net.imglib2.realtransform

Class DeformationFieldTransform<T extends RealType<T>>

java.lang.Object

net.imglib2.realtransform.DeformationFieldTransform<T>

All Implemented Interfaces:

RealTransform

public class DeformationFieldTransform<T extends RealType<T>>
extends Object
implements RealTransform

An n-dimensional deformation field.

Wraps a RandomAccessibleInterval of dimensionality D+1 ("def") and interprets it as a D-dimensional RealTransform. The last dimension of of the RandomAccessibleInterval must have at least D components.

The deformation field should be interpreted as a d-dimensional vector field. A source point is displaced by adding the vector at that point the the source point's position.

Author:

John Bogovic <bogovicj@janelia.hhmi.org>

Constructor Summary

Constructors

Constructor and Description
DeformationFieldTransform(RandomAccessibleInterval<T> def)
DeformationFieldTransform(RealRandomAccessible<T> defFieldReal)

Method Summary

Modifier and Type	Method and Description
void	apply(double[] source, double[] target) Apply the RealTransform to a source vector to obtain a target vector.
void	apply(RealLocalizable source, RealPositionable target) Apply the RealTransform to a source RealLocalizable to obtain a target RealPositionable.
RealTransform	copy() Create a deep copy of this RealTransform.
int	numSourceDimensions() Returns n, the minimal number of dimension of the source vector.
int	numTargetDimensions() Returns m, the minimal dimension of the target vector.

Methods inherited from class java.lang.Object

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

Methods inherited from interface net.imglib2.realtransform.RealTransform

apply, isIdentity

Constructor Detail

DeformationFieldTransform

public DeformationFieldTransform(RandomAccessibleInterval<T> def)

DeformationFieldTransform

public DeformationFieldTransform(RealRandomAccessible<T> defFieldReal)

Method Detail

numSourceDimensions

public int numSourceDimensions()

Description copied from interface: RealTransform

Returns n, the minimal number of dimension of the source vector.

Specified by:

numSourceDimensions in interface RealTransform

Returns:

the dimension of the source vector.

numTargetDimensions

public int numTargetDimensions()

Description copied from interface: RealTransform

Returns m, the minimal dimension of the target vector.

Specified by:

numTargetDimensions in interface RealTransform

Returns:

the dimension of the target vector.

apply

public void apply(double[] source,
                  double[] target)

Description copied from interface: RealTransform

Apply the RealTransform to a source vector to obtain a target vector.

Specified by:

apply in interface RealTransform

Parameters:

source - source coordinates, length must be >= RealTransform.numSourceDimensions()

target - set this to the target coordinates, length must be >= RealTransform.numTargetDimensions()

apply

public void apply(RealLocalizable source,
                  RealPositionable target)

Description copied from interface: RealTransform

Apply the RealTransform to a source RealLocalizable to obtain a target RealPositionable.

Specified by:

apply in interface RealTransform

Parameters:

source - source coordinates, numDimensions() must be >= RealTransform.numSourceDimensions()

target - set this to the target coordinates, numDimensions() must be >= RealTransform.numTargetDimensions()

copy

public RealTransform copy()

Description copied from interface: RealTransform

Create a deep copy of this RealTransform.

Deep copying is required to make sure that stateful RealTransforms can be duplicated for concurrent code.

Specified by:

copy in interface RealTransform

Returns:

deep copy