Some improvements on HDF5 export
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Anne de Jong
parent
a7fa5cb646
commit
a9d6378e7b
@ -366,7 +366,7 @@ void Duct::exportHDF5(const hid_t group_id) const {
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rh.exportHDF5(group_id);
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TXData u;
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u.name = "Velocity";
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u.name = "Axial velocity";
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u.unit = "m/s";
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u.symbol = "u";
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u.x = dmat(sys.Ns(),ngp());
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@ -48,6 +48,11 @@ namespace {
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"symbol",
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data.symbol.c_str());
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H5LTset_attribute_string(hfgroup,
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dsetname.c_str(),
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"datatype",
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data.datatype.c_str());
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}
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}
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@ -60,16 +65,14 @@ void PointData::exportHDF5(hid_t hfgroup) {
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hsize_t rank = 1;
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herr_t status;
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string dsetname = (string("/") + symbol); // name
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status = make_dataset(hfgroup, // Group
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dsetname.c_str(),
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symbol.c_str(),
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rank,
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dims,
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&x);
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setAttributes(*this,dsetname,hfgroup);
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setAttributes(*this,symbol,hfgroup);
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}
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@ -80,16 +83,14 @@ void TimeData::exportHDF5(hid_t hfgroup) {
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hsize_t dims[] = {x.size()}; // First dimension has lenght 1
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hsize_t rank = 1;
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string dsetname = (string("/") + symbol); // name
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herr_t status;
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status = make_dataset(hfgroup, // Group
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dsetname.c_str(), // Dataset name
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symbol.c_str(), // Dataset name
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rank,
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dims,
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x.memptr());
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setAttributes(*this,dsetname,hfgroup);
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setAttributes(*this,symbol,hfgroup);
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}
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void PosData::exportHDF5(hid_t hfgroup) {
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@ -101,17 +102,15 @@ void PosData::exportHDF5(hid_t hfgroup) {
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hsize_t dims[] = {x.size()}; // First dimension has lenght 1
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hsize_t rank = 1;
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string dsetname = (string("/") + symbol); // name
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herr_t status;
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status = make_dataset(hfgroup, // Group
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dsetname.c_str(),
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symbol.c_str(),
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rank,
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dims,
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x.memptr());
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setAttributes(*this,dsetname,hfgroup);
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setAttributes(*this,symbol,hfgroup);
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H5Eprint(status,0);
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@ -119,11 +118,6 @@ void PosData::exportHDF5(hid_t hfgroup) {
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void TXData::exportHDF5(hid_t hfgroup) {
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// We use the lite API for setting the data
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// HDF5 Stores data in row-major ordering. Armadillo uses
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// column-major ordering. Therefore, we store the transpose of the data.
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dmat x = this->x.t();
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hsize_t dims[] = {x.n_cols,x.n_rows}; // First dimension has lenght 1
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hsize_t rank = 2;
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@ -135,20 +129,32 @@ void TXData::exportHDF5(hid_t hfgroup) {
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col_ptrs[col] = &xptr[col*x.n_rows];
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}
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string dsetname = (string("/") + symbol); // name
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make_dataset(hfgroup, // Group
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dsetname.c_str(), // name
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symbol.c_str(), // name
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rank,
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dims,
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&col_ptrs[0][0]);
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setAttributes(*this,
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dsetname,
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symbol,
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hfgroup);
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// Generate the time-averaged values and export them as well
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PosData time_avg;
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time_avg.x = arma::mean(x).t();
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time_avg.name = name + " (time-averaged)";
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time_avg.unit = unit;
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time_avg.symbol = symbol + "_gem";
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time_avg.exportHDF5(hfgroup);
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}
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//////////////////////////////////////////////////////////////////////
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@ -17,25 +17,12 @@
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#include <hdf5.h>
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#endif
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DECLARE_ENUM(FileType,FileTypeTXT)
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struct ExportData
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{
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string name; /**< Full name of the quantity */
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string unit; /**< Unit of the quantity */
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string symbol; /**< Used symbol / abbreviation */
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/**
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* Export the data to a text file
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*
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* @param FileType
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* @param filename
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* @param group
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*
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*
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*/
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// void export(const string& filename)=0;
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string datatype; /**< Key representing the datatype */
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/**
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* Export the result to an existing HDF5
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*
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@ -45,9 +32,6 @@ struct ExportData
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virtual void exportHDF5(hid_t hfgroup)=0;
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#endif
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// void show() const = 0;
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virtual ~ExportData(){}
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};
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@ -57,7 +41,7 @@ struct ExportData
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*/
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struct PointData: public ExportData {
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d x; /**< The value */
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PointData() { datatype = "point";}
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#ifdef TASMET_HDF5
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void exportHDF5(hid_t hfgroup);
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#endif
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@ -69,8 +53,8 @@ struct PointData: public ExportData {
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*/
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struct TimeData: public ExportData
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{
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vd t; /**< The time instances of the
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record */
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TimeData() { datatype = "time";}
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vd x; /**< The quantity at the time
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instance */
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@ -86,10 +70,9 @@ struct TimeData: public ExportData
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*/
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struct PosData: public ExportData
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{
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vd X; /**< The positions of the
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record */
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vd x; /**< The quantity as function of the
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position */
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PosData() { datatype = "pos"; }
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vd x; /**< The quantity as function of the
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position */
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#ifdef TASMET_HDF5
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void exportHDF5(hid_t hfgroup);
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@ -104,10 +87,7 @@ struct PosData: public ExportData
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*/
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struct TXData : public ExportData
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{
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vd t; /**< The time instances of the
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record */
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vd X; /**< The positions of the record */
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TXData() { datatype = "postime"; }
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dmat x; /**< The quantity at the time and position instance. Note:
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the first axis denotes time, the second axis denotes
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@ -416,7 +416,7 @@ void TaSMETMainWindow::on_segmentname_textChanged() {
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void TaSMETMainWindow::on_actionSolve_triggered() {
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TRACE(15,"actionSolve()");
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SolverDialog *d;
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std::unique_ptr<SolverDialog> d;
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std::unique_ptr<TaSystem> sys;
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try {
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@ -434,7 +434,7 @@ void TaSMETMainWindow::on_actionSolve_triggered() {
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}
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catch(...) {}
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}
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d = new SolverDialog(this,*sys.get(),*_model.mutable_sparams());
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d = std::unique_ptr<SolverDialog>(new SolverDialog(this,*sys.get(),*_model.mutable_sparams()));
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}
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catch(TaSMETError &e) {
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@ -459,7 +459,6 @@ void TaSMETMainWindow::on_actionSolve_triggered() {
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// dialog. Therefore we are now probably dirty
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changed();
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delete d;
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}
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void TaSMETMainWindow::on_actionPostprocess_model_triggered() {
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@ -47,4 +47,6 @@ message Duct {
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required string stempfunc = 16 [default = "293.15+x*x/L"];
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required SolidTemperatureModel stempmodel = 17 [default = Prescribed];
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// Whether the total surface area is time-dependent or not
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optional bool Sfixed = 18;
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}
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@ -486,12 +486,17 @@ void TaSystem::exportHDF5(const string& filename) const {
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for(const auto& seg_ : _segs) {
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// Create a group for each segment
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string group = string("/") + std::to_string(seg_.first);
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VARTRACE(15,group);
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hid_t grp_id = H5Gcreate(file_id,
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(string("/") +
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std::to_string(seg_.first)).c_str(),
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H5P_DEFAULT,
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H5P_DEFAULT,
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H5P_DEFAULT);
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group.c_str(),
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H5P_DEFAULT,
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H5P_DEFAULT,
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H5P_DEFAULT);
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if(grp_id < 0)
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throw TaSMETError("Group creation failed");
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seg_.second->exportHDF5(grp_id);
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