f1402849
 dmayerich
renewed commit
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#include "itkImage.h"
#include "itkImageFileReader.h"
#include "itkRAWImageIO.h"
#include "itkImageRegionIteratorWithIndex.h"
typedef itk::Image<unsigned char, 3> VOLType;
VOLType::Pointer rts_itkNewVOL(int x, int y, int z)
{
//Create a new image and allocate the desired amount of space
//typedef itk::Image<T, 3> ImageType;
VOLType::Pointer result = VOLType::New();
VOLType::RegionType region;
VOLType::SizeType size = {x, y, z};
region.SetSize(size);
VOLType::IndexType index = {0, 0, 0};
region.SetIndex(index);
result->SetRegions(region);
result->Allocate();
return result;
}
VOLType::Pointer rts_itkLoadVOL(const char* filename, unsigned int max_slices = 512)
{
//first load the header information
ifstream infile(filename, ios::in | ios::binary); //create the files stream
if(!infile)
return VOLType::New();
unsigned int size_x, size_y, size_z; //create variables to store the size of the data set
//load the dimensions of the data set
infile.read((char*)&size_x, sizeof(int)); //load the file header
infile.read((char*)&size_y, sizeof(int));
infile.read((char*)&size_z, sizeof(int));
//close the file
infile.close();
VOLType::Pointer volume;
//create the reader
typedef itk::ImageFileReader<VOLType> ReaderType;
typedef itk::RawImageIO<unsigned char, 3> RawType;
ReaderType::Pointer reader = ReaderType::New();
RawType::Pointer rawIO = RawType::New();
reader->SetImageIO(rawIO);
reader->SetFileName(filename);
//set the raw IO parameters
rawIO->SetFileTypeToBinary();
//set the format of the RAW file
rawIO->SetHeaderSize(12);
rawIO->SetDimensions(0, size_x);
rawIO->SetDimensions(1, size_y);
if(size_z < max_slices)
rawIO->SetDimensions(2, size_z);
else
rawIO->SetDimensions(2, max_slices);
//read the file
try
{
reader->Update();
}
catch(itk::ExceptionObject & exp)
{
std::cout<<exp<<std::endl;
}
volume = reader->GetOutput();
return volume;
}
VOLType::Pointer rts_itkLoadRAW(const char* filename, unsigned int size_x, unsigned int size_y, unsigned int size_z)
{
//first load the header information
ifstream infile(filename, ios::in | ios::binary); //create the files stream
if(!infile)
return VOLType::New();
//close the file
infile.close();
VOLType::Pointer volume;
//create the reader
typedef itk::ImageFileReader<VOLType> ReaderType;
typedef itk::RawImageIO<unsigned char, 3> RawType;
ReaderType::Pointer reader = ReaderType::New();
RawType::Pointer rawIO = RawType::New();
reader->SetImageIO(rawIO);
reader->SetFileName(filename);
//set the raw IO parameters
rawIO->SetFileTypeToBinary();
//set the format of the RAW file
rawIO->SetHeaderSize(0);
rawIO->SetDimensions(0, size_x);
rawIO->SetDimensions(1, size_y);
rawIO->SetDimensions(2, size_z);
//read the file
try
{
reader->Update();
}
catch(itk::ExceptionObject & exp)
{
std::cout<<exp<<std::endl;
}
volume = reader->GetOutput();
return volume;
}
void rts_itkSaveVOL(VOLType::Pointer itk_image, const char* filename)
{
typedef itk::ImageRegionIteratorWithIndex<VOLType> IteratorType;
IteratorType i(itk_image, itk_image->GetLargestPossibleRegion());
//create variables for size and position
VOLType::IndexType index;
VOLType::SizeType size;
//get the volume size
size = itk_image->GetLargestPossibleRegion().GetSize();
unsigned char* buffer = new unsigned char[size[0]*size[1]*size[2]];
for(i.GoToBegin(); !i.IsAtEnd(); ++i)
{
index = i.GetIndex();
buffer[index[0] + size[0] * (index[1] + index[2] * size[1])] = i.Get();
}
ofstream outfile(filename, ios::out | ios::binary); //create the binary file stream
//write the volume size to the file
outfile.write((char*)&size[0], sizeof(int));
outfile.write((char*)&size[1], sizeof(int));
outfile.write((char*)&size[2], sizeof(int));
outfile.write((char*)buffer, sizeof(char)*size[0]*size[1]*size[2]);
outfile.close();
}
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