void hdfutil::WriteString(const H5::CommonFG& group, const std::string & dsname, const std::string & str) {
hsize_t dims[] = {1};
H5::DataSpace dataspace(1, dims); // 1 string
H5::StrType strtype (0, str.size()); // string length
H5::DataSet dset = group.createDataSet(dsname, strtype, dataspace, CreatePropList());
dset.write(&str[0], strtype);
}
bool ossimHdfGridModel::setGridNodes( H5::H5File* h5File,
const std::string& latDataSetName,
const std::string& lonDataSetName,
ossim_uint32 imageRows,
ossim_uint32 imageCols )
{
bool status = false;
if ( h5File )
{
H5::DataSet latDataSet = h5File->openDataSet( latDataSetName );
H5::DataSet lonDataSet = h5File->openDataSet( lonDataSetName );
try
{
status = setGridNodes( &latDataSet, &lonDataSet, imageRows, imageCols );
}
catch ( const ossimException& e )
{
if ( traceDebug() )
{
ossimNotify(ossimNotifyLevel_WARN)
<< "ossimHdfGridModel::setGridNodes caught exception\n"
<< e.what() << std::endl;
}
}
latDataSet.close();
lonDataSet.close();
}
return status;
}
void addrow( H5::DataSet& ds, const std::vector<double>& rowtowrite )
{
//Get the space (since it may have grown in length since last time of course )
H5::DataSpace origspace = ds.getSpace();
//get the rank, even though I know it is 2
int rank = origspace.getSimpleExtentNdims();
//Get the actual dimensions of the ranks.
hsize_t dims[rank];
int ndims = origspace.getSimpleExtentDims( dims, NULL);
//Want to ADD a row, so need to offset at row = nrows, and col = 0;
hsize_t offset[rank] = { dims[0], 0 };
hsize_t dims_toadd[rank] = { 1, rowtowrite.size() }; //will write 1 row, ncols columns.
//Compute "new" size (extended by 1 row).
hsize_t size[rank] = { dims[0]+dims_toadd[0], rowtowrite.size() };
//Do the extension.
ds.extend( size );
//Get the new (extended) space, and select the hyperslab to write the row to.
origspace = ds.getSpace();
origspace.selectHyperslab( H5S_SELECT_SET, dims_toadd, offset );
//Make the "memory" data space?
H5::DataSpace toaddspace(rank, dims_toadd);
ds.write( rowtowrite.data(), H5::PredType::NATIVE_DOUBLE, toaddspace, origspace );
//Can close toaddspace/origspace with no effect.
//Can also close/open data set at the beginning of each time with no effect.
}
arma::Mat<uint16_t> readLUT(const std::string& path)
{
H5::H5File file (path.c_str(), H5F_ACC_RDONLY);
H5::DataSet ds = file.openDataSet("LUT");
H5::DataSpace filespace = ds.getSpace();
int ndims = filespace.getSimpleExtentNdims();
assert(ndims == 2);
hsize_t dims[2] = {1, 1};
filespace.getSimpleExtentDims(dims);
H5::DataSpace memspace (ndims, dims);
arma::Mat<uint16_t> res (dims[0], dims[1]);
ds.read(res.memptr(), H5::PredType::NATIVE_UINT16, memspace, filespace);
filespace.close();
memspace.close();
ds.close();
file.close();
// NOTE: Armadillo stores data in column-major order, while HDF5 uses
// row-major ordering. Above, we read the data directly from HDF5 into
// the arma matrix, so it was implicitly transposed. The next function
// fixes this problem.
arma::inplace_trans(res);
return res;
}
void compare_datasets(H5::DataSet const& ds1, H5::DataSet const& ds2)
{
std::vector<hsize_t> dims(ds1.getSpace().getSimpleExtentNdims());
ds1.getSpace().getSimpleExtentDims(&*dims.begin());
// compare 2 or 3-dimensional list of vectors, e.g., box edges
BOOST_REQUIRE( dims.size() == 2 );
BOOST_REQUIRE( dims[1] == 2 || dims[1] == 3 );
if (dims[1] == 3) {
std::vector<halmd::fixed_vector<double, 3> > array1, array2;
h5xx::read_dataset(ds1, array1);
h5xx::read_dataset(ds2, array2);
BOOST_CHECK_EQUAL_COLLECTIONS(
array1.begin(), array1.end()
, array2.begin(), array2.end()
);
}
else if (dims[1] == 2) {
std::vector<halmd::fixed_vector<double, 2> > array1, array2;
h5xx::read_dataset(ds1, array1);
h5xx::read_dataset(ds2, array2);
BOOST_CHECK_EQUAL_COLLECTIONS(
array1.begin(), array1.end()
, array2.begin(), array2.end()
);
}
}
H5::DataSet CompartmentReportHDF5::_openDataset( const H5::H5File& file,
const uint32_t cellID )
{
std::stringstream cellName;
cellName << "a" << cellID;
const std::string datasetName = "/" + cellName.str() + "/" + _reportName +
"/" + dataDatasetName;
H5::DataSet dataset;
H5E_BEGIN_TRY
dataset = file.openDataSet( datasetName );
H5E_END_TRY
if( !dataset.getId() )
{
LBTHROW(
std::runtime_error( "ReportReaderHDF5: "
"Dataset " + datasetName + " not found "
"in file: " + file.getFileName( )));
}
if( dataset.getSpace().getSimpleExtentNdims() != 2 )
{
LBTHROW(
std::runtime_error("Compartment_Report_HDF5_File_Reader: "
"Error, not 2 dimensional array on " +
datasetName));
}
return dataset;
}
bool CompartmentReportHDF5::writeCompartments( const uint32_t gid,
const uint16_ts& counts )
{
lunchbox::ScopedWrite mutex( detail::_hdf5Lock );
try
{
const size_t compCount = std::accumulate( counts.begin(),
counts.end(), 0 );
LBASSERT( !counts.empty( ));
LBASSERTINFO( compCount > 0, gid );
H5::DataSet dataset = _createDataset( gid, compCount );
const size_t sections = counts.size();
LBASSERT( sections > 0 );
dataset.openAttribute( 1 ).write( H5::PredType::NATIVE_INT, §ions );
// dataset.openAttribute( 2 ).write( H5::PredType::NATIVE_INT, &somas );
// dataset.openAttribute( 3 ).write( H5::PredType::NATIVE_INT, &axons );
// dataset.openAttribute( 4 ).write( H5::PredType::NATIVE_INT, &basals );
// dataset.openAttribute( 5 ).write( H5::PredType::NATIVE_INT, &apics );
boost::scoped_array< float > mapping( new float[compCount] );
size_t i = 0;
for( size_t j = 0; j < counts.size(); ++j )
for( size_t k = 0; k < counts[j]; ++k )
mapping[i++] = j;
dataset.write( mapping.get(), H5::PredType::NATIVE_FLOAT );
return true;
}
CATCH_HDF5ERRORS
return false;
}
void HDF5IO::saveMatrix(const std::string& GroupName, const std::string& Name,
const ComplexMatrixType& M)
{
try{
H5::CompType ComplexDataType = this->openCompType("complex");
hsize_t Dims[2] = {hsize_t(M.rows()),hsize_t(M.cols())};
H5::DataSpace dataspace(2,Dims);
H5::Group FG = getGroup( GroupName );
try{
H5::Exception::dontPrint();
H5::DataSet dset = FG.openDataSet(Name.c_str());
// dset.extend( Dims );not working
dset.write(M.data(), ComplexDataType);
} catch ( const H5::GroupIException not_found_error ){
H5::DataSet dset = FG.createDataSet(Name.c_str(), ComplexDataType, dataspace);
dset.write(M.data(), ComplexDataType);
} catch ( const H5::DataSetIException error ){
error.printError();
RUNTIME_ERROR("HDF5IO::saveComplexMatrix at ");
}
FG.close();
} catch( const H5::Exception error ){
error.printError();
RUNTIME_ERROR("HDF5IO::saveComplexMatrix at ");
}
}
void writeArray(H5::Group &group, const std::string &name,
const std::string &value) {
StrType dataType(0, value.length() + 1);
DataSpace dataSpace = getDataSpace(1);
H5::DataSet data = group.createDataSet(name, dataType, dataSpace);
data.write(value, dataType);
}
void HDF5IO::saveStdVector(const std::string& GroupName, const std::string& Name,
const std::vector<std::complex<double> >& V)
{
try{
H5::CompType ComplexDataType = openCompType("complex");
hsize_t Dim[1] = {hsize_t(V.size())};
H5::DataSpace dataspace(1,Dim);
H5::Group FG = getGroup( GroupName.c_str() );
try{
H5::Exception::dontPrint();
H5::DataSet dataset = FG.openDataSet(Name.c_str());
dataset.write(V.data(), ComplexDataType, dataspace);
} catch( const H5::GroupIException not_found_error ){
H5::DataSet dataset = FG.createDataSet(Name.c_str(), ComplexDataType,
dataspace);
dataset.write(V.data(), ComplexDataType);
} catch( const H5::FileIException error){
error.printError();
} catch( const H5::DataSetIException error){
error.printError();
}
FG.close();
} catch( const H5::Exception err ){
err.printError();
RUNTIME_ERROR("HDF5IO::saveComplexStdVector. ");
}
}
void pyne::Material::_load_comp_protocol0(H5::H5File * db, std::string datapath, int row)
{
H5::Group matgroup = (*db).openGroup(datapath);
H5::DataSet nucset;
double nucvalue;
hsize_t matG = matgroup.getNumObjs();
// Iterate over datasets in the group.
for (int matg = 0; matg < matG; matg++)
{
std::string nuckey = matgroup.getObjnameByIdx(matg);
nucset = matgroup.openDataSet(nuckey);
nucvalue = h5wrap::get_array_index<double>(&nucset, row);
if (nuckey == "Mass" || nuckey == "MASS" || nuckey == "mass")
mass = nucvalue;
else
comp[pyne::nucname::zzaaam(nuckey)] = nucvalue;
nucset.close();
};
// Set meta data
name = datapath.substr(datapath.rfind("/")+1, datapath.length());
atoms_per_mol = -1.0;
};
/**
* @param attribute_id
* @return String representing the name of the attribute specified by attribute_id
*/
std::string HDF5FileReader::getVariableAttributeName(long attribute_id)
{
H5::DataSet dataset = this->variableGroup->openDataSet(this->variableGroup->getObjnameByIdx(0));
H5::Attribute attribute = dataset.openAttribute(attribute_id);
std::string buffer = attribute.getName();
cout << "Attribute Name: '" << buffer << "'" << endl;
return buffer;
}
/**
* Gets the number of variable attributes.
* @return The number of variable attributes in the opened file.
*/
int HDF5FileReader::getNumberOfVariableAttributes()
{
int numVAttributes;
//get the first variable and see how many attributes. They should all be the same.
H5::DataSet dataset = this->variableGroup->openDataSet(this->variableGroup->getObjnameByIdx(0));
numVAttributes = dataset.getNumAttrs();
return numVAttributes;
}
/**
* @param variable
* @return
*/
long HDF5FileReader::getNumberOfRecords(const std::string& variable)
{
//std::cout << "reading " << variable << std::endl;
//get variable number
H5::DataSet dataset = this->variableGroup->openDataSet(variable);
H5::DataSpace dataspace = dataset.getSpace();
hsize_t count[1];
// int ndims = dataspace.getSimpleExtentDims(count, NULL);
return (long)count[0];
}
/**
* @brief Returns a pointer to a std::vector<float> containing the values of the selected variable
*
* This allocates a new std::vector<float> pointer. Make sure you
* delete the contents when you done using it, or you will have a memory leak.
*
* @param variable
* @return std::vector<float> containing the values of the selected variable.
*/
std::vector<float>* HDF5FileReader::getVariable(const std::string& variable)
{
std::vector<float>* variableData = new std::vector<float>();
if (this->doesVariableExist(variable))
{
//std::cout << "reading " << variable << std::endl;
//get variable number
// long variableNum = this->getVariableID(variable);
//std::cout << "variableNum for " << variable << ": " << variableNum << std::endl;
//get dim sizes
H5::Group group = this->current_file->openGroup("Variables");
//cout << "variable: " << variable << ": " << counts[0] << endl;
H5::DataSet * dataset = new H5::DataSet(group.openDataSet(variable));
H5::DataSpace dataspace = dataset->getSpace();
int rank = dataspace.getSimpleExtentNdims(); //should be 1
hsize_t count[1];
hsize_t offset[1] = {0};
// int ndims = dataspace.getSimpleExtentDims(count, NULL);
//std::cout << "count[0]: " << count[0] << std::endl;
float * buffer = new float[count[0]];
dataspace.selectHyperslab(H5S_SELECT_SET, count, offset);
H5::DataSpace memspace( rank, count);
memspace.selectHyperslab(H5S_SELECT_SET, count, offset);
dataset->read(buffer, H5::PredType::NATIVE_FLOAT, memspace, dataspace);
//std::cout << "after read" << std::endl;
//add data to vector type, and delete original array
variableData->reserve(count[0]);
for (int i = 0; i < count[0]; i++)
{
variableData->push_back(buffer[i]);
}
//std::cout << "after adding to variableData vector" << std::endl;
delete[] buffer;
delete dataset;
//std::cout << "finished reading " << variable << std::endl;
//std::cout << "size of variable: " << variableData.size() << std::endl;
//std::cout << "dimSizes[0]: " << dimSizes[0] << std::endl;
}
return variableData;
}
int HDF5IO::loadInt(const std::string& GroupName, const std::string& Name)
{
try{
H5::Group FG = getGroup( GroupName );
H5::DataSet DataSet = FG.openDataSet( Name.c_str());
int x;
DataSet.read(&x,H5::PredType::NATIVE_INT);
FG.close();
return x;
}catch( H5::GroupIException not_found_error ){
RUNTIME_ERROR("No dataset found in loadInt. ");
}
}
const std::vector<hsize_t> TableDims(){
if(flags_ != hdf5::READ)
throw std::runtime_error("TableDims() is only valid in READ mode");
H5::DataSet dSet = file_->openDataSet("T00000000");
H5::DataSpace dSpace = dSet.getSpace();
std::vector<hsize_t> dims(dSpace.getSimpleExtentNdims());
dSpace.getSimpleExtentDims(&dims[0]);
return dims;
}
void HDF5IO::saveNumber(const std::string& GroupName, const std::string& Name,
unsigned long x)
{
H5::Group FG = getGroup( GroupName );
try{
H5::Exception::dontPrint();
H5::DataSet dataset = FG.openDataSet( Name.c_str() );
dataset.write(&x, H5::PredType::NATIVE_ULONG);
} catch ( const H5::GroupIException not_found_error ){
H5::DataSet dataset = FG.createDataSet( Name.c_str(), H5::PredType::NATIVE_ULONG, H5::DataSpace());
dataset.write(&x, H5::PredType::NATIVE_ULONG);
}
FG.close();
}
/**
* @return
*/
std::vector<std::string> HDF5FileReader::getVariableAttributeNames()
{
std::vector<std::string> attributeNames;
int numAttributes = this->getNumberOfVariableAttributes();
H5::DataSet dataset = this->variableGroup->openDataSet(this->variableGroup->getObjnameByIdx(0));
for (int i = 0; i < numAttributes; i++)
{
std::string value = "";
H5::Attribute attribute = dataset.openAttribute(i);
attributeNames.push_back(attribute.getName());
}
return attributeNames;
}
ossimRefPtr<ossimImageGeometry> ossimH5Reader::getInternalImageGeometry()
{
ossimRefPtr<ossimImageGeometry> geom = new ossimImageGeometry();
if ( m_projection.valid() )
{
// Stored projection, currently shared by all entries.
geom->setProjection( m_projection.get() );
}
else if ( isOpen() )
{
// Find the "Latitude" and "Longitude" datasets if present.
std::string latName;
std::string lonName;
if ( getLatLonDatasetNames( m_h5File, latName, lonName ) )
{
H5::DataSet latDataSet = m_h5File->openDataSet( latName );
H5::DataSet lonDataSet = m_h5File->openDataSet( lonName );
// Get the valid rectangle of the dataset.
ossimIrect validRect = m_entries[m_currentEntry].getValidImageRect();
// Try for a coarse projection first:
ossimRefPtr<ossimProjection> proj =
processCoarseGridProjection( latDataSet,
lonDataSet,
validRect );
if ( proj.valid() == false )
{
ossimIrect rect;
proj = ossim_hdf5::getBilinearProjection( latDataSet, lonDataSet, validRect );
}
if ( proj.valid() )
{
// Store it for next time:
m_projection = proj;
// Set the geometry projection
geom->setProjection( proj.get() );
}
latDataSet.close();
lonDataSet.close();
}
}
return geom;
}
size_t HDF5IO::loadUlong(const std::string& GroupName, const std::string& Name)
{
try{
H5::Group FG = getGroup( GroupName );
H5::DataSet DataSet = FG.openDataSet( Name.c_str() );
size_t x;
DataSet.read(&x, H5::PredType::NATIVE_ULONG);
return x;
FG.close();
}catch( H5::GroupIException not_found_error ){
INFO("In Group - " << GroupName << ", and Name is " << Name);
RUNTIME_ERROR("No dataset found in loadUlong. ");
}
}
bool ossim_hdf5::getDatasetAttributeValue( H5::H5File* file,
const std::string& objectName,
const std::string& key,
std::string& value )
{
static const char MODULE[] = "ossim_hdf5::getDatasetAttributeValue";
bool result = false;
if ( file )
{
try // HDF5 library throws exceptions so wrap with try{}catch...
{
// Open the dataset:
H5::DataSet dataset = file->openDataSet( objectName );
// Lookw for key:
H5::Attribute attr = dataset.openAttribute( key );
std::string name = attr.getName();
H5::DataType type = attr.getDataType();
H5T_class_t typeClass = attr.getTypeClass();
if ( ( name == key ) && ( typeClass == H5T_STRING ) )
{
attr.read( type, value );
result = true;
}
// Cleanup:
attr.close();
dataset.close();
}
catch( const H5::Exception& e )
{
ossimNotify(ossimNotifyLevel_WARN)
<< MODULE << " WARNING: Caught exception!\n"
<< e.getDetailMsg() << std::endl;
}
catch( ... )
{
ossimNotify(ossimNotifyLevel_WARN)
<< MODULE << " WARNING: Caught unknown exception!" << std::endl;
}
}
return result;
} // End: ossim_hdf5::getDatasetAttributeValue
ComplexType HDF5IO::loadComplex(const std::string& GroupName, const std::string& Name)
{
try{
H5::CompType ComplexDataType = this->openCompType("complex");
H5::Group FG = getGroup( GroupName );
H5::DataSet DataSet = FG.openDataSet(Name.c_str());
ComplexType C;
RealType RealImag[2];
DataSet.read(RealImag, ComplexDataType);
FG.close();
return ComplexType(RealImag[0],RealImag[1]);
}catch( H5::GroupIException not_found_error ){
RUNTIME_ERROR("No dataset found in loadComplex. ");
}
}
NDArray<T, Nd> NDArray<T,Nd>::ReadFromH5(const H5::DataSet& h5Dset) {
H5::DataSpace dspace = h5Dset.getSpace();
int ndim = dspace.getSimpleExtentNdims();
if (ndim>Nd)
throw std::range_error("Too many dimensions in H5 dataset for NDArray");
hsize_t dimSize[ndim];
dspace.getSimpleExtentDims(dimSize);
std::array<std::size_t, Nd> dimSizeArr;
for (int i=0; i<Nd; ++i) dimSizeArr[i] = dimSize[i];
NDArray<T, Nd> arr(dimSizeArr);
// Read in data here
H5::DataType h5DType = GetH5DataType<T>();
h5Dset.read(arr.mData, h5DType);
return arr;
}
void ossimH5Reader::addImageDatasetEntries(const std::vector<std::string>& names)
{
if ( m_h5File && names.size() )
{
std::vector<std::string>::const_iterator i = names.begin();
while ( i != names.end() )
{
if ( ossim_hdf5::isExcludedDataset( *i ) == false )
{
H5::DataSet dataset = m_h5File->openDataSet( *i );
// Get the class of the datatype that is used by the dataset.
H5T_class_t type_class = dataset.getTypeClass();
if ( ( type_class == H5T_INTEGER ) || ( type_class == H5T_FLOAT ) )
{
// Get the extents:
std::vector<ossim_uint32> extents;
ossim_hdf5::getExtents( &dataset, extents );
if ( extents.size() >= 2 )
{
if ( ( extents[0] > 1 ) && ( extents[1] > 1 ) )
{
ossimH5ImageDataset hids;
hids.initialize( dataset, *i );
m_entries.push_back( hids );
}
}
}
dataset.close();
}
++i;
}
}
#if 0 /* Please leave for debug. (drb) */
std::vector<ossimH5ImageDataset>::const_iterator i = m_entries.begin();
while ( i != m_entries.end() )
{
std::cout << (*i) << endl;
++i;
}
#endif
} // End: ossimH5Reader::addImageDatasetEntries
void HDF5IO::loadStdVector(const std::string& GroupName, const std::string& Name,
std::vector<RealType>& V)
{
try{
H5::Group FG = getGroup( GroupName );
H5::DataSet DataSet = FG.openDataSet(Name.c_str());
H5::DataSpace DataSpace = DataSet.getSpace();
if(DataSpace.getSimpleExtentNdims() != 1)
throw(H5::DataSpaceIException("HDF5IO::loadRealVector()","Unexpected multidimentional dataspace."));
V.resize(DataSpace.getSimpleExtentNpoints());
DataSet.read(V.data(),H5::PredType::NATIVE_DOUBLE);
FG.close();
} catch( const H5::Exception err ){
RUNTIME_ERROR("HDF5IO::loadRealStdVector");
}
}
void ReadTable(const int& tableNum, void* buf,
const H5::DataType& dType){
std::string tNum = Num2Table(tableNum);
dSet_ = file_->openDataSet(tNum);
dSet_.read( buf, dType);
}
inline void
read_values(H5::DataSet& dataset, H5::DataSpace& data_space,
dimension const& dimx, dimension const& dimy, dimension const& dimz,
double* values)
{
using namespace H5;
// Define the hyperslab for file based data.
hsize_t data_offset[dimension::dim] = {
dimx.offset_, dimy.offset_, dimz.offset_
};
hsize_t data_count[dimension::dim] = {
dimx.count_, dimy.count_, dimz.count_
};
data_space.selectHyperslab(H5S_SELECT_SET, data_count, data_offset);
// Memory dataspace.
DataSpace mem_space (dimension::dim, data_count);
// Define the hyperslab for data in memory.
hsize_t mem_offset[dimension::dim] = { 0, 0, 0 };
mem_space.selectHyperslab(H5S_SELECT_SET, data_count, mem_offset);
// Read data to memory.
dataset.read(values, PredType::NATIVE_DOUBLE, mem_space, data_space);
}
void TImgWriteBuffer::write(const std::string& fname, const std::string& group, const std::string& img) {
H5::H5File* h5file = H5Utils::openFile(fname);
H5::Group* h5group = H5Utils::openGroup(h5file, group);
// Dataset properties: optimized for reading/writing entire buffer at once
int rank = 3;
hsize_t dim[3] = {length_, rect_.N_bins[0], rect_.N_bins[1]};
hsize_t chunk_dim[3] = {length_, rect_.N_bins[0], rect_.N_bins[1]};
if(length_ > 1000) {
float div = ceil((float)length_ / 1000.);
chunk_dim[0] = (int)ceil(length_ / div);
std::cerr << "! Changing chunk length to " << chunk_dim[0] << " stars." << std::endl;
}
H5::DataSpace dspace(rank, &(dim[0]));
H5::DSetCreatPropList plist;
plist.setDeflate(9); // gzip compression level
plist.setChunk(rank, &(chunk_dim[0]));
float fillvalue = 0;
plist.setFillValue(H5::PredType::NATIVE_FLOAT, &fillvalue);
H5::DataSet* dataset = new H5::DataSet(h5group->createDataSet(img, H5::PredType::NATIVE_FLOAT, dspace, plist));
dataset->write(buf, H5::PredType::NATIVE_FLOAT);
/*
* Attributes
*/
hsize_t att_dim = 2;
H5::DataSpace att_dspace(1, &att_dim);
H5::PredType att_dtype = H5::PredType::NATIVE_UINT32;
H5::Attribute att_N = dataset->createAttribute("nPix", att_dtype, att_dspace);
att_N.write(att_dtype, &(rect_.N_bins));
att_dtype = H5::PredType::NATIVE_DOUBLE;
H5::Attribute att_min = dataset->createAttribute("min", att_dtype, att_dspace);
att_min.write(att_dtype, &(rect_.min));
att_dtype = H5::PredType::NATIVE_DOUBLE;
H5::Attribute att_max = dataset->createAttribute("max", att_dtype, att_dspace);
att_max.write(att_dtype, &(rect_.max));
delete dataset;
delete h5group;
delete h5file;
}
void CompartmentReportHDF5::_createMappingAttributes( H5::DataSet& dataset )
{
// const std::string type =
// boost::lexical_cast< std::string >( _spec.type( ));
const std::string type = "1"; // COMPARTMENT_REPORT
detail::addStringAttribute( dataset, mappingAttributes[0], type );
dataset.createAttribute( mappingAttributes[1], H5::PredType::NATIVE_INT,
H5S_SCALAR );
dataset.createAttribute( mappingAttributes[2], H5::PredType::NATIVE_INT,
H5S_SCALAR );
dataset.createAttribute( mappingAttributes[3], H5::PredType::NATIVE_INT,
H5S_SCALAR );
dataset.createAttribute( mappingAttributes[4], H5::PredType::NATIVE_INT,
H5S_SCALAR );
dataset.createAttribute( mappingAttributes[5], H5::PredType::NATIVE_INT,
H5S_SCALAR );
}