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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 itkBinaryImageToLabelMapFilter_hxx
#define itkBinaryImageToLabelMapFilter_hxx
#include "itkNumericTraits.h"
#include "itkImageScanlineIterator.h"
#include "itkConstShapedNeighborhoodIterator.h"
#include "itkConnectedComponentAlgorithm.h"
#include "itkProgressReporter.h"
#include "itkProgressTransformer.h"
namespace itk
{
template <typename TInputImage, typename TOutputImage>
BinaryImageToLabelMapFilter<TInputImage, TOutputImage>::BinaryImageToLabelMapFilter()
: ScanlineFilterCommon<TInputImage, TOutputImage>(this)
, m_OutputBackgroundValue(NumericTraits<OutputPixelType>::NonpositiveMin())
{
this->m_NumberOfObjects = 0;
this->m_InputForegroundValue = NumericTraits<InputPixelType>::max();
}
template <typename TInputImage, typename TOutputImage>
void
BinaryImageToLabelMapFilter<TInputImage, TOutputImage>::GenerateInputRequestedRegion()
{
// call the superclass' implementation of this method
Superclass::GenerateInputRequestedRegion();
// We need all the input.
InputImagePointer input = const_cast<InputImageType *>(this->GetInput());
if (!input)
{
return;
}
input->SetRequestedRegion(input->GetLargestPossibleRegion());
}
template <typename TInputImage, typename TOutputImage>
void
BinaryImageToLabelMapFilter<TInputImage, TOutputImage>::EnlargeOutputRequestedRegion(DataObject *)
{
TOutputImage * output = this->GetOutput();
output->SetRequestedRegion(output->GetLargestPossibleRegion());
}
template <typename TInputImage, typename TOutputImage>
void
BinaryImageToLabelMapFilter<TInputImage, TOutputImage>::GenerateData()
{
// Call a method that can be overridden by a subclass to allocate
// memory for the filter's outputs
this->AllocateOutputs();
this->SetupLineOffsets(false);
OutputImageType * output = this->GetOutput();
output->SetBackgroundValue(this->m_OutputBackgroundValue);
const typename OutputImageType::RegionType & requestedRegion = output->GetRequestedRegion();
const typename OutputImageType::SizeType & requestedSize = requestedRegion.GetSize();
const SizeValueType pixelcount = requestedRegion.GetNumberOfPixels();
const SizeValueType xsize = requestedSize[0];
const SizeValueType linecount = pixelcount / xsize;
this->m_LineMap.resize(linecount);
this->m_NumberOfLabels.store(0);
this->SetupLineOffsets(false);
ProgressTransformer progress1(0.0f, 0.5f, this);
MultiThreaderBase * multiThreader = this->GetMultiThreader();
multiThreader->SetNumberOfWorkUnits(this->GetNumberOfWorkUnits());
multiThreader->template ParallelizeImageRegionRestrictDirection<TOutputImage::ImageDimension>(
0,
requestedRegion,
[this](const RegionType & lambdaRegion) { this->DynamicThreadedGenerateData(lambdaRegion); },
progress1.GetProcessObject());
// compute the total number of labels
SizeValueType nbOfLabels = this->m_NumberOfLabels.load();
// insert all the labels into the structure -- an extra loop but
// saves complicating the ones that come later
this->InitUnion(nbOfLabels);
ProgressTransformer progress2(0.55f, 0.6f, this);
multiThreader->ParallelizeArray(
0,
this->m_WorkUnitResults.size(),
[this](SizeValueType index) { this->ComputeEquivalence(index, true); },
progress2.GetProcessObject());
ProgressTransformer progress3(0.6f, 0.75f, this);
multiThreader->ParallelizeArray(
0,
this->m_WorkUnitResults.size(),
[this](SizeValueType index) { this->ComputeEquivalence(index, false); },
progress3.GetProcessObject());
// AfterThreadedGenerateData
typename TInputImage::ConstPointer input = this->GetInput();
m_NumberOfObjects = this->CreateConsecutive(m_OutputBackgroundValue);
ProgressReporter progress(this, 0, linecount, 25, 0.75f, 0.25f);
// check for overflow exception here
if (m_NumberOfObjects > static_cast<SizeValueType>(NumericTraits<OutputPixelType>::max()))
{
itkExceptionMacro("Number of objects (" << m_NumberOfObjects << ") greater than maximum of output pixel type ("
<< static_cast<typename NumericTraits<OutputImagePixelType>::PrintType>(
NumericTraits<OutputPixelType>::max())
<< ").");
}
for (SizeValueType thisIdx = 0; thisIdx < linecount; ++thisIdx)
{
// now fill the labelled sections
LineEncodingConstIterator cIt = this->m_LineMap[thisIdx].begin();
const LineEncodingConstIterator cEnd = this->m_LineMap[thisIdx].end();
while (cIt != cEnd)
{
const InternalLabelType Ilab = this->LookupSet(cIt->label);
const OutputPixelType lab = this->m_Consecutive[Ilab];
output->SetLine(cIt->where, cIt->length, lab);
++cIt;
}
progress.CompletedPixel();
}
// clear and make sure memory is freed
std::deque<WorkUnitData>().swap(this->m_WorkUnitResults);
OffsetVectorType().swap(this->m_LineOffsets);
LineMapType().swap(this->m_LineMap);
}
template <typename TInputImage, typename TOutputImage>
void
BinaryImageToLabelMapFilter<TInputImage, TOutputImage>::DynamicThreadedGenerateData(
const RegionType & outputRegionForThread)
{
const TInputImage * input = this->GetInput();
WorkUnitData workUnitData = this->CreateWorkUnitData(outputRegionForThread);
SizeValueType lineId = workUnitData.firstLine;
SizeValueType nbOfLabels = 0;
for (ImageScanlineConstIterator inLineIt(input, outputRegionForThread); !inLineIt.IsAtEnd(); inLineIt.NextLine())
{
LineEncodingType thisLine;
while (!inLineIt.IsAtEndOfLine())
{
const InputPixelType pixelValue = inLineIt.Get();
if (pixelValue == this->m_InputForegroundValue)
{
// We've hit the start of a run
SizeValueType length = 0;
IndexType thisIndex;
thisIndex = inLineIt.GetIndex();
++length;
++inLineIt;
while (!inLineIt.IsAtEndOfLine() && inLineIt.Get() == this->m_InputForegroundValue)
{
++length;
++inLineIt;
}
// create the run length object to go in the vector
RunLength thisRun(length, thisIndex, 0); // will give a real label later
thisLine.push_back(thisRun);
++nbOfLabels;
}
else
{
++inLineIt;
}
}
// equivalent to assignment because thisLine goes of out scope afterwards
this->m_LineMap[lineId].swap(thisLine);
++lineId;
}
this->m_NumberOfLabels.fetch_add(nbOfLabels, std::memory_order_relaxed);
const std::lock_guard<std::mutex> lockGuard(this->m_Mutex);
this->m_WorkUnitResults.push_back(workUnitData);
}
template <typename TInputImage, typename TOutputImage>
void
BinaryImageToLabelMapFilter<TInputImage, TOutputImage>::PrintSelf(std::ostream & os, Indent indent) const
{
Superclass::PrintSelf(os, indent);
os << indent << "InputForegroundValue: "
<< static_cast<typename NumericTraits<InputPixelType>::PrintType>(this->m_InputForegroundValue) << std::endl;
os << indent << "OutputBackgroundValue: "
<< static_cast<typename NumericTraits<OutputImagePixelType>::PrintType>(this->m_OutputBackgroundValue)
<< std::endl;
os << indent << "Number of Objects: " << this->m_NumberOfObjects << std::endl;
}
} // end namespace itk
#endif
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