inra.ijpb.measure.region3d

Class RegionAnalyzer3D<T>

java.lang.Object

inra.ijpb.algo.AlgoStub

inra.ijpb.measure.region3d.RegionAnalyzer3D<T>

Type Parameters:

T - the type of the data computed for each region. May be a class instance, or a single Numeric type.

All Implemented Interfaces:

Algo, AlgoListener, RegionAnalyzer<T>

Direct Known Subclasses:

BoundingBox3D, Centroid3D, EquivalentEllipsoid, GeodesicDiameter3D, InertiaEllipsoid, IntrinsicVolumesAnalyzer3D, LargestInscribedBall, MaxFeretDiameter3D

public abstract class RegionAnalyzer3D<T>
extends AlgoStub
implements RegionAnalyzer<T>, AlgoListener

Base implementation of RegionAnalyzer interface for 3D binary/label images.

Author:

dlegland

See Also:

RegionAnalyzer2D

Constructor Summary

Constructors

Constructor and Description
RegionAnalyzer3D()

Method Summary

Modifier and Type	Method and Description
void	algoProgressChanged(AlgoEvent evt) The method devoted to manage the change in the progression of the algorithm.
void	algoStatusChanged(AlgoEvent evt) The method devoted to manage the change in the status of the algorithm.
Map<Integer,T>	analyzeRegions(ij.ImagePlus labelPlus) Default implementation of the analyzeRegions method, that calls the more specialized analyzeRegions(ImageStack, int[], ij.measure.Calibration) method and transforms the result into a map.
Map<Integer,T>	analyzeRegions(ij.ImageStack image, ij.measure.Calibration calib) Identifies labels within image and computes an instance of the generic type T for each region in input label image.
abstract T[]	analyzeRegions(ij.ImageStack image, int[] labels, ij.measure.Calibration calib) Computes an instance of the generic type T for each region in input label image.
ij.measure.ResultsTable	computeTable(ij.ImagePlus labelPlus) Default implementation of computeTable method, using the two other methods analyzeRegions(ImagePlus) and RegionAnalyzer.createTable(Map):
static <T2> Map<Integer,T2>	createMap(int[] labels, T2[] data) Utility method that convert an array of result into a map using labels as keys.

Methods inherited from class inra.ijpb.algo.AlgoStub

addAlgoListener, fireProgressChanged, fireProgressChanged, fireStatusChanged, fireStatusChanged, removeAlgoListener

Methods inherited from class java.lang.Object

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

Methods inherited from interface inra.ijpb.measure.RegionAnalyzer

createTable

Constructor Detail

RegionAnalyzer3D

public RegionAnalyzer3D()

Method Detail

createMap

public static final <T2> Map<Integer,T2> createMap(int[] labels,
                                                   T2[] data)

Utility method that convert an array of result into a map using labels as keys.

Type Parameters:

T2 - the type of data measured for each label

Parameters:

labels - the array of labels to use as keys

data - the array of objects to map

Returns:

a map between each entry of label array and data array

analyzeRegions

public abstract T[] analyzeRegions(ij.ImageStack image,
                                   int[] labels,
                                   ij.measure.Calibration calib)

Computes an instance of the generic type T for each region in input label image.

Parameters:

image - the input 3D image containing label of particles

labels - the array of labels within the image

calib - the spatial calibration of the image

Returns:

an array of the type used to represent the analysis result of each region

analyzeRegions

public Map<Integer,T> analyzeRegions(ij.ImageStack image,
                                     ij.measure.Calibration calib)

Identifies labels within image and computes an instance of the generic type T for each region in input label image.

Parameters:

image - a 3D label image (8, 16 or 32 bits)

calib - the spatial calibration of the image

Returns:

a map between the region label and the result of analysis for each region

analyzeRegions

public Map<Integer,T> analyzeRegions(ij.ImagePlus labelPlus)

Default implementation of the analyzeRegions method, that calls the more specialized analyzeRegions(ImageStack, int[], ij.measure.Calibration) method and transforms the result into a map.

Specified by:

analyzeRegions in interface RegionAnalyzer<T>

Parameters:

labelPlus - the input image containing label of regions

Returns:

the mapping between region label and result of analysis for each region

computeTable

public ij.measure.ResultsTable computeTable(ij.ImagePlus labelPlus)

Default implementation of computeTable method, using the two other methods analyzeRegions(ImagePlus) and RegionAnalyzer.createTable(Map):

Specified by:

computeTable in interface RegionAnalyzer<T>

Parameters:

labelPlus - a label or binary image of region(s)

Returns:

an instance of ResultsTable containing results presented in a tabular format.

algoProgressChanged

public void algoProgressChanged(AlgoEvent evt)

Description copied from interface: AlgoListener

The method devoted to manage the change in the progression of the algorithm.

Specified by:

algoProgressChanged in interface AlgoListener

Parameters:

evt - the AlgoEvent instance containing info about the algorithm.

algoStatusChanged

public void algoStatusChanged(AlgoEvent evt)

Description copied from interface: AlgoListener

The method devoted to manage the change in the status of the algorithm.

Specified by:

algoStatusChanged in interface AlgoListener

Parameters:

evt - the AlgoEvent instance containing info about the algorithm.