Package gov.nih.mipav.model.algorithms.utilities

Class AlgorithmReplaceRemovedSlices

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.utilities.AlgorithmReplaceRemovedSlices

All Implemented Interfaces:

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

public class AlgorithmReplaceRemovedSlices
extends AlgorithmBase

This algorithm is used to insert averaged slices where slices have been removed -If slices were removed at the beginning of the original movie, these slices will not be replaced. - Slices are only inserted between the first and last kept slices

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	destFlag	DOCUMENT ME!
private float	imageMin	DOCUMENT ME!
private boolean	insertBlank	If true, insert a blank rather than a weighted average.
private boolean	isDicom	DOCUMENT ME!
private boolean	isSplit	DOCUMENT ME!
private boolean[]	removedSlices	every false value in the array corresponds to a slice within the movie passed in. true values represent removed slices
private ModelImage	resultImage	DOCUMENT ME!

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

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
AlgorithmReplaceRemovedSlices(ModelImage srcImage, boolean[] removedSlices, boolean isSplit, boolean destFlag, boolean insertBlank)	Constructor for algorithm.

Method Summary

Modifier and Type	Method	Description
void	disposeLocal()	Local cleanup.
void	finalize()	Prepares this class for destruction.
ModelImage	getResultImage()	Retrieves the result image.
private void	insertAveragedSlices(float[] buffer1, float[] buffer2, int start, int end)	Insert weighted averaged slices between the two indices.
private void	insertBlankSlices(float[] buffer1, int start, int end)	Insert blank slices between the two indices.
void	runAlgorithm()	Function called by thread to run the algorithm.

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

destFlag

private boolean destFlag

DOCUMENT ME!

imageMin

private float imageMin

DOCUMENT ME!

insertBlank

private boolean insertBlank

If true, insert a blank rather than a weighted average.

isDicom

private boolean isDicom

DOCUMENT ME!

isSplit

private boolean isSplit

DOCUMENT ME!

removedSlices

private boolean[] removedSlices

every false value in the array corresponds to a slice within the movie passed in. true values represent removed slices

resultImage

private ModelImage resultImage

DOCUMENT ME!

Constructor Detail

AlgorithmReplaceRemovedSlices

public AlgorithmReplaceRemovedSlices(ModelImage srcImage,
                                     boolean[] removedSlices,
                                     boolean isSplit,
                                     boolean destFlag,
                                     boolean insertBlank)

Constructor for algorithm.

Parameters:

srcImage - the source image

removedSlices - an array showing which slices were removed

isSplit - DOCUMENT ME!

destFlag - DOCUMENT ME!

insertBlank - If true, insert a blank rather than a weighted average

Method Detail

disposeLocal

public void disposeLocal()

Local cleanup.

finalize

public void finalize()

Prepares this class for destruction.

Overrides:

finalize in class AlgorithmBase

getResultImage

public ModelImage getResultImage()

Retrieves the result image.

Returns:

resultImage the new image

runAlgorithm

public void runAlgorithm()

Function called by thread to run the algorithm.

Specified by:

runAlgorithm in class AlgorithmBase

insertAveragedSlices

private void insertAveragedSlices(float[] buffer1,
                                  float[] buffer2,
                                  int start,
                                  int end)

Insert weighted averaged slices between the two indices.

Parameters:

buffer1 - empty buffer to hold the first slice

buffer2 - empty buffer to hold the last slice

start - start index

end - end index

insertBlankSlices

private void insertBlankSlices(float[] buffer1,
                               int start,
                               int end)

Insert blank slices between the two indices.

Parameters:

buffer1 - empty buffer to hold the minimum value

start - start index

end - end index