Package gov.nih.mipav.model.algorithms

Class AlgorithmThresholdDualRGB

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmThresholdDualRGB

All Implemented Interfaces:

ActionListener, WindowListener, Runnable, EventListener

public class AlgorithmThresholdDualRGB
extends AlgorithmBase

Runs threshold (lower and upper) on color images and replaces values either outside (inverse) or inside (normal) with the fill values specified.

Version:

1.0

Author:

Ben Link

Nested Class Summary

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

Thread.Builder, Thread.State, Thread.UncaughtExceptionHandler

Field Summary

Fields

Modifier and Type	Field	Description
private boolean	entireImage	Flag, if true, indicates that the whole image should be processed.
private float[]	fillValues	Arrays containing fill values for each channel (red=0,green=1,blue=2).
private boolean	isInverse	fill values are for values outside (inverse) or inside (normal/false).
private int	pixelsInRangeB	Variable that will store the total number of blue pixel values in thresholding range
private int	pixelsInRangeG	Variable that will store the total number of green pixel values in thresholding range
private int	pixelsInRangeR	Variable that will store the total number of red pixel values in thresholding range
private float[]	thresholdB	DOCUMENT ME!
private float[]	thresholdG	DOCUMENT ME!
private float[]	thresholdR	Three arrays (R,G,B) containing minimum and maximum threshold for each channel.
private boolean[]	useChannels	Which channels to use (0 = red, 1 = green, 2 = blue).

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
AlgorithmThresholdDualRGB(ModelImage srcImage, float[] thresholdR, float[] thresholdG, float[] thresholdB, float[] fillValues, boolean[] useChannels, boolean maskFlag, boolean isInverse)	Default constructor for running algorithm on and modifying source image.
AlgorithmThresholdDualRGB(ModelImage destImg, ModelImage srcImg, float[] thresholdR, float[] thresholdG, float[] thresholdB, float[] fillValues, boolean[] useChannels, boolean maskFlag, boolean isInverse)	Default constructor for running algorithm into a destination image.

Method Summary

Modifier and Type	Method	Description
private void	calcInPlace2D()	Replace 2D source image with the thresholded image.
private void	calcInPlace34D()	Replace 3D or 4D source image with the thresholded image.
private void	calcStoreInDest2D()	Stores the thresholded image into the destination image.
private void	calcStoreInDest34D()	Stores the thresholded image into the destination image.
void	finalize()	Prepares this class for destruction.
void	runAlgorithm()	Starts the program.
private void	setThresholdStatistics()

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, 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

entireImage

private boolean entireImage

Flag, if true, indicates that the whole image should be processed. If false on process the image over the mask areas.

fillValues

private float[] fillValues

Arrays containing fill values for each channel (red=0,green=1,blue=2).

isInverse

private boolean isInverse

fill values are for values outside (inverse) or inside (normal/false).

thresholdB

private float[] thresholdB

DOCUMENT ME!

thresholdG

private float[] thresholdG

DOCUMENT ME!

thresholdR

private float[] thresholdR

Three arrays (R,G,B) containing minimum and maximum threshold for each channel.

useChannels

private boolean[] useChannels

Which channels to use (0 = red, 1 = green, 2 = blue).

pixelsInRangeR

private int pixelsInRangeR

Variable that will store the total number of red pixel values in thresholding range

pixelsInRangeG

private int pixelsInRangeG

Variable that will store the total number of green pixel values in thresholding range

pixelsInRangeB

private int pixelsInRangeB

Variable that will store the total number of blue pixel values in thresholding range

Constructor Details

AlgorithmThresholdDualRGB

public AlgorithmThresholdDualRGB(ModelImage srcImage,
 float[] thresholdR,
 float[] thresholdG,
 float[] thresholdB,
 float[] fillValues,
 boolean[] useChannels,
 boolean maskFlag,
 boolean isInverse)

Default constructor for running algorithm on and modifying source image.

Parameters:

srcImage - ModelImage source

thresholdR - float[] red thresh

thresholdG - float[] green thresh

thresholdB - float[] blue thresh

fillValues - float[] fill values [3] (r,g,b)

useChannels - boolean[] use channels [3] (r,g,b)

maskFlag - boolean whole image or voi

isInverse - boolean replace values outside (true) or inside (false)

AlgorithmThresholdDualRGB

public AlgorithmThresholdDualRGB(ModelImage destImg,
 ModelImage srcImg,
 float[] thresholdR,
 float[] thresholdG,
 float[] thresholdB,
 float[] fillValues,
 boolean[] useChannels,
 boolean maskFlag,
 boolean isInverse)

Default constructor for running algorithm into a destination image.

Parameters:

destImg - ModelImage destination

srcImg - ModelImage source

thresholdR - float[] red thresh

thresholdG - float[] green thresh

thresholdB - float[] blue thresh

fillValues - float[] fill values [3] (r,g,b)

useChannels - boolean[] use channels [3] (r,g,b)

maskFlag - boolean whole image or voi

isInverse - boolean replace values outside (true) or inside (false)

Method Details

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

calcInPlace2D

private void calcInPlace2D()

Replace 2D source image with the thresholded image.

calcInPlace34D

private void calcInPlace34D()

Replace 3D or 4D source image with the thresholded image.

calcStoreInDest2D

private void calcStoreInDest2D()

Stores the thresholded image into the destination image.

calcStoreInDest34D

private void calcStoreInDest34D()

Stores the thresholded image into the destination image.

setThresholdStatistics

private void setThresholdStatistics()