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

Class AlgorithmExtractSlices

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.utilities.AlgorithmExtractSlices

All Implemented Interfaces:

ActionListener, WindowListener, Runnable, EventListener

public class AlgorithmExtractSlices
extends AlgorithmBase

Algorithm that extracts the slices indicated in the list from the srcImage and puts them into the destImage.

Note that an image is a set of slices; each slice is XxY, with Z slices.

Version:

v0.11 1 Nov 1999 (processes most images)

Author:

Lynne Pusanik based on AlgorithmRemoveSlices, David Parsons (parsonsd@cbel.cit.nih.gov) (with vast help from M.McAuliffe)

See Also:

• AlgorithmRemoveSlices

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	convert4Dto3D	If true convert the selected images to 3D datasets.
private Vector<String>	extractList	List of slices to extract from source image.
private int	oldZdim	Original Z dimension of the image.
private int	sliceArea	Area of a slice (Xdim * Ydim).
private int	Xdim	X dimension of the image.
private int	Ydim	Y dimension of the 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
AlgorithmExtractSlices(ModelImage srcImage, ModelImage destImage, String[] extractSlices)	Import source and destination images into the class.

Method Summary

Modifier and Type	Method	Description
private void	calcStoreInDest()	DOCUMENT ME!
Vector<String>	getExtractList()	Method to return the extract list since local copies may change while the algorithm runs.
void	runAlgorithm()	Calculates the final output.
void	setConvert4Dto3D(boolean doConvert)	DOCUMENT ME!

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

actionPerformed, addListener, addProgressChangeListener, calculateImageSize, calculatePrincipleAxis, computeElapsedTime, computeElapsedTime, convertIntoFloat, delinkProgressToAlgorithm, delinkProgressToAlgorithmMulti, displayError, errorCleanUp, finalize, 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

convert4Dto3D

private boolean convert4Dto3D

If true convert the selected images to 3D datasets.

extractList

private Vector<String> extractList

List of slices to extract from source image.

oldZdim

private int oldZdim

Original Z dimension of the image.

sliceArea

private int sliceArea

Area of a slice (Xdim * Ydim).

Xdim

private int Xdim

X dimension of the image.

Ydim

private int Ydim

Y dimension of the image.

Constructor Details

AlgorithmExtractSlices

public AlgorithmExtractSlices(ModelImage srcImage,
 ModelImage destImage,
 String[] extractSlices)

Import source and destination images into the class.

Parameters:

srcImage - source image (image to clip from)

destImage - destination image (image to paste to)

extractSlices - list of slice numbers indicating which slices in source should be extracted to destination.

Method Details

getExtractList

public Vector<String> getExtractList()

Method to return the extract list since local copies may change while the algorithm runs.

Returns:

DOCUMENT ME!

runAlgorithm

public void runAlgorithm()

Calculates the final output.

Specified by:

runAlgorithm in class AlgorithmBase

setConvert4Dto3D

public void setConvert4Dto3D(boolean doConvert)

DOCUMENT ME!

Parameters:

doConvert - DOCUMENT ME!

calcStoreInDest

private void calcStoreInDest()

DOCUMENT ME!