Package gov.nih.mipav.model.algorithms

Class AlgorithmFacetModel

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmFacetModel

All Implemented Interfaces:

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

public class AlgorithmFacetModel
extends AlgorithmBase

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 double	alpha
private int	blockHalf
private int	blockSide
private double[]	buffer
static int	CORNER_DETECTOR
static int	FACET_BASED_PEAK_NOISE_REMOVAL
static int	GRADIENT_BASED_FACET_EDGE_DETECTION
private double	gradientDirectionThreshold
static int	INTEGRATED_DIRECTIONAL_DERIVATIVE_ANGLE
static int	INTEGRATED_DIRECTIONAL_DERIVATIVE_MAGNITUDE
static int	ITERATED_FACET_MODEL
private double[]	result
private int	routine
private int	xDim
private int	yDim
static int	ZERO_CROSSING_EDGE_DETECTOR

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
AlgorithmFacetModel(ModelImage srcImg, int routine, int blockSide, double alpha, double gradientDirectionThreshold)
AlgorithmFacetModel(ModelImage destImg, ModelImage srcImg, int routine, int blockSide, double alpha, double gradientDirectionThreshold)

Method Summary

Modifier and Type	Method	Description
private void	bivariateCubicCoefficients(int x, int y, double[] k1, double[] k2, double[] k3, double[] k4, double[] k5, double[] k6, double[] k7, double[] k8, double[] k9, double[] k10, double[] sinAngle, double[] cosAngle, double[] gradientAngle)
private void	bivariateCubicCoefficients5By5(int x, int y, double[] k1, double[] k2, double[] k3, double[] k4, double[] k5, double[] k6, double[] k7, double[] k8, double[] k9, double[] k10, double[] sinAngle, double[] cosAngle, double[] gradientAngle)
private double	columnDerivativeMask5By5(int x, int y)
private double	columnDerivativeMask7By7(int x, int y)
private void	cornerDetector()
private void	directionalDerivatives(double k1, double k2, double k3, double k4, double k5, double k6, double k7, double k8, double k9, double k10, double sinAngle, double cosAngle, double rho, double[] firstDirectionalDerivative, double[] secondDirectionalDerivative, double[] thirdDirectionalDerivative)
private void	facetBasedPeakNoiseRemoval()
private void	gradientBasedFacetEdgeDetection()
private void	integratedDirectionalDerivative()
private boolean	isEdgePixel(double k1, double k2, double k3, double k4, double k5, double k6, double k7, double k8, double k9, double k10, double sinAngle, double cosAngle, double[] rho)
private void	iteratedFacetModel()
private double	rowDerivativeMask5By5(int x, int y)
private double	rowDerivativeMask7By7(int x, int y)
void	runAlgorithm()	Starts the program.
private void	testBivariateCubicCoefficients5By5()
private void	zeroCrossingEdgeDetector()

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

FACET_BASED_PEAK_NOISE_REMOVAL

public static final int FACET_BASED_PEAK_NOISE_REMOVAL

See Also:

Constant Field Values

ITERATED_FACET_MODEL

public static final int ITERATED_FACET_MODEL

See Also:

Constant Field Values

GRADIENT_BASED_FACET_EDGE_DETECTION

public static final int GRADIENT_BASED_FACET_EDGE_DETECTION

See Also:

Constant Field Values

ZERO_CROSSING_EDGE_DETECTOR

public static final int ZERO_CROSSING_EDGE_DETECTOR

See Also:

Constant Field Values

INTEGRATED_DIRECTIONAL_DERIVATIVE_ANGLE

public static final int INTEGRATED_DIRECTIONAL_DERIVATIVE_ANGLE

See Also:

Constant Field Values

INTEGRATED_DIRECTIONAL_DERIVATIVE_MAGNITUDE

public static final int INTEGRATED_DIRECTIONAL_DERIVATIVE_MAGNITUDE

See Also:

Constant Field Values

CORNER_DETECTOR

public static final int CORNER_DETECTOR

See Also:

Constant Field Values

blockSide

private int blockSide

alpha

private double alpha

routine

private int routine

gradientDirectionThreshold

private double gradientDirectionThreshold

xDim

private int xDim

yDim

private int yDim

buffer

private double[] buffer

result

private double[] result

blockHalf

private int blockHalf

Constructor Detail

AlgorithmFacetModel

public AlgorithmFacetModel(ModelImage srcImg,
                           int routine,
                           int blockSide,
                           double alpha,
                           double gradientDirectionThreshold)

AlgorithmFacetModel

public AlgorithmFacetModel(ModelImage destImg,
                           ModelImage srcImg,
                           int routine,
                           int blockSide,
                           double alpha,
                           double gradientDirectionThreshold)

Method Detail

runAlgorithm

public void runAlgorithm()

Starts the program.

Specified by:

runAlgorithm in class AlgorithmBase

facetBasedPeakNoiseRemoval

private void facetBasedPeakNoiseRemoval()

iteratedFacetModel

private void iteratedFacetModel()

gradientBasedFacetEdgeDetection

private void gradientBasedFacetEdgeDetection()

isEdgePixel

private boolean isEdgePixel(double k1,
                            double k2,
                            double k3,
                            double k4,
                            double k5,
                            double k6,
                            double k7,
                            double k8,
                            double k9,
                            double k10,
                            double sinAngle,
                            double cosAngle,
                            double[] rho)

directionalDerivatives

private void directionalDerivatives(double k1,
                                    double k2,
                                    double k3,
                                    double k4,
                                    double k5,
                                    double k6,
                                    double k7,
                                    double k8,
                                    double k9,
                                    double k10,
                                    double sinAngle,
                                    double cosAngle,
                                    double rho,
                                    double[] firstDirectionalDerivative,
                                    double[] secondDirectionalDerivative,
                                    double[] thirdDirectionalDerivative)

testBivariateCubicCoefficients5By5

private void testBivariateCubicCoefficients5By5()

bivariateCubicCoefficients

private void bivariateCubicCoefficients(int x,
                                        int y,
                                        double[] k1,
                                        double[] k2,
                                        double[] k3,
                                        double[] k4,
                                        double[] k5,
                                        double[] k6,
                                        double[] k7,
                                        double[] k8,
                                        double[] k9,
                                        double[] k10,
                                        double[] sinAngle,
                                        double[] cosAngle,
                                        double[] gradientAngle)

bivariateCubicCoefficients5By5

private void bivariateCubicCoefficients5By5(int x,
                                            int y,
                                            double[] k1,
                                            double[] k2,
                                            double[] k3,
                                            double[] k4,
                                            double[] k5,
                                            double[] k6,
                                            double[] k7,
                                            double[] k8,
                                            double[] k9,
                                            double[] k10,
                                            double[] sinAngle,
                                            double[] cosAngle,
                                            double[] gradientAngle)

zeroCrossingEdgeDetector

private void zeroCrossingEdgeDetector()

cornerDetector

private void cornerDetector()

integratedDirectionalDerivative

private void integratedDirectionalDerivative()

rowDerivativeMask5By5

private double rowDerivativeMask5By5(int x,
                                     int y)

columnDerivativeMask5By5

private double columnDerivativeMask5By5(int x,
                                        int y)

rowDerivativeMask7By7

private double rowDerivativeMask7By7(int x,
                                     int y)

columnDerivativeMask7By7

private double columnDerivativeMask7By7(int x,
                                        int y)