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/*=========================================================================
*
* Copyright UMC Utrecht and contributors
*
* 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.
*
*=========================================================================*/
#ifndef elxDeformationFieldTransform_h
#define elxDeformationFieldTransform_h
#include "elxIncludes.h" // include first to avoid MSVS warning
#include "itkDeformationFieldInterpolatingTransform.h"
#include "itkAdvancedCombinationTransform.h"
namespace elastix
{
/**
* \class DeformationFieldTransform
* \brief A transform based on a DeformationField.
*
* This transform models the transformation by a deformation vector field.
* This transform is NOT meant to be used for optimisation. Just use it as an initial
* transform, or with transformix.
*
* The parameters used in this class are:
* \parameter Transform: Select this transform as follows:\n
* <tt>(%Transform "DeformationFieldTransform")</tt>
*
* The transform parameters necessary for transformix, additionally defined by this class, are:
* \transformparameter DeformationFieldFileName: stores the name of the deformation field. \n
* example: <tt>(DeformationFieldFileName "defField.mhd")</tt>
* \transformparameter DeformationFieldInterpolationOrder: The interpolation order used for interpolating the
* deformation field:\n example: <tt>(DeformationFieldInterpolationOrder 0)</tt>\n The default value is 0. Choose from
* the allowed values 0 or 1.
*
*
* \sa DeformationFieldInterpolatingTransform
*
* \ingroup Transforms
*/
template <class TElastix>
class ITK_TEMPLATE_EXPORT DeformationFieldTransform
: public itk::AdvancedCombinationTransform<typename elx::TransformBase<TElastix>::CoordRepType,
elx::TransformBase<TElastix>::FixedImageDimension>
, public TransformBase<TElastix>
{
public:
ITK_DISALLOW_COPY_AND_MOVE(DeformationFieldTransform);
/** Standard ITK-stuff. */
using Self = DeformationFieldTransform;
/** The ITK-class that provides most of the functionality, and
* that is set as the "CurrentTransform" in the CombinationTransform */
using DeformationFieldInterpolatingTransformType =
itk::DeformationFieldInterpolatingTransform<typename elx::TransformBase<TElastix>::CoordRepType,
elx::TransformBase<TElastix>::FixedImageDimension,
float>;
using Superclass1 = itk::AdvancedCombinationTransform<typename elx::TransformBase<TElastix>::CoordRepType,
elx::TransformBase<TElastix>::FixedImageDimension>;
using Superclass2 = elx::TransformBase<TElastix>;
using Pointer = itk::SmartPointer<Self>;
using ConstPointer = itk::SmartPointer<const Self>;
/** Method for creation through the object factory. */
itkNewMacro(Self);
/** Run-time type information (and related methods). */
itkTypeMacro(DeformationFieldTransform, itk::AdvancedCombinationTransform);
/** Name of this class.
* Use this name in the parameter file to select this specific transform. \n
* example: <tt>(Transform "DeformationFieldTransform")</tt>\n
*/
elxClassNameMacro("DeformationFieldTransform");
/** Dimension of the domain space. */
itkStaticConstMacro(SpaceDimension, unsigned int, Superclass2::FixedImageDimension);
/** Typedefs inherited from the superclass. */
using typename Superclass1::ScalarType;
using typename Superclass1::ParametersType;
using typename Superclass1::NumberOfParametersType;
using typename Superclass1::JacobianType;
using typename Superclass1::InputVectorType;
using typename Superclass1::OutputVectorType;
using typename Superclass1::InputCovariantVectorType;
using typename Superclass1::OutputCovariantVectorType;
using typename Superclass1::InputVnlVectorType;
using typename Superclass1::OutputVnlVectorType;
using typename Superclass1::InputPointType;
using typename Superclass1::OutputPointType;
/** Typedef's specific for the DeformationFieldInterpolatingTransform. */
using DeformationFieldType = typename DeformationFieldInterpolatingTransformType::DeformationFieldType;
using DeformationFieldVectorType = typename DeformationFieldInterpolatingTransformType::DeformationFieldVectorType;
using DeformationFieldInterpolatingTransformPointer = typename DeformationFieldInterpolatingTransformType::Pointer;
/** Typedef's from TransformBase. */
using typename Superclass2::ElastixType;
using typename Superclass2::ParameterMapType;
using typename Superclass2::RegistrationType;
using typename Superclass2::CoordRepType;
using typename Superclass2::FixedImageType;
using typename Superclass2::MovingImageType;
using ITKBaseType = typename Superclass2::ITKBaseType;
using CombinationTransformType = typename Superclass2::CombinationTransformType;
/** Function to read transform-parameters from a file. */
void
ReadFromFile() override;
protected:
/** The constructor. */
DeformationFieldTransform();
/** The destructor. */
~DeformationFieldTransform() override = default;
private:
elxOverrideGetSelfMacro;
/** Creates a map of the parameters specific for this (derived) transform type. */
ParameterMapType
CreateDerivedTransformParameterMap() const override;
/** Writes its deformation field to a file. */
void
WriteDerivedTransformDataToFile() const override;
using DirectionType = typename DeformationFieldType::DirectionType;
/** The transform that is set as current transform in the
* CcombinationTransform */
const DeformationFieldInterpolatingTransformPointer m_DeformationFieldInterpolatingTransform{
DeformationFieldInterpolatingTransformType::New()
};
/** Original direction cosines; stored to facilitate UseDirectionCosines option. */
DirectionType m_OriginalDeformationFieldDirection;
};
} // end namespace elastix
#ifndef ITK_MANUAL_INSTANTIATION
# include "elxDeformationFieldTransform.hxx"
#endif
#endif // end #ifndef elxDeformationFieldTransform_h
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