnStartingFile ( FilepathEventArgs e ) : void
e	FilepathEventArgs
return	void

OnThrowException() protected method

protected OnThrowException ( ExceptionEventArgs e ) : void
e	ExceptionEventArgs
return	void

OnUpdateProgress() protected method

protected OnUpdateProgress ( ProgressEventArgs e ) : void
e	ProgressEventArgs
return	void

OnUpdateStatus() protected method

protected OnUpdateStatus ( StatusEventArgs e ) : void
e	StatusEventArgs
return	void

Search() public method

public Search ( ) : void
return	void