mcib3d.image3d.legacy

Class IntImage3D

java.lang.Object

mcib3d.image3d.legacy.Image3D

mcib3d.image3d.legacy.IntImage3D

Deprecated.

@Deprecated
public class IntImage3D
extends Image3D

3D images with integer values (8 or 16 bits)

Field Summary

Fields inherited from class mcib3d.image3d.legacy.Image3D

BYTE, centerx, centery, centerz, FLOAT, IJstack, maxPixel, meanValue, minPixel, multithread, SHORT, showStatus, sizex, sizey, sizez, stDev, type, XAXIS, YAXIS, ZAXIS

Constructor Summary

Constructors

Constructor and Description
IntImage3D(ImagePlus plus) Deprecated.
IntImage3D(ImageStack stack) Deprecated. constructor from a ImageStack
IntImage3D(int sizex, int sizey, int sizez) Deprecated. constructor (black image)
IntImage3D(int sizex, int sizey, int sizez, int ty) Deprecated. Constructor for the IntImage3D object

Method Summary

Modifier and Type	Method and Description
IntImage3D	adaptiveFilter(float radx, float rady, float radz, int nbcpus) Deprecated. Adaptive Filter in 3D (expermimental) Take 7 neighborhood, compute mean and std dev Assign mean of neighborhood with lowest std dev
Image3D	addImage(IntImage3D img, float s) Deprecated. Adds a feature to the Image attribute of the IntImage3D object
Image3D	addValue(int s) Deprecated. Description of the Method
IntImage3D	binarisation(int lowThreshold, int highThreshold) Deprecated. binarisation de l'image, creation d'une image avec 255 si entre les deux seuils
ImageInt	binaryReconstruct(ImageInt base) Deprecated. Description of the Method
ImageInt	binaryReconstructByObjects(ImageInt base) Deprecated.
IntImage3D	closing3D(float voisx, float voisy, float voisz, int ite, boolean normal) Deprecated. Fermeture binaire 3D, normalement les objets sont noir sur fond blanc
IntImage3D	closing3D(Image3D ker, int ite, boolean normal) Deprecated. Fermeture binaire 3D avec kernel, normalement les objets sont noir sur fond blanc
IntImage3D	closing3D(int voisx, int voisy, int voisz, int ite) Deprecated. Fermeture binaire 3D, normalement les objets sont noir sur fond blanc
RealImage3D	computeHessianDerivative(int value) Deprecated. compute the hessian derivative (to validate)
IntImage3D	createImageSameSize3D() Deprecated.
IntImage3D	createLocalMaximaImage(float voisx, float voisy, float voisz, boolean keep) Deprecated. Création d'une image des maxima locaux dans un voisinage donne
IntImage3D	createLocalMaximaImage(float voisx, float voisy, float voisz, int th, boolean keep) Deprecated. Création d'une image des maxima locaux dans un voisiange donne
IntImage3D	dilatation3D(float radx, float rady, float radz, boolean black) Deprecated. 3D dilatation
IntImage3D	dilatation3D(Image3D ker, boolean black) Deprecated. 3D dilatation with kernel
protected IntImage3D	dilatationConditionGris(IntImage3D base, int voisx, int voisy, int voisz) Deprecated. Dilatation par rapport a une image de base
IntImage3D	erosion3D(float voisx, float voisy, float voisz, boolean normal) Deprecated. Erosion binaire 3D, normalement les objets sont noir sur fond blanc
IntImage3D	erosion3D(Image3D ker) Deprecated. Erosion binaire 3D avec kernel, normalement les objets sont noir sur fond blanc
IntImage3D	erosion3D(Image3D ker, boolean normal) Deprecated. Erosion binaire 3D avec kernel, normalement les objets sont noir sur fond blanc
IntImage3D	erosion3D(int voisx, int voisy, int voisz) Deprecated. Erosion binaire 3D, normalement les objets sont noir sur fond blanc
void	extendHisto() Deprecated. extension de l'histogramme de l'image 8 bits
IntImage3D	fillHoles3D(int background, int object) Deprecated. Fill holes for a binary image
void	filterGeneric(IntImage3D out, float radx, float rady, float radz, int zmin, int zmax, int filter) Deprecated. 3D filter using threads
protected void	flood3D(IntImage3D base, int x0, int y0, int z0, int val) Deprecated.
ArrayUtil	getColumn(int x, int y, int z) Deprecated. int donne une ligne de l'image3D
int	getCount(int sb, int sh) Deprecated. Gets the count attribute of the IntImage3D object
HistogramUtil	getHistogram() Deprecated. donne l'histogramme de l'image3D 16 bits
int	getMaximum() Deprecated. donne le maximum de l'image3D
int	getMean(int sb, int sh) Deprecated. Gets the meanValue attribute of the IntImage3D object
int	getMinAboveValue(int value) Deprecated. Gets the minAboveValue attribute of the FishImage3D object
int	getMinimum() Deprecated. donne le minimum de l'image3D
float	getPix(float x, float y, float z) Deprecated. Gets the pix attribute of the IntImage3D object
float	getPix(int x, int y, int z) Deprecated. Gets the pix attribute of the IntImage3D object
float	getPix(Voxel3D vox, boolean b) Deprecated.
int	getPixel(double x, double y, double z) Deprecated.
int	getPixel(float x, float y, float z) Deprecated. Gets the pixel attribute of the IntImage3D object with tri-linear interpolation
int	getPixel(int x, int y, int z) Deprecated. recupere la valeur du pixel de coordonnees (x,y,z)
int	getPixel(Point3D point, boolean interpolate) Deprecated. Gets the pixel attribute of the IntImage3D object
int	getPixel(Vector3D vector, boolean interpolate) Deprecated. Gets the pixel attribute of the IntImage3D object
int	getPixel(Voxel3D point, boolean interpolate) Deprecated. Gets the pixel attribute of the IntImage3D object
double[]	getPixelMoments(int x, int y, int z, int radXY, int radZ) Deprecated. Gets the pixelMoments attribute of the IntImage3D object
ArrayUtil	getProf(int x, int y, int z) Deprecated. donne une ligne en Z dans l'image 3D
ArrayUtil	getRow(int x, int y, int z) Deprecated. donne une ligne de l'image3D
double	getSigma(int sb, int sh) Deprecated. Gets the sigma attribute of the IntImage3D object
ImageStack	getStack() Deprecated. Gets the ImageStack associated with the 3D image
IntImage3D	gradient(int axis) Deprecated. The gradient of the image in a given direction (sobel)
IntImage3D	grayDilatation(IntImage3D ker) Deprecated.
IntImage3D	grayErosion(IntImage3D ker) Deprecated.
IntImage3D	grayReconstruction(IntImage3D base) Deprecated.
IntImage3D	hitOrMiss(int obj, int fond, Image3D ker) Deprecated.
boolean	isBinary(int background) Deprecated.
boolean	isLocalMaximum(int x, int y, int z, float voisx, float voisy, float voisz) Deprecated. dit si le pixel donne est un maximum local avec un voisinage donne
RealImage3D	logMath() Deprecated. Compute the log of the image
IntImage3D	max(IntImage3D ima) Deprecated.
IntImage3D	maximumFilter(float radx, float rady, float radz) Deprecated. 3D maximum filter
IntImage3D	medianFilter(float radx, float rady, float radz) Deprecated. 3D median filter
IntImage3D	min(IntImage3D ima) Deprecated.
IntImage3D	minimumFilter(float radx, float rady, float radz) Deprecated. 3D minimum filter
int	nbConnexite2D(int val, int z) Deprecated. Description of the Method
IntImage3D	nbNeighbor(int obj) Deprecated. Number of neighborhood pixels
IntImage3D	nlLaplacien(int radx, int rady, int radz) Deprecated. 3D non linear laplacien
IntImage3D	nonLinearLaplacianFilter(int radx, int rady, int radz) Deprecated. 3D non linear laplacian (version 2)
IntImage3D	opening3D(Image3D ker, int ite) Deprecated. Ouverture binaire 3D avec kernel, normalement les objets sont noir sur fond blanc
IntImage3D	opening3D(Image3D ker, int ite, boolean normal) Deprecated. Ouverture binaire 3D avec kernel, normalement les objets sont noir sur fond blanc
IntImage3D	opening3D(int voisx, int voisy, int voisz, int ite) Deprecated. Ouverture binaire 3D, normalement les objets sont noir sur fond blanc
IntImage3D	opening3D(int voisx, int voisy, int voisz, int ite, boolean normal) Deprecated. Ouverture binaire 3D, normalement les objets sont noir sur fond blanc
protected IntImage3D	projection(int val, int axe, int p1, int p2) Deprecated. Average projection
IntImage3D	projectionX(int val) Deprecated. Description of the Method
IntImage3D	projectionY(int val) Deprecated. Description of the Method
IntImage3D	projectionZ(int val) Deprecated. Description of the Method
IntImage3D	projectionZ(int val, int p1, int p2) Deprecated. Description of the Method
void	propagation(IntImage3D base, int abs, int ord, int prof, int val, int nval) Deprecated. Propagation of a value to connected pixels
void	propagation27(int xx, int yy, int zz, int val, int nval) Deprecated. Propagation of a value to connected pixels
protected void	propagation2D(int abs, int ord, int prof, int val, int nval) Deprecated. Description of the Method
void	propagation6(int xx, int yy, int zz, int val, int nval) Deprecated. Propagation of a value to connected pixels
protected void	propagationConditionnelle(IntImage3D base, int abs, int ord, int prof, int val) Deprecated. Description of the Method
void	putPixel(int x, int y, int z, double value) Deprecated.
void	putPixel(int x, int y, int z, int value) Deprecated. donne une valeur au pixel de coordonnees (x,y,z)
void	replacePixelsValue(int val, int rep) Deprecated. Replace a pixel value by another
void	replacePixelsValue(int val, int rep, Object3DVoxels obj) Deprecated. Replace a pixel value by another within a specified object
IntImage3D	RH_Maxima(int R, int H) Deprecated. Méthode du RH maxima
void	setPix(int x, int y, int z, double value) Deprecated. Sets the pix attribute of the IntImage3D object
int	snr3D() Deprecated. Description of the Method
IntImage3D	sobelFilter() Deprecated. Sobel-like filtering in 3D
IntImage3D	tapper(int r0x, int r0y, int r0z) Deprecated. Tappering - smooth towards background
IntImage3D	tophatFilter(int radx, int rady, int radz) Deprecated. TopHat Filter to remove local background Enhance spots
RealImage3D	varianceFilter(float radx, float rady, float radz) Deprecated. Variance Filter in 3D
IntImage3D	watershed() Deprecated. Watershed algorithm starting with a seed image where seed > 0

Methods inherited from class mcib3d.image3d.legacy.Image3D

computeMinMax, createKernelEllipsoid, crop, crossCorrelationNormalized, extract, getCenterX, getCenterY, getCenterZ, getFloatMaximum, getFloatMinimum, getLinePixelValue, getLinePixelValue, getMaxPixel, getMean, getNbPixel, getNeighborhood, getNeighborhood, getNeighborhood3x3x3, getNeighborhoodCross3D, getNeighborhoodGrayKernelAdd, getNeighborhoodGrayKernelMinus, getNeighborhoodKernel, getNeighborhoodLayer, getNeighborhoodLayer, getNeighborhoodSphere, getNeighborhoodSphere, getPlus, getSigma, getSizex, getSizey, getSizez, getSumAbs, getType, insert, kill, radialDistribution, radialDistribution, reset, reset, setShowStatus, split

Methods inherited from class java.lang.Object

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

Constructor Detail

IntImage3D

public IntImage3D(int sizex,
                  int sizey,
                  int sizez)

Deprecated.

constructor (black image)

Parameters:

sizex - size x of 3D image

sizey - size y of 3D image

sizez - size z of 3D image

IntImage3D

public IntImage3D(int sizex,
                  int sizey,
                  int sizez,
                  int ty)

Deprecated.

Constructor for the IntImage3D object

Parameters:

sizex - size x of 3D image

sizey - size x of 3D image

sizez - size x of 3D image

ty - Data type

IntImage3D

public IntImage3D(ImageStack stack)

Deprecated.

constructor from a ImageStack

Parameters:

stack - IJstack

IntImage3D

public IntImage3D(ImagePlus plus)

Deprecated.

Method Detail

createImageSameSize3D

public IntImage3D createImageSameSize3D()

Deprecated.

getStack

public ImageStack getStack()

Deprecated.

Gets the ImageStack associated with the 3D image

Overrides:

getStack in class Image3D

Returns:

The IJstack

medianFilter

public IntImage3D medianFilter(float radx,
                               float rady,
                               float radz)

Deprecated.

3D median filter

Parameters:

radx - Radius of neighborhood in x

rady - Radius of neighborhood in y

radz - Radius of neighborhood in z

Returns:

3D filtered image

filterGeneric

public void filterGeneric(IntImage3D out,
                          float radx,
                          float rady,
                          float radz,
                          int zmin,
                          int zmax,
                          int filter)

Deprecated.

3D filter using threads

Parameters:

out -

radx - Radius of mean filter in x

rady - Radius of mean filter in y

radz - Radius of mean filter in z

zmin -

zmax -

filter -

varianceFilter

public RealImage3D varianceFilter(float radx,
                                  float rady,
                                  float radz)

Deprecated.

Variance Filter in 3D

Parameters:

radx - radius in x

rady - radius in y

radz - radius in z

Returns:

3D variance image

adaptiveFilter

public IntImage3D adaptiveFilter(float radx,
                                 float rady,
                                 float radz,
                                 int nbcpus)

Deprecated.

Adaptive Filter in 3D (expermimental) Take 7 neighborhood, compute mean and std dev Assign mean of neighborhood with lowest std dev

Parameters:

radx -

radz -

rady -

Returns:

3D filtered image

maximumFilter

public IntImage3D maximumFilter(float radx,
                                float rady,
                                float radz)

Deprecated.

3D maximum filter

Parameters:

radx - Radius of mean filter in x

rady - Radius of mean filter in y

radz - Radius of mean filter in z

Returns:

Filtered 3D image

getPixelMoments

public double[] getPixelMoments(int x,
                                int y,
                                int z,
                                int radXY,
                                int radZ)

Deprecated.

Gets the pixelMoments attribute of the IntImage3D object

Parameters:

x - x coordinate of pixel

y - y coordinate of pixel

z - z coordinate of pixel

radXY - Description of the Parameter

radZ - Description of the Parameter

Returns:

The pixelMoments value

minimumFilter

public IntImage3D minimumFilter(float radx,
                                float rady,
                                float radz)

Deprecated.

3D minimum filter

Parameters:

radx - Radius of mean filter in x

rady - Radius of mean filter in y

radz - Radius of mean filter in z

Returns:

Filtered 3D image

tophatFilter

public IntImage3D tophatFilter(int radx,
                               int rady,
                               int radz)

Deprecated.

TopHat Filter to remove local background Enhance spots

Parameters:

radx - rayon du voisinage en x

rady - rayon du voisinage en y

radz - rayon du voisinage en z

Returns:

Image Filtrée

nlLaplacien

public IntImage3D nlLaplacien(int radx,
                              int rady,
                              int radz)

Deprecated.

3D non linear laplacien

Parameters:

radx - Radius of mean filter in x

rady - Radius of mean filter in y

radz - Radius of mean filter in z

Returns:

Filtered 3D image

nonLinearLaplacianFilter

public IntImage3D nonLinearLaplacianFilter(int radx,
                                           int rady,
                                           int radz)

Deprecated.

3D non linear laplacian (version 2)

Parameters:

radx - rayon du voisinage en x

rady - rayon du voisinage en y

radz - rayon du voisinage en z

Returns:

Image Filtrée

dilatation3D

public IntImage3D dilatation3D(float radx,
                               float rady,
                               float radz,
                               boolean black)

Deprecated.

3D dilatation

Parameters:

radx - voisinage en x

rady - voisinage en y

radz - voisinage en z

black - black objects (0)

Returns:

dilated image

dilatation3D

public IntImage3D dilatation3D(Image3D ker,
                               boolean black)

Deprecated.

3D dilatation with kernel

Parameters:

ker - The kernel image

black - black objects (0)

Returns:

dilated image

erosion3D

public IntImage3D erosion3D(float voisx,
                            float voisy,
                            float voisz,
                            boolean normal)

Deprecated.

Erosion binaire 3D, normalement les objets sont noir sur fond blanc

Parameters:

voisx - voisinage en x

voisy - voisinage en y

voisz - voisinage en z

normal - Vrai si obj noir sur blanc, faux sinon

Returns:

image modifiee

erosion3D

public IntImage3D erosion3D(Image3D ker,
                            boolean normal)

Deprecated.

Erosion binaire 3D avec kernel, normalement les objets sont noir sur fond blanc

Parameters:

normal - Vrai si obj noir sur blanc, faux sinon

ker - Le kernel (>0 inside kernel, 0 outside kernel)

Returns:

image modifiee

erosion3D

public IntImage3D erosion3D(int voisx,
                            int voisy,
                            int voisz)

Deprecated.

Erosion binaire 3D, normalement les objets sont noir sur fond blanc

Parameters:

voisx - voisinage en x

voisy - voisinage en y

voisz - voisinage en z

Returns:

image modifiee

erosion3D

public IntImage3D erosion3D(Image3D ker)

Deprecated.

Erosion binaire 3D avec kernel, normalement les objets sont noir sur fond blanc

Parameters:

ker - Le kernel (>0 inside kernel, 0 outside kernel)

Returns:

image modifiee

hitOrMiss

public IntImage3D hitOrMiss(int obj,
                            int fond,
                            Image3D ker)

Deprecated.

grayDilatation

public IntImage3D grayDilatation(IntImage3D ker)

Deprecated.

Parameters:

ker -

Returns:

grayErosion

public IntImage3D grayErosion(IntImage3D ker)

Deprecated.

Parameters:

ker -

Returns:

opening3D

public IntImage3D opening3D(int voisx,
                            int voisy,
                            int voisz,
                            int ite,
                            boolean normal)

Deprecated.

Ouverture binaire 3D, normalement les objets sont noir sur fond blanc

Parameters:

voisx - voisinage en x

voisy - voisinage en y

voisz - voisinage en z

ite - Taille de l'ouverture

normal - Vrai si obj noir sur blanc, faux sinon

Returns:

image modifiee

opening3D

public IntImage3D opening3D(Image3D ker,
                            int ite,
                            boolean normal)

Deprecated.

Ouverture binaire 3D avec kernel, normalement les objets sont noir sur fond blanc

Parameters:

normal - Vrai si obj noir sur blanc, faux sinon

ker - Noyau (>0 inside kernel, 0 outside kernel)

ite - Description of the Parameter

Returns:

image modifiee

opening3D

public IntImage3D opening3D(int voisx,
                            int voisy,
                            int voisz,
                            int ite)

Deprecated.

Ouverture binaire 3D, normalement les objets sont noir sur fond blanc

Parameters:

voisx - voisinage en x

voisy - voisinage en y

voisz - voisinage en z

ite - Taille de l'ouverture

Returns:

image modifiee

opening3D

public IntImage3D opening3D(Image3D ker,
                            int ite)

Deprecated.

Ouverture binaire 3D avec kernel, normalement les objets sont noir sur fond blanc

Parameters:

ite - Taille de l'ouverture

ker - Noyau (>0 inside kernel, 0 outside kernel)

Returns:

image modifiee

closing3D

public IntImage3D closing3D(float voisx,
                            float voisy,
                            float voisz,
                            int ite,
                            boolean normal)

Deprecated.

Fermeture binaire 3D, normalement les objets sont noir sur fond blanc

Parameters:

voisx - voisinage en x

voisy - voisinage en y

voisz - voisinage en z

ite - Taille de la fermeture

normal - Vrai si obj noir sur blanc, faux sinon

Returns:

image modifiee

closing3D

public IntImage3D closing3D(Image3D ker,
                            int ite,
                            boolean normal)

Deprecated.

Fermeture binaire 3D avec kernel, normalement les objets sont noir sur fond blanc

Parameters:

normal - Vrai si obj noir sur blanc, faux sinon

ker - Noyau (>0 inside kernel, 0 outside kernel)

ite - Description of the Parameter

Returns:

image modifiee

closing3D

public IntImage3D closing3D(int voisx,
                            int voisy,
                            int voisz,
                            int ite)

Deprecated.

Fermeture binaire 3D, normalement les objets sont noir sur fond blanc

Parameters:

voisx - voisinage en x

voisy - voisinage en y

voisz - voisinage en z

ite - Taille de l'ouverture

Returns:

image modifiee

getPixel

public int getPixel(int x,
                    int y,
                    int z)

Deprecated.

recupere la valeur du pixel de coordonnees (x,y,z)

Parameters:

x - coordonnee en x

y - coordonnee en yint

z - coordonnee en z

Returns:

valeur du pixel

getPixel

public int getPixel(Point3D point,
                    boolean interpolate)

Deprecated.

Gets the pixel attribute of the IntImage3D object

Parameters:

point - Description of the Parameter

interpolate - Description of the Parameter

Returns:

The pixel value

getPixel

public int getPixel(Voxel3D point,
                    boolean interpolate)

Deprecated.

Gets the pixel attribute of the IntImage3D object

Parameters:

point - Description of the Parameter

interpolate - Description of the Parameter

Returns:

The pixel value

getPixel

public int getPixel(Vector3D vector,
                    boolean interpolate)

Deprecated.

Gets the pixel attribute of the IntImage3D object

Parameters:

vector - Description of the Parameter

interpolate - Description of the Parameter

Returns:

The pixel value

getPixel

public int getPixel(float x,
                    float y,
                    float z)

Deprecated.

Gets the pixel attribute of the IntImage3D object with tri-linear interpolation

Parameters:

x - x coordinate (float)

y - y coordinate (float)

z - z coordinate (float)

Returns:

The interpoalted pixel value

getPixel

public int getPixel(double x,
                    double y,
                    double z)

Deprecated.

Parameters:

x -

y -

z -

Returns:

getPix

public float getPix(int x,
                    int y,
                    int z)

Deprecated.

Gets the pix attribute of the IntImage3D object

Specified by:

getPix in class Image3D

Parameters:

x - Description of the Parameter

y - Description of the Parameter

z - Description of the Parameter

Returns:

The pix value

getPix

public float getPix(float x,
                    float y,
                    float z)

Deprecated.

Gets the pix attribute of the IntImage3D object

Specified by:

getPix in class Image3D

Parameters:

x - Description of the Parameter

y - Description of the Parameter

z - Description of the Parameter

Returns:

The pix value

getPix

public float getPix(Voxel3D vox,
                    boolean b)

Deprecated.

Specified by:

getPix in class Image3D

Parameters:

vox -

b -

Returns:

setPix

public void setPix(int x,
                   int y,
                   int z,
                   double value)

Deprecated.

Sets the pix attribute of the IntImage3D object

Specified by:

setPix in class Image3D

Parameters:

x - The new pix value

y - The new pix value

z - The new pix value

value - The new pix value

putPixel

public final void putPixel(int x,
                           int y,
                           int z,
                           int value)

Deprecated.

donne une valeur au pixel de coordonnees (x,y,z)

Parameters:

x - coordonnee en x

y - coordonnee en y

z - coordonnee en z

value - valeur du pixel

putPixel

public final void putPixel(int x,
                           int y,
                           int z,
                           double value)

Deprecated.

binarisation

public IntImage3D binarisation(int lowThreshold,
                               int highThreshold)

Deprecated.

binarisation de l'image, creation d'une image avec 255 si entre les deux seuils

Specified by:

binarisation in class Image3D

Parameters:

lowThreshold - seuil bas

highThreshold - seuil haut

Returns:

une Image3D contenant l'image binarisee

isBinary

public boolean isBinary(int background)

Deprecated.

Parameters:

background -

Returns:

extendHisto

public void extendHisto()

Deprecated.

extension de l'histogramme de l'image 8 bits

getMaximum

public int getMaximum()

Deprecated.

donne le maximum de l'image3D

Returns:

la valeur maximum de l'image3D

getMinimum

public int getMinimum()

Deprecated.

donne le minimum de l'image3D

Returns:

la valeur minimum de l'image3D

getMinAboveValue

public int getMinAboveValue(int value)

Deprecated.

Gets the minAboveValue attribute of the FishImage3D object

Parameters:

value - Description of the Parameter

Returns:

The minAboveValue value

getMean

public int getMean(int sb,
                   int sh)

Deprecated.

Gets the meanValue attribute of the IntImage3D object

Parameters:

sb - Description of the Parameter

sh - Description of the Parameter

Returns:

The meanValue value

getCount

public int getCount(int sb,
                    int sh)

Deprecated.

Gets the count attribute of the IntImage3D object

Parameters:

sb - Description of the Parameter

sh - Description of the Parameter

Returns:

The count value

tapper

public IntImage3D tapper(int r0x,
                         int r0y,
                         int r0z)

Deprecated.

Tappering - smooth towards background

Parameters:

r0x - radius x

r0y - radius y

r0z - radius z

Returns:

the tappered image

getSigma

public double getSigma(int sb,
                       int sh)

Deprecated.

Gets the sigma attribute of the IntImage3D object

Parameters:

sb - Description of the Parameter

sh - Description of the Parameter

Returns:

The sigma value

getRow

public ArrayUtil getRow(int x,
                        int y,
                        int z)

Deprecated.

donne une ligne de l'image3D

Parameters:

x - coordonnee en x du pixel de depart

y - coordonnee en y du pixel de depart

z - coordonnee en z du pixel de depart

Returns:

la ligne de pixel selon l'axe x

getColumn

public ArrayUtil getColumn(int x,
                           int y,
                           int z)

Deprecated.

int donne une ligne de l'image3D

Parameters:

x - coordonnee en x du pixel de depart

y - coordonnee en y du pixel de depart

z - coordonnee en z du pixel de depart

Returns:

la ligne de pixel selon l'axe y

getProf

public ArrayUtil getProf(int x,
                         int y,
                         int z)

Deprecated.

donne une ligne en Z dans l'image 3D

Parameters:

x - coordonnee en x du pixel de depart

y - coordonnee en y du pixel de depart

z - coordonnee en z du pixel de depart

Returns:

la ligne de pixel selon l'axe z

getHistogram

public HistogramUtil getHistogram()

Deprecated.

donne l'histogramme de l'image3D 16 bits

Specified by:

getHistogram in class Image3D

Returns:

l'histogramme

isLocalMaximum

public boolean isLocalMaximum(int x,
                              int y,
                              int z,
                              float voisx,
                              float voisy,
                              float voisz)

Deprecated.

dit si le pixel donne est un maximum local avec un voisinage donne

Parameters:

x - coordonnee en x du pixel

y - coordonnee en y du pixel

z - coordonnee en z du pixel

voisx - voisinage en x

voisy - voisinage en y

voisz - voisinage en z

Returns:

vrai si le pixel est maximum local dans le voisinage donne

createLocalMaximaImage

public IntImage3D createLocalMaximaImage(float voisx,
                                         float voisy,
                                         float voisz,
                                         boolean keep)

Deprecated.

Création d'une image des maxima locaux dans un voisinage donne

Specified by:

createLocalMaximaImage in class Image3D

Parameters:

voisx - taille voisinage en x

voisy - taille voisinage en y

voisz - taille voisinage en z

keep -

Returns:

Image des maxima locaux

createLocalMaximaImage

public IntImage3D createLocalMaximaImage(float voisx,
                                         float voisy,
                                         float voisz,
                                         int th,
                                         boolean keep)

Deprecated.

Création d'une image des maxima locaux dans un voisiange donne

Parameters:

voisx - taille voisinage en x

voisy - taille voisinage en y

voisz - taille voisinage en z

th - threshold image (255)

keep -

Returns:

Image des maxima locaux

addImage

public Image3D addImage(IntImage3D img,
                        float s)

Deprecated.

Adds a feature to the Image attribute of the IntImage3D object

Parameters:

img - The feature to be added to the Image attribute

s - The feature to be added to the Image attribute

Returns:

Description of the Return Value

addValue

public Image3D addValue(int s)

Deprecated.

Description of the Method

Parameters:

s - Description of the Parameter

Returns:

Description of the Return Value

min

public IntImage3D min(IntImage3D ima)

Deprecated.

Parameters:

ima -

Returns:

max

public IntImage3D max(IntImage3D ima)

Deprecated.

logMath

public RealImage3D logMath()

Deprecated.

Compute the log of the image

Returns:

replacePixelsValue

public void replacePixelsValue(int val,
                               int rep)

Deprecated.

Replace a pixel value by another

Parameters:

val - the value to be replaced

rep - the new value

replacePixelsValue

public void replacePixelsValue(int val,
                               int rep,
                               Object3DVoxels obj)

Deprecated.

Replace a pixel value by another within a specified object

Parameters:

val - the value to be replaced

rep - the new value

obj - the object

dilatationConditionGris

protected IntImage3D dilatationConditionGris(IntImage3D base,
                                             int voisx,
                                             int voisy,
                                             int voisz)

Deprecated.

Dilatation par rapport a une image de base

Parameters:

base - Image

voisx - taille voisinage en x

voisy - taille voisinage en y

voisz - taille voisinage en z

Returns:

Image dilatee

flood3D

protected void flood3D(IntImage3D base,
                       int x0,
                       int y0,
                       int z0,
                       int val)

Deprecated.

propagationConditionnelle

protected void propagationConditionnelle(IntImage3D base,
                                         int abs,
                                         int ord,
                                         int prof,
                                         int val)

Deprecated.

Description of the Method

Parameters:

base - Description of the Parameter

abs - Description of the Parameter

ord - Description of the Parameter

val - Description of the Parameter

prof - Description of the Parameter

propagation27

public void propagation27(int xx,
                          int yy,
                          int zz,
                          int val,
                          int nval)

Deprecated.

Propagation of a value to connected pixels

Parameters:

xx - x of the first point

yy - y of the first point

zz - z of the first point

val - value of the connected pixels

nval - value to propagate

propagation6

public void propagation6(int xx,
                         int yy,
                         int zz,
                         int val,
                         int nval)

Deprecated.

Propagation of a value to connected pixels

Parameters:

xx - x of the first point

yy - y of the first point

zz - z of the first point

val - value of the connected pixels

nval - value to propagate

propagation

public void propagation(IntImage3D base,
                        int abs,
                        int ord,
                        int prof,
                        int val,
                        int nval)

Deprecated.

Propagation of a value to connected pixels

Parameters:

abs - x of the first point

ord - y of the first point

prof - z of the first point

val - value of the connected pixels

nval - value to propagate

base - Description of the Parameter

watershed

public IntImage3D watershed()

Deprecated.

Watershed algorithm starting with a seed image where seed > 0

Returns:

The segmented image

binaryReconstruct

public ImageInt binaryReconstruct(ImageInt base)

Deprecated.

Description of the Method

Parameters:

base - Description of the Parameter

Returns:

Description of the Return Value

binaryReconstructByObjects

public ImageInt binaryReconstructByObjects(ImageInt base)

Deprecated.

grayReconstruction

public IntImage3D grayReconstruction(IntImage3D base)

Deprecated.

RH_Maxima

public IntImage3D RH_Maxima(int R,
                            int H)

Deprecated.

Méthode du RH maxima

Parameters:

R - Paramètre du rayon R

H - Paramètre de la hauteur H

Returns:

Image binarisée résultat

nbNeighbor

public IntImage3D nbNeighbor(int obj)

Deprecated.

Number of neighborhood pixels

Parameters:

obj - Value of neighborhood pixels (including itself)

Returns:

Image with Number of neighborhood pixels

nbConnexite2D

public int nbConnexite2D(int val,
                         int z)

Deprecated.

Description of the Method

Parameters:

z - Description of the Parameter

val - Description of the Parameter

Returns:

Description of the Return Value

propagation2D

protected void propagation2D(int abs,
                             int ord,
                             int prof,
                             int val,
                             int nval)

Deprecated.

Description of the Method

Parameters:

abs - Description of the Parameter

ord - Description of the Parameter

prof - Description of the Parameter

val - Description of the Parameter

nval - Description of the Parameter

projection

protected IntImage3D projection(int val,
                                int axe,
                                int p1,
                                int p2)

Deprecated.

Average projection

Parameters:

val - Description of the Parameter

axe - Description of the Parameter

p1 - Description of the Parameter

p2 - Description of the Parameter

Returns:

Description of the Return Value

projectionZ

public IntImage3D projectionZ(int val)

Deprecated.

Description of the Method

Parameters:

val - Description of the Parameter

Returns:

Description of the Return Value

projectionZ

public IntImage3D projectionZ(int val,
                              int p1,
                              int p2)

Deprecated.

Description of the Method

Parameters:

val - Description of the Parameter

p1 - Description of the Parameter

p2 - Description of the Parameter

Returns:

Description of the Return Value

projectionY

public IntImage3D projectionY(int val)

Deprecated.

Description of the Method

Parameters:

val - Description of the Parameter

Returns:

Description of the Return Value

projectionX

public IntImage3D projectionX(int val)

Deprecated.

Description of the Method

Parameters:

val - Description of the Parameter

Returns:

Description of the Return Value

snr3D

public int snr3D()

Deprecated.

Description of the Method

Returns:

Description of the Return Value

sobelFilter

public IntImage3D sobelFilter()

Deprecated.

Sobel-like filtering in 3D

Returns:

The 3D filtered image

gradient

public IntImage3D gradient(int axis)

Deprecated.

The gradient of the image in a given direction (sobel)

Parameters:

axis - x,y, or z

Returns:

the gradient image

computeHessianDerivative

public RealImage3D computeHessianDerivative(int value)

Deprecated.

compute the hessian derivative (to validate)

Parameters:

value - (0=energy 1=coherence)

Returns:

the hessian image

fillHoles3D

public IntImage3D fillHoles3D(int background,
                              int object)

Deprecated.

Fill holes for a binary image

Parameters:

background - background level

object - gray level of object

Returns:

image remplie