--- /dev/null
+/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
+
+ Authors belong to:
+ - University of LYON http://www.universite-lyon.fr/
+ - Léon Bérard cancer center http://oncora1.lyon.fnclcc.fr
+ - CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr
+
+ This software is distributed WITHOUT ANY WARRANTY; without even
+ the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the copyright notices for more information.
+
+ It is distributed under dual licence
+
+ - BSD See included LICENSE.txt file
+ - CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+======================================================================-====*/
+
+#ifndef __clitkGenericMetric_h
+#define __clitkGenericMetric_h
+
+//clitk include
+#include "clitkNormalizedCorrelationImageToImageMetric.h"
+#include "clitkCorrelationRatioImageToImageMetric.h"
+#include "itkMeanSquaresImageToImageMetricFor3DBLUTFFD.h"
+#include "itkMattesMutualInformationImageToImageMetricFor3DBLUTFFD.h"
+#include "clitkNormalizedCorrelationImageToImageMetricFor3DBLUTFFD.h"
+
+//itk include
+#include "itkSpatialObject.h"
+#include "itkNormalizeImageFilter.h"
+#include "itkImageToImageMetric.h"
+#include "itkMeanSquaresImageToImageMetric.h"
+#include "itkCorrelationCoefficientHistogramImageToImageMetric.h"
+#include "itkGradientDifferenceImageToImageMetric.h"
+#include "itkMutualInformationImageToImageMetric.h"
+#include "itkMutualInformationHistogramImageToImageMetric.h"
+#include "itkMattesMutualInformationImageToImageMetric.h"
+#include "itkNormalizedMutualInformationHistogramImageToImageMetric.h"
+
+
+
+/*
+
+Requires at least the following section is the .ggo file. Adapt the defaults to the application
+
+
+section "Metric (optimized, threaded versions are available for *, compile ITK with REVIEW and OPT_REGISTRATION enabled. Further optimized versions ** for BLUT FFD optimizing a !3D! vector field )"
+
+option "metric" - "Type: 0=SSD*, 1=Normalized CC*, 2=Histogram CC, 3=Gradient-Difference, 4=Viola-Wells MI, 5=Histogram MI, 6=Mattes' MI*, 7=Normalized MI, 8=CR, 9=SSD for BLUT FFD**, 10=CC for BLUT FFD**, 11=Mattes' MI for BLUT FFD**" int no default="0"
+option "samples" - "Specify fraction [0, 1] of samples of the reference image used for the metric (* only). Use high fraction for detailed images (eg. 0.2, 0.5), for smooth images 0.01 might be enough." float no default="1"
+option "intThreshold" - "Fixed image samples intensity threshold (* only)" float no
+option "subtractMean" - "1: Subtract mean for NCC calculation (narrows optimal)" flag on
+option "bins" - "2,5-8: Number of histogram bins" int no default="50"
+option "random" - "4,6: Samples should be taken randomly, otherwise uniformly" flag off
+option "stdDev" - "4: specify the standard deviation in mm of the gaussian kernels for both PDF estimations" float no default="0.4"
+option "explicitPDFDerivatives" - "6: Calculate PDF derivatives explicitly (rigid=true; FFD=false)" flag on
+
+
+The use will look something like
+
+typedef clitk::GenericMetric<args_info_type, FixedImageType, MovingImageType> GenericMetricType;
+typename GenericMetricType::Pointer genericMetric=GenericMetricType::New();
+genericMetric->SetArgsInfo(m_ArgsInfo);
+genericMetric->SetFixedImageRegion(fixedImage->GetLargestPossibleRegion());
+genericMetric->SetFixedImage(fixedImage);
+genericMetric->SetFixedImageMask(fixedImageMask);
+typedef itk::ImageToImageMetric<FixedImageType, MovingImageType> MetricType;
+typename MetricType::Pointer metric=genericMetric->GetMetricPointer();
+
+*/
+
+
+namespace clitk
+{
+
+template < class args_info_type, class FixedImageType, class MovingImageType >
+class GenericMetric : public itk::LightObject
+{
+public:
+ //==============================================
+ typedef GenericMetric Self;
+ typedef itk::LightObject Superclass;
+ typedef itk::SmartPointer<Self> Pointer;
+ typedef itk::SmartPointer<const Self> ConstPointer;
+
+ /** Method for creation through the object factory. */
+ itkNewMacro(Self);
+
+ /** Determine the image dimension. */
+ itkStaticConstMacro(FixedImageDimension, unsigned int,
+ FixedImageType::ImageDimension );
+ itkStaticConstMacro(MovingImageDimension, unsigned int,
+ MovingImageType::ImageDimension );
+
+ // Typedef
+ typedef itk::ImageToImageMetric<FixedImageType, MovingImageType> MetricType;
+ typedef typename MetricType::Pointer MetricPointer;
+ typedef typename FixedImageType::RegionType FixedImageRegionType;
+ typedef itk::SpatialObject<itkGetStaticConstMacro(FixedImageDimension)> FixedImageMaskType;
+ typedef typename FixedImageMaskType::Pointer MaskPointer;
+ typedef typename FixedImageType::PixelType FixedImagePixelType;
+ typedef typename FixedImageType::IndexType FixedImageIndexType;
+ typedef typename FixedImageType::PointType FixedImagePointType;
+
+ //==============================================
+ //Set members
+ void SetArgsInfo(args_info_type args_info) {
+ m_ArgsInfo= args_info;
+ m_Verbose=m_ArgsInfo.verbose_flag;
+ }
+ void SetFixedImageRegion(const FixedImageRegionType f) {
+ m_FixedImageRegion=f;
+ m_FixedImageRegionGiven=true;
+ }
+ void SetFixedImage(typename FixedImageType::Pointer f) {
+ m_FixedImage=f;
+ }
+ void SetFixedImageMask( const FixedImageMaskType* f) {
+ m_FixedImageMask=f;
+ }
+
+ //==============================================
+ //Get members
+ MetricPointer GetMetricPointer(void);
+ bool GetMaximize(void) {
+ return m_Maximize;
+ }
+
+
+ //==============================================
+protected:
+ GenericMetric();
+ ~GenericMetric() {};
+
+private:
+ args_info_type m_ArgsInfo;
+ MetricPointer m_Metric;
+ bool m_Maximize;
+ bool m_Verbose;
+ bool m_FixedImageRegionGiven;
+ FixedImageRegionType m_FixedImageRegion;
+ typename FixedImageType::Pointer m_FixedImage;
+ typename FixedImageMaskType::ConstPointer m_FixedImageMask;
+
+#ifdef ITK_USE_OPTIMIZED_REGISTRATION_METHODS
+ FixedImagePixelType m_FixedImageSamplesIntensityThreshold;
+ bool m_UseFixedImageSamplesIntensityThreshold;
+#endif
+
+};
+
+} // end namespace clitk
+#ifndef ITK_MANUAL_INSTANTIATION
+#include "clitkGenericMetric.txx"
+#endif
+
+#endif // #define __clitkGenericMetric_h
git://git.creatis.insa-lyon.fr / clitk.git / blobdiff