Package inra.ijpb.morphology

Class FloodFill3D

java.lang.Object
inra.ijpb.morphology.FloodFill3D
public class FloodFill3D
extends java.lang.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 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 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 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 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.
    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.

    Methods inherited from class java.lang.Object

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

  • Method Details

    • 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)