Package gov.nih.mipav.model.algorithms

Class AlgorithmQuantify

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmQuantify

All Implemented Interfaces:

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

public class AlgorithmQuantify
extends AlgorithmBase

Quantify image data based on a mask image. At present calculates the number of voxels, volume, total intensity , mean intensity, and standard deviation for an object defined in a mask image.

Version:

0.1 Feb 11, 1998

Author:

Matthew J. McAuliffe, Ph.D.

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 ModelImage	maskImage	The mask image.

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
AlgorithmQuantify(ModelImage srcImg, ModelImage maskImg)	Creates a new AlgorithmQuantify object.

Method Summary

Modifier and Type	Method	Description
void	finalize()	Prepares this class for destruction.
void	runAlgorithm()	Starts the program
void	showRegionInfo(int[] count)	Display statistics about the grown region.
void	showRegionInfo(int[] count, double[][] total, double[][] mean, double[][] stdDev, double[][] median)	Display statistics about the grown region.

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

maskImage

private ModelImage maskImage

The mask image. The range of the image [0, positive integer value] where zero is the background and a positive number indicates that is part of an object that has the same positive integer number.

Constructor Detail

AlgorithmQuantify

public AlgorithmQuantify(ModelImage srcImg,
                         ModelImage maskImg)

Creates a new AlgorithmQuantify object.

Parameters:

srcImg - image model where result image is to stored

maskImg - source image model

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

showRegionInfo

public void showRegionInfo(int[] count,
                           double[][] total,
                           double[][] mean,
                           double[][] stdDev,
                           double[][] median)

Display statistics about the grown region.

Parameters:

count - Number of pixels (voxels)

total - Sum of pixel intensities

mean - Average pixel intensity

stdDev - Standard deviation of pixel intensities

median - Median of pixel intensities

showRegionInfo

public void showRegionInfo(int[] count)

Display statistics about the grown region.

Parameters:

count - Number of pixels (voxels)