Package gov.nih.mipav.model.algorithms

Class AlgorithmMidsagittal

java.lang.Object

java.lang.Thread

gov.nih.mipav.model.algorithms.AlgorithmBase

gov.nih.mipav.model.algorithms.AlgorithmMidsagittal

All Implemented Interfaces:

ActionListener, WindowListener, Runnable, EventListener

public class AlgorithmMidsagittal
extends AlgorithmBase

Finds the midsagittal line of a brain MRI by:

• Flipping the image horizontally.
• Registering the flipped image against the original.
• Getting the angle that the registration rotated the image.
• Transforming the original image by half the registration rotation.

Version:

0.1 Dec 29, 2004

Author:

Evan McCreedy

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 int	baseNumIter	Limits the number of iterations of Powell's algorithm when registering the original image against the flipped image.
private int	coarseAngle	The coarse angle step to use in each dimension when registering the original image against the flipped image.
private int	costFunc	The cost function to use when registering the original image against the flipped image.
private int	dof	The number of degrees of freedom to use when registering the original image against the flipped image.
private boolean	doMultiThread
private boolean	doSubsample	Whether to use subsampling when registering the original image against the flipped image.
private boolean	fastMode	Whether to skip searching of the parameter space when registering the original image against the flipped image.
private int	fineAngle	The fine angle step to use in each dimension when registering the original image against the flipped image.
private int	interp	The interpolation method to use when registering the original image against the flipped image.
private boolean	maxOfMin	Whether to use the maximum of the minimum resolutions of the 2 images when respampling during registration against the flipped image.
private int	numMinima	Number of minima from level 8 to test at level 4 when registering the original image against the flipped image.
private int	searchAngle	The search angles to use in each dimension (from -searchAngle to searchAngle) when registering the original image against the flipped 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
AlgorithmMidsagittal(ModelImage srcImg)	Construct the midsagittal algorithm.

Method Summary

Modifier and Type	Method	Description
private void	calc()	Find the midsagittal line and transform the source image to align it along that line vertically.
private void	calc35D()
void	finalize()	Prepares this class for destruction.
ModelImage	getResultImage()	Get the midsagittal aligned image.
void	runAlgorithm()	Starts 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, 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

baseNumIter

private int baseNumIter

Limits the number of iterations of Powell's algorithm when registering the original image against the flipped image.

coarseAngle

private int coarseAngle

The coarse angle step to use in each dimension when registering the original image against the flipped image.

costFunc

private int costFunc

The cost function to use when registering the original image against the flipped image.

dof

private int dof

The number of degrees of freedom to use when registering the original image against the flipped image.

doSubsample

private boolean doSubsample

Whether to use subsampling when registering the original image against the flipped image.

doMultiThread

private boolean doMultiThread

fastMode

private boolean fastMode

Whether to skip searching of the parameter space when registering the original image against the flipped image.

fineAngle

private int fineAngle

The fine angle step to use in each dimension when registering the original image against the flipped image.

interp

private int interp

The interpolation method to use when registering the original image against the flipped image.

maxOfMin

private boolean maxOfMin

Whether to use the maximum of the minimum resolutions of the 2 images when respampling during registration against the flipped image.

numMinima

private int numMinima

Number of minima from level 8 to test at level 4 when registering the original image against the flipped image.

searchAngle

private int searchAngle

The search angles to use in each dimension (from -searchAngle to searchAngle) when registering the original image against the flipped image.

Constructor Details

AlgorithmMidsagittal

public AlgorithmMidsagittal(ModelImage srcImg)

Construct the midsagittal algorithm.

Parameters:

srcImg - source image model

Method Details

finalize

public void finalize()

Prepares this class for destruction.

Overrides:

finalize in class AlgorithmBase

getResultImage

public ModelImage getResultImage()

Get the midsagittal aligned image.

Returns:

the aligned image

runAlgorithm

public void runAlgorithm()

Starts the algorithm.

Specified by:

runAlgorithm in class AlgorithmBase

calc

private void calc()

Find the midsagittal line and transform the source image to align it along that line vertically.

calc35D

private void calc35D()