Package gov.nih.mipav.model.algorithms

Class AlgorithmHessian

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmHessian

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.WindowListener, java.lang.Runnable, java.util.EventListener

public class AlgorithmHessian
extends AlgorithmBase

Provides functions to convolve an image with the second derivitive of the Gaussian function to obtain the Hessian matrix for a particular point on the image.

Author:

Evan McCreedy

Nested Class Summary

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

java.lang.Thread.State, java.lang.Thread.UncaughtExceptionHandler

Field Summary

Fields

Modifier and Type	Field	Description
private float[]	GxxData	Storage location of the second derivative of the Gaussian in the XX direction.
private float[]	GxyData	Storage location of the second derivative of the Gaussian in the XY direction.
private float[]	GxzData	Storage location of the second derivative of the Gaussian in the XZ direction.
private float[]	GyyData	Storage location of the second derivative of the Gaussian in the YY direction.
private float[]	GyzData	Storage location of the second derivative of the Gaussian in the YZ direction.
private float[]	GzzData	Storage location of the second derivative of the Gaussian in the ZZ direction.
private int[]	kExtents	Dimensionality of the kernel.
private float[]	sigmas	Standard deviations of the gaussian used to calculate the kernels.
private ModelImage	srcImage	Image to convolve with hessian.

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

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

Fields inherited from class java.lang.Thread

MAX_PRIORITY, MIN_PRIORITY, NORM_PRIORITY

Constructor Summary

Constructors

Constructor	Description
AlgorithmHessian(ModelImage img, float[] sigmas)	Creates a new AlgorithmHessian object.

Method Summary

Modifier and Type	Method	Description
double[][]	hessian2D(float[] imgBuf, int[] extents, float x, float y)	Convolves the source image at the point (x,y,z) with the hessian of the gaussian function.
double[][]	hessian2D(float x, float y)	Convolves the source image at the point (x,y) with the hessian of the gaussian function.
double[][]	hessian3D(float[] imgBuf, int[] extents, float x, float y, float z)	Convolves the source image at the point (x,y,z) with the hessian of the gaussian function.
double[][]	hessian3D(float x, float y, float z)	Convolves the source image at the point (x,y,z) with the hessian of the gaussian function.
private void	makeKernels2D()	Makes 2D derivative kernels to be used in the calculation of the hessian.
private void	makeKernels3D()	Makes 3D derivative kernels to be used in the calculation of the hessian.
void	runAlgorithm()	Should not be used for this algorithm -- just a placeholder.

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

actionPerformed, addListener, addProgressChangeListener, calculateImageSize, calculatePrincipleAxis, computeElapsedTime, computeElapsedTime, convertIntoFloat, delinkProgressToAlgorithm, delinkProgressToAlgorithmMulti, displayError, errorCleanUp, finalize, 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, join, join, join, onSpinWait, resume, setContextClassLoader, setDaemon, setDefaultUncaughtExceptionHandler, setName, setPriority, setUncaughtExceptionHandler, sleep, sleep, start, stop, suspend, toString, yield

Methods inherited from class java.lang.Object

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

Field Detail

GxxData

private float[] GxxData

Storage location of the second derivative of the Gaussian in the XX direction.

GxyData

private float[] GxyData

Storage location of the second derivative of the Gaussian in the XY direction.

GxzData

private float[] GxzData

Storage location of the second derivative of the Gaussian in the XZ direction.

GyyData

private float[] GyyData

Storage location of the second derivative of the Gaussian in the YY direction.

GyzData

private float[] GyzData

Storage location of the second derivative of the Gaussian in the YZ direction.

GzzData

private float[] GzzData

Storage location of the second derivative of the Gaussian in the ZZ direction.

kExtents

private int[] kExtents

Dimensionality of the kernel.

sigmas

private float[] sigmas

Standard deviations of the gaussian used to calculate the kernels.

srcImage

private ModelImage srcImage

Image to convolve with hessian.

Constructor Detail

AlgorithmHessian

public AlgorithmHessian(ModelImage img,
                        float[] sigmas)

Creates a new AlgorithmHessian object.

Parameters:

img - DOCUMENT ME!

sigmas - DOCUMENT ME!

Method Detail

hessian2D

public double[][] hessian2D(float x,
                            float y)

Convolves the source image at the point (x,y) with the hessian of the gaussian function.

Parameters:

x - float point index indicating point of interest

y - float point index indicating point of interest

Returns:

hessian matrix for the point (x,y)

hessian2D

public double[][] hessian2D(float[] imgBuf,
                            int[] extents,
                            float x,
                            float y)

Convolves the source image at the point (x,y,z) with the hessian of the gaussian function.

Parameters:

imgBuf - the image

extents - the extents of the image

x - float point index indicating point of interest

y - float point index indicating point of interest

Returns:

hessian matrix for the point (x,y,z)

hessian3D

public double[][] hessian3D(float x,
                            float y,
                            float z)

Convolves the source image at the point (x,y,z) with the hessian of the gaussian function.

Parameters:

x - float point index indicating point of interest

y - float point index indicating point of interest

z - float point index indicating point of interest

Returns:

hessian matrix for the point (x,y,z)

hessian3D

public double[][] hessian3D(float[] imgBuf,
                            int[] extents,
                            float x,
                            float y,
                            float z)

Convolves the source image at the point (x,y,z) with the hessian of the gaussian function.

Parameters:

imgBuf - DOCUMENT ME!

extents - DOCUMENT ME!

x - float point index indicating point of interest

y - float point index indicating point of interest

z - float point index indicating point of interest

Returns:

hessian matrix for the point (x,y,z)

runAlgorithm

public void runAlgorithm()

Should not be used for this algorithm -- just a placeholder.

Specified by:

runAlgorithm in class AlgorithmBase

makeKernels2D

private void makeKernels2D()

Makes 2D derivative kernels to be used in the calculation of the hessian.

makeKernels3D

private void makeKernels3D()

Makes 3D derivative kernels to be used in the calculation of the hessian.