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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
*
* https://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.
*
*=========================================================================*/
#ifndef itkBinaryGrindPeakImageFilter_hxx
#define itkBinaryGrindPeakImageFilter_hxx
#include "itkBinaryImageToShapeLabelMapFilter.h"
#include "itkShapeOpeningLabelMapFilter.h"
#include "itkLabelMapToBinaryImageFilter.h"
#include "itkProgressAccumulator.h"
namespace itk
{
template <typename TInputImage>
BinaryGrindPeakImageFilter<TInputImage>::BinaryGrindPeakImageFilter()
: m_ForegroundValue(NumericTraits<InputImagePixelType>::max())
, m_BackgroundValue(InputImagePixelType{})
{}
template <typename TInputImage>
void
BinaryGrindPeakImageFilter<TInputImage>::GenerateInputRequestedRegion()
{
// Call the superclass' implementation of this method
Superclass::GenerateInputRequestedRegion();
// We need the whole input
InputImagePointer input = const_cast<InputImageType *>(this->GetInput());
if (input)
{
input->SetRequestedRegion(input->GetLargestPossibleRegion());
}
}
template <typename TInputImage>
void
BinaryGrindPeakImageFilter<TInputImage>::EnlargeOutputRequestedRegion(DataObject *)
{
this->GetOutput()->SetRequestedRegion(this->GetOutput()->GetLargestPossibleRegion());
}
template <typename TInputImage>
void
BinaryGrindPeakImageFilter<TInputImage>::GenerateData()
{
// Create a process accumulator for tracking the progress of this minipipeline
auto progress = ProgressAccumulator::New();
progress->SetMiniPipelineFilter(this);
// Allocate the output
this->AllocateOutputs();
using LabelizerType = typename itk::BinaryImageToShapeLabelMapFilter<InputImageType>;
auto labelizer = LabelizerType::New();
labelizer->SetInput(this->GetInput());
labelizer->SetInputForegroundValue(m_ForegroundValue);
labelizer->SetOutputBackgroundValue(m_BackgroundValue);
labelizer->SetFullyConnected(m_FullyConnected);
labelizer->SetNumberOfWorkUnits(this->GetNumberOfWorkUnits());
progress->RegisterInternalFilter(labelizer, .65f);
using LabelMapType = typename LabelizerType::OutputImageType;
using OpeningType = typename itk::ShapeOpeningLabelMapFilter<LabelMapType>;
auto opening = OpeningType::New();
opening->SetInput(labelizer->GetOutput());
opening->SetAttribute(LabelMapType::LabelObjectType::NUMBER_OF_PIXELS_ON_BORDER);
opening->SetLambda(1);
opening->SetNumberOfWorkUnits(this->GetNumberOfWorkUnits());
progress->RegisterInternalFilter(opening, .1f);
using BinarizerType = typename itk::LabelMapToBinaryImageFilter<LabelMapType, OutputImageType>;
auto binarizer = BinarizerType::New();
binarizer->SetInput(opening->GetOutput());
binarizer->SetForegroundValue(m_ForegroundValue);
binarizer->SetBackgroundValue(m_BackgroundValue);
binarizer->SetBackgroundImage(this->GetInput());
binarizer->SetNumberOfWorkUnits(this->GetNumberOfWorkUnits());
progress->RegisterInternalFilter(binarizer, .25f);
binarizer->GraftOutput(this->GetOutput());
binarizer->Update();
this->GraftOutput(binarizer->GetOutput());
}
template <typename TInputImage>
void
BinaryGrindPeakImageFilter<TInputImage>::PrintSelf(std::ostream & os, Indent indent) const
{
Superclass::PrintSelf(os, indent);
os << indent
<< "ForegroundValue: " << static_cast<typename NumericTraits<InputImagePixelType>::PrintType>(m_ForegroundValue)
<< std::endl;
os << indent
<< "BackgroundValue: " << static_cast<typename NumericTraits<InputImagePixelType>::PrintType>(m_BackgroundValue)
<< std::endl;
os << indent << "FullyConnected: " << (m_FullyConnected ? "On" : "Off") << std::endl;
}
} // end namespace itk
#endif
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