java.lang.Object
- java.lang.Thread
- - gov.nih.mipav.model.algorithms.AlgorithmBase
  - - gov.nih.mipav.model.algorithms.AlgorithmThresholdDualRGB

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.WindowListener, java.lang.Runnable, java.util.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
  java.lang.Thread.State, java.lang.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

All Methods Instance Methods Concrete Methods
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, 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
  - 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 Detail
  - 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 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
  - 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()
```

Class AlgorithmThresholdDualRGB

Nested Class Summary

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

Field Summary

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

Fields inherited from class java.lang.Thread

Constructor Summary

Method Summary

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

Methods inherited from class java.lang.Thread

Methods inherited from class java.lang.Object

Field Detail

entireImage

fillValues

isInverse

thresholdB

thresholdG

thresholdR

useChannels

pixelsInRangeR

pixelsInRangeG

pixelsInRangeB

Constructor Detail

AlgorithmThresholdDualRGB

AlgorithmThresholdDualRGB

Method Detail

finalize

runAlgorithm

calcInPlace2D

calcInPlace34D

calcStoreInDest2D

calcStoreInDest34D

setThresholdStatistics