de.unihalle.informatik.MiToBo.imageJ.plugins.cellCounter.operators

Class CellCounterDetectOperatorParticlesUWT

java.lang.Object

de.unihalle.informatik.Alida.operator.ALDOperator

de.unihalle.informatik.Alida.operator.ALDOperatorCollectionElement

de.unihalle.informatik.MiToBo.imageJ.plugins.cellCounter.operators.CellCounterDetectOperator

de.unihalle.informatik.MiToBo.imageJ.plugins.cellCounter.operators.CellCounterDetectOperatorParticlesUWT

All Implemented Interfaces:

de.unihalle.informatik.Alida.datatypes.ALDConfigurationValidator, de.unihalle.informatik.Alida.operator.events.ALDOperatorExecutionProgressEventListener, EventListener, loci.common.StatusListener, loci.common.StatusReporter

@ALDAOperator(genericExecutionMode=NONE)
 @ALDDerivedClass
public class CellCounterDetectOperatorParticlesUWT
extends CellCounterDetectOperator

Cell counter detector for detecting plastids.

Author:

Birgit Moeller

Nested Class Summary

Nested classes/interfaces inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

de.unihalle.informatik.Alida.operator.ALDOperator.HidingMode, de.unihalle.informatik.Alida.operator.ALDOperator.HistoryConstructionMode

Field Summary

Fields

Modifier and Type	Field and Description
private Double	corrThreshold Threshold for correlation images.
private Integer	Jmax Maximum scale to consider.
private Integer	Jmin Minimal scale to consider.
private int	minRegionSize Minimal size of valid regions.
private static String	opIdentifier Identifier for outputs in verbose mode.
protected ParticleDetectorUWT2D	particleOp Particle detector object.
private Integer	scaleIntervalSize Size of scale interval for calculating wavelet correlation images.

Fields inherited from class de.unihalle.informatik.MiToBo.imageJ.plugins.cellCounter.operators.CellCounterDetectOperator

detectResults, detectZSlice, highQualityData, inputImage, m_statusListeners, markerVects

Fields inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

completeDAG, name, operatorExecutionEventlistenerList, portHashAccess, verbose, versionProvider

Constructor Summary

Constructors

Constructor and Description
CellCounterDetectOperatorParticlesUWT() Constructor.

Method Summary

Modifier and Type	Method and Description
String	getShortName() Get common short name of operator for GUI.
String	getUniqueClassIdentifier()
protected void	operate()

Methods inherited from class de.unihalle.informatik.MiToBo.imageJ.plugins.cellCounter.operators.CellCounterDetectOperator

addStatusListener, getDetectionResults, notifyListeners, removeStatusListener, setHighQualityData, setInputImage, setMarkerVectors, setSliceZid, statusUpdated

Methods inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

addOperatorExecutionProgressEventListener, addParameter, addParameter, addParameterUnconditioned, fieldContained, fireOperatorExecutionProgressEvent, getALDPortHashAccessKey, getConstructionMode, getDocumentation, getHidingMode, getInactiveParameterNames, getInInoutNames, getInInoutNames, getInNames, getInOutNames, getMissingRequiredInputs, getName, getNumParameters, getOutInoutNames, getOutNames, getParameter, getParameterDescriptor, getParameterDescriptorUnconditioned, getParameterNames, getParameterUnconditioned, getSupplementalNames, getVerbose, getVersion, handleOperatorExecutionProgressEvent, hasInOutParameters, hasParameter, isAnnotatedParameter, isConfigured, print, print, print, printInterface, printInterface, readHistory, readResolve, reinitializeParameterDescriptors, removeOperatorExecutionProgressEventListener, removeParameter, runOp, runOp, runOp, setConstructionMode, setConstructionMode, setConstructionMode, setHidingMode, setName, setParameter, setParameterUnconditioned, setVerbose, toStringVerbose, unconfiguredItems, validate, validateCustom, validateGeneric, writeHistory, writeHistory, writeHistory

Methods inherited from class java.lang.Object

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

Field Detail

opIdentifier

private static final String opIdentifier

Identifier for outputs in verbose mode.

See Also:

Constant Field Values

Jmin

@Parameter(label="Jmin",
           required=true,
           direction=IN,
           mode=STANDARD,
           dataIOOrder=2,
           description="Minimum scale index.")
private Integer Jmin

Minimal scale to consider.

Jmax

@Parameter(label="Jmax",
           required=true,
           direction=IN,
           mode=STANDARD,
           dataIOOrder=3,
           description="Maximum scale index.")
private Integer Jmax

Maximum scale to consider.

scaleIntervalSize

@Parameter(label="Scale-interval size",
           required=true,
           direction=IN,
           mode=STANDARD,
           dataIOOrder=4,
           description="Size of scale interval for correlation images.")
private Integer scaleIntervalSize

Size of scale interval for calculating wavelet correlation images.

corrThreshold

@Parameter(label="Correlation threshold",
           required=true,
           direction=IN,
           mode=STANDARD,
           dataIOOrder=5,
           description="Threshold for wavelet correlation images.")
private Double corrThreshold

Threshold for correlation images.

minRegionSize

@Parameter(label="Minimum region size",
           required=true,
           direction=IN,
           mode=STANDARD,
           dataIOOrder=6,
           description="Minimum area of detected regions.")
private int minRegionSize

Minimal size of valid regions.

particleOp

protected ParticleDetectorUWT2D particleOp

Particle detector object.

Constructor Detail

CellCounterDetectOperatorParticlesUWT

public CellCounterDetectOperatorParticlesUWT()
                                      throws de.unihalle.informatik.Alida.exceptions.ALDOperatorException

Constructor.

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException - Thrown in case of initialization error.

Method Detail

operate

protected void operate()
                throws de.unihalle.informatik.Alida.exceptions.ALDOperatorException,
                       de.unihalle.informatik.Alida.exceptions.ALDProcessingDAGException

Specified by:

operate in class de.unihalle.informatik.Alida.operator.ALDOperator

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException

de.unihalle.informatik.Alida.exceptions.ALDProcessingDAGException

getShortName

public String getShortName()

Description copied from class: CellCounterDetectOperator

Get common short name of operator for GUI.

Specified by:

getShortName in class CellCounterDetectOperator

Returns:

Name of operator.

getUniqueClassIdentifier

public String getUniqueClassIdentifier()

Specified by:

getUniqueClassIdentifier in class de.unihalle.informatik.Alida.operator.ALDOperatorCollectionElement