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 CLITKIMAGECOMMON_CXX
20 #define CLITKIMAGECOMMON_CXX
22 #include "clitkImageCommon.h"
23 #include "clitkCommon.h"
25 //--------------------------------------------------------------------
26 void clitk::ReadImageDimensionAndPixelType(const std::string & filename,
28 std::string & pixeType)
30 itk::ImageIOBase::Pointer genericReader =
31 itk::ImageIOFactory::CreateImageIO(filename.c_str(), itk::ImageIOFactory::ReadMode);
33 clitkExceptionMacro("Image file format unknown while reading file <" << filename << ">");
35 genericReader->SetFileName(filename.c_str());
36 genericReader->ReadImageInformation();
37 pixeType = genericReader->GetComponentTypeAsString(genericReader->GetComponentType());
38 dimension = genericReader->GetNumberOfDimensions();
40 //--------------------------------------------------------------------
43 //--------------------------------------------------------------------
44 void clitk::ReadImageDimensionAndPixelType(const std::string & filename,
46 std::string & pixeType, int & components)
48 itk::ImageIOBase::Pointer genericReader =
49 itk::ImageIOFactory::CreateImageIO(filename.c_str(), itk::ImageIOFactory::ReadMode);
51 clitkExceptionMacro("Image file format unknown while reading file <" << filename << ">");
53 genericReader->SetFileName(filename.c_str());
54 genericReader->ReadImageInformation();
55 pixeType = genericReader->GetComponentTypeAsString(genericReader->GetComponentType());
56 dimension = genericReader->GetNumberOfDimensions();
57 components= genericReader->GetNumberOfComponents();
59 //--------------------------------------------------------------------
61 //--------------------------------------------------------------------
62 // Read a dicom header
63 gdcm::File * clitk::readDicomHeader(const std::string & filename,
67 std::cout << "Reading DICOM <" << filename << ">" << std::endl;
69 gdcm::File *header = new gdcm::File();
70 header->SetFileName(filename);
71 header->SetMaxSizeLoadEntry(16384); // required ?
75 ///--------------------------------------------------------------------
77 //--------------------------------------------------------------------
78 itk::ImageIOBase::Pointer clitk::readImageHeader(const std::string & filename, bool exit_on_error)
80 itk::ImageIOBase::Pointer reader =
81 itk::ImageIOFactory::CreateImageIO(filename.c_str(), itk::ImageIOFactory::ReadMode);
83 if (exit_on_error) { //default behavior for tools who don't handle the problem
84 clitkExceptionMacro("Error reading file " << filename << ", exiting immediately");
87 reader->SetFileName(filename);
88 reader->ReadImageInformation();
91 //--------------------------------------------------------------------
93 //--------------------------------------------------------------------
94 void clitk::printImageHeader(itk::ImageIOBase::Pointer header, std::ostream & os, const int level)
96 unsigned int dim = header->GetNumberOfDimensions();
97 std::string pixelTypeName = header->GetComponentTypeAsString(header->GetComponentType());
98 std::vector<int> inputSize;
99 std::vector<double> inputSpacing;
100 std::vector<double> inputOrigin;
101 inputSize.resize(dim);
102 inputSpacing.resize(dim);
103 inputOrigin.resize(dim);
104 for(unsigned int i=0; i<dim; i++) {
105 inputSpacing[i] = header->GetSpacing(i);
106 inputSize[i] = header->GetDimensions(i);
107 inputOrigin[i] = header->GetOrigin(i);
110 clitk::GetTypeSizeFromString(header->GetComponentTypeAsString(header->GetComponentType()));
111 unsigned int nbOfComponents = header->GetNumberOfComponents();
114 if (nbOfComponents !=1) os << nbOfComponents << "x" << pixelTypeName;
115 else os << pixelTypeName;
117 for(unsigned int i=0; i< dim-1; i++)
118 os << inputSize[i] << "x";
119 os << inputSize[dim-1]
121 for(unsigned int i=0; i< dim-1; i++)
122 os << inputSpacing[i] << "x";
123 os << inputSpacing[dim-1]
125 for(unsigned int i=0; i< dim-1; i++)
126 os << inputOrigin[i] << "x";
127 os << inputOrigin[dim-1] << " ";
128 os << header->GetImageSizeInPixels() << " ";
130 os << "Dim = " << dim << "D" << std::endl;
131 os << "PixelType = " << pixelTypeName << std::endl;
132 if (nbOfComponents > 1)
133 os << "Vector = " << nbOfComponents << std::endl;
135 for(unsigned int i=0; i< dim; i++) {
136 os << inputSize[i] << " ";
140 for(unsigned int i=0; i< dim; i++) {
141 os << inputSpacing[i] << " ";
145 os << "# voxels = " << header->GetImageSizeInPixels() << std::endl;
146 os << "Size (mm) = ";
147 for(unsigned int i=0; i< dim; i++) {
148 os << inputSize[i]*inputSpacing[i] << " ";
150 os << "mm" << std::endl;
151 os << "Origin (mm)= ";
152 for(unsigned int i=0; i< dim; i++) {
153 os << inputOrigin[i] << " ";
155 os << "mm" << std::endl;
159 for(unsigned int i=0; i< dim; i++) {
160 vol *= inputSize[i]*inputSpacing[i]/10.0;
162 os << vol << " cc" << std::endl;
163 int mem = header->GetImageSizeInPixels()*pixelSize*nbOfComponents;
164 double memKb = (double)mem/1024.0;
165 double memMb = (double)mem/1024.0/1024.0;
166 double memGb = (double)mem/1024.0/1024.0/1024.0;
167 if (lrint(memKb) <= 0)
168 os << "Memory = " << mem << " bytes" << std::endl;
170 if (lrint(memMb) <= 0)
171 os << "Memory = " << memKb << " Kb (" << mem << " bytes)" << std::endl;
173 if (lrint(memGb) <= 0)
174 os << "Memory = " << memMb << " Mb (" << mem << " bytes)" << std::endl;
176 os << "Memory = " << memGb << " Gb (" << mem << " bytes)" << std::endl;
182 //--------------------------------------------------------------------
184 #endif /* end #define CLITKIMAGECOMMON_CXX */