+++ /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://www.centreleonberard.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 CLITKEXTRACTMEDIASTINUMFILTER_H
-#define CLITKEXTRACTMEDIASTINUMFILTER_H
-
-#include "clitkStructuresExtractionFilter.h"
-
-namespace clitk {
-
- //--------------------------------------------------------------------
- /*
- Try to extract the mediastinum part of a thorax CT.
- Input masks needed :
- - Patient
- - Lungs
- - Bones [Optional]
- - Trachea
- - VertebralBody
- */
- //--------------------------------------------------------------------
-
- template <class TImageType>
- class ITK_EXPORT ExtractMediastinumFilter:
- public clitk::StructuresExtractionFilter<TImageType>
- {
-
- public:
- /** Some convenient typedefs. */
- typedef TImageType ImageType;
- typedef typename ImageType::ConstPointer ImageConstPointer;
- typedef typename ImageType::Pointer ImagePointer;
- typedef typename ImageType::RegionType ImageRegionType;
- typedef typename ImageType::PixelType ImagePixelType;
- typedef typename ImageType::SizeType ImageSizeType;
- typedef typename ImageType::IndexType ImageIndexType;
- typedef typename ImageType::PointType ImagePointType;
-
- /** Some convenient typedefs. */
- typedef uchar MaskImagePixelType;
- typedef itk::Image<MaskImagePixelType, 3> MaskImageType;
- typedef typename MaskImageType::ConstPointer MaskImageConstPointer;
- typedef typename MaskImageType::Pointer MaskImagePointer;
- typedef typename MaskImageType::RegionType MaskImageRegionType;
- typedef typename MaskImageType::SizeType MaskImageSizeType;
- typedef typename MaskImageType::IndexType MaskImageIndexType;
- typedef typename MaskImageType::PointType MaskImagePointType;
-
- typedef itk::Image<MaskImagePixelType, 2> MaskSliceType;
- typedef typename MaskSliceType::Pointer MaskSlicePointer;
- typedef typename MaskSliceType::PointType MaskSlicePointType;
-
- /** Standard class typedefs. */
- // typedef itk::ImageToImageFilter<TImageType, MaskImageType> Superclass;
- typedef clitk::StructuresExtractionFilter<TImageType> Superclass;
- typedef ExtractMediastinumFilter Self;
- typedef itk::SmartPointer<Self> Pointer;
- typedef itk::SmartPointer<const Self> ConstPointer;
-
- /** Method for creation through the object factory. */
- itkNewMacro(Self);
-
- /** Run-time type information (and related methods). */
- itkTypeMacro(ExtractMediastinumFilter, InPlaceImageFilter);
- FILTERBASE_INIT;
-
- /** Connect inputs */
- void SetInput(const ImageType * image);
- void SetInputPatientLabelImage(const MaskImageType * image, MaskImagePixelType bg=0);
- void SetInputLungLabelImage(const MaskImageType * image, MaskImagePixelType bg=0,
- MaskImagePixelType fgLeftLung=1, MaskImagePixelType fgRightLung=2);
- void SetInputBonesLabelImage(const MaskImageType * image, MaskImagePixelType bg=0);
- void SetInputTracheaLabelImage(const MaskImageType * image, MaskImagePixelType bg=0);
-
- // Output filename (for AFBD)
- itkSetMacro(OutputMediastinumFilename, std::string);
- itkGetConstMacro(OutputMediastinumFilename, std::string);
-
- /** ImageDimension constants */
- itkStaticConstMacro(ImageDimension, unsigned int, ImageType::ImageDimension);
-
- // Background / Foreground
- itkSetMacro(BackgroundValuePatient, MaskImagePixelType);
- itkGetConstMacro(BackgroundValuePatient, MaskImagePixelType);
-
- itkSetMacro(BackgroundValueLung, MaskImagePixelType);
- itkGetConstMacro(BackgroundValueLung, MaskImagePixelType);
-
- itkSetMacro(BackgroundValueBones, MaskImagePixelType);
- itkGetConstMacro(BackgroundValueBones, MaskImagePixelType);
-
- itkSetMacro(ForegroundValueLeftLung, MaskImagePixelType);
- itkGetConstMacro(ForegroundValueLeftLung, MaskImagePixelType);
-
- itkSetMacro(ForegroundValueRightLung, MaskImagePixelType);
- itkGetConstMacro(ForegroundValueRightLung, MaskImagePixelType);
-
- itkSetMacro(BackgroundValueTrachea, MaskImagePixelType);
- itkGetConstMacro(BackgroundValueTrachea, MaskImagePixelType);
-
- itkSetMacro(IntermediateSpacing, double);
- itkGetConstMacro(IntermediateSpacing, double);
-
- itkBooleanMacro(UseBones);
- itkSetMacro(UseBones, bool);
- itkGetConstMacro(UseBones, bool);
-
- itkSetMacro(DistanceMaxToAnteriorPartOfTheVertebralBody, double);
- itkGetConstMacro(DistanceMaxToAnteriorPartOfTheVertebralBody, double);
-
- void SetFuzzyThreshold(std::string tag, double value);
- double GetFuzzyThreshold(std::string tag);
-
- protected:
- ExtractMediastinumFilter();
- virtual ~ExtractMediastinumFilter() {}
-
- virtual void GenerateOutputInformation();
- virtual void GenerateInputRequestedRegion();
- virtual void GenerateData();
-
- MaskImagePixelType m_BackgroundValuePatient;
- MaskImagePixelType m_BackgroundValueLung;
- MaskImagePixelType m_BackgroundValueBones;
- MaskImagePixelType m_BackgroundValueTrachea;
- MaskImagePixelType m_ForegroundValueLeftLung;
- MaskImagePixelType m_ForegroundValueRightLung;
-
- MaskImagePointer output;
- MaskImagePointer patient;
- MaskImagePointer lung;
- MaskImagePointer bones;
- MaskImagePointer trachea;
-
- std::map<std::string, double> m_FuzzyThreshold;
- double m_IntermediateSpacing;
- bool m_UseBones;
- double m_DistanceMaxToAnteriorPartOfTheVertebralBody;
-
- void RemovePostPartOfVertebralBody();
-
- std::string m_OutputMediastinumFilename;
-
- private:
- ExtractMediastinumFilter(const Self&); //purposely not implemented
- void operator=(const Self&); //purposely not implemented
-
- }; // end class
- //--------------------------------------------------------------------
-
-} // end namespace clitk
-//--------------------------------------------------------------------
-
-#ifndef ITK_MANUAL_INSTANTIATION
-#include "clitkExtractMediastinumFilter.txx"
-#endif
-
-#endif
git://git.creatis.insa-lyon.fr / clitk.git / blobdiff