Package gov.nih.mipav.model.algorithms

Class AlgorithmShortestPathWatershed

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmShortestPathWatershed

All Implemented Interfaces:

ActionListener, WindowListener, Runnable, EventListener

public class AlgorithmShortestPathWatershed
extends AlgorithmBase

Author:

ilb Reference: 1.) The Watershed Transform: Definitions, Algorithms, and Parallelization Strategies by Jos B.T.M. Roerdink and Arnold Meijster, Fundamentals Informaticae 41 (2001), pp. 187-228. Algorithm 4.2 Watershed transform w.r.t. topographcial distance based on image integration via the Dijkstra-Moore shortest paths algorithms 2.) Automated Sulcal Segmentation Using Watersheds on the Cortical Surface by Maryam E. Rettmann, Xiao Han, Chenyang Xu, and Jerry L. Prince, NeuroImage 15, 2002, Section Merging of Catchment Basins, p.338.

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
private class	AlgorithmShortestPathWatershed.indexValueComparator
private class	AlgorithmShortestPathWatershed.indexValueItem

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

Thread.Builder, Thread.State, Thread.UncaughtExceptionHandler

Field Summary

Fields

Modifier and Type	Field	Description
private int	binNumber
private double[]	distBuffer
private int[]	imgBuffer
private int[]	labelBuffer
private boolean	limitBins
private boolean	merge
private double	mergeThreshold
private int	numNeighbor
private final double	sqrt2
private final int	WSHED
private int	xDim
private int	yDim

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
AlgorithmShortestPathWatershed(ModelImage destImage, ModelImage srcImage, int numNeighbor, boolean limitBins, int binNumber, boolean merge, double mergeThreshold)

Method Summary

Modifier and Type	Method	Description
private double	cost(int p, int q)
private double	LS(int p)
void	runAlgorithm()	Actually runs the algorithm.

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, 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

numNeighbor

private int numNeighbor

limitBins

private boolean limitBins

binNumber

private int binNumber

xDim

private int xDim

yDim

private int yDim

imgBuffer

private int[] imgBuffer

labelBuffer

private int[] labelBuffer

distBuffer

private double[] distBuffer

sqrt2

private final double sqrt2

WSHED

private final int WSHED

See Also:

• Constant Field Values

merge

private boolean merge

mergeThreshold

private double mergeThreshold

Constructor Details

AlgorithmShortestPathWatershed

public AlgorithmShortestPathWatershed(ModelImage destImage,
 ModelImage srcImage,
 int numNeighbor,
 boolean limitBins,
 int binNumber,
 boolean merge,
 double mergeThreshold)

Method Details

runAlgorithm

public void runAlgorithm()

Description copied from class: AlgorithmBase

Actually runs the algorithm. Implemented by inheriting algorithms.

Specified by:

runAlgorithm in class AlgorithmBase

cost

private double cost(int p,
 int q)

LS

private double LS(int p)