Package gov.nih.mipav.model.algorithms

Class AlgorithmAutoCorrelation

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmAutoCorrelation

All Implemented Interfaces:

ActionListener, WindowListener, Runnable, EventListener

public class AlgorithmAutoCorrelation
extends AlgorithmBase

Reference: Digital Image Processing, Second Edition by Rafael C. Gonzalez and Richard C. Woods, Prentice-Hall, Inc., 2002, pp. 205 - 208 and pp. 414-417. The autocorrelation coefficient = A(deltaX, deltaY)/A(0,0) where A(deltaX,deltaY) = num/denom with num = sum from X = 0 to X = xDim - 1 - deltaX sum from Y = 0 to Y = yDim - 1 - deltaY f(x,y)*f(x+deltaX,y+deltaY) denom = (xDim - deltaX)*(yDim - deltaY) Autocorrelation does not subtract out the means while autocovariance does subtract out the means.

The autocorrelation coefficeints are fitted to a function of the form (1 - a0) + a0*exp(-(x**2 + y**2)/w**2) = (1 - a0) + a0*exp(a1*distSqr), where 1 >= a0 > 0, a1 invalid input: '<' 0.

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
(package private) class	AlgorithmAutoCorrelation.FitCorrelationModel	DOCUMENT ME!

Nested classes/interfaces inherited from class java.lang.Thread

Thread.Builder, Thread.State, Thread.UncaughtExceptionHandler

Field Summary

Fields

Modifier and Type	Field	Description
private ModelImage	destImageB	DOCUMENT ME!
private ModelImage	destImageG	DOCUMENT ME!
private ModelImage	destImageR	DOCUMENT ME!
private int	fwhm	Full width at half maximum of the autocorrelation.

Fields inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase

destFlag, destImage, image25D, mask, maxProgressValue, minProgressValue, multiThreadingEnabled, nthreads, progress, progressModulus, progressStep, runningInSeparateThread, separable, srcImage, threadStopped

Fields inherited from class java.lang.Thread

MAX_PRIORITY, MIN_PRIORITY, NORM_PRIORITY

Constructor Summary

Constructors

Constructor	Description
AlgorithmAutoCorrelation(ModelImage destImg, ModelImage srcImg)	Constructor for black and white image in which correlation coefficients are placed in a predetermined destination image.
AlgorithmAutoCorrelation(ModelImage destImageR, ModelImage destImageG, ModelImage destImageB, ModelImage srcImg)	Constructor for color image in which correlation coefficients are placed in predetermined destination images.

Method Summary

Modifier and Type	Method	Description
private void	calcStoreInDest2D()	This function calculates the autocorrelation coefficients and places them in the destination image for black and white images.
private void	calcStoreInDest2DC()	This function calculates the autocorrelation coefficients and places them in the destination image for color images.
private void	calcStoreInDest3D()	This function calculates the autocorrelation coefficients and places them in the destination image for black and white images.
private void	calcStoreInDest3DC()	This function calculates the autocorrelation coefficients and places them in the destination image for color images.
private void	calcStoreInDest4D()	This function calculates the autocorrelation coefficients and places them in the destination image for black and white images.
private void	calcStoreInDest4DC()	This function calculates the autocorrelation coefficients and places them in the destination image for color images.
void	finalize()	Prepares this class for destruction.
int	getFWHM()	Returns the full width at half maximum of the autocorrelation.
void	runAlgorithm()	Starts the algorithm.

Methods inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase

actionPerformed, addListener, addProgressChangeListener, calculateImageSize, calculatePrincipleAxis, computeElapsedTime, computeElapsedTime, convertIntoFloat, delinkProgressToAlgorithm, delinkProgressToAlgorithmMulti, displayError, errorCleanUp, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, generateProgressValues, getDestImage, getElapsedTime, getMask, getMaxProgressValue, getMinProgressValue, getNumberOfThreads, getProgress, getProgressChangeListener, getProgressChangeListeners, getProgressModulus, getProgressStep, getProgressValues, getSrcImage, isCompleted, isImage25D, isMultiThreadingEnabled, isRunningInSeparateThread, isThreadStopped, linkProgressToAlgorithm, linkProgressToAlgorithm, makeProgress, notifyListeners, removeListener, removeProgressChangeListener, run, setCompleted, setImage25D, setMask, setMaxProgressValue, setMinProgressValue, setMultiThreadingEnabled, setNumberOfThreads, setProgress, setProgressModulus, setProgressStep, setProgressValues, setProgressValues, setRunningInSeparateThread, setSrcImage, setStartTime, setThreadStopped, startMethod, windowActivated, windowClosed, windowClosing, windowDeactivated, windowDeiconified, windowIconified, windowOpened

Methods inherited from class java.lang.Thread

activeCount, checkAccess, clone, countStackFrames, currentThread, dumpStack, enumerate, getAllStackTraces, getContextClassLoader, getDefaultUncaughtExceptionHandler, getId, getName, getPriority, getStackTrace, getState, getThreadGroup, getUncaughtExceptionHandler, holdsLock, interrupt, interrupted, isAlive, isDaemon, isInterrupted, isVirtual, join, join, join, join, ofPlatform, ofVirtual, onSpinWait, resume, setContextClassLoader, setDaemon, setDefaultUncaughtExceptionHandler, setName, setPriority, setUncaughtExceptionHandler, sleep, sleep, sleep, start, startVirtualThread, stop, suspend, threadId, toString, yield

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Details

destImageB

private ModelImage destImageB

DOCUMENT ME!

destImageG

private ModelImage destImageG

DOCUMENT ME!

destImageR

private ModelImage destImageR

DOCUMENT ME!

fwhm

private int fwhm

Full width at half maximum of the autocorrelation.

Constructor Details

AlgorithmAutoCorrelation

public AlgorithmAutoCorrelation(ModelImage destImg,
 ModelImage srcImg)

Constructor for black and white image in which correlation coefficients are placed in a predetermined destination image.

Parameters:

destImg - Image model where result image is stored.

srcImg - Source image model.

AlgorithmAutoCorrelation

public AlgorithmAutoCorrelation(ModelImage destImageR,
 ModelImage destImageG,
 ModelImage destImageB,
 ModelImage srcImg)

Constructor for color image in which correlation coefficients are placed in predetermined destination images.

Parameters:

destImageR - Image model where red result is stored.

destImageG - Image model where green result is stored.

destImageB - Image model where blue result is stored.

srcImg - Source image model.

Method Details

finalize

public void finalize()

Prepares this class for destruction.

Overrides:

finalize in class AlgorithmBase

getFWHM

public int getFWHM()

Returns the full width at half maximum of the autocorrelation.

Returns:

fwhm

runAlgorithm

public void runAlgorithm()

Starts the algorithm.

Specified by:

runAlgorithm in class AlgorithmBase

calcStoreInDest2D

private void calcStoreInDest2D()

This function calculates the autocorrelation coefficients and places them in the destination image for black and white images.

calcStoreInDest2DC

private void calcStoreInDest2DC()

This function calculates the autocorrelation coefficients and places them in the destination image for color images.

calcStoreInDest3D

private void calcStoreInDest3D()

This function calculates the autocorrelation coefficients and places them in the destination image for black and white images.

calcStoreInDest3DC

private void calcStoreInDest3DC()

This function calculates the autocorrelation coefficients and places them in the destination image for color images.

calcStoreInDest4D

private void calcStoreInDest4D()

This function calculates the autocorrelation coefficients and places them in the destination image for black and white images.

calcStoreInDest4DC

private void calcStoreInDest4DC()

This function calculates the autocorrelation coefficients and places them in the destination image for color images.