woSource

Class ImageRegistrationPS

java.lang.Object

woSource.ImageRegistration

woSource.ImageRegistrationPS

public class ImageRegistrationPS
extends ImageRegistration

Field Summary

Fields

Modifier and Type	Field and Description
protected java.lang.String	fileName
protected static int	L
protected java.lang.String	Label
protected static int	LMT
protected static int	M
protected float[][][][]	pixelEndoLambdas
protected float[][][][]	pixelEndoVolumes
protected java.lang.String	slash
protected static int	T
protected int	timeAt
protected static int	X
protected static int	Y
protected static int	Z

Fields inherited from class woSource.ImageRegistration

alreadySavedParams, autoSaveParams, D, H, matchXYscales, transformedAD, viewTransformedImage, W, wasReadIn

Constructor Summary

Constructors

Constructor and Description
ImageRegistrationPS()
ImageRegistrationPS(ImageRegistrationPS A)
ImageRegistrationPS(int curtime, SimTagImageInfo[] simImgInfo, Image3Dinfo[] imgInfo, SeriesImagesClass[] seriesOfImages, HeartLongAxis heartGeo)

Method Summary

Modifier and Type	Method and Description
java.lang.String	allCoeffsToString()
java.lang.String	BMcoeffsToString()
void	calcDeformedMRseries(int seriesAt)
void	calcDeformedTagseries(int seriesAt, int sliceAt)
static float[]	calcImageAvgSyy(byte[][][] A, boolean[][][] maskA)
static float[]	calcImageAvgSyy(short[][][] A, boolean[][][] maskA)
float	CalcNCCC()
void	calcSimTagAvgStDev() currently not using until I verify that it does not change meaningfully
void	computeVoxelEndoLambdas(ContourFit confit)
void	Copy(ImageRegistrationPS A)
void	destroy()
float	doOpt(boolean doingBMonly)
float[]	getBMcoeffs()
float[][][][]	getDeformedVoxelLocs(int seriesAt)
float[][]	getPScoeffs()
int[]	getPSfitOrder()
java.lang.String	PScoeffsToString()
boolean	read(java.lang.String path, int timeAt)
void	run()
void	run(float[] prevBMcoeffs, float[][] prevPScoeffs, int[] prevFitOrder)
void	setCurCoeffs(float[] curBMvals, float[][] curPSvals)
void	setRefVoxelLocs()
void	showAbout()
void	spaceWindowsOnScreen()
void	updatePScoeffsArray(int prev_rfit, int prev_mufit, int new_rfit, int new_mufit)
void	updateRegDisplay()
void	write(java.lang.String path, int timeAt)

Methods inherited from class woSource.ImageRegistration

CalcCorr, CalcNMI, Copy, finishReg, getAmoebaCurValues, getCurValues, getDrot, getDscale, getHrot, getHscale, getInvTransformedPtCoords_px, getInvTransformedPtCoords_px, getTransformedPtCoords_mm, getTransformedPtCoords_mm, getTransformedPtCoords_px, getTransformedPtCoords_px, getWrot, getWscale, getXshift, getYshift, getZshift, putAmoebaCurValues, read, run, run, run, setRegDisplay, toString, updateRegDisplay, write, writeDefImgTrans

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

X

protected static final int X

See Also:

Constant Field Values

Y

protected static final int Y

See Also:

Constant Field Values

Z

protected static final int Z

See Also:

Constant Field Values

L

protected static final int L

See Also:

Constant Field Values

M

protected static final int M

See Also:

Constant Field Values

T

protected static final int T

See Also:

Constant Field Values

LMT

protected static final int LMT

See Also:

Constant Field Values

Label

protected java.lang.String Label

timeAt

protected int timeAt

fileName

protected java.lang.String fileName

slash

protected java.lang.String slash

pixelEndoLambdas

protected float[][][][] pixelEndoLambdas

pixelEndoVolumes

protected float[][][][] pixelEndoVolumes

Constructor Detail

ImageRegistrationPS

public ImageRegistrationPS()

ImageRegistrationPS

public ImageRegistrationPS(ImageRegistrationPS A)

ImageRegistrationPS

public ImageRegistrationPS(int curtime,
                           SimTagImageInfo[] simImgInfo,
                           Image3Dinfo[] imgInfo,
                           SeriesImagesClass[] seriesOfImages,
                           HeartLongAxis heartGeo)

Method Detail

showAbout

public void showAbout()

Overrides:

showAbout in class ImageRegistration

run

public void run()

run

public void run(float[] prevBMcoeffs,
                float[][] prevPScoeffs,
                int[] prevFitOrder)

updateRegDisplay

public void updateRegDisplay()

calcSimTagAvgStDev

public void calcSimTagAvgStDev()

currently not using until I verify that it does not change meaningfully

calcImageAvgSyy

public static float[] calcImageAvgSyy(byte[][][] A,
                                      boolean[][][] maskA)

calcImageAvgSyy

public static float[] calcImageAvgSyy(short[][][] A,
                                      boolean[][][] maskA)

computeVoxelEndoLambdas

public void computeVoxelEndoLambdas(ContourFit confit)

setRefVoxelLocs

public void setRefVoxelLocs()

getDeformedVoxelLocs

public float[][][][] getDeformedVoxelLocs(int seriesAt)

CalcNCCC

public float CalcNCCC()

Overrides:

CalcNCCC in class ImageRegistration

setCurCoeffs

public void setCurCoeffs(float[] curBMvals,
                         float[][] curPSvals)

calcDeformedMRseries

public void calcDeformedMRseries(int seriesAt)

calcDeformedTagseries

public void calcDeformedTagseries(int seriesAt,
                                  int sliceAt)

Copy

public void Copy(ImageRegistrationPS A)

doOpt

public float doOpt(boolean doingBMonly)

destroy

public void destroy()

spaceWindowsOnScreen

public void spaceWindowsOnScreen()

Overrides:

spaceWindowsOnScreen in class ImageRegistration

updatePScoeffsArray

public void updatePScoeffsArray(int prev_rfit,
                                int prev_mufit,
                                int new_rfit,
                                int new_mufit)

write

public void write(java.lang.String path,
                  int timeAt)

read

public boolean read(java.lang.String path,
                    int timeAt)

BMcoeffsToString

public java.lang.String BMcoeffsToString()

PScoeffsToString

public java.lang.String PScoeffsToString()

allCoeffsToString

public java.lang.String allCoeffsToString()

getBMcoeffs

public float[] getBMcoeffs()

getPScoeffs

public float[][] getPScoeffs()

getPSfitOrder

public int[] getPSfitOrder()