1 /*=========================================================================
2 Program: vv http://www.creatis.insa-lyon.fr/rio/vv
5 - University of LYON http://www.universite-lyon.fr/
6 - Léon Bérard cancer center http://oncora1.lyon.fnclcc.fr
7 - CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr
9 This software is distributed WITHOUT ANY WARRANTY; without even
10 the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
11 PURPOSE. See the copyright notices for more information.
13 It is distributed under dual licence
15 - BSD See included LICENSE.txt file
16 - CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
17 ======================================================================-====*/
19 #ifndef CLITKSEGMENTATIONUTILS_H
20 #define CLITKSEGMENTATIONUTILS_H
22 #include "clitkCommon.h"
23 #include "clitkAutoCropFilter.h"
24 #include "clitkLabelizeParameters.h"
25 #include <itkBoundingBox.h>
29 //--------------------------------------------------------------------
30 template<class ImageType>
31 void ComputeBBFromImageRegion(typename ImageType::Pointer image,
32 typename ImageType::RegionType region,
33 typename itk::BoundingBox<unsigned long,
34 ImageType::ImageDimension>::Pointer bb);
36 //--------------------------------------------------------------------
37 template<int Dimension>
38 void ComputeBBIntersection(typename itk::BoundingBox<unsigned long, Dimension>::Pointer bbo,
39 typename itk::BoundingBox<unsigned long, Dimension>::Pointer bbi1,
40 typename itk::BoundingBox<unsigned long, Dimension>::Pointer bbi2);
42 //--------------------------------------------------------------------
43 template<class ImageType>
44 void ComputeRegionFromBB(typename ImageType::Pointer image,
45 const typename itk::BoundingBox<unsigned long,
46 ImageType::ImageDimension>::Pointer bb,
47 typename ImageType::RegionType & region);
48 //--------------------------------------------------------------------
49 template<class TInternalImageType, class TMaskInternalImageType>
50 typename TInternalImageType::Pointer
51 SetBackground(const TInternalImageType * input,
52 const TMaskInternalImageType * mask,
53 typename TMaskInternalImageType::PixelType maskBG,
54 typename TInternalImageType::PixelType outValue);
55 //--------------------------------------------------------------------
58 //--------------------------------------------------------------------
59 template<class ImageType>
60 int GetNumberOfConnectedComponentLabels(typename ImageType::Pointer input,
61 typename ImageType::PixelType BG,
62 bool isFullyConnected);
63 //--------------------------------------------------------------------
66 //--------------------------------------------------------------------
67 template<class TImageType>
68 typename TImageType::Pointer
69 Labelize(typename TImageType::Pointer input,
70 typename TImageType::PixelType BG,
71 bool isFullyConnected,
72 int minimalComponentSize);
73 //--------------------------------------------------------------------
76 //--------------------------------------------------------------------
77 template<class ImageType>
78 typename ImageType::Pointer
79 RemoveLabels(typename ImageType::Pointer input,
80 typename ImageType::PixelType BG,
81 std::vector<typename ImageType::PixelType> & labelsToRemove);
82 //--------------------------------------------------------------------
85 //--------------------------------------------------------------------
86 template<class ImageType>
87 typename ImageType::Pointer
88 AutoCrop(typename ImageType::Pointer input,
89 typename ImageType::PixelType BG) {
90 typedef clitk::AutoCropFilter<ImageType> AutoCropFilterType;
91 typename AutoCropFilterType::Pointer autoCropFilter = AutoCropFilterType::New();
92 autoCropFilter->SetInput(input);
93 autoCropFilter->Update();
94 return autoCropFilter->GetOutput();
97 //--------------------------------------------------------------------
100 //--------------------------------------------------------------------
101 template<class TImageType>
102 typename TImageType::Pointer
103 KeepLabels(typename TImageType::Pointer input,
104 typename TImageType::PixelType BG,
105 typename TImageType::PixelType FG,
106 typename TImageType::PixelType firstKeep,
107 typename TImageType::PixelType lastKeep,
109 //--------------------------------------------------------------------
112 //--------------------------------------------------------------------
113 template<class TImageType>
114 typename TImageType::Pointer
115 LabelizeAndSelectLabels(typename TImageType::Pointer input,
116 typename TImageType::PixelType BG,
117 typename TImageType::PixelType FG,
118 bool isFullyConnected,
119 int minimalComponentSize,
120 LabelizeParameters<typename TImageType::PixelType> * param);
122 //--------------------------------------------------------------------
123 template<class ImageType>
124 typename ImageType::Pointer
125 EnlargeImageLike(typename ImageType::Pointer input,
126 typename ImageType::Pointer like,
127 typename ImageType::PixelType BG);
131 #include "clitkSegmentationUtils.txx"