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

All Methods Instance Methods Concrete Methods
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)

Class AlgorithmFacetModel

Nested Class Summary

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

Field Summary

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

Fields inherited from class java.lang.Thread

Constructor Summary

Method Summary

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

Methods inherited from class java.lang.Thread

Methods inherited from class java.lang.Object

Field Detail

FACET_BASED_PEAK_NOISE_REMOVAL

ITERATED_FACET_MODEL

GRADIENT_BASED_FACET_EDGE_DETECTION

ZERO_CROSSING_EDGE_DETECTOR

INTEGRATED_DIRECTIONAL_DERIVATIVE_ANGLE

INTEGRATED_DIRECTIONAL_DERIVATIVE_MAGNITUDE

CORNER_DETECTOR

blockSide

alpha

routine

gradientDirectionThreshold

xDim

yDim

buffer

result

blockHalf

Constructor Detail

AlgorithmFacetModel

AlgorithmFacetModel

Method Detail

runAlgorithm

facetBasedPeakNoiseRemoval

iteratedFacetModel

gradientBasedFacetEdgeDetection

isEdgePixel

directionalDerivatives

testBivariateCubicCoefficients5By5

bivariateCubicCoefficients

bivariateCubicCoefficients5By5

zeroCrossingEdgeDetector

cornerDetector

integratedDirectionalDerivative

rowDerivativeMask5By5

columnDerivativeMask5By5

rowDerivativeMask7By7

columnDerivativeMask7By7