de.unihalle.informatik.MiToBo.segmentation.snakes.energies
Class MTBSnakeEnergyCD_CVRegionFit

java.lang.Object
  extended by de.unihalle.informatik.MiToBo.segmentation.activecontours.energies.MTBActiveContourEnergy_CVRegionFit
      extended by de.unihalle.informatik.MiToBo.segmentation.snakes.energies.MTBSnakeEnergyCD_CVRegionFit
All Implemented Interfaces:
MTBActiveContourEnergyDerivable, MTBSnakeEnergyComputable, MTBSnakeEnergyDerivable

@ALDDerivedClass
@ALDParametrizedClass
public class MTBSnakeEnergyCD_CVRegionFit
extends MTBActiveContourEnergy_CVRegionFit
implements MTBSnakeEnergyDerivable, MTBSnakeEnergyComputable

Snake energy based on Chan-Vese region fitting.

This energy models the inner and outer regions of a snake by a Gaussian model, i.e. each region is specified by a mean intensity value and deviations from this value are penalized.

Author:
moeller

Field Summary
private  MTBSnake currentSnk
          Current snake the energy is based on.
private  double[] energyRange
          Interval boundaries of adapted energy interval.
private  boolean[][] excludeMask
          Global exclude mask for image to be segmented.
private  int iHeight
          Height of working image.
private  int iWidth
          Width of working image.
protected  SnakeOptimizerSingle.EnergyNormalizationMode normMode
          Mode of normalization.
protected  double scaleFactor
          Scaling factor to rescale image coordinates in range [0,1] or several ranges to the original coordinates range like [1000, 1000] in a image of size 1000 x 1000.
 
Fields inherited from class de.unihalle.informatik.MiToBo.segmentation.activecontours.energies.MTBActiveContourEnergy_CVRegionFit
areas, inImg, lambda_in, lambda_out, means, means_compl
 
Fields inherited from interface de.unihalle.informatik.MiToBo.segmentation.snakes.energies.MTBSnakeEnergyDerivable
targetEnergyRange
 
Constructor Summary
MTBSnakeEnergyCD_CVRegionFit()
          Default constructor.
MTBSnakeEnergyCD_CVRegionFit(MTBImage im, double lin, double lout)
          Default constructor.
 
Method Summary
 double calcEnergy(SnakeOptimizerSingle opt)
          Calculates the energy of the current snake.
 Jama.Matrix getDerivative_MatrixPart(SnakeOptimizerSingleVarCalc opt)
          Updates the fitting term based on new region average values.
 Jama.Matrix getDerivative_VectorPart(SnakeOptimizerSingleVarCalc opt)
          Returns the vector part of this energy for snake optimization.
 double getScaleFactor()
          Get scaling factor.
 boolean initEnergy(SnakeOptimizerSingleGreedy opt)
          Init routine which is called once before the energy is actually used.
 boolean initEnergy(SnakeOptimizerSingleVarCalc opt)
          Init routine which is called once before the energy is actually used.
 void setScaleFactor(double s)
          Set the scaling factor.
 java.lang.String toString()
          Get an identifier string for the energy object.
 void updateStatus(SnakeOptimizerSingleGreedy opt)
          Update internal state of energy object prior to querying derivatives and so on.
 void updateStatus(SnakeOptimizerSingleVarCalc opt)
          Update internal state of energy object prior to usaging it.
 
Methods inherited from class de.unihalle.informatik.MiToBo.segmentation.activecontours.energies.MTBActiveContourEnergy_CVRegionFit
calcEnergy, getDerivative, getEnergyDerivativeMaxVal, getEnergyDerivativeMinVal, getMeans, init, updateParameters
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Field Detail

currentSnk

private transient MTBSnake currentSnk
Current snake the energy is based on.


energyRange

private double[] energyRange
Interval boundaries of adapted energy interval.

energyRange[0] -> left boundary energyRange[1] -> right boundary energyRange[2] -> interval width


excludeMask

private transient boolean[][] excludeMask
Global exclude mask for image to be segmented.


iHeight

private transient int iHeight
Height of working image.


iWidth

private transient int iWidth
Width of working image.


normMode

protected SnakeOptimizerSingle.EnergyNormalizationMode normMode
Mode of normalization.


scaleFactor

protected transient double scaleFactor
Scaling factor to rescale image coordinates in range [0,1] or several ranges to the original coordinates range like [1000, 1000] in a image of size 1000 x 1000. Default scaling factor is 1.

Constructor Detail

MTBSnakeEnergyCD_CVRegionFit

public MTBSnakeEnergyCD_CVRegionFit()
Default constructor.


MTBSnakeEnergyCD_CVRegionFit

public MTBSnakeEnergyCD_CVRegionFit(MTBImage im,
                                    double lin,
                                    double lout)
Default constructor.

Parameters:
im - Image to work on.
l_in - Weighting factor for inner region fit.
l_out - Weighting factor for outer region fit.
Throws:
de.unihalle.informatik.Alida.exceptions.ALDOperatorException
ALDProcessingDAGException
Method Detail

calcEnergy

public double calcEnergy(SnakeOptimizerSingle opt)
Description copied from interface: MTBSnakeEnergyComputable
Calculates the energy of the current snake.

Specified by:
calcEnergy in interface MTBSnakeEnergyComputable
Parameters:
opt - Calling snake optimizer.
Returns:
Energy of complete snake.

getDerivative_MatrixPart

public Jama.Matrix getDerivative_MatrixPart(SnakeOptimizerSingleVarCalc opt)
Updates the fitting term based on new region average values.

Specified by:
getDerivative_MatrixPart in interface MTBSnakeEnergyDerivable
Parameters:
opt - Calling snake optimizer.
Returns:
Optimization matrix for this energy object.

getDerivative_VectorPart

public Jama.Matrix getDerivative_VectorPart(SnakeOptimizerSingleVarCalc opt)
Description copied from interface: MTBSnakeEnergyDerivable
Returns the vector part of this energy for snake optimization.

Specified by:
getDerivative_VectorPart in interface MTBSnakeEnergyDerivable
Parameters:
opt - Calling snake optimizer.
Returns:
Optimization vector for this energy object.

getScaleFactor

public double getScaleFactor()
Get scaling factor.

Specified by:
getScaleFactor in interface MTBSnakeEnergyComputable
Specified by:
getScaleFactor in interface MTBSnakeEnergyDerivable
Returns:
Scaling factor.

initEnergy

public boolean initEnergy(SnakeOptimizerSingleGreedy opt)
Description copied from interface: MTBSnakeEnergyComputable
Init routine which is called once before the energy is actually used.

In this routine global parameter settings can be handled or other initialization stuff be done. The SnakeOptimizer will call this routine once before the actual use of the energy. If no stuff needs to be done in advance the routine should at least return true.

Specified by:
initEnergy in interface MTBSnakeEnergyComputable
Parameters:
opt - Calling snake optimizer.
Returns:
true if init was successful

initEnergy

public boolean initEnergy(SnakeOptimizerSingleVarCalc opt)
                   throws MTBSnakeException
Description copied from interface: MTBSnakeEnergyDerivable
Init routine which is called once before the energy is actually used.

In this routine global parameter settings can be handled or other initialization stuff be done. The SnakeOptimizer will call this routine once before the actual use of the energy. If no stuff needs to be done in advance the routine should at least return true.

Specified by:
initEnergy in interface MTBSnakeEnergyDerivable
Parameters:
opt - Calling snake optimizer.
Returns:
True if init was successful, otherwise false.
Throws:
MTBSnakeException

setScaleFactor

public void setScaleFactor(double s)
Set the scaling factor.

Specified by:
setScaleFactor in interface MTBSnakeEnergyComputable
Specified by:
setScaleFactor in interface MTBSnakeEnergyDerivable
Parameters:
s - new scaling factor.

toString

public java.lang.String toString()
Description copied from interface: MTBSnakeEnergyDerivable
Get an identifier string for the energy object.

When meta parameters are saved to a file, configuration objects need to be converted to strings. Consequently, each snake energy should be associated with a unique and descriptive string for later reference.

Specified by:
toString in interface MTBSnakeEnergyComputable
Specified by:
toString in interface MTBSnakeEnergyDerivable
Overrides:
toString in class MTBActiveContourEnergy_CVRegionFit
Returns:
Identifier string.

updateStatus

public void updateStatus(SnakeOptimizerSingleGreedy opt)
Description copied from interface: MTBSnakeEnergyComputable
Update internal state of energy object prior to querying derivatives and so on.

Specified by:
updateStatus in interface MTBSnakeEnergyComputable

updateStatus

public void updateStatus(SnakeOptimizerSingleVarCalc opt)
                  throws MTBSnakeException
Description copied from interface: MTBSnakeEnergyDerivable
Update internal state of energy object prior to usaging it.

Specified by:
updateStatus in interface MTBSnakeEnergyDerivable
Throws:
MTBSnakeException