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 //--------------------------------------------------------------------
45 // when everything goes wrong
46 #define WHEREAMI "[ " << __FILE__ << " ] line " << __LINE__
47 #define FATAL(a) std::cerr << "ERROR in " << WHEREAMI << ": " << a; exit(0);
49 //--------------------------------------------------------------------
50 // GGO with modified struct name
51 #define GGO(ggo_filename, args_info) \
52 args_info_##ggo_filename args_info; \
53 cmdline_parser_##ggo_filename##2(argc, argv, &args_info, 1, 1, 0); \
54 if (args_info.config_given) \
55 cmdline_parser_##ggo_filename##_configfile (args_info.config_arg, &args_info, 0, 0, 1); \
56 else cmdline_parser_##ggo_filename(argc, argv, &args_info);
58 //--------------------------------------------------------------------
60 void skipComment(std::istream & is);
62 //--------------------------------------------------------------------
63 // linear (rough) conversion from Hounsfield Unit to density
64 double HU2density(double HU);
66 //--------------------------------------------------------------------
67 // Return filename extension
68 std::string GetExtension(const std::string& filename);
70 //--------------------------------------------------------------------
71 // Convert float, double ... to string
72 template<class T> std::string toString(const T & t);
73 template<class T> std::string toStringVector(const T * t, const int n);
74 template<class T> std::string toStringVector(const T & t, const int n);
75 template<class T> std::string toStringVector(const std::vector<T> & t);
77 //--------------------------------------------------------------------
78 // Display a progress %
79 void VerboseInProgress(const int nb, const int current, const int percentage);
80 void VerboseInProgressInPercentage(const int nb, const int current, const int percentage);
82 //--------------------------------------------------------------------
83 // Convert a pixel type to another (downcast)
84 template<class TPixelUp, class TPixelDown>
85 TPixelDown PixelTypeDownCast(const TPixelUp & x);
87 float PixelTypeDownCast(const double & x);
89 //--------------------------------------------------------------------
90 // Return the indexes of sorted values in a vector
91 template<class Type> struct vectorComparisonLowerThan;
92 template<class Type> struct vectorComparisonGreaterThan;
94 void GetSortedIndex(const std::vector<Type> & toSort, std::vector<int> & index, bool increasing=true);
96 //--------------------------------------------------------------------
97 // Return the name of a type as a string
98 template<class TPixel>
99 std::string GetTypeAsString();
101 //--------------------------------------------------------------------
102 // Convert radian / degree
103 double rad2deg(double anglerad);
104 double deg2rad(double anglerad);
106 //--------------------------------------------------------------------
107 int GetTypeSizeFromString(const std::string & type);
109 //--------------------------------------------------------------------
110 // Special case to handle "signed_char = schar" ...
112 bool IsSameType(std::string t) { return (t==GetTypeAsString<T>()); }
113 template<> bool IsSameType<char>(std::string t);
114 template<> bool IsSameType<signed char>(std::string t);
115 template<> bool IsSameType<unsigned char>(std::string t);
116 template<> bool IsSameType<unsigned short>(std::string t);
118 //--------------------------------------------------------------------
120 std::string CreateListOfTypes(bool last=true) {
121 return GetTypeAsString<T1>();
124 template<class T1, class T2>
125 std::string CreateListOfTypes(bool last=true) {
126 if (last) return CreateListOfTypes<T1>()+" and "+CreateListOfTypes<T2>();
127 else return CreateListOfTypes<T1>()+", "+CreateListOfTypes<T2>();
130 template<class T1, class T2, class T3>
131 std::string CreateListOfTypes(bool last=true) {
132 if (last) return CreateListOfTypes<T1,T2>(false)+" and "+CreateListOfTypes<T3>();
133 else return CreateListOfTypes<T1,T2>(false)+", "+CreateListOfTypes<T3>();
136 template<class T1, class T2, class T3, class T4>
137 std::string CreateListOfTypes(bool last=true) {
138 if (last) return CreateListOfTypes<T1,T2,T3>(false)+" and "+CreateListOfTypes<T4>();
139 else return CreateListOfTypes<T1,T2,T3>(false)+", "+CreateListOfTypes<T4>();
142 template<class T1, class T2, class T3, class T4, class T5>
143 std::string CreateListOfTypes(bool last=true) {
144 if (last) return CreateListOfTypes<T1,T2,T3,T4>(false)+" and "+CreateListOfTypes<T5>();
145 else return CreateListOfTypes<T1,T2,T3,T4>(false)+", "+CreateListOfTypes<T5>();
148 template<class T1, class T2, class T3, class T4, class T5, class T6>
149 std::string CreateListOfTypes(bool last=true) {
150 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5>(false)+" and "+CreateListOfTypes<T6>();
151 else return CreateListOfTypes<T1,T2,T3,T4,T5>(false)+", "+CreateListOfTypes<T6>();
154 template<class T1, class T2, class T3, class T4, class T5, class T6, class T7>
155 std::string CreateListOfTypes(bool last=true) {
156 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5,T6>(false)+" and "+CreateListOfTypes<T7>();
157 else return CreateListOfTypes<T1,T2,T3,T4,T5,T6>(false)+", "+CreateListOfTypes<T7>();
160 template<class T1, class T2, class T3, class T4, class T5, class T6, class T7, class T8>
161 std::string CreateListOfTypes(bool last=true) {
162 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5,T6,T7>(false)+" and "+CreateListOfTypes<T8>();
163 else return CreateListOfTypes<T1,T2,T3,T4,T5,T6,T7>(false)+", "+CreateListOfTypes<T8>();
165 //--------------------------------------------------------------------
167 //--------------------------------------------------------------------
168 void FindAndReplace(std::string & line, const std::string & tofind, const std::string & replacement);
169 void FindAndReplace(std::string & line, const std::vector<std::string> & tofind, const std::vector<std::string> & toreplace);
170 void FindAndReplace(std::ifstream & in, const std::vector<std::string> & tofind, const std::vector<std::string> & toreplace, std::ofstream & out);
171 //--------------------------------------------------------------------
173 //--------------------------------------------------------------------
174 double ComputeEuclideanDistanceFromPointToPlane(const itk::ContinuousIndex<double, 3> point,
175 const itk::ContinuousIndex<double, 3> pointInPlane,
176 const itk::ContinuousIndex<double, 3> normalPlane);
178 //--------------------------------------------------------------------
179 // Open a File for reading/writing
180 void openFileForReading(std::ifstream & is, const std::string & filename);
181 void openFileForWriting(std::ofstream & os, const std::string & filename);
183 //--------------------------------------------------------------------
184 void readDoubleFromFile(const std::string & filename, std::vector<double> & list);
186 //--------------------------------------------------------------------
187 double cotan(double i);
188 double invcotan(double i);
190 //--------------------------------------------------------------------
191 void disableStdCerr();
192 void enableStdCerr();
194 //--------------------------------------------------------------------
195 template<class ImageType>
196 void CloneImage(const typename ImageType::Pointer & input, typename ImageType::Pointer & output);
198 #include "clitkCommon.txx"
202 #endif /* end #define CLITKCOMMON_H */