inra.ijpb.morphology

Class FloodFill3D

java.lang.Object

inra.ijpb.morphology.FloodFill3D

public class FloodFill3D
extends Object

Implements various flood-fill algorithms for 3D stacks. Rewritten from ij.process.FloodFiller and adapted to 3D stacks. Also support floating point stacks.

Check also "http://en.wikipedia.org/wiki/Flood_fill".

Author:

David Legland

See Also:

FloodFill, MinimaAndMaxima3D, RegionalExtrema3DByFlooding, BinaryImages.componentsLabeling(ImageStack, int, int)

Method Summary

Modifier and Type	Method and Description
static void	floodFill(ij.ImageStack image, int x0, int y0, int z0, double value, int conn) Replaces all the pixels in the 6-neighborhood of (x0,y0,z0) that have the same values as the pixel in (x0,y0,z0) by the specified floating point value.
static void	floodFill(ij.ImageStack inputImage, int x0, int y0, int z0, ij.ImageStack outputImage, int value, int conn) Assign to all the neighbor voxels of (x0,y0,z0) that have the same voxel value in inputImage, the specified new value ( value) in outputImage, using the specified connectivity.
static void	floodFill(ij.ImageStack image, int x0, int y0, int z0, int value, int conn) Replaces all the pixels in the 6-neighborhood of (x0,y0,z0) that have the same values as the pixel in (x0,y0,z0) by the specified value.
static void	floodFillFloat(Image3D inputImage, int x0, int y0, int z0, Image3D outputImage, float value, int conn) Assigns to all the neighbor voxels of (x0,y0,z0) that have the same voxel value in inputImage, the specified new value ( value) in outputImage, using the specified connectivity.
static void	floodFillFloat(ij.ImageStack inputImage, int x0, int y0, int z0, ij.ImageStack outputImage, float value, int conn) Assigns to all the neighbor voxels of (x0,y0,z0) that have the same voxel value in inputImage, the specified new value (value) in outputImage, using the specified connectivity.

Methods inherited from class java.lang.Object

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

Method Detail

floodFill

public static final void floodFill(ij.ImageStack image,
                                   int x0,
                                   int y0,
                                   int z0,
                                   int value,
                                   int conn)

Replaces all the pixels in the 6-neighborhood of (x0,y0,z0) that have the same values as the pixel in (x0,y0,z0) by the specified value. Should work for all integer based 3D images.

Parameters:

image - the 3D image in which floodfill will be propagated

x0 - the x-coordinate of the seed voxel

y0 - the y-coordinate of the seed voxel

z0 - the z-coordinate of the seed voxel

value - the new value of the connected component at (x,y,z)

conn - the connectivity to use, either 6 or 26

floodFill

public static final void floodFill(ij.ImageStack image,
                                   int x0,
                                   int y0,
                                   int z0,
                                   double value,
                                   int conn)

Replaces all the pixels in the 6-neighborhood of (x0,y0,z0) that have the same values as the pixel in (x0,y0,z0) by the specified floating point value. Should work the same way for all type of images.

Parameters:

image - the 3D image in which floodfill will be propagated

x0 - the x-coordinate of the seed voxel

y0 - the y-coordinate of the seed voxel

z0 - the z-coordinate of the seed voxel

value - the new value of the connected component at (x,y,z)

conn - the connectivity to use, either 6 or 26

floodFill

public static final void floodFill(ij.ImageStack inputImage,
                                   int x0,
                                   int y0,
                                   int z0,
                                   ij.ImageStack outputImage,
                                   int value,
                                   int conn)

Assign to all the neighbor voxels of (x0,y0,z0) that have the same voxel value in inputImage, the specified new value ( value) in outputImage, using the specified connectivity.

Parameters:

inputImage - the original image to read the voxel values from (should be integer based)

x0 - the x-coordinate of the seed voxel

y0 - the y-coordinate of the seed voxel

z0 - the z-coordinate of the seed voxel

outputImage - the output image to fill (should be integer based)

value - the fill value

conn - the connectivity to use (6 or 26)

floodFillFloat

public static final void floodFillFloat(ij.ImageStack inputImage,
                                        int x0,
                                        int y0,
                                        int z0,
                                        ij.ImageStack outputImage,
                                        float value,
                                        int conn)

Assigns to all the neighbor voxels of (x0,y0,z0) that have the same voxel value in inputImage, the specified new value (value) in outputImage, using the specified connectivity.

Parameters:

inputImage - the original image to read the voxel values from

x0 - the x-coordinate of the seed voxel

y0 - the y-coordinate of the seed voxel

z0 - the z-coordinate of the seed voxel

outputImage - the output image (to fill)

value - the fill value

conn - the connectivity to use (6 or 26)

floodFillFloat

public static final void floodFillFloat(Image3D inputImage,
                                        int x0,
                                        int y0,
                                        int z0,
                                        Image3D outputImage,
                                        float value,
                                        int conn)

Assigns to all the neighbor voxels of (x0,y0,z0) that have the same voxel value in inputImage, the specified new value ( value) in outputImage, using the specified connectivity.

Parameters:

inputImage - the original image to read the voxel values from

x0 - the x-coordinate of the seed voxel

y0 - the y-coordinate of the seed voxel

z0 - the z-coordinate of the seed voxel

outputImage - the output image (to fill)

value - the fill value

conn - the connectivity to use (6 or 26)