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"
25 #include "clitkExceptionObject.h"
27 // itk include (include std)
28 #include <itkContinuousIndex.h>
30 #include <itkImageRegionConstIterator.h>
31 #include <itkImageRegionIterator.h>
35 //--------------------------------------------------------------------
38 typedef unsigned char uchar;
39 typedef unsigned short ushort;
40 typedef unsigned int uint;
42 //--------------------------------------------------------------------
44 #define DD(a) std::cout << #a " = [ " << a << " ]" << std::endl;std::cout.flush();
45 #define DDV(a,n) { std::cout << #a " = [ "; for(unsigned int _i_=0; _i_<n; _i_++) { std::cout << a[_i_] << " "; }; std::cout << " ]" << std::endl;std::cout.flush();}
47 void _print_container(T const& a)
48 { for(typename T::const_iterator i=a.begin();i!=a.end();++i) { std::cout << *i << " "; };}
49 #define DDS(a) { std::cout << #a " = [ "; _print_container(a) ; std::cout << " ]" << std::endl;std::cout.flush():}
51 //--------------------------------------------------------------------
52 // when everything goes wrong
53 #define WHEREAMI "[ " << __FILE__ << " ] line " << __LINE__
54 #define FATAL(a) std::cerr << "ERROR in " << WHEREAMI << ": " << a; exit(0);
56 //--------------------------------------------------------------------
57 // GGO with modified struct name
58 #define GGO(ggo_filename, args_info) \
59 args_info_##ggo_filename args_info; \
60 cmdline_parser_##ggo_filename##2(argc, argv, &args_info, 1, 1, 0); \
61 if (args_info.config_given) \
62 cmdline_parser_##ggo_filename##_configfile (args_info.config_arg, &args_info, 0, 0, 1); \
63 else cmdline_parser_##ggo_filename(argc, argv, &args_info);
65 //--------------------------------------------------------------------
67 void skipComment(std::istream & is);
69 //--------------------------------------------------------------------
70 // linear (rough) conversion from Hounsfield Unit to density
71 double HU2density(double HU);
73 //--------------------------------------------------------------------
74 // Return filename extension
75 std::string GetExtension(const std::string& filename);
77 //--------------------------------------------------------------------
78 // Convert float, double ... to string
79 template<class T> std::string toString(const T & t);
80 template<class T> std::string toStringVector(const T * t, const int n);
81 template<class T> std::string toStringVector(const T & t, const int n);
82 template<class T> std::string toStringVector(const std::vector<T> & t);
84 //--------------------------------------------------------------------
85 // Display a progress %
86 void VerboseInProgress(const int nb, const int current, const int percentage);
87 void VerboseInProgressInPercentage(const int nb, const int current, const int percentage);
89 //--------------------------------------------------------------------
90 // Convert a pixel type to another (downcast)
91 template<class TPixelUp, class TPixelDown>
92 TPixelDown PixelTypeDownCast(const TPixelUp & x);
94 float PixelTypeDownCast(const double & x);
96 //--------------------------------------------------------------------
97 // Return the indexes of sorted values in a vector
98 template<class Type> struct vectorComparisonLowerThan;
99 template<class Type> struct vectorComparisonGreaterThan;
101 void GetSortedIndex(const std::vector<Type> & toSort, std::vector<int> & index, bool increasing=true);
103 //--------------------------------------------------------------------
104 // Return the name of a type as a string
105 template<class TPixel>
106 std::string GetTypeAsString();
108 //--------------------------------------------------------------------
109 // Convert radian / degree
110 double rad2deg(double anglerad);
111 double deg2rad(double anglerad);
113 //--------------------------------------------------------------------
114 int GetTypeSizeFromString(const std::string & type);
116 //--------------------------------------------------------------------
117 // Special case to handle "signed_char = schar" ...
119 bool IsSameType(std::string t) { return (t==GetTypeAsString<T>()); }
120 template<> bool IsSameType<char>(std::string t);
121 template<> bool IsSameType<signed char>(std::string t);
122 template<> bool IsSameType<unsigned char>(std::string t);
123 template<> bool IsSameType<unsigned short>(std::string t);
125 //--------------------------------------------------------------------
127 std::string CreateListOfTypes(bool last=true) {
128 return GetTypeAsString<T1>();
131 template<class T1, class T2>
132 std::string CreateListOfTypes(bool last=true) {
133 if (last) return CreateListOfTypes<T1>()+" and "+CreateListOfTypes<T2>();
134 else return CreateListOfTypes<T1>()+", "+CreateListOfTypes<T2>();
137 template<class T1, class T2, class T3>
138 std::string CreateListOfTypes(bool last=true) {
139 if (last) return CreateListOfTypes<T1,T2>(false)+" and "+CreateListOfTypes<T3>();
140 else return CreateListOfTypes<T1,T2>(false)+", "+CreateListOfTypes<T3>();
143 template<class T1, class T2, class T3, class T4>
144 std::string CreateListOfTypes(bool last=true) {
145 if (last) return CreateListOfTypes<T1,T2,T3>(false)+" and "+CreateListOfTypes<T4>();
146 else return CreateListOfTypes<T1,T2,T3>(false)+", "+CreateListOfTypes<T4>();
149 template<class T1, class T2, class T3, class T4, class T5>
150 std::string CreateListOfTypes(bool last=true) {
151 if (last) return CreateListOfTypes<T1,T2,T3,T4>(false)+" and "+CreateListOfTypes<T5>();
152 else return CreateListOfTypes<T1,T2,T3,T4>(false)+", "+CreateListOfTypes<T5>();
155 template<class T1, class T2, class T3, class T4, class T5, class T6>
156 std::string CreateListOfTypes(bool last=true) {
157 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5>(false)+" and "+CreateListOfTypes<T6>();
158 else return CreateListOfTypes<T1,T2,T3,T4,T5>(false)+", "+CreateListOfTypes<T6>();
161 template<class T1, class T2, class T3, class T4, class T5, class T6, class T7>
162 std::string CreateListOfTypes(bool last=true) {
163 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5,T6>(false)+" and "+CreateListOfTypes<T7>();
164 else return CreateListOfTypes<T1,T2,T3,T4,T5,T6>(false)+", "+CreateListOfTypes<T7>();
167 template<class T1, class T2, class T3, class T4, class T5, class T6, class T7, class T8>
168 std::string CreateListOfTypes(bool last=true) {
169 if (last) return CreateListOfTypes<T1,T2,T3,T4,T5,T6,T7>(false)+" and "+CreateListOfTypes<T8>();
170 else return CreateListOfTypes<T1,T2,T3,T4,T5,T6,T7>(false)+", "+CreateListOfTypes<T8>();
172 //--------------------------------------------------------------------
174 //--------------------------------------------------------------------
175 void FindAndReplace(std::string & line, const std::string & tofind, const std::string & replacement);
176 void FindAndReplace(std::string & line, const std::vector<std::string> & tofind, const std::vector<std::string> & toreplace);
177 void FindAndReplace(std::ifstream & in, const std::vector<std::string> & tofind, const std::vector<std::string> & toreplace, std::ofstream & out);
178 //--------------------------------------------------------------------
180 //--------------------------------------------------------------------
181 double ComputeEuclideanDistanceFromPointToPlane(const itk::ContinuousIndex<double, 3> point,
182 const itk::ContinuousIndex<double, 3> pointInPlane,
183 const itk::ContinuousIndex<double, 3> normalPlane);
185 //--------------------------------------------------------------------
186 // Open a File for reading/writing
187 void openFileForReading(std::ifstream & is, const std::string & filename);
188 void openFileForWriting(std::ofstream & os, const std::string & filename);
190 //--------------------------------------------------------------------
191 void readDoubleFromFile(const std::string & filename, std::vector<double> & list);
193 //--------------------------------------------------------------------
194 double cotan(double i);
195 double invcotan(double i);
197 //--------------------------------------------------------------------
198 void disableStdCerr();
199 void enableStdCerr();
201 //--------------------------------------------------------------------
202 template<class ImageType>
203 void CloneImage(const typename ImageType::Pointer & input, typename ImageType::Pointer & output);
205 #include "clitkCommon.txx"
209 #endif /* end #define CLITKCOMMON_H */