switched to HDF4/HDF5 template loading in order to simplify the code.
This commit is contained in:
@@ -2248,172 +2248,8 @@ Bool_t PRunDataHandler::ReadNexusFile()
|
||||
}
|
||||
|
||||
if (idf == 1) { // HDF4 IDF V1
|
||||
// get header information
|
||||
|
||||
// get/set laboratory
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/lab"))
|
||||
sstr = nxs_file->GetDataset<std::string>("/run/lab").GetData()[0];
|
||||
runData.SetLaboratory(sstr);
|
||||
|
||||
// get/set beamline
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/beamline"))
|
||||
sstr = nxs_file->GetDataset<std::string>("/run/beamline").GetData()[0];
|
||||
runData.SetBeamline(sstr);
|
||||
|
||||
// get/set instrument
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/instrument/name"))
|
||||
sstr = nxs_file->GetDataset<std::string>("/run/instrument/name").GetData()[0];
|
||||
runData.SetInstrument(sstr);
|
||||
|
||||
// get/set run title
|
||||
str = "n/a";
|
||||
if (nxs_file->HasDataset("/run/title"))
|
||||
sstr = nxs_file->GetDataset<std::string>("/run/title").GetData()[0];
|
||||
runData.SetRunTitle(sstr);
|
||||
|
||||
// get/set run number
|
||||
ival = -1;
|
||||
if (nxs_file->HasDataset("/run/number"))
|
||||
ival = nxs_file->GetDataset<int>("/run/number").GetData()[0];
|
||||
runData.SetRunNumber(ival);
|
||||
|
||||
// get/set temperature
|
||||
dval = PMUSR_UNDEFINED;
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/sample/temperature")) {
|
||||
auto tmp_ds = nxs_file->GetDataset<float>("/run/sample/temperature");
|
||||
dval = tmp_ds.GetData()[0];
|
||||
if (tmp_ds.HasAttribute("units"))
|
||||
sstr = std::any_cast<std::string>(tmp_ds.GetAttribute("units"));
|
||||
if (sstr == "Celcius")
|
||||
dval += 273.16;
|
||||
}
|
||||
runData.SetTemperature(0, dval, 0.0);
|
||||
|
||||
// get/set field
|
||||
dval = PMUSR_UNDEFINED;
|
||||
sstr = "n/a";
|
||||
factor = 1.0;
|
||||
if (nxs_file->HasDataset("/run/sample/magnetic_field")) {
|
||||
auto mag_ds = nxs_file->GetDataset<float>("/run/sample/magnetic_field");
|
||||
dval = mag_ds.GetData()[0];
|
||||
if (mag_ds.HasAttribute("units"))
|
||||
sstr = std::any_cast<std::string>(mag_ds.GetAttribute("units"));
|
||||
if (sstr == "Tesla")
|
||||
factor = 1.0e4;
|
||||
}
|
||||
runData.SetField(dval*factor);
|
||||
|
||||
// get/set implantation energy
|
||||
runData.SetEnergy(PMUSR_UNDEFINED);
|
||||
|
||||
// get/set moderator HV
|
||||
runData.SetTransport(PMUSR_UNDEFINED);
|
||||
|
||||
// get/set RA HV's (LEM specific)
|
||||
for (UInt_t i=0; i<4; i++)
|
||||
runData.SetRingAnode(i, PMUSR_UNDEFINED);
|
||||
|
||||
// get/set setup
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/notes"))
|
||||
sstr = nxs_file->GetDataset<std::string>("/run/notes").GetData()[0];
|
||||
runData.SetSetup(sstr);
|
||||
|
||||
// get/set sample
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/sample/name"))
|
||||
sstr = nxs_file->GetDataset<std::string>("/run/sample/name").GetData()[0];
|
||||
runData.SetSample(sstr);
|
||||
|
||||
// get/set orientation
|
||||
runData.SetOrientation("??");
|
||||
|
||||
// get/set time resolution (ns)
|
||||
dval = PMUSR_UNDEFINED;
|
||||
sstr = "n/a";
|
||||
factor = 1.0;
|
||||
if (nxs_file->HasDataset("/run/histogram_data_1/resolution")) {
|
||||
auto res_ds = nxs_file->GetDataset<int>("/run/histogram_data_1/resolution");
|
||||
dval = res_ds.GetData()[0];
|
||||
if (res_ds.HasAttribute("units"))
|
||||
sstr = std::any_cast<std::string>(res_ds.GetAttribute("units"));
|
||||
if ((sstr == "picoseconds") || (sstr == "pico.seconds"))
|
||||
factor = 1.0e-3; // ps -> ns
|
||||
}
|
||||
runData.SetTimeResolution(dval*factor);
|
||||
|
||||
// get/set start/stop time
|
||||
sstr = "n/a";
|
||||
TString date{"n/a"}, time{"n/a"};
|
||||
if (nxs_file->HasDataset("/run/start_time"))
|
||||
sstr = nxs_file->GetDataset<std::string>("/run/start_time").GetData()[0];
|
||||
str = sstr;
|
||||
SplitTimeDate(str, time, date, ok);
|
||||
if (ok) {
|
||||
runData.SetStartTime(time);
|
||||
runData.SetStartDate(date);
|
||||
}
|
||||
|
||||
sstr = "n/a";
|
||||
date = "n/a";
|
||||
time = "n/a";
|
||||
if (nxs_file->HasDataset("/run/stop_time"))
|
||||
sstr = nxs_file->GetDataset<std::string>("/run/stop_time").GetData()[0];
|
||||
str = sstr;
|
||||
SplitTimeDate(str, time, date, ok);
|
||||
if (ok) {
|
||||
runData.SetStopTime(time);
|
||||
runData.SetStopDate(date);
|
||||
}
|
||||
|
||||
// data with its metadata
|
||||
int t0_bin{-1}, fgb{-1}, lgb{-1}, noOfHistos{-1}, histoLength{-1};
|
||||
if (nxs_file->HasDataset("/run/histogram_data_1/counts")) {
|
||||
auto count_ds = nxs_file->GetDataset<int>("/run/histogram_data_1/counts");
|
||||
auto count = count_ds.GetData();
|
||||
// get all necessary attributes
|
||||
if (count_ds.HasAttribute("t0_bin"))
|
||||
t0_bin = std::any_cast<int>(count_ds.GetAttribute("t0_bin"));
|
||||
if (count_ds.HasAttribute("first_good_bin"))
|
||||
fgb = std::any_cast<int>(count_ds.GetAttribute("first_good_bin"));
|
||||
if (count_ds.HasAttribute("last_good_bin"))
|
||||
lgb = std::any_cast<int>(count_ds.GetAttribute("last_good_bin"));
|
||||
if (count_ds.HasAttribute("number"))
|
||||
noOfHistos = std::any_cast<int>(count_ds.GetAttribute("number"));
|
||||
if (count_ds.HasAttribute("length"))
|
||||
histoLength = std::any_cast<int>(count_ds.GetAttribute("length"));
|
||||
if (count.size() != noOfHistos*histoLength) {
|
||||
std::cerr << std::endl << "**ERROR** nxH4::PNeXus data size error! count.size()=" << count.size() << ", #histos=" << noOfHistos << ", length=" << histoLength << "." << std::endl;
|
||||
return false;
|
||||
}
|
||||
// fill dataSet
|
||||
PDoubleVector data;
|
||||
for (unsigned int i=0; i<noOfHistos; i++) {
|
||||
dataSet.Clear();
|
||||
dataSet.SetHistoNo(i+1); // i.e. histo numbers start with 1
|
||||
dataSet.SetTimeZeroBin(t0_bin);
|
||||
dataSet.SetFirstGoodBin(fgb);
|
||||
dataSet.SetLastGoodBin(lgb);
|
||||
for (unsigned j=0; j<histoLength; j++)
|
||||
data.push_back(count[i*histoLength+j]);
|
||||
dataSet.SetData(data);
|
||||
runData.SetDataSet(dataSet);
|
||||
data.clear();
|
||||
}
|
||||
|
||||
// keep run name from the msr-file
|
||||
runData.SetRunName(fRunName);
|
||||
|
||||
// keep the information
|
||||
fData.push_back(runData);
|
||||
} else { // no data found
|
||||
std::cerr << std::endl << "**ERROR** nxH4::PNeXus couldn't obtain data: '/run/histogram_data_1/counts' is missing." << std::endl;
|
||||
if (!ReadNexusFileIdf1(nxs_file))
|
||||
return false;
|
||||
}
|
||||
} else { // HDF4 IDF V2
|
||||
// not yet implemented
|
||||
}
|
||||
@@ -2442,7 +2278,8 @@ Bool_t PRunDataHandler::ReadNexusFile()
|
||||
}
|
||||
|
||||
if (idf == 1) { // HDF5 IDF V1
|
||||
// not yet implemented
|
||||
if (!ReadNexusFileIdf1(nxs_file))
|
||||
return false;
|
||||
} else { // HDF5 IDF V2
|
||||
// not yet implemented
|
||||
}
|
||||
|
||||
@@ -30,6 +30,10 @@
|
||||
#ifndef _PRUNDATAHANDLER_H_
|
||||
#define _PRUNDATAHANDLER_H_
|
||||
|
||||
#include <any>
|
||||
#include <iostream>
|
||||
#include <string>
|
||||
|
||||
#include <TString.h>
|
||||
|
||||
#include "PMusr.h"
|
||||
@@ -433,6 +437,8 @@ class PRunDataHandler
|
||||
virtual Bool_t FileExistsCheck(const TString fileName);
|
||||
virtual Bool_t ReadRootFile();
|
||||
virtual Bool_t ReadNexusFile();
|
||||
template <typename T> Bool_t ReadNexusFileIdf1(T& nxs_file);
|
||||
template <typename T> Bool_t ReadNexusFileIdf2(T& nxs_file);
|
||||
virtual Bool_t ReadWkmFile();
|
||||
virtual Bool_t ReadPsiBinFile();
|
||||
virtual Bool_t ReadMudFile();
|
||||
@@ -464,4 +470,211 @@ class PRunDataHandler
|
||||
virtual TString GetYear(Int_t month);
|
||||
};
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
// ReadNexusFileIdf1 (private)
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p>Reads a NeXus file with IDF version 1 format.
|
||||
*
|
||||
* <p>Extracts run metadata (laboratory, beamline, instrument, run title,
|
||||
* run number, temperature, field, sample info, time resolution, start/stop
|
||||
* times) and histogram data from the NeXus file structure.
|
||||
*
|
||||
* @tparam T NeXus file handler type (std::unique_ptr<nxH4::PNeXus> and std::unique_ptr<nxH5::PNeXus>)
|
||||
* @param nxs_file reference to the NeXus file handler
|
||||
*
|
||||
* <b>return:</b>
|
||||
* - true at successful reading,
|
||||
* - otherwise false.
|
||||
*/
|
||||
template <typename T>
|
||||
Bool_t PRunDataHandler::ReadNexusFileIdf1(T& nxs_file)
|
||||
{
|
||||
PRawRunData runData;
|
||||
PRawRunDataSet dataSet;
|
||||
TString str;
|
||||
std::string sstr;
|
||||
Int_t ival;
|
||||
Double_t dval, factor;
|
||||
bool ok;
|
||||
|
||||
// get header information
|
||||
|
||||
// get/set laboratory
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/lab"))
|
||||
sstr = nxs_file->template GetDataset<std::string>("/run/lab").GetData()[0];
|
||||
runData.SetLaboratory(sstr);
|
||||
|
||||
// get/set beamline
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/beamline"))
|
||||
sstr = nxs_file->template GetDataset<std::string>("/run/beamline").GetData()[0];
|
||||
runData.SetBeamline(sstr);
|
||||
|
||||
// get/set instrument
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/instrument/name"))
|
||||
sstr = nxs_file->template GetDataset<std::string>("/run/instrument/name").GetData()[0];
|
||||
runData.SetInstrument(sstr);
|
||||
|
||||
// get/set run title
|
||||
str = "n/a";
|
||||
if (nxs_file->HasDataset("/run/title"))
|
||||
sstr = nxs_file->template GetDataset<std::string>("/run/title").GetData()[0];
|
||||
runData.SetRunTitle(sstr);
|
||||
|
||||
// get/set run number
|
||||
ival = -1;
|
||||
if (nxs_file->HasDataset("/run/number"))
|
||||
ival = nxs_file->template GetDataset<int>("/run/number").GetData()[0];
|
||||
runData.SetRunNumber(ival);
|
||||
|
||||
// get/set temperature
|
||||
dval = PMUSR_UNDEFINED;
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/sample/temperature")) {
|
||||
auto tmp_ds = nxs_file->template GetDataset<float>("/run/sample/temperature");
|
||||
dval = tmp_ds.GetData()[0];
|
||||
if (tmp_ds.HasAttribute("units"))
|
||||
sstr = std::any_cast<std::string>(tmp_ds.GetAttribute("units"));
|
||||
if (sstr == "Celcius")
|
||||
dval += 273.16;
|
||||
}
|
||||
runData.SetTemperature(0, dval, 0.0);
|
||||
|
||||
// get/set field
|
||||
dval = PMUSR_UNDEFINED;
|
||||
sstr = "n/a";
|
||||
factor = 1.0;
|
||||
if (nxs_file->HasDataset("/run/sample/magnetic_field")) {
|
||||
auto mag_ds = nxs_file->template GetDataset<float>("/run/sample/magnetic_field");
|
||||
dval = mag_ds.GetData()[0];
|
||||
if (mag_ds.HasAttribute("units"))
|
||||
sstr = std::any_cast<std::string>(mag_ds.GetAttribute("units"));
|
||||
if (sstr == "Tesla")
|
||||
factor = 1.0e4;
|
||||
}
|
||||
runData.SetField(dval*factor);
|
||||
|
||||
// get/set implantation energy
|
||||
runData.SetEnergy(PMUSR_UNDEFINED);
|
||||
|
||||
// get/set moderator HV
|
||||
runData.SetTransport(PMUSR_UNDEFINED);
|
||||
|
||||
// get/set RA HV's (LEM specific)
|
||||
for (UInt_t i=0; i<4; i++)
|
||||
runData.SetRingAnode(i, PMUSR_UNDEFINED);
|
||||
|
||||
// get/set setup
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/notes"))
|
||||
sstr = nxs_file->template GetDataset<std::string>("/run/notes").GetData()[0];
|
||||
runData.SetSetup(sstr);
|
||||
|
||||
// get/set sample
|
||||
sstr = "n/a";
|
||||
if (nxs_file->HasDataset("/run/sample/name"))
|
||||
sstr = nxs_file->template GetDataset<std::string>("/run/sample/name").GetData()[0];
|
||||
runData.SetSample(sstr);
|
||||
|
||||
// get/set orientation
|
||||
runData.SetOrientation("??");
|
||||
|
||||
// get/set time resolution (ns)
|
||||
dval = PMUSR_UNDEFINED;
|
||||
sstr = "n/a";
|
||||
factor = 1.0;
|
||||
if (nxs_file->HasDataset("/run/histogram_data_1/resolution")) {
|
||||
auto res_ds = nxs_file->template GetDataset<int>("/run/histogram_data_1/resolution");
|
||||
dval = res_ds.GetData()[0];
|
||||
if (res_ds.HasAttribute("units"))
|
||||
sstr = std::any_cast<std::string>(res_ds.GetAttribute("units"));
|
||||
if ((sstr == "picoseconds") || (sstr == "pico.seconds"))
|
||||
factor = 1.0e-3; // ps -> ns
|
||||
}
|
||||
runData.SetTimeResolution(dval*factor);
|
||||
|
||||
// get/set start/stop time
|
||||
sstr = "n/a";
|
||||
TString date{"n/a"}, time{"n/a"};
|
||||
if (nxs_file->HasDataset("/run/start_time"))
|
||||
sstr = nxs_file->template GetDataset<std::string>("/run/start_time").GetData()[0];
|
||||
str = sstr;
|
||||
SplitTimeDate(str, time, date, ok);
|
||||
if (ok) {
|
||||
runData.SetStartTime(time);
|
||||
runData.SetStartDate(date);
|
||||
}
|
||||
|
||||
sstr = "n/a";
|
||||
date = "n/a";
|
||||
time = "n/a";
|
||||
if (nxs_file->HasDataset("/run/stop_time"))
|
||||
sstr = nxs_file->template GetDataset<std::string>("/run/stop_time").GetData()[0];
|
||||
str = sstr;
|
||||
SplitTimeDate(str, time, date, ok);
|
||||
if (ok) {
|
||||
runData.SetStopTime(time);
|
||||
runData.SetStopDate(date);
|
||||
}
|
||||
|
||||
// data with its metadata
|
||||
int t0_bin{-1}, fgb{-1}, lgb{-1}, noOfHistos{-1}, histoLength{-1};
|
||||
if (nxs_file->HasDataset("/run/histogram_data_1/counts")) {
|
||||
auto count_ds = nxs_file->template GetDataset<int>("/run/histogram_data_1/counts");
|
||||
auto count = count_ds.GetData();
|
||||
// get all necessary attributes
|
||||
if (count_ds.HasAttribute("t0_bin"))
|
||||
t0_bin = std::any_cast<int>(count_ds.GetAttribute("t0_bin"));
|
||||
if (count_ds.HasAttribute("first_good_bin"))
|
||||
fgb = std::any_cast<int>(count_ds.GetAttribute("first_good_bin"));
|
||||
if (count_ds.HasAttribute("last_good_bin"))
|
||||
lgb = std::any_cast<int>(count_ds.GetAttribute("last_good_bin"));
|
||||
if (count_ds.HasAttribute("number"))
|
||||
noOfHistos = std::any_cast<int>(count_ds.GetAttribute("number"));
|
||||
if (count_ds.HasAttribute("length"))
|
||||
histoLength = std::any_cast<int>(count_ds.GetAttribute("length"));
|
||||
if (static_cast<int>(count.size()) != noOfHistos*histoLength) {
|
||||
std::cerr << std::endl << "**ERROR** PNeXus data size error! count.size()=" << count.size() << ", #histos=" << noOfHistos << ", length=" << histoLength << "." << std::endl;
|
||||
return false;
|
||||
}
|
||||
// fill dataSet
|
||||
PDoubleVector data;
|
||||
for (int i=0; i<noOfHistos; i++) {
|
||||
dataSet.Clear();
|
||||
dataSet.SetHistoNo(i+1); // i.e. histo numbers start with 1
|
||||
dataSet.SetTimeZeroBin(t0_bin);
|
||||
dataSet.SetFirstGoodBin(fgb);
|
||||
dataSet.SetLastGoodBin(lgb);
|
||||
for (int j=0; j<histoLength; j++)
|
||||
data.push_back(count[i*histoLength+j]);
|
||||
dataSet.SetData(data);
|
||||
runData.SetDataSet(dataSet);
|
||||
data.clear();
|
||||
}
|
||||
|
||||
// keep run name from the msr-file
|
||||
runData.SetRunName(fRunName);
|
||||
|
||||
// keep the information
|
||||
fData.push_back(runData);
|
||||
} else { // no data found
|
||||
std::cerr << std::endl << "**ERROR** PNeXus couldn't obtain data: '/run/histogram_data_1/counts' is missing." << std::endl;
|
||||
return false;
|
||||
}
|
||||
|
||||
return true;
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
// ReadNexusFileIdf2 (private)
|
||||
//--------------------------------------------------------------------------
|
||||
template <typename T>
|
||||
Bool_t PRunDataHandler::ReadNexusFileIdf2(T& nxs_file)
|
||||
{
|
||||
return true;
|
||||
}
|
||||
|
||||
#endif // _PRUNDATAHANDLER_H_
|
||||
|
||||
Reference in New Issue
Block a user