Package inra.ijpb.morphology.geodrec

Class GeodesicReconstruction3DHybrid1Image3D

java.lang.Object

inra.ijpb.algo.AlgoStub

inra.ijpb.morphology.geodrec.GeodesicReconstruction3DAlgoStub

inra.ijpb.morphology.geodrec.GeodesicReconstruction3DHybrid1Image3D

All Implemented Interfaces:

Algo, GeodesicReconstruction3DAlgo

public class GeodesicReconstruction3DHybrid1Image3D
extends GeodesicReconstruction3DAlgoStub

Geodesic reconstruction for 3D stacks of any type, using hybrid algorithm and Image3D access class. This class manages both reconstructions by dilation and erosion.

Performs forward and backward passes, then performs an additional forward pass only to initialize the queue, and finally processes all voxels in the queue.

Uses specialized class to access the values in 3D image stacks, by avoiding to check bounds at each access. Process all type of images by using double precision computation.

Author:

David Legland

Field Summary

Fields inherited from class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DAlgoStub

showProgress, showStatus, verbose

Constructor Summary

Constructors

Constructor	Description
GeodesicReconstruction3DHybrid1Image3D()	Creates a new instance of geodesic reconstruction by dilation algorithm, using the default connectivity 6.
GeodesicReconstruction3DHybrid1Image3D(int connectivity)	Creates a new instance of geodesic reconstruction by dilation algorithm, that specifies the connectivity to use.
GeodesicReconstruction3DHybrid1Image3D(GeodesicReconstructionType type)	Creates a new instance of geodesic reconstruction by dilation algorithm, that specifies the type of reconstruction, and using the connectivity 6.
GeodesicReconstruction3DHybrid1Image3D(GeodesicReconstructionType type, int connectivity)	Creates a new instance of geodesic reconstruction by dilation algorithm, that specifies the type of reconstruction, and the connectivity to use.

Method Summary

Modifier and Type	Method	Description
ij.ImageStack	applyTo(ij.ImageStack marker, ij.ImageStack mask)	Run the reconstruction by dilation algorithm using the images specified as argument.
ij.ImageStack	applyTo(ij.ImageStack marker, ij.ImageStack mask, ij.ImageStack binaryMask)	Run the reconstruction by dilation algorithm using the images specified as argument.
GeodesicReconstructionType	getReconstructionType()
void	setReconstructionType(GeodesicReconstructionType reconstructionType)

Methods inherited from class inra.ijpb.morphology.geodrec.GeodesicReconstruction3DAlgoStub

getConnectivity, setConnectivity

Methods inherited from class inra.ijpb.algo.AlgoStub

addAlgoListener, removeAlgoListener

Methods inherited from class java.lang.Object

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

Methods inherited from interface inra.ijpb.algo.Algo

addAlgoListener, removeAlgoListener

Constructor Details

GeodesicReconstruction3DHybrid1Image3D

public GeodesicReconstruction3DHybrid1Image3D()

Creates a new instance of geodesic reconstruction by dilation algorithm, using the default connectivity 6.

GeodesicReconstruction3DHybrid1Image3D

public GeodesicReconstruction3DHybrid1Image3D(GeodesicReconstructionType type)

Creates a new instance of geodesic reconstruction by dilation algorithm, that specifies the type of reconstruction, and using the connectivity 6.

Parameters:

type - the type of reconstruction (erosion or dilation)

GeodesicReconstruction3DHybrid1Image3D

public GeodesicReconstruction3DHybrid1Image3D(GeodesicReconstructionType type,
int connectivity)

Creates a new instance of geodesic reconstruction by dilation algorithm, that specifies the type of reconstruction, and the connectivity to use.

Parameters:

type - the type of reconstruction (erosion or dilation)

connectivity - the 3D connectivity to use (either 6 or 26)

GeodesicReconstruction3DHybrid1Image3D

public GeodesicReconstruction3DHybrid1Image3D(int connectivity)

Creates a new instance of geodesic reconstruction by dilation algorithm, that specifies the connectivity to use.

Parameters:

connectivity - the 3D connectivity to use (either 6 or 26)

Method Details

getReconstructionType

public GeodesicReconstructionType getReconstructionType()

Returns:

the reconstructionType

setReconstructionType

public void setReconstructionType(GeodesicReconstructionType reconstructionType)

Parameters:

reconstructionType - the reconstructionType to set

applyTo

public ij.ImageStack applyTo(ij.ImageStack marker,
ij.ImageStack mask)

Run the reconstruction by dilation algorithm using the images specified as argument.

Parameters:

marker - image used to initialize the reconstruction

mask - image used to constrain the reconstruction

Returns:

the geodesic reconstruction of marker image constrained by mask image

applyTo

public ij.ImageStack applyTo(ij.ImageStack marker,
ij.ImageStack mask,
ij.ImageStack binaryMask)

Run the reconstruction by dilation algorithm using the images specified as argument.

Parameters:

marker - image used to initialize the reconstruction

mask - image used to constrain the reconstruction

binaryMask - binary mask to restrict the region of application

Returns:

the geodesic reconstruction of marker image constrained by mask image