ActiveContours (Fiji Javadocs 0-SNAPSHOT API)

java.lang.Object
- levelsets.algorithm.SparseFieldLevelSet
- - levelsets.algorithm.LevelSetImplementation
  - - levelsets.algorithm.ActiveContours

All Implemented Interfaces:

StagedAlgorithm
```
public class ActiveContours
extends LevelSetImplementation
```
Implementation of the Levelset algorithm as originally implemented by Arne-Michael Toersel. This class provides the getDeltaPhi function to the SparseFieldLevelSet: deltaPhi = - DELTA_T * image_term * (advection * ADVECTION_FORCE + curvature * CURVATURE_EPSILON) with: image_term = 1 / (1 + ((gradients[x][y][z] + greyvalue_penalty) * 2)) advection, curvature from the base functions (upwind scheme and mean curvature) ADVECTION_FORCE, CURVATURE_EPSILON are weights This corresponds to the geometric curve evolution proposed by Malladi et.al. (IEEE Trans. on PAMI 16:158) and Eq. (15) in Caselles et.al. (International Journal of Computer Vision 22:61) as referenced in the Geodesic Active Contour class of ITK. The greyvalue_penalty is a modification from Toersel.

Field Summary

Fields
Modifier and Type	Field and Description
`protected double`	`ADVECTION_FORCE`
`protected double`	`CURVATURE_EPSILON`
`protected double[][][]`	`gradients`
`protected double`	`GREY_TOLERANCE`

Fields inherited from class levelsets.algorithm.SparseFieldLevelSet
CONVERGENCE_FACTOR, CONVERGENCE_WEIGHT, DELTA_T, img, init_state, INSIDE, INSIDE_FAR, needInit, OUTSIDE, OUTSIDE_FAR, phi, seed_grey_zero, seed_greyvalue, source, STATE_ZERO, zScale

Constructor Summary

Constructors
Constructor and Description
`ActiveContours(ImageContainer image, ImageProgressContainer img_progress, StateContainer init_state, double convergence, double advection, double curvature, double grey_tol)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`protected void`	`cleanup()`
`protected double`	`getAdvectionTerm(int x, int y, int z)`
`protected double`	`getCurvatureTerm(int x, int y, int z)`
`protected double`	`getDeltaPhi(int x, int y, int z)`
`protected void`	`init()`
`protected void`	`updateDeltaT()` Updates the time step for numerical solution.

Methods inherited from class levelsets.algorithm.SparseFieldLevelSet
dumpStateMap, getStateContainer, getStateMap, step

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

gradients
```
protected double[][][] gradients
```

ADVECTION_FORCE
```
protected final double ADVECTION_FORCE
```

CURVATURE_EPSILON

protected final double CURVATURE_EPSILON

GREY_TOLERANCE
```
protected final double GREY_TOLERANCE
```

Constructor Detail

ActiveContours

public ActiveContours(ImageContainer image,
                      ImageProgressContainer img_progress,
                      StateContainer init_state,
                      double convergence,
                      double advection,
                      double curvature,
                      double grey_tol)

Method Detail

init
```
protected final void init()
```
Overrides:

init in class LevelSetImplementation

cleanup
```
protected final void cleanup()
```
Overrides:

cleanup in class LevelSetImplementation

updateDeltaT
```
protected void updateDeltaT()
```
Description copied from class: LevelSetImplementation

Updates the time step for numerical solution. Abstract class forces the derived class to implement it. If default settings are fine, just don't do anything

Specified by:

updateDeltaT in class LevelSetImplementation

getDeltaPhi

protected final double getDeltaPhi(int x,
                                   int y,
                                   int z)

Specified by:: getDeltaPhi in class LevelSetImplementation

getAdvectionTerm

protected final double getAdvectionTerm(int x,
                                        int y,
                                        int z)

getCurvatureTerm

protected final double getCurvatureTerm(int x,
                                        int y,
                                        int z)

Class ActiveContours

Field Summary

Fields inherited from class levelsets.algorithm.SparseFieldLevelSet

Constructor Summary

Method Summary

Methods inherited from class levelsets.algorithm.SparseFieldLevelSet

Methods inherited from class java.lang.Object

Field Detail

gradients

ADVECTION_FORCE

CURVATURE_EPSILON

GREY_TOLERANCE

Constructor Detail

ActiveContours

Method Detail

init

cleanup

updateDeltaT

getDeltaPhi

getAdvectionTerm

getCurvatureTerm