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sitkAdditionalProcedures.cxx
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sitkAdditionalProcedures.cxx
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/*=========================================================================
*
* Copyright NumFOCUS
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0.txt
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*
*=========================================================================*/
#include "sitkAdditionalProcedures.h"
#include "sitkResampleImageFilter.h"
#include "sitkPatchBasedDenoisingImageFilter.h"
#include "sitkDiscreteGaussianImageFilter.h"
#include "sitkSmoothingRecursiveGaussianImageFilter.h"
namespace itk {
namespace simple {
//
// Function to run the Execute method of this filter after custom
// setting the parameters.
//
SITKBasicFilters_EXPORT Image Resample ( const Image& image1,
Transform transform,
InterpolatorEnum interpolator,
double defaultPixelValue,
PixelIDValueEnum outputPixelType,
bool useNearestNeighborExtrapolator)
{
ResampleImageFilter filter;
filter.SetReferenceImage( image1 );
filter.SetTransform( transform );
filter.SetInterpolator( interpolator );
filter.SetDefaultPixelValue( defaultPixelValue );
filter.SetOutputPixelType(outputPixelType);
filter.SetUseNearestNeighborExtrapolator(useNearestNeighborExtrapolator);
return filter.Execute ( image1);
}
Image Resample ( const Image& image1,
const Image& referenceImage,
Transform transform,
InterpolatorEnum interpolator,
double defaultPixelValue,
PixelIDValueEnum outputPixelType,
bool useNearestNeighborExtrapolator)
{
ResampleImageFilter filter;
filter.SetReferenceImage( referenceImage );
filter.SetTransform( transform );
filter.SetInterpolator( interpolator );
filter.SetDefaultPixelValue( defaultPixelValue );
filter.SetOutputPixelType(outputPixelType);
filter.SetUseNearestNeighborExtrapolator(useNearestNeighborExtrapolator);
return filter.Execute ( image1);
}
SITKBasicFilters_EXPORT Image Resample ( const Image& image1,
const std::vector<uint32_t> &size,
Transform transform,
InterpolatorEnum interpolator,
const std::vector<double> &outputOrigin,
const std::vector<double> &outputSpacing,
const std::vector<double> &outputDirection,
double defaultPixelValue,
PixelIDValueEnum outputPixelType,
bool useNearestNeighborExtrapolator)
{
ResampleImageFilter filter;
filter.SetSize(size);
filter.SetTransform(transform);
filter.SetInterpolator(interpolator);
filter.SetOutputOrigin(outputOrigin);
filter.SetOutputSpacing(outputSpacing);
filter.SetOutputDirection(outputDirection);
filter.SetDefaultPixelValue(defaultPixelValue);
filter.SetOutputPixelType(outputPixelType);
filter.SetUseNearestNeighborExtrapolator(useNearestNeighborExtrapolator);
return filter.Execute ( image1 );
}
SITKBasicFilters_EXPORT Image PatchBasedDenoising (const Image& image1,
double kernelBandwidthSigma,
uint32_t patchRadius,
uint32_t numberOfIterations,
uint32_t numberOfSamplePatches,
double sampleVariance )
{
PatchBasedDenoisingImageFilter filter;
const PatchBasedDenoisingImageFilter::NoiseModelType noiseModel = itk::simple::PatchBasedDenoisingImageFilter::NOMODEL;
const double noiseSigma = 0.0;
const double noiseModelFidelityWeight = 0.0;
//const bool alwaysTreatComponentsAsEuclidean = false;
filter.KernelBandwidthEstimationOff();
filter.SetKernelBandwidthSigma(kernelBandwidthSigma);
filter.SetPatchRadius(patchRadius);
filter.SetNumberOfIterations(numberOfIterations);
filter.SetNumberOfSamplePatches(numberOfSamplePatches);
filter.SetSampleVariance(sampleVariance);
filter.SetNoiseModel(noiseModel);
filter.SetNoiseSigma(noiseSigma);
filter.SetNoiseModelFidelityWeight(noiseModelFidelityWeight);
//filter.SetAlwaysTreatComponentsAsEuclidean(alwaysTreatComponentsAsEuclidean);
return filter.Execute ( image1 );
}
SITKBasicFilters_EXPORT Image PatchBasedDenoising (const Image& image1,
PatchBasedDenoisingImageFilter::NoiseModelType noiseModel,
double kernelBandwidthSigma,
uint32_t patchRadius,
uint32_t numberOfIterations,
uint32_t numberOfSamplePatches,
double sampleVariance,
double noiseSigma,
double noiseModelFidelityWeight )
{
PatchBasedDenoisingImageFilter filter;
//const bool alwaysTreatComponentsAsEuclidean = false;
filter.KernelBandwidthEstimationOff();
filter.SetKernelBandwidthSigma(kernelBandwidthSigma);
filter.SetPatchRadius(patchRadius);
filter.SetNumberOfIterations(numberOfIterations);
filter.SetNumberOfSamplePatches(numberOfSamplePatches);
filter.SetSampleVariance(sampleVariance);
filter.SetNoiseModel(noiseModel);
filter.SetNoiseSigma(noiseSigma);
filter.SetNoiseModelFidelityWeight(noiseModelFidelityWeight);
//filter.SetAlwaysTreatComponentsAsEuclidean(alwaysTreatComponentsAsEuclidean);
return filter.Execute ( image1 );
}
//
// Function to run the Execute method of this filter
//
Image DiscreteGaussian ( const Image& image1, double variance, unsigned int maximumKernelWidth, double maximumError, bool useImageSpacing )
{
DiscreteGaussianImageFilter filter;
filter.SetVariance(variance);
filter.SetMaximumKernelWidth(maximumKernelWidth);
filter.SetMaximumError(maximumError);
filter.SetUseImageSpacing(useImageSpacing);
return filter.Execute ( image1 );
}
//
// Function to run the Execute method of this filter
//
Image SmoothingRecursiveGaussian ( const Image& image1,
double sigma,
bool normalizeAcrossScale )
{
SmoothingRecursiveGaussianImageFilter filter;
filter.SetSigma(sigma);
filter.SetNormalizeAcrossScale(normalizeAcrossScale);
return filter.Execute(image1);
}
}
}