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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.
*
*=========================================================================*/
#include "itkImageFileReader.h"
#include "itkImageFileWriter.h"
#include "itkResampleImageFilter.h"
#include "itkBSplineTransform.h"
#include "itkBSplineTransformInitializer.h"
#include "itkObject.h"
#include "itkTestingMacros.h"
#include <fstream>
int
itkBSplineTransformInitializerTest1(int argc, char * argv[])
{
if (argc < 5)
{
std::cerr << "Missing parameters." << std::endl;
std::cerr << "Usage: " << itkNameOfTestExecutableMacro(argv);
std::cerr << " coefficientsFile fixedImage";
std::cerr << " movingImage deformedMovingImage" << std::endl;
std::cerr << " [deformationField]" << std::endl;
return EXIT_FAILURE;
}
constexpr unsigned int ImageDimension = 2;
using PixelType = unsigned char;
using FixedImageType = itk::Image<PixelType, ImageDimension>;
using MovingImageType = itk::Image<PixelType, ImageDimension>;
using FixedReaderType = itk::ImageFileReader<FixedImageType>;
using MovingReaderType = itk::ImageFileReader<MovingImageType>;
auto fixedReader = FixedReaderType::New();
fixedReader->SetFileName(argv[2]);
ITK_TRY_EXPECT_NO_EXCEPTION(fixedReader->Update());
auto movingReader = MovingReaderType::New();
movingReader->SetFileName(argv[3]);
FixedImageType::ConstPointer fixedImage = fixedReader->GetOutput();
using FilterType = itk::ResampleImageFilter<MovingImageType, FixedImageType>;
auto resampler = FilterType::New();
using InterpolatorType = itk::LinearInterpolateImageFunction<MovingImageType, double>;
auto interpolator = InterpolatorType::New();
resampler->SetInterpolator(interpolator);
FixedImageType::SpacingType fixedSpacing = fixedImage->GetSpacing();
FixedImageType::PointType fixedOrigin = fixedImage->GetOrigin();
FixedImageType::DirectionType fixedDirection = fixedImage->GetDirection();
resampler->SetOutputSpacing(fixedSpacing);
resampler->SetOutputOrigin(fixedOrigin);
resampler->SetOutputDirection(fixedDirection);
FixedImageType::RegionType fixedRegion = fixedImage->GetBufferedRegion();
FixedImageType::SizeType fixedSize = fixedRegion.GetSize();
resampler->SetSize(fixedSize);
resampler->SetOutputStartIndex(fixedRegion.GetIndex());
resampler->SetInput(movingReader->GetOutput());
const unsigned int SpaceDimension = ImageDimension;
constexpr unsigned int SplineOrder = 3;
using CoordinateRepType = double;
using TransformType = itk::BSplineTransform<CoordinateRepType, SpaceDimension, SplineOrder>;
auto bsplineTransform = TransformType::New();
using InitializerType = itk::BSplineTransformInitializer<TransformType, FixedImageType>;
auto transformInitializer = InitializerType::New();
ITK_EXERCISE_BASIC_OBJECT_METHODS(transformInitializer, BSplineTransformInitializer, Object);
// Test exceptions
// Expect an exception as no transform is set
ITK_TRY_EXPECT_EXCEPTION(transformInitializer->InitializeTransform());
transformInitializer->SetTransform(bsplineTransform);
ITK_TEST_SET_GET_VALUE(bsplineTransform, transformInitializer->GetTransform());
// Expect an exception as no image is set
ITK_TRY_EXPECT_EXCEPTION(transformInitializer->InitializeTransform());
transformInitializer->SetImage(fixedImage);
ITK_TEST_SET_GET_VALUE(fixedImage, transformInitializer->GetImage());
TransformType::MeshSizeType meshSize;
meshSize.Fill(4);
transformInitializer->SetTransformDomainMeshSize(meshSize);
ITK_TEST_SET_GET_VALUE(meshSize, transformInitializer->GetTransformDomainMeshSize());
transformInitializer->InitializeTransform();
using ParametersType = TransformType::ParametersType;
const unsigned int numberOfParameters = bsplineTransform->GetNumberOfParameters();
const unsigned int numberOfNodes = numberOfParameters / SpaceDimension;
ParametersType parameters(numberOfParameters);
std::ifstream infile;
infile.open(argv[1]);
for (unsigned int n = 0; n < numberOfNodes; ++n)
{
infile >> parameters[n];
infile >> parameters[n + numberOfNodes];
}
infile.close();
bsplineTransform->SetParameters(parameters);
resampler->SetTransform(bsplineTransform);
ITK_TRY_EXPECT_NO_EXCEPTION(itk::WriteImage(resampler->GetOutput(), argv[4]));
using VectorType = itk::Vector<float, ImageDimension>;
using DeformationFieldType = itk::Image<VectorType, ImageDimension>;
auto field = DeformationFieldType::New();
field->SetRegions(fixedRegion);
field->SetOrigin(fixedOrigin);
field->SetSpacing(fixedSpacing);
field->SetDirection(fixedDirection);
field->Allocate();
using FieldIterator = itk::ImageRegionIterator<DeformationFieldType>;
FieldIterator fi(field, fixedRegion);
fi.GoToBegin();
TransformType::InputPointType fixedPoint;
TransformType::OutputPointType movingPoint;
TransformType::JacobianType jacobian;
DeformationFieldType::IndexType index;
VectorType displacement;
while (!fi.IsAtEnd())
{
index = fi.GetIndex();
field->TransformIndexToPhysicalPoint(index, fixedPoint);
movingPoint = bsplineTransform->TransformPoint(fixedPoint);
bsplineTransform->ComputeJacobianWithRespectToParameters(fixedPoint, jacobian);
displacement = movingPoint - fixedPoint;
fi.Set(displacement);
++fi;
}
if (argc >= 6)
{
ITK_TRY_EXPECT_NO_EXCEPTION(itk::WriteImage(field, argv[5]));
}
return EXIT_SUCCESS;
}
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