mcib3d.geom

Class ObjectCreator3D

java.lang.Object

mcib3d.geom.ObjectCreator3D

public class ObjectCreator3D
extends java.lang.Object

Copyright (C) Thomas Boudier

License: This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see .

/** Create 3D shapes

cedric started 3 mars 2004

Constructor Summary

Constructors

Constructor and Description
ObjectCreator3D(ImageHandler image) Constructor for the ObjectCreator3D object
ObjectCreator3D(ImageStack stack)
ObjectCreator3D(int sizex, int sizey, int sizez) Constructor for the ObjectCreator3D object

Method Summary

Modifier and Type	Method and Description
void	clear()
void	createBrick(int centerx, int centery, int centerz, double rx, double ry, double rz, float value) Create a brick in Z direction with centre and radius
void	createBrick(int xmin, int xmax, int ymin, int ymax, int zmin, int zmax, float value) Create brick with bounding box coordinates, in Z direction
void	createBrick(Vector3D V, double rx, double ry, double rz, float val) Description of the Method
void	createBrickAxes(int centerx, int centery, int centerz, double rx, double ry, double rz, float value, Matrix M) Creation d'une ellipsoide
void	createBrickAxes(int centerx, int centery, int centerz, double rx, double ry, double rz, float value, Vector3D V)
void	createBrickAxesUnit(double centerx, double centery, double centerz, double rx, double ry, double rz, float value, Vector3D V)
void	createBrickUnit(double centerx, double centery, double centerz, double rx, double ry, double rz, float value) Description of the Method
void	createBrickUnit(Vector3D V, double rx, double ry, double rz, float val) Description of the Method
void	createCone(int centerx, int centery, int centerz, double rx0, double ry0, double rx1, double ry1, double height, float value)
void	createConeAxes(int centerx, int centery, int centerz, double rx0, double ry0, double rx1, double ry1, double height, float value, Matrix M)
void	createConeAxes(int centerx, int centery, int centerz, double rx0, double ry0, double rx1, double ry1, double height, float value, Vector3D V, Vector3D W)
void	createCylinder(int centerx, int centery, int centerz, double rx, double ry, double height, float value) Creation d'un cylindre
void	createCylinderAxes(int centerx, int centery, int centerz, double rx, double ry, double height, float value, Matrix M) Creation d'un cylindre
void	createCylinderAxes(int centerx, int centery, int centerz, double rx, double ry, double height, float value, Vector3D V, Vector3D W)
void	createEllipsoid(int centerx, int centery, int centerz, double rx, double ry, double rz, float value, boolean gauss) Creation d'une ellipsoide
void	createEllipsoid(Vector3D V, double rx, double ry, double rz, float col) Description of the Method
void	createEllipsoidAxes(int centerx, int centery, int centerz, double rx, double ry, double rz, float value, Matrix M, boolean gauss) Creation d'une ellipsoide (data in pix)
void	createEllipsoidAxesUnit(double centerx, double centery, double centerz, double rx, double ry, double rz, float value, Vector3D V, Vector3D W, boolean gauss)
void	createEllipsoidUnit(double centerx, double centery, double centerz, double rx, double ry, double rz, float value, boolean gauss) Description of the Method
void	createEllipsoidUnit(Vector3D V, double rx, double ry, double rz, float col) Description of the Method
void	createGradientCube(int centerx, int centery, int centerz, double rx, double ry, double rz, Gradient g) Création d'un dégradé sur cube
void	createGradientCube(Vector3D center, double rx, double ry, double rz, Gradient g) Création d'un dégradé
void	createGradientSphere(int centerx, int centery, int centerz, double r, Gradient g) Création d'un gradient sur ellipsoïde
void	createGradientSphere(Point3D center, double r, Gradient g) Création d'un gradient sur sphère
void	createLine(int x0, int y0, int z0, int x1, int y1, int z1, float val, int rad) Create a 3D line
void	createLine(Point3D P1, Point3D P2, float val, int rad)
void	createLine(Vector3D V1, Vector3D V2, float val, int rad) Description of the Method
void	createLineUnit(Vector3D V1, Vector3D V2, float val, int rad) Description of the Method
void	createPixel(int x, int y, int z, int col) Description of the Method
void	createSphere(double centerx, double centery, double centerz, double radius, float value, boolean gauss) Description of the Method
void	createSphereUnit(double centerx, double centery, double centerz, double radius, float value, boolean gauss) Description of the Method
void	drawObject(Object3D obj)
void	drawVoxels(java.util.ArrayList<Voxel3D> voxels)
Calibration	getCalibration() Gets the calibration attribute of the Object3D object
ImageHandler	getImageHandler() Gets the image3D attribute of the ObjectCreator3D object
Object3DVoxels	getObject3DVoxels(int val)
ImagePlus	getPlus()
ImageStack	getStack() Returns an ImageStack
void	reset()
void	reset(int nb)
void	setCalibration(Calibration cal) Sets the calibration attribute of the Object3D object
void	setResolution(double rxy, double rz, java.lang.String u) Sets the resolution attribute of the ObjectCreator3D object

Methods inherited from class java.lang.Object

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

Constructor Detail

ObjectCreator3D

public ObjectCreator3D(ImageHandler image)

Constructor for the ObjectCreator3D object

Parameters:

image - The image3D to draw inside

ObjectCreator3D

public ObjectCreator3D(ImageStack stack)

Parameters:

stack -

ObjectCreator3D

public ObjectCreator3D(int sizex,
                       int sizey,
                       int sizez)

Constructor for the ObjectCreator3D object

Parameters:

sizex - Size x of the image

sizey - Size y of the image

sizez - Size z of the image

Method Detail

setResolution

public void setResolution(double rxy,
                          double rz,
                          java.lang.String u)

Sets the resolution attribute of the ObjectCreator3D object

Parameters:

rxy - The new resolution in XY

rz - The new resolution in Z

u - The new resolution unit

getCalibration

public Calibration getCalibration()

Gets the calibration attribute of the Object3D object

Returns:

The calibration value

setCalibration

public void setCalibration(Calibration cal)

Sets the calibration attribute of the Object3D object

Parameters:

cal - The new calibration value

createSphereUnit

public void createSphereUnit(double centerx,
                             double centery,
                             double centerz,
                             double radius,
                             float value,
                             boolean gauss)

Description of the Method

Parameters:

centerx - Centre X of the sphere

centery - Centre Y of the sphere

centerz - Centre Z of the sphere

radius - Radius of the sphere

value - Value of the pixel in the image

gauss - Is gaussian decrease of the intensity

createSphere

public void createSphere(double centerx,
                         double centery,
                         double centerz,
                         double radius,
                         float value,
                         boolean gauss)

Description of the Method

Parameters:

centerx - Centre X of the sphere

centery - Centre Y of the sphere

centerz - Centre Z of the sphere

radius - Radius of the sphere

value - Value of the pixel in the image

gauss - Is gaussian decrease of the intensity

createEllipsoidUnit

public void createEllipsoidUnit(double centerx,
                                double centery,
                                double centerz,
                                double rx,
                                double ry,
                                double rz,
                                float value,
                                boolean gauss)

Description of the Method

Parameters:

centerx - Centre X of the ellipsoid

centery - Centre Y of the ellipsoid

centerz - Centre Z of the ellipsoid

rx - Radius X of the ellipsoid

ry - Radius X of the ellipsoid

rz - Radius X of the ellipsoid

value - Value of the pixel in the image

gauss - Is gaussian decrease of the intensity

createEllipsoid

public void createEllipsoid(Vector3D V,
                            double rx,
                            double ry,
                            double rz,
                            float col)

Description of the Method

Parameters:

V - Description of the Parameter

rx - Description of the Parameter

ry - Description of the Parameter

rz - Description of the Parameter

col - Description of the Parameter

createEllipsoidUnit

public void createEllipsoidUnit(Vector3D V,
                                double rx,
                                double ry,
                                double rz,
                                float col)

Description of the Method

Parameters:

V - Description of the Parameter

rx - Description of the Parameter

ry - Description of the Parameter

rz - Description of the Parameter

col - Description of the Parameter

createEllipsoid

public void createEllipsoid(int centerx,
                            int centery,
                            int centerz,
                            double rx,
                            double ry,
                            double rz,
                            float value,
                            boolean gauss)

Creation d'une ellipsoide

Parameters:

rx - Rayon en x (unit)

ry - Rayon en y (unit)

rz - Rayon en z (unit)

centerx - Centre en x

centery - Centre en y

centerz - Centre en z

value - Valeur à remplir

gauss - uniform or ramp values

createEllipsoidAxes

public void createEllipsoidAxes(int centerx,
                                int centery,
                                int centerz,
                                double rx,
                                double ry,
                                double rz,
                                float value,
                                Matrix M,
                                boolean gauss)

Creation d'une ellipsoide (data in pix)

Parameters:

rx - Rayon en x

ry - Rayon en y

rz - Rayon en z

centerx - Centre en x

centery - Centre en y

centerz - Centre en z

value - Valeur à remplir

gauss - uniform or ramp values

M - Description of the Parameter

createBrickAxes

public void createBrickAxes(int centerx,
                            int centery,
                            int centerz,
                            double rx,
                            double ry,
                            double rz,
                            float value,
                            Matrix M)

Creation d'une ellipsoide

Parameters:

rx - Rayon en x (unit)

ry - Rayon en y (unit)

rz - Rayon en z (unit)

centerx - Centre en x

centery - Centre en y

centerz - Centre en z

value - Valeur à remplir

M - Description of the Parameter

createEllipsoidAxesUnit

public void createEllipsoidAxesUnit(double centerx,
                                    double centery,
                                    double centerz,
                                    double rx,
                                    double ry,
                                    double rz,
                                    float value,
                                    Vector3D V,
                                    Vector3D W,
                                    boolean gauss)

Parameters:

centerx -

centery -

centerz -

rx -

ry -

rz -

value -

V -

W -

gauss -

createBrickAxesUnit

public void createBrickAxesUnit(double centerx,
                                double centery,
                                double centerz,
                                double rx,
                                double ry,
                                double rz,
                                float value,
                                Vector3D V)

Parameters:

centerx -

centery -

centerz -

rx -

ry -

rz -

value -

V -

createBrickAxes

public void createBrickAxes(int centerx,
                            int centery,
                            int centerz,
                            double rx,
                            double ry,
                            double rz,
                            float value,
                            Vector3D V)

Parameters:

centerx -

centery -

centerz -

rx -

ry -

rz -

value -

V -

createBrick

public void createBrick(Vector3D V,
                        double rx,
                        double ry,
                        double rz,
                        float val)

Description of the Method

Parameters:

V - Description of the Parameter

rx - Description of the Parameter

ry - Description of the Parameter

rz - Description of the Parameter

val - Description of the Parameter

createBrickUnit

public void createBrickUnit(Vector3D V,
                            double rx,
                            double ry,
                            double rz,
                            float val)

Description of the Method

Parameters:

V - Description of the Parameter

rx - Description of the Parameter

ry - Description of the Parameter

rz - Description of the Parameter

val - Description of the Parameter

createBrickUnit

public void createBrickUnit(double centerx,
                            double centery,
                            double centerz,
                            double rx,
                            double ry,
                            double rz,
                            float value)

Description of the Method

Parameters:

centerx - Description of the Parameter

centery - Description of the Parameter

centerz - Description of the Parameter

rx - Description of the Parameter

ry - Description of the Parameter

rz - Description of the Parameter

value - Description of the Parameter

createBrick

public void createBrick(int xmin,
                        int xmax,
                        int ymin,
                        int ymax,
                        int zmin,
                        int zmax,
                        float value)

Create brick with bounding box coordinates, in Z direction

Parameters:

xmin - X minimum

xmax - X maximum

ymin - Y minimum

ymax - Y maximum

zmin - Z minimum

zmax - Z maximum

value - value to draw

createBrick

public void createBrick(int centerx,
                        int centery,
                        int centerz,
                        double rx,
                        double ry,
                        double rz,
                        float value)

Create a brick in Z direction with centre and radius

Parameters:

centerx - centre X

centery - centre Y

centerz - centre Z

rx - radius X

ry - radius Y

rz - radius Z

value - the value to draw

createPixel

public void createPixel(int x,
                        int y,
                        int z,
                        int col)

Description of the Method

Parameters:

x - Description of the Parameter

y - Description of the Parameter

z - Description of the Parameter

col - Description of the Parameter

createLine

public void createLine(int x0,
                       int y0,
                       int z0,
                       int x1,
                       int y1,
                       int z1,
                       float val,
                       int rad)

Create a 3D line

Parameters:

x0 - x origin

y0 - y origin

z0 - z origin

x1 - x end

y1 - y end

z1 - z end

val - pixel value

rad - radius for the line (as small spheres) (pix)

createLine

public void createLine(Vector3D V1,
                       Vector3D V2,
                       float val,
                       int rad)

Description of the Method

Parameters:

V1 - Description of the Parameter

val - Description of the Parameter

rad - Description of the Parameter

V2 - Description of the Parameter

createLine

public void createLine(Point3D P1,
                       Point3D P2,
                       float val,
                       int rad)

Parameters:

P1 -

P2 -

val -

rad -

createLineUnit

public void createLineUnit(Vector3D V1,
                           Vector3D V2,
                           float val,
                           int rad)

Description of the Method

Parameters:

V1 - Description of the Parameter

V2 - Description of the Parameter

val - Description of the Parameter

rad - Description of the Parameter

createCylinder

public void createCylinder(int centerx,
                           int centery,
                           int centerz,
                           double rx,
                           double ry,
                           double height,
                           float value)

Creation d'un cylindre

Parameters:

centerx - Centre sur l'axe X

centery - Centre sur l'axe Y

centerz - Centre sur l'axe Z

rx - Rayon du cylindre

ry - Rayon du cylindre

height - Epaisseur du cylindre

value - Valeur associé au pixel

createCone

public void createCone(int centerx,
                       int centery,
                       int centerz,
                       double rx0,
                       double ry0,
                       double rx1,
                       double ry1,
                       double height,
                       float value)

createConeAxes

public void createConeAxes(int centerx,
                           int centery,
                           int centerz,
                           double rx0,
                           double ry0,
                           double rx1,
                           double ry1,
                           double height,
                           float value,
                           Matrix M)

createCylinderAxes

public void createCylinderAxes(int centerx,
                               int centery,
                               int centerz,
                               double rx,
                               double ry,
                               double height,
                               float value,
                               Matrix M)

Creation d'un cylindre

Parameters:

rx - Rayon en x (unit)

ry - Rayon en y (unit)

height - Rayon en z (unit)

centerx - Centre en x

centery - Centre en y

centerz - Centre en z

value - Valeur à remplir

M - Description of the Parameter

createCylinderAxes

public void createCylinderAxes(int centerx,
                               int centery,
                               int centerz,
                               double rx,
                               double ry,
                               double height,
                               float value,
                               Vector3D V,
                               Vector3D W)

createConeAxes

public void createConeAxes(int centerx,
                           int centery,
                           int centerz,
                           double rx0,
                           double ry0,
                           double rx1,
                           double ry1,
                           double height,
                           float value,
                           Vector3D V,
                           Vector3D W)

createGradientCube

public void createGradientCube(Vector3D center,
                               double rx,
                               double ry,
                               double rz,
                               Gradient g)

Création d'un dégradé

Parameters:

center - Coordonées du centre du cube

rx - Demi-largeur du cube

ry - Demi-hauteur du cube

rz - Demi-profondeur du cube

g - Gradient

createGradientCube

public void createGradientCube(int centerx,
                               int centery,
                               int centerz,
                               double rx,
                               double ry,
                               double rz,
                               Gradient g)

Création d'un dégradé sur cube

Parameters:

centerx - Centre X du cube

centery - Centre Y du cube

centerz - Centre Z du cube

rx - Demi-largeur du cube

ry - Demi-hauteur du cube

rz - Demi-profondeur du cube

g - Gradient

createGradientSphere

public void createGradientSphere(Point3D center,
                                 double r,
                                 Gradient g)

Création d'un gradient sur sphère

Parameters:

center - Coordonées du centre de la sphère

r - Rayon de la sphère

g - Gradient

createGradientSphere

public void createGradientSphere(int centerx,
                                 int centery,
                                 int centerz,
                                 double r,
                                 Gradient g)

Création d'un gradient sur ellipsoïde

Parameters:

centerx - Centre X de la sphère

centery - Centre Y de la sphère

centerz - Centre Z de la sphère

r - Rayon de la sphère

g - Gradient

getStack

public ImageStack getStack()

Returns an ImageStack

Returns:

The IJstack

getPlus

public ImagePlus getPlus()

clear

public void clear()

getImageHandler

public ImageHandler getImageHandler()

Gets the image3D attribute of the ObjectCreator3D object

Returns:

The image3D value

getObject3DVoxels

public Object3DVoxels getObject3DVoxels(int val)

reset

public void reset()

drawVoxels

public void drawVoxels(java.util.ArrayList<Voxel3D> voxels)

drawObject

public void drawObject(Object3D obj)

reset

public void reset(int nb)

Parameters:

nb -