Package gov.nih.mipav.model.algorithms

Class AlgorithmFuzzyConnectednessSegmentation

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmFuzzyConnectednessSegmentation

All Implemented Interfaces:

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

public class AlgorithmFuzzyConnectednessSegmentation
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 int	algorithm
static int	BOTH_FUZZY_HARD	This code is ported from MATLAB routines adjacency, affinity, afc, and irfc written by Joakim Lindblad References: 1.)
private ModelImage[]	destImage	Fuzzy images require 1 image with double values Hard images 1 image with class numbers.
private int	destNum	DOCUMENT ME!
private double	distanceDecline
static int	FUZZY_ONLY	DOCUMENT ME!
private double	gradientWeight
static int	HARD_ONLY	DOCUMENT ME!
private java.util.Vector<java.lang.Short>	index_labels
private java.util.Vector<java.lang.Integer>	index_seeds
private int	L1Distance
private int	sliceSize
private ViewUserInterface	UI

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

destFlag, 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
AlgorithmFuzzyConnectednessSegmentation(ModelImage[] destImg, ModelImage srcImg, int algorithm, int L1Distance, double distanceDecline, double gradientWeight, java.util.Vector<java.lang.Integer> index_seeds, java.util.Vector<java.lang.Short> index_labels)

Method Summary

Modifier and Type	Method	Description
private double[]	afc(java.util.Vector<java.lang.Integer> index_seeds_original, java.util.Vector<java.lang.Integer> index1, java.util.Vector<java.lang.Integer> index2, java.util.Vector<java.lang.Double> affinity)
void	finalize()	Prepares this class for destruction.
private short[]	irfc(java.util.Vector<java.lang.Integer> index_seeds, java.util.Vector<java.lang.Short> index_labels, java.util.Vector<java.lang.Integer> index1, java.util.Vector<java.lang.Integer> index2, java.util.Vector<java.lang.Double> affinity)
void	runAlgorithm()	Starts the program.

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, 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

BOTH_FUZZY_HARD

public static final int BOTH_FUZZY_HARD

This code is ported from MATLAB routines adjacency, affinity, afc, and irfc written by Joakim Lindblad References: 1.) "Fuzzy Connectedness and Object Definition: Theory, Algorithms, and Applications in Image Segmentation" by Jayaram K. Udupa and Supun Samarasekera, Graphical Models and Image Processing, Vol. 58, No. 3, May, 1996, pp. 246-261. 2.) "Fuzzy Connected Object Delineation: Axiomatic Path Strength Definition and the Case of Multiple Seeds" by Punam K. Saha and Jayaram K. Udupa, Computer Vision and Image Understanding, 83, 2001, pp. 275-295. 3.) "Iterative relative fuzzy connectedness for multiple objects with multiple seeds" by Krzysztof Chris Ciesielski, Jayaram K. Udupa, Punam K. Saha, and Ying Zhuge, Computer Vision and Image Understanding, 107, 2007, pp. 160-182.

See Also:

Constant Field Values

FUZZY_ONLY

public static final int FUZZY_ONLY

DOCUMENT ME!

See Also:

Constant Field Values

HARD_ONLY

public static final int HARD_ONLY

DOCUMENT ME!

See Also:

Constant Field Values

destImage

private ModelImage[] destImage

Fuzzy images require 1 image with double values Hard images 1 image with class numbers.

destNum

private int destNum

DOCUMENT ME!

L1Distance

private int L1Distance

distanceDecline

private double distanceDecline

gradientWeight

private double gradientWeight

index_seeds

private java.util.Vector<java.lang.Integer> index_seeds

index_labels

private java.util.Vector<java.lang.Short> index_labels

algorithm

private int algorithm

sliceSize

private int sliceSize

UI

private ViewUserInterface UI

Constructor Detail

AlgorithmFuzzyConnectednessSegmentation

public AlgorithmFuzzyConnectednessSegmentation(ModelImage[] destImg,
                                               ModelImage srcImg,
                                               int algorithm,
                                               int L1Distance,
                                               double distanceDecline,
                                               double gradientWeight,
                                               java.util.Vector<java.lang.Integer> index_seeds,
                                               java.util.Vector<java.lang.Short> index_labels)

Method Detail

finalize

public void finalize()

Prepares this class for destruction.

Overrides:

finalize in class AlgorithmBase

runAlgorithm

public void runAlgorithm()

Starts the program.

Specified by:

runAlgorithm in class AlgorithmBase

afc

private double[] afc(java.util.Vector<java.lang.Integer> index_seeds_original,
                     java.util.Vector<java.lang.Integer> index1,
                     java.util.Vector<java.lang.Integer> index2,
                     java.util.Vector<java.lang.Double> affinity)

irfc

private short[] irfc(java.util.Vector<java.lang.Integer> index_seeds,
                     java.util.Vector<java.lang.Short> index_labels,
                     java.util.Vector<java.lang.Integer> index1,
                     java.util.Vector<java.lang.Integer> index2,
                     java.util.Vector<java.lang.Double> affinity)