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#include "ismrmrd/dataset.h"
// for memcpy and free in older compilers
#include <string.h>
#include <stdlib.h>
#include <stdexcept>
namespace ISMRMRD {
//
// Dataset class implementation
//
// Constructor
Dataset::Dataset(const char* filename, const char* groupname, bool create_file_if_needed)
{
// TODO error checking and exception throwing
// Initialize the dataset
int status;
status = ismrmrd_init_dataset(&dset_, filename, groupname);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
// Open the file
status = ismrmrd_open_dataset(&dset_, create_file_if_needed);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
// Destructor
Dataset::~Dataset()
{
ismrmrd_close_dataset(&dset_);
}
// XML Header
void Dataset::writeHeader(const std::string &xmlstring)
{
int status = ismrmrd_write_header(&dset_, xmlstring.c_str());
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
void Dataset::readHeader(std::string& xmlstring){
char * temp = ismrmrd_read_header(&dset_);
if (NULL == temp) {
throw std::runtime_error(build_exception_string());
} else {
xmlstring = std::string(temp);
free(temp);
}
}
// Acquisitions
void Dataset::appendAcquisition(const Acquisition &acq)
{
int status = ismrmrd_append_acquisition(&dset_, &acq.acq);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
void Dataset::readAcquisition(uint32_t index, Acquisition & acq) {
int status = ismrmrd_read_acquisition(&dset_, index, &acq.acq);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
uint32_t Dataset::getNumberOfAcquisitions()
{
uint32_t num = ismrmrd_get_number_of_acquisitions(&dset_);
return num;
}
// Images
template <typename T>void Dataset::appendImage(const std::string &var, const Image<T> &im)
{
int status = ismrmrd_append_image(&dset_, var.c_str(), &im.im);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
void Dataset::appendImage(const std::string &var, const ISMRMRD_Image *im)
{
int status = ismrmrd_append_image(&dset_, var.c_str(), im);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
void Dataset::appendWaveform(const Waveform &wav) {
int status = ismrmrd_append_waveform(&dset_,&wav);
if (status != ISMRMRD_NOERROR){
throw std::runtime_error(build_exception_string());
}
}
void Dataset::readWaveform(uint32_t index, Waveform &wav) {
int status = ismrmrd_read_waveform(&dset_,index,&wav);
if (status != ISMRMRD_NOERROR){
throw std::runtime_error(build_exception_string());
}
}
uint32_t Dataset::getNumberOfWaveforms() {
return ismrmrd_get_number_of_waveforms(&dset_);
}
// Specific instantiations
template EXPORTISMRMRD void Dataset::appendImage(const std::string &var, const Image<uint16_t> &im);
template EXPORTISMRMRD void Dataset::appendImage(const std::string &var, const Image<int16_t> &im);
template EXPORTISMRMRD void Dataset::appendImage(const std::string &var, const Image<uint32_t> &im);
template EXPORTISMRMRD void Dataset::appendImage(const std::string &var, const Image<int32_t> &im);
template EXPORTISMRMRD void Dataset::appendImage(const std::string &var, const Image<float> &im);
template EXPORTISMRMRD void Dataset::appendImage(const std::string &var, const Image<double> &im);
template EXPORTISMRMRD void Dataset::appendImage(const std::string &var, const Image<complex_float_t> &im);
template EXPORTISMRMRD void Dataset::appendImage(const std::string &var, const Image<complex_double_t> &im);
template <typename T> void Dataset::readImage(const std::string &var, uint32_t index, Image<T> &im) {
int status = ismrmrd_read_image(&dset_, var.c_str(), index, &im.im);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
// Specific instantiations
template EXPORTISMRMRD void Dataset::readImage(const std::string &var, uint32_t index, Image<uint16_t> &im);
template EXPORTISMRMRD void Dataset::readImage(const std::string &var, uint32_t index, Image<int16_t> &im);
template EXPORTISMRMRD void Dataset::readImage(const std::string &var, uint32_t index, Image<uint32_t> &im);
template EXPORTISMRMRD void Dataset::readImage(const std::string &var, uint32_t index, Image<int32_t> &im);
template EXPORTISMRMRD void Dataset::readImage(const std::string &var, uint32_t index, Image<float> &im);
template EXPORTISMRMRD void Dataset::readImage(const std::string &var, uint32_t index, Image<double> &im);
template EXPORTISMRMRD void Dataset::readImage(const std::string &var, uint32_t index, Image<complex_float_t> &im);
template EXPORTISMRMRD void Dataset::readImage(const std::string &var, uint32_t index, Image<complex_double_t> &im);
uint32_t Dataset::getNumberOfImages(const std::string &var)
{
uint32_t num = ismrmrd_get_number_of_images(&dset_, var.c_str());
return num;
}
// NDArrays
template <typename T> void Dataset::appendNDArray(const std::string &var, const NDArray<T> &arr)
{
int status = ismrmrd_append_array(&dset_, var.c_str(), &arr.arr);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
// Specific instantiations
template EXPORTISMRMRD void Dataset::appendNDArray(const std::string &var, const NDArray<uint16_t> &arr);
template EXPORTISMRMRD void Dataset::appendNDArray(const std::string &var, const NDArray<int16_t> &arr);
template EXPORTISMRMRD void Dataset::appendNDArray(const std::string &var, const NDArray<uint32_t> &arr);
template EXPORTISMRMRD void Dataset::appendNDArray(const std::string &var, const NDArray<int32_t> &arr);
template EXPORTISMRMRD void Dataset::appendNDArray(const std::string &var, const NDArray<float> &arr);
template EXPORTISMRMRD void Dataset::appendNDArray(const std::string &var, const NDArray<double> &arr);
template EXPORTISMRMRD void Dataset::appendNDArray(const std::string &var, const NDArray<complex_float_t> &arr);
template EXPORTISMRMRD void Dataset::appendNDArray(const std::string &var, const NDArray<complex_double_t> &arr);
void Dataset::appendNDArray(const std::string &var, const ISMRMRD_NDArray *arr)
{
int status = ismrmrd_append_array(&dset_, var.c_str(), arr);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
template <typename T> void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<T> &arr) {
int status = ismrmrd_read_array(&dset_, var.c_str(), index, &arr.arr);
if (status != ISMRMRD_NOERROR) {
throw std::runtime_error(build_exception_string());
}
}
// Specific instantiations
template EXPORTISMRMRD void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<uint16_t> &arr);
template EXPORTISMRMRD void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<int16_t> &arr);
template EXPORTISMRMRD void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<uint32_t> &arr);
template EXPORTISMRMRD void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<int32_t> &arr);
template EXPORTISMRMRD void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<float> &arr);
template EXPORTISMRMRD void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<double> &arr);
template EXPORTISMRMRD void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<complex_float_t> &arr);
template EXPORTISMRMRD void Dataset::readNDArray(const std::string &var, uint32_t index, NDArray<complex_double_t> &arr);
uint32_t Dataset::getNumberOfNDArrays(const std::string &var)
{
uint32_t num = ismrmrd_get_number_of_arrays(&dset_, var.c_str());
return num;
}
} // namespace ISMRMRD
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