Module org.scijava.ops.image

Package org.scijava.ops.image.deconvolve

Class PadAndRichardsonLucyTV<I extends RealType<I> & NativeType<I>,O extends RealType<O> & NativeType<O>,K extends RealType<K> & NativeType<K>,C extends ComplexType<C> & NativeType<C>>

java.lang.Object

org.scijava.ops.image.deconvolve.PadAndRichardsonLucyTV<I,O,K,C>

Type Parameters:

I -

O -

K -

C -

All Implemented Interfaces:

Functions.Arity10<RandomAccessibleInterval<I>,RandomAccessibleInterval<K>,O,C,Integer,Boolean,Boolean,Float,long[],OutOfBoundsFactory<I,RandomAccessibleInterval<I>>,RandomAccessibleInterval<O>>

public class PadAndRichardsonLucyTV<I extends RealType<I> & NativeType<I>,O extends RealType<O> & NativeType<O>,K extends RealType<K> & NativeType<K>,C extends ComplexType<C> & NativeType<C>>
extends Object
implements Functions.Arity10<RandomAccessibleInterval<I>,RandomAccessibleInterval<K>,O,C,Integer,Boolean,Boolean,Float,long[],OutOfBoundsFactory<I,RandomAccessibleInterval<I>>,RandomAccessibleInterval<O>>

Richardson Lucy with total variation function op that operates on (@link RandomAccessibleInterval) (Richardson-Lucy algorithm with total variation regularization for 3D confocal microscope deconvolution Microsc Res Rech 2006 Apr; 69(4)- 260-6)

Author:

Brian Northan

Implementation Note:

op names='deconvolve.richardsonLucyTV', priority='100.'

Constructor Summary

Constructors

Constructor	Description
PadAndRichardsonLucyTV()

Method Summary

Modifier and Type	Method	Description
RandomAccessibleInterval<O>	apply(RandomAccessibleInterval<I> input, RandomAccessibleInterval<K> kernel, O outType, C complexType, Integer maxIterations, Boolean nonCirculant, Boolean accelerate, Float regularizationFactor, long[] borderSize, OutOfBoundsFactory<I,RandomAccessibleInterval<I>> obfInput)	TODO
void	computeFilter(RandomAccessibleInterval<I> input, RandomAccessibleInterval<K> kernel, RandomAccessibleInterval<O> output, long[] paddedSize, C complexType, boolean accelerate)	create FFT memory, create FFT filter and run it
Computers.Arity2<RandomAccessibleInterval<I>,RandomAccessibleInterval<K>,RandomAccessibleInterval<O>>	createFilterComputer(RandomAccessibleInterval<I> raiExtendedInput, RandomAccessibleInterval<K> raiExtendedKernel, RandomAccessibleInterval<C> fftImg, RandomAccessibleInterval<C> fftKernel, boolean accelerate, RandomAccessibleInterval<O> output)	create a richardson lucy filter
protected Computers.Arity1<RandomAccessibleInterval<O>,RandomAccessibleInterval<O>>	getComputeEstimateOp()

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.scijava.function.Functions.Arity10

andThen

Constructor Detail

PadAndRichardsonLucyTV

public PadAndRichardsonLucyTV()

Method Detail

createFilterComputer

public Computers.Arity2<RandomAccessibleInterval<I>,RandomAccessibleInterval<K>,RandomAccessibleInterval<O>> createFilterComputer(RandomAccessibleInterval<I> raiExtendedInput,
                                                                                                                                              RandomAccessibleInterval<K> raiExtendedKernel,
                                                                                                                                              RandomAccessibleInterval<C> fftImg,
                                                                                                                                              RandomAccessibleInterval<C> fftKernel,
                                                                                                                                              boolean accelerate,
                                                                                                                                              RandomAccessibleInterval<O> output)

create a richardson lucy filter

computeFilter

public void computeFilter(RandomAccessibleInterval<I> input,
                          RandomAccessibleInterval<K> kernel,
                          RandomAccessibleInterval<O> output,
                          long[] paddedSize,
                          C complexType,
                          boolean accelerate)

create FFT memory, create FFT filter and run it

apply

public RandomAccessibleInterval<O> apply(RandomAccessibleInterval<I> input,
                                         RandomAccessibleInterval<K> kernel,
                                         O outType,
                                         C complexType,
                                         Integer maxIterations,
                                         Boolean nonCirculant,
                                         Boolean accelerate,
                                         Float regularizationFactor,
                                         long[] borderSize,
                                         OutOfBoundsFactory<I,RandomAccessibleInterval<I>> obfInput)

TODO

Specified by:

apply in interface Functions.Arity10<RandomAccessibleInterval<I extends RealType<I> & NativeType<I>>,RandomAccessibleInterval<K extends RealType<K> & NativeType<K>>,O extends RealType<O> & NativeType<O>,C extends ComplexType<C> & NativeType<C>,Integer,Boolean,Boolean,Float,long[],OutOfBoundsFactory<I extends RealType<I> & NativeType<I>,RandomAccessibleInterval<I extends RealType<I> & NativeType<I>>>,RandomAccessibleInterval<O extends RealType<O> & NativeType<O>>>

Parameters:

input -

kernel -

outType -

complexType -

maxIterations - max number of iterations

nonCirculant - indicates whether to use non-circulant edge handling

accelerate - indicates whether or not to use acceleration

regularizationFactor -

borderSize -

obfInput -

Returns:

the deconvolution of the input data

getComputeEstimateOp

protected Computers.Arity1<RandomAccessibleInterval<O>,RandomAccessibleInterval<O>> getComputeEstimateOp()