Package gov.nih.mipav.model.algorithms

Class AlgorithmTProcess

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmTProcess

All Implemented Interfaces:

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

Direct Known Subclasses:

AlgorithmTreT1, AlgorithmTreT2

public abstract class AlgorithmTProcess
extends AlgorithmBase

This abstract class defines terms common to both T1 and T2 processing, such as thresholding and multithreading management methods. Some methods were adapted from the ImageJ code by Sean Deoni.

Author:

senseneyj

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
protected class	AlgorithmTProcess.CalculateT

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
protected int	computeDataThreads
protected boolean	do4D	Whether this algorithm will utilize 4D processing optimization
protected static double[][]	Gaussian	Static 4x4 Gaussian kernel
protected float	hardNoiseThreshold
protected int	loadDataThreads
protected boolean	lowerLeftCorner
protected boolean	lowerRightCorner
static int	MAX_PROCESS
protected float	noiseScale
protected int	nSlices	The number of slices in the largest volume
protected int	processDataThreads
protected boolean	upperLeftCorner
protected boolean	upperRightCorner
protected boolean	useHardThresholding
protected boolean	useSmartThresholding

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
AlgorithmTProcess()
AlgorithmTProcess(ModelImage destImage, ModelImage srcImage)

Method Summary

Modifier and Type	Method	Description
void	cloneFileInfo(ModelImage orig, ModelImage clo)	This method gives clo the file info of orig.
protected abstract void	computeProcessors()
protected abstract void	displayImages()
private void	genericInit()

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, runAlgorithm, 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

MAX_PROCESS

public static final int MAX_PROCESS

See Also:

Constant Field Values

upperLeftCorner

protected boolean upperLeftCorner

upperRightCorner

protected boolean upperRightCorner

lowerLeftCorner

protected boolean lowerLeftCorner

lowerRightCorner

protected boolean lowerRightCorner

useSmartThresholding

protected boolean useSmartThresholding

useHardThresholding

protected boolean useHardThresholding

noiseScale

protected float noiseScale

hardNoiseThreshold

protected float hardNoiseThreshold

processDataThreads

protected int processDataThreads

computeDataThreads

protected int computeDataThreads

loadDataThreads

protected int loadDataThreads

nSlices

protected int nSlices

The number of slices in the largest volume

do4D

protected boolean do4D

Whether this algorithm will utilize 4D processing optimization

Gaussian

protected static double[][] Gaussian

Static 4x4 Gaussian kernel

Constructor Detail

AlgorithmTProcess

public AlgorithmTProcess(ModelImage destImage,
                         ModelImage srcImage)

AlgorithmTProcess

public AlgorithmTProcess()

Method Detail

cloneFileInfo

public void cloneFileInfo(ModelImage orig,
                          ModelImage clo)

This method gives clo the file info of orig.

Parameters:

orig - Original image

clo - Near clone image

computeProcessors

protected abstract void computeProcessors()

displayImages

protected abstract void displayImages()

genericInit

private void genericInit()