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

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.WindowListener, java.lang.Runnable, java.util.EventListener
```
public class AlgorithmCenterOfMass
extends AlgorithmBase
```
This algorithm calculates the center of mass for 2D and 3D black and white images.

Version:

1.0 February 26, 2008

Author:

William Gandler

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`	`allowDataWindow`	If true, allow data window output
`private boolean`	`entireImage`	Flag, if true, indicates that the whole image should be processed.
`private float[]`	`threshold`	Array of two thresholds. threshold[0] = Minimum threshold, threshold[1] = Maximum threshold.
`double`	`xCOM`	x coordinate for center of mass, normalized by image resolution
`double`	`yCOM`	y coordinate for center of mass, normalized by image resolution
`double`	`zCOM`	z coordinate for center of mass, normalized by image resolution, if srcImage is 2D = 0

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
`AlgorithmCenterOfMass(ModelImage srcImg, float[] threshold, boolean maskFlag)`	Creates a new AlgorithmCenterOfMass object.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`private void`	`calcInPlace2D()`	Calculate center of mass of 2D black and white image.
`private void`	`calcInPlace3D()`	Calculate center of mass of 3D black and white image.
`void`	`finalize()`	Prepares this class for destruction.
`double[]`	`getCenterOfMass()`	Returns the computed center of mass.
`void`	`runAlgorithm()`	Starts the program.
`void`	`setAllowDataWindow(boolean allowDataWindow)`

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.
  - threshold
```
private float[] threshold
```
    Array of two thresholds. threshold[0] = Minimum threshold, threshold[1] = Maximum threshold.
  - allowDataWindow
```
private boolean allowDataWindow
```
    If true, allow data window output
  - xCOM
```
public double xCOM
```
    x coordinate for center of mass, normalized by image resolution
  - yCOM
```
public double yCOM
```
    y coordinate for center of mass, normalized by image resolution
  - zCOM
```
public double zCOM
```
    z coordinate for center of mass, normalized by image resolution, if srcImage is 2D = 0
- Constructor Detail
  - AlgorithmCenterOfMass
```
public AlgorithmCenterOfMass(ModelImage srcImg,
                             float[] threshold,
                             boolean maskFlag)
```
    Creates a new AlgorithmCenterOfMass object.
    
    Parameters:
    
    srcImg - source image model
    
    threshold - array of two thresholds
    
    maskFlag - true indicates that the whole image should be processed
- Method Detail
  - setAllowDataWindow
```
public void setAllowDataWindow(boolean allowDataWindow)
```
  - 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()
```
    Calculate center of mass of 2D black and white image.
  - calcInPlace3D
```
private void calcInPlace3D()
```
    Calculate center of mass of 3D black and white image.
  - getCenterOfMass
```
public double[] getCenterOfMass()
```
    Returns the computed center of mass. If algorithm is not completed: returns null. If 2D: returns {xCenter, yCenter, 0} If 3D: returns {xCenter, yCenter, zCenter}

Class AlgorithmCenterOfMass

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

threshold

allowDataWindow

xCOM

yCOM

zCOM

Constructor Detail

AlgorithmCenterOfMass

Method Detail

setAllowDataWindow

finalize

runAlgorithm

calcInPlace2D

calcInPlace3D

getCenterOfMass