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 ======================================================================-====*/
23 #include "clitkConfiguration.h"
24 #include "clitkPortability.h"
26 // itk include (include std)
27 #include <itkContinuousIndex.h>
29 #include <itkImageRegionConstIterator.h>
30 #include <itkImageRegionIterator.h>
32 //--------------------------------------------------------------------
35 typedef unsigned char uchar;
36 typedef unsigned short ushort;
37 typedef unsigned int uint;
39 //--------------------------------------------------------------------
41 #define DD(a) std::cout << #a " = [ " << a << " ]" << std::endl;
42 #define DDV(a,n) { std::cout << #a " = [ "; for(unsigned int _i_=0; _i_<n; _i_++) { std::cout << a[_i_] << " "; }; std::cout << " ]" << std::endl;}
44 void _print_container(T const& a)
45 { for(typename T::const_iterator i=a.begin();i!=a.end();++i) { std::cout << *i << " "; };}
46 #define DDS(a) { std::cout << #a " = [ "; _print_container(a) ; std::cout << " ]" << std::endl;}
48 //--------------------------------------------------------------------
49 // when everything goes wrong
50 #define WHEREAMI "[ " << __FILE__ << " ] line " << __LINE__
51 #define FATAL(a) std::cerr << "ERROR in " << WHEREAMI << ": " << a; exit(0);
53 //--------------------------------------------------------------------
54 // GGO with modified struct name
55 #define GGO(ggo_filename, args_info) \
56 args_info_##ggo_filename args_info; \
57 cmdline_parser_##ggo_filename##2(argc, argv, &args_info, 1, 1, 0); \
58 if (args_info.config_given) \
59 cmdline_parser_##ggo_filename##_configfile (args_info.config_arg, &args_info, 0, 0, 1); \
60 else cmdline_parser_##ggo_filename(argc, argv, &args_info);
62 //--------------------------------------------------------------------
64 void skipComment(std::istream & is);
66 //--------------------------------------------------------------------
67 // linear (rough) conversion from Hounsfield Unit to density
68 double HU2density(double HU);
70 //--------------------------------------------------------------------
71 // Return filename extension
72 std::string GetExtension(const std::string& filename);
74 //--------------------------------------------------------------------
75 // Convert float, double ... to string
76 template<class T> std::string toString(const T & t);
77 template<class T> std::string toStringVector(const T * t, const int n);
78 template<class T> std::string toStringVector(const T & t, const int n);
79 template<class T> std::string toStringVector(const std::vector<T> & t);
81 //--------------------------------------------------------------------
82 // Display a progress %
83 void VerboseInProgress(const int nb, const int current, const int percentage);
84 void VerboseInProgressInPercentage(const int nb, const int current, const int percentage);
86 //--------------------------------------------------------------------
87 // Convert a pixel type to another (downcast)
88 template<class TPixelUp, class TPixelDown>
89 TPixelDown PixelTypeDownCast(const TPixelUp & x);
91 float PixelTypeDownCast(const double & x);
93 //--------------------------------------------------------------------
94 // Return the indexes of sorted values in a vector
95 template<class Type> struct vectorComparisonLowerThan;
96 template<class Type> struct vectorComparisonGreaterThan;
98 void GetSortedIndex(const std::vector<Type> & toSort, std::vector<int> & index, bool increasing=true);
100 //--------------------------------------------------------------------
101 // Return the name of a type as a string
102 template<class TPixel>
103 std::string GetTypeAsString();
105 //--------------------------------------------------------------------
106 // Convert radian / degree
107 double rad2deg(double anglerad);
108 double deg2rad(double anglerad);
110 //--------------------------------------------------------------------
111 int GetTypeSizeFromString(const std::string & type);
113 //--------------------------------------------------------------------
114 // Special case to handle "signed_char = schar" ...
116 bool IsSameType(std::string t) { return (t==GetTypeAsString<T>()); }
117 template<> bool IsSameType<char>(std::string t);
118 template<> bool IsSameType<signed char>(std::string t);
119 template<> bool IsSameType<unsigned char>(std::string t);
120 template<> bool IsSameType<unsigned short>(std::string t);
122 //--------------------------------------------------------------------
124 std::string CreateListOfTypes(bool last=true) {
125 return GetTypeAsString<T1>();
128 template<class T1, class T2>
129 std::string CreateListOfTypes(bool last=true) {
130 if (last) return CreateListOfTypes<T1>()+" and "+CreateListOfTypes<T2>();
131 else return CreateListOfTypes<T1>()+", "+CreateListOfTypes<T2>();
134 template<class T1, class T2, class T3>
135 std::string CreateListOfTypes(bool last=true) {
136 if (last) return CreateListOfTypes<T1,T2>(false)+" and "+CreateListOfTypes<T3>();
137 else return CreateListOfTypes<T1,T2>(false)+", "+CreateListOfTypes<T3>();
140 template<class T1, class T2, class T3, class T4>
141 std::string CreateListOfTypes(bool last=true) {
142 if (last) return CreateListOfTypes<T1,T2,T3>(false)+" and "+CreateListOfTypes<T4>();
143 else return CreateListOfTypes<T1,T2,T3>(false)+", "+CreateListOfTypes<T4>();
146 template<class T1, class T2, class T3, class T4, class T5>
147 std::string CreateListOfTypes(bool last=true) {
148 if (last) return CreateListOfTypes<T1,T2,T3,T4>(false)+" and "+CreateListOfTypes<T5>();
149 else return CreateListOfTypes<T1,T2,T3,T4>(false)+", "+CreateListOfTypes<T5>();
152 template<class T1, class T2, class T3, class T4, class T5, class T6>
153 std::string CreateListOfTypes(bool last=true) {
154 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5>(false)+" and "+CreateListOfTypes<T6>();
155 else return CreateListOfTypes<T1,T2,T3,T4,T5>(false)+", "+CreateListOfTypes<T6>();
158 template<class T1, class T2, class T3, class T4, class T5, class T6, class T7>
159 std::string CreateListOfTypes(bool last=true) {
160 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5,T6>(false)+" and "+CreateListOfTypes<T7>();
161 else return CreateListOfTypes<T1,T2,T3,T4,T5,T6>(false)+", "+CreateListOfTypes<T7>();
164 template<class T1, class T2, class T3, class T4, class T5, class T6, class T7, class T8>
165 std::string CreateListOfTypes(bool last=true) {
166 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5,T6,T7>(false)+" and "+CreateListOfTypes<T8>();
167 else return CreateListOfTypes<T1,T2,T3,T4,T5,T6,T7>(false)+", "+CreateListOfTypes<T8>();
169 //--------------------------------------------------------------------
171 //--------------------------------------------------------------------
172 void FindAndReplace(std::string & line, const std::string & tofind, const std::string & replacement);
173 void FindAndReplace(std::string & line, const std::vector<std::string> & tofind, const std::vector<std::string> & toreplace);
174 void FindAndReplace(std::ifstream & in, const std::vector<std::string> & tofind, const std::vector<std::string> & toreplace, std::ofstream & out);
175 //--------------------------------------------------------------------
177 //--------------------------------------------------------------------
178 double ComputeEuclideanDistanceFromPointToPlane(const itk::ContinuousIndex<double, 3> point,
179 const itk::ContinuousIndex<double, 3> pointInPlane,
180 const itk::ContinuousIndex<double, 3> normalPlane);
182 //--------------------------------------------------------------------
183 // Open a File for reading/writing
184 void openFileForReading(std::ifstream & is, const std::string & filename);
185 void openFileForWriting(std::ofstream & os, const std::string & filename);
187 //--------------------------------------------------------------------
188 void readDoubleFromFile(const std::string & filename, std::vector<double> & list);
190 //--------------------------------------------------------------------
191 double cotan(double i);
192 double invcotan(double i);
194 //--------------------------------------------------------------------
195 void disableStdCerr();
196 void enableStdCerr();
198 //--------------------------------------------------------------------
199 template<class ImageType>
200 void CloneImage(const typename ImageType::Pointer & input, typename ImageType::Pointer & output);
202 #include "clitkCommon.txx"
206 #endif /* end #define CLITKCOMMON_H */