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SetupHFIRReduction.cpp
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SetupHFIRReduction.cpp
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//----------------------------------------------------------------------
// Includes
//----------------------------------------------------------------------
#include "MantidWorkflowAlgorithms/SetupHFIRReduction.h"
#include "MantidAPI/AlgorithmProperty.h"
#include "MantidKernel/PropertyManagerDataService.h"
#include "MantidKernel/PropertyManager.h"
#include "MantidKernel/BoundedValidator.h"
#include "MantidKernel/ListValidator.h"
#include "MantidAPI/FileProperty.h"
#include "MantidKernel/ArrayProperty.h"
#include "MantidKernel/RebinParamsValidator.h"
#include <boost/algorithm/string/predicate.hpp>
#include "MantidKernel/VisibleWhenProperty.h"
namespace Mantid {
namespace WorkflowAlgorithms {
// Register the algorithm into the AlgorithmFactory
DECLARE_ALGORITHM(SetupHFIRReduction)
using namespace Kernel;
using namespace API;
using namespace Geometry;
using namespace DataObjects;
void SetupHFIRReduction::init() {
// Load options
std::string load_grp = "Load Options";
declareProperty(
"SampleDetectorDistance", EMPTY_DBL(),
"Sample to detector distance to use (overrides meta data), in mm");
declareProperty("SampleDetectorDistanceOffset", EMPTY_DBL(),
"Offset to the sample to detector distance (use only when "
"using the distance found in the meta data), in mm");
declareProperty(
"SolidAngleCorrection", true,
"If true, the solid angle correction will be applied to the data");
declareProperty(
"DetectorTubes", false,
"If true, the solid angle correction for tube detectors will be applied");
declareProperty("DetectorWing", false,
"If true, the solid angle "
"correction for the Wing Detector (curved detector) "
"will be applied");
// Optionally, we can specify the wavelength and wavelength spread and
// overwrite
// the value in the data file (used when the data file is not populated)
auto mustBePositive = boost::make_shared<Kernel::BoundedValidator<double>>();
mustBePositive->setLower(0.0);
declareProperty(
"Wavelength", EMPTY_DBL(), mustBePositive,
"Wavelength value to use when loading the data file (Angstrom).");
declareProperty(
"WavelengthSpread", 0.1, mustBePositive,
"Wavelength spread to use when loading the data file (default 0.0)");
setPropertyGroup("SampleDetectorDistance", load_grp);
setPropertyGroup("SampleDetectorDistanceOffset", load_grp);
setPropertyGroup("SolidAngleCorrection", load_grp);
setPropertyGroup("DetectorTubes", load_grp);
setPropertyGroup("DetectorWing", load_grp);
setPropertyGroup("Wavelength", load_grp);
setPropertyGroup("WavelengthSpread", load_grp);
// Beam center
std::string center_grp = "Beam Center";
std::vector<std::string> centerOptions{"None", "Value", "DirectBeam",
"Scattering"};
declareProperty("BeamCenterMethod", "None",
boost::make_shared<StringListValidator>(centerOptions),
"Method for determining the data beam center");
// Option 1: Set beam center by hand
declareProperty("BeamCenterX", EMPTY_DBL(),
"Position of the beam center, in pixel");
declareProperty("BeamCenterY", EMPTY_DBL(),
"Position of the beam center, in pixel");
setPropertySettings("BeamCenterX",
make_unique<VisibleWhenProperty>("BeamCenterMethod",
IS_EQUAL_TO, "Value"));
setPropertySettings("BeamCenterY",
make_unique<VisibleWhenProperty>("BeamCenterMethod",
IS_EQUAL_TO, "Value"));
// Option 2: Find it (expose properties from FindCenterOfMass)
declareProperty(
make_unique<API::FileProperty>("BeamCenterFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"The name of the input data file to load");
setPropertySettings("BeamCenterFile",
make_unique<VisibleWhenProperty>(
"BeamCenterMethod", IS_NOT_EQUAL_TO, "None"));
// declareProperty("Tolerance", EMPTY_DBL(), "Tolerance on the center of mass
// position between each iteration [m]. Default: 0.00125");
auto positiveDouble = boost::make_shared<BoundedValidator<double>>();
positiveDouble->setLower(0);
declareProperty(
"BeamRadius", EMPTY_DBL(),
"Radius of the beam area used the exclude the beam when calculating "
"the center of mass of the scattering pattern [pixels]. Default=3.0");
setPropertySettings("BeamRadius",
make_unique<VisibleWhenProperty>(
"BeamCenterMethod", IS_EQUAL_TO, "Scattering"));
setPropertyGroup("BeamCenterMethod", center_grp);
setPropertyGroup("BeamCenterX", center_grp);
setPropertyGroup("BeamCenterY", center_grp);
setPropertyGroup("BeamCenterFile", center_grp);
// setPropertyGroup("Tolerance", center_grp);
setPropertyGroup("BeamRadius", center_grp);
// Normalisation
std::vector<std::string> incidentBeamNormOptions;
incidentBeamNormOptions.emplace_back("None");
incidentBeamNormOptions.emplace_back("Monitor");
incidentBeamNormOptions.emplace_back("Timer");
this->declareProperty(
"Normalisation", "Monitor",
boost::make_shared<StringListValidator>(incidentBeamNormOptions),
"Options for data normalisation");
// Dark current
declareProperty(
make_unique<API::FileProperty>("DarkCurrentFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"The name of the input data file to load as dark current.");
// Sensitivity
std::string eff_grp = "Sensitivity";
declareProperty(
make_unique<API::FileProperty>("SensitivityFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"Flood field or sensitivity file.");
declareProperty(
"MinEfficiency", EMPTY_DBL(), positiveDouble,
"Minimum efficiency for a pixel to be considered (default: no minimum).");
declareProperty(
"MaxEfficiency", EMPTY_DBL(), positiveDouble,
"Maximum efficiency for a pixel to be considered (default: no maximum).");
declareProperty("UseDefaultDC", true, "If true, the dark current subtracted "
"from the sample data will also be "
"subtracted from the flood field.");
declareProperty(
make_unique<API::FileProperty>("SensitivityDarkCurrentFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"The name of the input file to load as dark current.");
setPropertySettings(
"SensitivityDarkCurrentFile",
make_unique<VisibleWhenProperty>("UseDefaultDC", IS_EQUAL_TO, "0"));
// - sensitivity beam center
declareProperty("SensitivityBeamCenterMethod", "None",
boost::make_shared<StringListValidator>(centerOptions),
"Method for determining the sensitivity data beam center");
// Option 1: Set beam center by hand
declareProperty("SensitivityBeamCenterX", EMPTY_DBL(),
"Sensitivity beam center location in X [pixels]");
setPropertySettings("SensitivityBeamCenterX",
make_unique<VisibleWhenProperty>(
"SensitivityBeamCenterMethod", IS_EQUAL_TO, "Value"));
declareProperty("SensitivityBeamCenterY", EMPTY_DBL(),
"Sensitivity beam center location in Y [pixels]");
setPropertySettings("SensitivityBeamCenterY",
make_unique<VisibleWhenProperty>(
"SensitivityBeamCenterMethod", IS_EQUAL_TO, "Value"));
// Option 2: Find it (expose properties from FindCenterOfMass)
declareProperty(
make_unique<API::FileProperty>("SensitivityBeamCenterFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"The name of the input data file to load");
setPropertySettings(
"SensitivityBeamCenterFile",
make_unique<VisibleWhenProperty>("SensitivityBeamCenterMethod",
IS_NOT_EQUAL_TO, "None"));
declareProperty(
"SensitivityBeamCenterRadius", EMPTY_DBL(),
"Radius of the beam area used the exclude the beam when calculating "
"the center of mass of the scattering pattern [pixels]. Default=3.0");
setPropertySettings("SensitivityBeamCenterRadius",
make_unique<VisibleWhenProperty>(
"BeamCenterMethod", IS_EQUAL_TO, "Scattering"));
declareProperty(make_unique<WorkspaceProperty<MatrixWorkspace>>(
"OutputSensitivityWorkspace", "", Direction::Output,
PropertyMode::Optional));
setPropertyGroup("SensitivityFile", eff_grp);
setPropertyGroup("MinEfficiency", eff_grp);
setPropertyGroup("MaxEfficiency", eff_grp);
setPropertyGroup("UseDefaultDC", eff_grp);
setPropertyGroup("SensitivityDarkCurrentFile", eff_grp);
setPropertyGroup("SensitivityBeamCenterMethod", eff_grp);
setPropertyGroup("SensitivityBeamCenterX", eff_grp);
setPropertyGroup("SensitivityBeamCenterY", eff_grp);
setPropertyGroup("SensitivityBeamCenterFile", eff_grp);
setPropertyGroup("SensitivityBeamCenterRadius", eff_grp);
setPropertyGroup("OutputSensitivityWorkspace", eff_grp);
// Transmission
std::string trans_grp = "Transmission";
std::vector<std::string> transOptions{"Value", "DirectBeam", "BeamSpreader"};
declareProperty("TransmissionMethod", "Value",
boost::make_shared<StringListValidator>(transOptions),
"Transmission determination method");
// - Transmission value entered by hand
declareProperty("TransmissionValue", EMPTY_DBL(), positiveDouble,
"Transmission value.");
setPropertySettings("TransmissionValue",
make_unique<VisibleWhenProperty>("TransmissionMethod",
IS_EQUAL_TO, "Value"));
declareProperty("TransmissionError", EMPTY_DBL(), positiveDouble,
"Transmission error.");
setPropertySettings("TransmissionError",
make_unique<VisibleWhenProperty>("TransmissionMethod",
IS_EQUAL_TO, "Value"));
// - Direct beam method transmission calculation
declareProperty(
"TransmissionBeamRadius", 3.0,
"Radius of the beam area used to compute the transmission [pixels]");
setPropertySettings("TransmissionBeamRadius",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
declareProperty(
make_unique<API::FileProperty>("TransmissionSampleDataFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"Sample data file for transmission calculation");
setPropertySettings("TransmissionSampleDataFile",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
declareProperty(
make_unique<API::FileProperty>("TransmissionEmptyDataFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"Empty data file for transmission calculation");
setPropertySettings("TransmissionEmptyDataFile",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
// - transmission beam center
declareProperty("TransmissionBeamCenterMethod", "None",
boost::make_shared<StringListValidator>(centerOptions),
"Method for determining the transmission data beam center");
setPropertySettings("TransmissionBeamCenterMethod",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
// Option 1: Set beam center by hand
declareProperty("TransmissionBeamCenterX", EMPTY_DBL(),
"Transmission beam center location in X [pixels]");
setPropertySettings("TransmissionBeamCenterX",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
declareProperty("TransmissionBeamCenterY", EMPTY_DBL(),
"Transmission beam center location in Y [pixels]");
setPropertySettings("TransmissionBeamCenterY",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
// Option 2: Find it (expose properties from FindCenterOfMass)
declareProperty(
make_unique<API::FileProperty>("TransmissionBeamCenterFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"The name of the input data file to load");
setPropertySettings("TransmissionBeamCenterFile",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
// - Beam spreader transmission method
declareProperty(
make_unique<API::FileProperty>("TransSampleSpreaderFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("TransSampleSpreaderFilename",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "BeamSpreader"));
declareProperty(
make_unique<API::FileProperty>("TransDirectSpreaderFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("TransDirectSpreaderFilename",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "BeamSpreader"));
declareProperty(
make_unique<API::FileProperty>("TransSampleScatteringFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("TransSampleScatteringFilename",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "BeamSpreader"));
declareProperty(
make_unique<API::FileProperty>("TransDirectScatteringFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("TransDirectScatteringFilename",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "BeamSpreader"));
declareProperty("SpreaderTransmissionValue", 1.0,
"Beam spreader transmission value");
setPropertySettings("SpreaderTransmissionValue",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "BeamSpreader"));
declareProperty("SpreaderTransmissionError", 0.0,
"Beam spreader transmission error");
setPropertySettings("SpreaderTransmissionError",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_EQUAL_TO, "BeamSpreader"));
declareProperty(
make_unique<API::FileProperty>("TransmissionDarkCurrentFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"The name of the input data file to load as transmission dark current.");
setPropertySettings("TransmissionDarkCurrentFile",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_NOT_EQUAL_TO, "Value"));
declareProperty(
"TransmissionUseSampleDC", true,
"If true, the sample dark current will be used IF a dark current file is"
"not set.");
setPropertySettings("TransmissionUseSampleDC",
make_unique<VisibleWhenProperty>(
"TransmissionMethod", IS_NOT_EQUAL_TO, "Value"));
declareProperty(
"ThetaDependentTransmission", true,
"If true, a theta-dependent transmission correction will be applied.");
setPropertyGroup("TransmissionMethod", trans_grp);
setPropertyGroup("TransmissionValue", trans_grp);
setPropertyGroup("TransmissionError", trans_grp);
setPropertyGroup("TransmissionBeamRadius", trans_grp);
setPropertyGroup("TransmissionSampleDataFile", trans_grp);
setPropertyGroup("TransmissionEmptyDataFile", trans_grp);
setPropertyGroup("TransmissionBeamCenterMethod", trans_grp);
setPropertyGroup("TransmissionBeamCenterX", trans_grp);
setPropertyGroup("TransmissionBeamCenterY", trans_grp);
setPropertyGroup("TransmissionBeamCenterFile", trans_grp);
setPropertyGroup("TransSampleSpreaderFilename", trans_grp);
setPropertyGroup("TransDirectSpreaderFilename", trans_grp);
setPropertyGroup("TransSampleScatteringFilename", trans_grp);
setPropertyGroup("TransDirectScatteringFilename", trans_grp);
setPropertyGroup("SpreaderTransmissionValue", trans_grp);
setPropertyGroup("SpreaderTransmissionError", trans_grp);
setPropertyGroup("TransmissionDarkCurrentFile", trans_grp);
setPropertyGroup("TransmissionUseSampleDC", trans_grp);
setPropertyGroup("ThetaDependentTransmission", trans_grp);
// Background options
std::string bck_grp = "Background";
declareProperty("BackgroundFiles", "", "Background data files");
declareProperty("BckTransmissionMethod", "Value",
boost::make_shared<StringListValidator>(transOptions),
"Transmission determination method");
// - Transmission value entered by hand
declareProperty("BckTransmissionValue", EMPTY_DBL(), positiveDouble,
"Transmission value.");
setPropertySettings("BckTransmissionValue",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO, "Value"));
declareProperty("BckTransmissionError", EMPTY_DBL(), positiveDouble,
"Transmission error.");
setPropertySettings("BckTransmissionError",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO, "Value"));
// - Direct beam method transmission calculation
declareProperty(
"BckTransmissionBeamRadius", 3.0,
"Radius of the beam area used to compute the transmission [pixels]");
setPropertySettings("BckTransmissionBeamRadius",
make_unique<VisibleWhenProperty>(
"BckTransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
declareProperty(
make_unique<API::FileProperty>("BckTransmissionSampleDataFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"Sample data file for transmission calculation");
setPropertySettings("BckTransmissionSampleDataFile",
make_unique<VisibleWhenProperty>(
"BckTransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
declareProperty(
make_unique<API::FileProperty>("BckTransmissionEmptyDataFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"Empty data file for transmission calculation");
setPropertySettings("BckTransmissionEmptyDataFile",
make_unique<VisibleWhenProperty>(
"BckTransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
// - transmission beam center
declareProperty("BckTransmissionBeamCenterMethod", "None",
boost::make_shared<StringListValidator>(centerOptions),
"Method for determining the transmission data beam center");
setPropertySettings("BckTransmissionBeamCenterMethod",
make_unique<VisibleWhenProperty>(
"BckTransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
// Option 1: Set beam center by hand
declareProperty("BckTransmissionBeamCenterX", EMPTY_DBL(),
"Transmission beam center location in X [pixels]");
setPropertySettings("BckTransmissionBeamCenterX",
make_unique<VisibleWhenProperty>(
"BckTransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
declareProperty("BckTransmissionBeamCenterY", EMPTY_DBL(),
"Transmission beam center location in Y [pixels]");
// Option 2: Find it (expose properties from FindCenterOfMass)
setPropertySettings("BckTransmissionBeamCenterY",
make_unique<VisibleWhenProperty>(
"BckTransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
declareProperty(
make_unique<API::FileProperty>("BckTransmissionBeamCenterFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"The name of the input data file to load");
setPropertySettings("BckTransmissionBeamCenterFile",
make_unique<VisibleWhenProperty>(
"BckTransmissionMethod", IS_EQUAL_TO, "DirectBeam"));
// - Beam spreader transmission method
declareProperty(
make_unique<API::FileProperty>("BckTransSampleSpreaderFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("BckTransSampleSpreaderFilename",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO,
"BeamSpreader"));
declareProperty(
make_unique<API::FileProperty>("BckTransDirectSpreaderFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("BckTransDirectSpreaderFilename",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO,
"BeamSpreader"));
declareProperty(
make_unique<API::FileProperty>("BckTransSampleScatteringFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("BckTransSampleScatteringFilename",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO,
"BeamSpreader"));
declareProperty(
make_unique<API::FileProperty>("BckTransDirectScatteringFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("BckTransDirectScatteringFilename",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO,
"BeamSpreader"));
declareProperty("BckSpreaderTransmissionValue", 1.0,
"Beam spreader transmission value");
setPropertySettings("BckSpreaderTransmissionValue",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO,
"BeamSpreader"));
declareProperty("BckSpreaderTransmissionError", 0.0,
"Beam spreader transmission error");
setPropertySettings("BckSpreaderTransmissionError",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO,
"BeamSpreader"));
declareProperty(
make_unique<API::FileProperty>("BckTransmissionDarkCurrentFile", "",
API::FileProperty::OptionalLoad, ".xml"),
"The name of the input data file to load as background "
"transmission dark current.");
setPropertySettings("BckTransmissionDarkCurrentFile",
make_unique<VisibleWhenProperty>("BckTransmissionMethod",
IS_EQUAL_TO,
"BeamSpreader"));
declareProperty(
"BckThetaDependentTransmission", true,
"If true, a theta-dependent transmission correction will be applied.");
setPropertyGroup("BackgroundFiles", bck_grp);
setPropertyGroup("BckTransmissionMethod", bck_grp);
setPropertyGroup("BckTransmissionValue", bck_grp);
setPropertyGroup("BckTransmissionError", bck_grp);
setPropertyGroup("BckTransmissionBeamRadius", bck_grp);
setPropertyGroup("BckTransmissionSampleDataFile", bck_grp);
setPropertyGroup("BckTransmissionEmptyDataFile", bck_grp);
setPropertyGroup("BckTransmissionBeamCenterMethod", bck_grp);
setPropertyGroup("BckTransmissionBeamCenterX", bck_grp);
setPropertyGroup("BckTransmissionBeamCenterY", bck_grp);
setPropertyGroup("BckTransmissionBeamCenterFile", bck_grp);
setPropertyGroup("BckTransSampleSpreaderFilename", bck_grp);
setPropertyGroup("BckTransDirectSpreaderFilename", bck_grp);
setPropertyGroup("BckTransSampleScatteringFilename", bck_grp);
setPropertyGroup("BckTransDirectScatteringFilename", bck_grp);
setPropertyGroup("BckSpreaderTransmissionValue", bck_grp);
setPropertyGroup("BckSpreaderTransmissionError", bck_grp);
setPropertyGroup("BckTransmissionDarkCurrentFile", bck_grp);
setPropertyGroup("BckThetaDependentTransmission", bck_grp);
// Geometry correction
declareProperty("SampleThickness", EMPTY_DBL(), "Sample thickness [cm]");
// Masking
std::string mask_grp = "Mask";
declareProperty(make_unique<ArrayProperty<int>>("MaskedDetectorList"),
"List of detector IDs to be masked");
declareProperty(
make_unique<ArrayProperty<int>>("MaskedEdges"),
"Number of pixels to mask on the edges: X-low, X-high, Y-low, Y-high");
declareProperty(
"MaskedComponent", "",
"Component Name to mask the edges according to the IDF file.");
std::vector<std::string> maskOptions;
maskOptions.emplace_back("None");
maskOptions.emplace_back("Front");
maskOptions.emplace_back("Back");
declareProperty("MaskedSide", "None",
boost::make_shared<StringListValidator>(maskOptions),
"Mask one side of the detector");
declareProperty(
"MaskedFullComponent", "",
"Component Name to mask the edges according to the IDF file.");
setPropertyGroup("MaskedDetectorList", mask_grp);
setPropertyGroup("MaskedEdges", mask_grp);
setPropertyGroup("MaskedComponent", mask_grp);
setPropertyGroup("MaskedSide", mask_grp);
setPropertyGroup("MaskedFullComponent", mask_grp);
// Absolute scale
std::string abs_scale_grp = "Absolute Scale";
std::vector<std::string> scaleOptions;
scaleOptions.emplace_back("None");
scaleOptions.emplace_back("Value");
scaleOptions.emplace_back("ReferenceData");
declareProperty("AbsoluteScaleMethod", "None",
boost::make_shared<StringListValidator>(scaleOptions),
"Absolute scale correction method");
declareProperty("AbsoluteScalingFactor", 1.0, "Absolute scaling factor");
setPropertySettings("AbsoluteScalingFactor",
make_unique<VisibleWhenProperty>("AbsoluteScaleMethod",
IS_EQUAL_TO, "Value"));
declareProperty(
make_unique<API::FileProperty>("AbsoluteScalingReferenceFilename", "",
API::FileProperty::OptionalLoad, ".xml"));
setPropertySettings("AbsoluteScalingReferenceFilename",
make_unique<VisibleWhenProperty>(
"AbsoluteScaleMethod", IS_EQUAL_TO, "ReferenceData"));
declareProperty(
"AbsoluteScalingBeamDiameter", 0.0,
"Beamstop diameter for computing the absolute scale factor [mm]. "
"Read from file if not supplied.");
setPropertySettings("AbsoluteScalingBeamDiameter",
make_unique<VisibleWhenProperty>(
"AbsoluteScaleMethod", IS_EQUAL_TO, "ReferenceData"));
declareProperty(
"AbsoluteScalingAttenuatorTrans", 1.0,
"Attenuator transmission value for computing the absolute scale factor");
setPropertySettings("AbsoluteScalingAttenuatorTrans",
make_unique<VisibleWhenProperty>(
"AbsoluteScaleMethod", IS_EQUAL_TO, "ReferenceData"));
declareProperty("AbsoluteScalingApplySensitivity", false,
"Apply sensitivity correction to the reference data "
"when computing the absolute scale factor");
setPropertySettings("AbsoluteScalingApplySensitivity",
make_unique<VisibleWhenProperty>(
"AbsoluteScaleMethod", IS_EQUAL_TO, "ReferenceData"));
setPropertyGroup("AbsoluteScaleMethod", abs_scale_grp);
setPropertyGroup("AbsoluteScalingFactor", abs_scale_grp);
setPropertyGroup("AbsoluteScalingReferenceFilename", abs_scale_grp);
setPropertyGroup("AbsoluteScalingBeamDiameter", abs_scale_grp);
setPropertyGroup("AbsoluteScalingAttenuatorTrans", abs_scale_grp);
setPropertyGroup("AbsoluteScalingApplySensitivity", abs_scale_grp);
// I(Q) calculation
std::string iq1d_grp = "I(q) Calculation";
declareProperty("DoAzimuthalAverage", true);
declareProperty(make_unique<ArrayProperty<double>>(
"IQBinning", boost::make_shared<RebinParamsValidator>(true)));
auto positiveInt = boost::make_shared<BoundedValidator<int>>();
positiveInt->setLower(0);
declareProperty("IQNumberOfBins", 100, positiveInt,
"Number of I(q) bins when binning is not specified.");
declareProperty("IQLogBinning", false,
"I(q) log binning when binning is not specified.");
declareProperty(
"IQAlignLogWithDecades", false,
"If true and log binning was selected, the bins will be aligned to log "
"decades "
"and the number of bins will be used as the number of bins per decade.");
declareProperty(
"NumberOfSubpixels", 1, positiveInt,
"Number of sub-pixels used for each detector pixel in each direction."
"The total number of sub-pixels will be NPixelDivision*NPixelDivision.");
declareProperty(
"ErrorWeighting", false,
"Choose whether each pixel contribution will be weighted by 1/error^2.");
// Wedge options
declareProperty("NumberOfWedges", 2, positiveInt,
"Number of wedges to calculate.");
declareProperty("WedgeAngle", 30.0,
"Opening angle of each wedge, in degrees.");
declareProperty("WedgeOffset", 0.0,
"Angular offset for the wedges, in degrees.");
declareProperty("Do2DReduction", true);
declareProperty("IQ2DNumberOfBins", 100, positiveInt,
"Number of I(qx,qy) bins.");
setPropertyGroup("DoAzimuthalAverage", iq1d_grp);
setPropertyGroup("IQBinning", iq1d_grp);
setPropertyGroup("IQNumberOfBins", iq1d_grp);
setPropertyGroup("IQLogBinning", iq1d_grp);
setPropertyGroup("NumberOfSubpixels", iq1d_grp);
setPropertyGroup("ErrorWeighting", iq1d_grp);
declareProperty("ProcessInfo", "", "Additional process information");
declareProperty("OutputDirectory", "",
"Directory to put the output files in");
declareProperty("OutputMessage", "", Direction::Output);
declareProperty("ReductionProperties", "__sans_reduction_properties",
Direction::Input);
}
void SetupHFIRReduction::exec() {
// Reduction property manager
const std::string reductionManagerName = getProperty("ReductionProperties");
if (reductionManagerName.size() == 0) {
g_log.error() << "ERROR: Reduction Property Manager name is empty\n";
return;
}
boost::shared_ptr<PropertyManager> reductionManager =
boost::make_shared<PropertyManager>();
PropertyManagerDataService::Instance().addOrReplace(reductionManagerName,
reductionManager);
// Store name of the instrument
reductionManager->declareProperty(make_unique<PropertyWithValue<std::string>>(
"InstrumentName", "HFIRSANS"));
// Store additional (and optional) process information
const std::string processInfo = getProperty("ProcessInfo");
reductionManager->declareProperty(
Kernel::make_unique<PropertyWithValue<std::string>>("ProcessInfo",
processInfo));
// Store the output directory
const std::string outputDirectory = getProperty("OutputDirectory");
reductionManager->declareProperty(
Kernel::make_unique<PropertyWithValue<std::string>>("OutputDirectory",
outputDirectory));
// Load algorithm
const double sdd = getProperty("SampleDetectorDistance");
const double sddOffset = getProperty("SampleDetectorDistanceOffset");
const double wavelength = getProperty("Wavelength");
const double wavelengthSpread = getProperty("WavelengthSpread");
IAlgorithm_sptr loadAlg = createChildAlgorithm("HFIRLoad");
if (!isEmpty(sdd))
loadAlg->setProperty("SampleDetectorDistance", sdd);
if (!isEmpty(sddOffset))
loadAlg->setProperty("SampleDetectorDistanceOffset", sddOffset);
if (!isEmpty(wavelength)) {
loadAlg->setProperty("Wavelength", wavelength);
loadAlg->setProperty("WavelengthSpread", wavelengthSpread);
}
auto loadAlgProp = make_unique<AlgorithmProperty>("LoadAlgorithm");
loadAlgProp->setValue(loadAlg->toString());
reductionManager->declareProperty(std::move(loadAlgProp));
// Beam center
const double beamCenterX = getProperty("BeamCenterX");
const double beamCenterY = getProperty("BeamCenterY");
const std::string centerMethod = getPropertyValue("BeamCenterMethod");
// Beam center option for transmission data
if (boost::iequals(centerMethod, "Value")) {
if (!isEmpty(beamCenterX) && !isEmpty(beamCenterY)) {
reductionManager->declareProperty(make_unique<PropertyWithValue<double>>(
"LatestBeamCenterX", beamCenterX));
reductionManager->declareProperty(make_unique<PropertyWithValue<double>>(
"LatestBeamCenterY", beamCenterY));
}
} else if (!boost::iequals(centerMethod, "None")) {
bool useDirectBeamMethod = true;
if (!boost::iequals(centerMethod, "DirectBeam"))
useDirectBeamMethod = false;
const std::string beamCenterFile = getProperty("BeamCenterFile");
if (beamCenterFile.size() > 0) {
const double beamRadius = getProperty("BeamRadius");
IAlgorithm_sptr ctrAlg = createChildAlgorithm("SANSBeamFinder");
ctrAlg->setProperty("Filename", beamCenterFile);
ctrAlg->setProperty("UseDirectBeamMethod", useDirectBeamMethod);
if (!isEmpty(beamRadius))
ctrAlg->setProperty("BeamRadius", beamRadius);
ctrAlg->setPropertyValue("ReductionProperties", reductionManagerName);
auto beamFinderAlgProp =
make_unique<AlgorithmProperty>("SANSBeamFinderAlgorithm");
beamFinderAlgProp->setValue(ctrAlg->toString());
reductionManager->declareProperty(std::move(beamFinderAlgProp));
} else {
g_log.error() << "ERROR: Beam center determination was required"
" but no file was provided\n";
}
}
// Store dark current algorithm
const std::string darkCurrentFile = getPropertyValue("DarkCurrentFile");
if (darkCurrentFile.size() > 0) {
IAlgorithm_sptr darkAlg =
createChildAlgorithm("HFIRDarkCurrentSubtraction");
darkAlg->setProperty("Filename", darkCurrentFile);
darkAlg->setProperty("OutputDarkCurrentWorkspace", "");
darkAlg->setPropertyValue("ReductionProperties", reductionManagerName);
auto dcAlgProp = make_unique<AlgorithmProperty>("DarkCurrentAlgorithm");
dcAlgProp->setValue(darkAlg->toString());
reductionManager->declareProperty(std::move(dcAlgProp));
}
// Store default dark current algorithm
IAlgorithm_sptr darkDefaultAlg =
createChildAlgorithm("HFIRDarkCurrentSubtraction");
darkDefaultAlg->setProperty("OutputDarkCurrentWorkspace", "");
darkDefaultAlg->setPropertyValue("ReductionProperties", reductionManagerName);
auto ddcAlgProp =
make_unique<AlgorithmProperty>("DefaultDarkCurrentAlgorithm");
ddcAlgProp->setValue(darkDefaultAlg->toString());
reductionManager->declareProperty(std::move(ddcAlgProp));
// Solid angle correction
const bool solidAngleCorrection = getProperty("SolidAngleCorrection");
const bool isTubeDetector = getProperty("DetectorTubes");
const bool isCurvedDetector = getProperty("DetectorWing");
if (solidAngleCorrection) {
IAlgorithm_sptr solidAlg = createChildAlgorithm("SANSSolidAngleCorrection");
solidAlg->setProperty("DetectorTubes", isTubeDetector);
solidAlg->setProperty("DetectorWing", isCurvedDetector);
auto ssaAlgProp =
make_unique<AlgorithmProperty>("SANSSolidAngleCorrection");
ssaAlgProp->setValue(solidAlg->toString());
reductionManager->declareProperty(std::move(ssaAlgProp));
}
// Normalization
const std::string normalization = getProperty("Normalisation");
if (!boost::contains(normalization, "None")) {
IAlgorithm_sptr normAlg = createChildAlgorithm("HFIRSANSNormalise");
normAlg->setProperty("NormalisationType", normalization);
auto normAlgProp = make_unique<AlgorithmProperty>("NormaliseAlgorithm");
normAlgProp->setValue(normAlg->toString());
reductionManager->declareProperty(std::move(normAlgProp));
reductionManager->declareProperty(
Kernel::make_unique<PropertyWithValue<std::string>>(
"TransmissionNormalisation", normalization));
} else
reductionManager->declareProperty(
make_unique<PropertyWithValue<std::string>>("TransmissionNormalisation",
"Timer"));
// Sensitivity correction, transmission and background
setupSensitivity(reductionManager);
setupTransmission(reductionManager);
setupBackground(reductionManager);
// Geometry correction
const double thickness = getProperty("SampleThickness");
if (!isEmpty(thickness)) {
IAlgorithm_sptr thickAlg = createChildAlgorithm("NormaliseByThickness");
thickAlg->setProperty("SampleThickness", thickness);
auto thickAlgProp = make_unique<AlgorithmProperty>("GeometryAlgorithm");
thickAlgProp->setValue(thickAlg->toString());
reductionManager->declareProperty(std::move(thickAlgProp));
}
// Mask
const std::string maskDetList = getPropertyValue("MaskedDetectorList");
const std::string maskEdges = getPropertyValue("MaskedEdges");
const std::string maskSide = getProperty("MaskedSide");
const std::string maskComponent = getPropertyValue("MaskedComponent");
const std::string maskFullComponent = getPropertyValue("MaskedFullComponent");
IAlgorithm_sptr maskAlg = createChildAlgorithm("SANSMask");
// The following is broken, try PropertyValue
maskAlg->setPropertyValue("Facility", "HFIR");
maskAlg->setPropertyValue("MaskedDetectorList", maskDetList);
maskAlg->setPropertyValue("MaskedEdges", maskEdges);
maskAlg->setProperty("MaskedSide", maskSide);
maskAlg->setProperty("MaskedComponent", maskComponent);
maskAlg->setProperty("MaskedFullComponent", maskFullComponent);
auto maskAlgProp = make_unique<AlgorithmProperty>("MaskAlgorithm");
maskAlgProp->setValue(maskAlg->toString());
reductionManager->declareProperty(std::move(maskAlgProp));
// Absolute scaling
const std::string absScaleMethod = getProperty("AbsoluteScaleMethod");
if (boost::iequals(absScaleMethod, "Value")) {
const double absScaleFactor = getProperty("AbsoluteScalingFactor");
IAlgorithm_sptr absAlg = createChildAlgorithm("SANSAbsoluteScale");
absAlg->setProperty("Method", absScaleMethod);
absAlg->setProperty("ScalingFactor", absScaleFactor);
absAlg->setPropertyValue("ReductionProperties", reductionManagerName);
auto absScaleAlgProp =
make_unique<AlgorithmProperty>("AbsoluteScaleAlgorithm");
absScaleAlgProp->setValue(absAlg->toString());
reductionManager->declareProperty(std::move(absScaleAlgProp));
} else if (boost::iequals(absScaleMethod, "ReferenceData")) {
const std::string absRefFile =
getPropertyValue("AbsoluteScalingReferenceFilename");
const double beamDiam = getProperty("AbsoluteScalingBeamDiameter");
const double attTrans = getProperty("AbsoluteScalingAttenuatorTrans");
const bool applySensitivity =
getProperty("AbsoluteScalingApplySensitivity");
IAlgorithm_sptr absAlg = createChildAlgorithm("SANSAbsoluteScale");
absAlg->setProperty("Method", absScaleMethod);
absAlg->setProperty("ReferenceDataFilename", absRefFile);
absAlg->setProperty("BeamstopDiameter", beamDiam);
absAlg->setProperty("AttenuatorTransmission", attTrans);
absAlg->setProperty("ApplySensitivity", applySensitivity);
absAlg->setPropertyValue("ReductionProperties", reductionManagerName);
auto refScaleAlgProp =
make_unique<AlgorithmProperty>("AbsoluteScaleAlgorithm");
refScaleAlgProp->setValue(absAlg->toString());
reductionManager->declareProperty(std::move(refScaleAlgProp));
}
// Azimuthal averaging
const bool doAveraging = getProperty("DoAzimuthalAverage");
if (doAveraging) {
const std::string binning = getPropertyValue("IQBinning");
const std::string n_bins = getPropertyValue("IQNumberOfBins");
const bool log_binning = getProperty("IQLogBinning");
const std::string n_subpix = getPropertyValue("NumberOfSubpixels");
const bool err_weighting = getProperty("ErrorWeighting");
const std::string n_wedges = getPropertyValue("NumberOfWedges");
const double wedge_angle = getProperty("WedgeAngle");
const double wedge_offset = getProperty("WedgeOffset");
const bool align = getProperty("IQAlignLogWithDecades");
IAlgorithm_sptr iqAlg = createChildAlgorithm("SANSAzimuthalAverage1D");
iqAlg->setPropertyValue("Binning", binning);
iqAlg->setPropertyValue("NumberOfBins", n_bins);
iqAlg->setProperty("LogBinning", log_binning);
iqAlg->setPropertyValue("NumberOfSubpixels", n_subpix);
iqAlg->setProperty("ErrorWeighting", err_weighting);
iqAlg->setProperty("ComputeResolution", true);
iqAlg->setProperty("NumberOfWedges", n_wedges);
iqAlg->setProperty("WedgeAngle", wedge_angle);
iqAlg->setProperty("WedgeOffset", wedge_offset);
iqAlg->setProperty("AlignWithDecades", align);
iqAlg->setPropertyValue("ReductionProperties", reductionManagerName);
auto iqAlgProp = make_unique<AlgorithmProperty>("IQAlgorithm");
iqAlgProp->setValue(iqAlg->toString());
reductionManager->declareProperty(std::move(iqAlgProp));
}
// 2D reduction
const bool do2DReduction = getProperty("Do2DReduction");
if (do2DReduction) {
const std::string n_bins = getPropertyValue("IQ2DNumberOfBins");
IAlgorithm_sptr iqAlg = createChildAlgorithm("EQSANSQ2D");
iqAlg->setPropertyValue("NumberOfBins", n_bins);
auto xyAlgProp = make_unique<AlgorithmProperty>("IQXYAlgorithm");
xyAlgProp->setValue(iqAlg->toString());
reductionManager->declareProperty(std::move(xyAlgProp));
}
setPropertyValue("OutputMessage", "HFIR reduction options set");
// Save a string representation of this algorithm
auto setupAlgProp = make_unique<AlgorithmProperty>("SetupAlgorithm");
setupAlgProp->setValue(toString());
reductionManager->declareProperty(std::move(setupAlgProp));
}
void SetupHFIRReduction::setupSensitivity(
boost::shared_ptr<PropertyManager> reductionManager) {
const std::string reductionManagerName = getProperty("ReductionProperties");
const std::string sensitivityFile = getPropertyValue("SensitivityFile");
if (sensitivityFile.size() > 0) {
const bool useSampleDC = getProperty("UseDefaultDC");
const std::string sensitivityDarkCurrentFile =
getPropertyValue("SensitivityDarkCurrentFile");
const std::string outputSensitivityWS =
getPropertyValue("OutputSensitivityWorkspace");
const double minEff = getProperty("MinEfficiency");
const double maxEff = getProperty("MaxEfficiency");
const double sensitivityBeamCenterX = getProperty("SensitivityBeamCenterX");
const double sensitivityBeamCenterY = getProperty("SensitivityBeamCenterY");
const std::string maskFullComponent =
getPropertyValue("MaskedFullComponent");
const std::string maskComponent = getPropertyValue("MaskedComponent");
// nx_low=0, nx_high=0, ny_low=0, ny_high=0
std::vector<int> maskEdges = getProperty("MaskedEdges");
// it only make sense masking edges for sensitivity if there are a lot of
// pixels masked
// Let'a assume more than 10:
std::stringstream maskEdgesStringStream;
for (size_t i = 0; i < maskEdges.size(); i++) {
if (i != 0)
maskEdgesStringStream << ",";
if (maskEdges[i] <= 10)
maskEdgesStringStream << 0;
else
maskEdgesStringStream << maskEdges[i];
}
IAlgorithm_sptr effAlg = createChildAlgorithm("SANSSensitivityCorrection");
effAlg->setProperty("Filename", sensitivityFile);
effAlg->setProperty("UseSampleDC", useSampleDC);
effAlg->setProperty("DarkCurrentFile", sensitivityDarkCurrentFile);
effAlg->setProperty("MinEfficiency", minEff);
effAlg->setProperty("MaxEfficiency", maxEff);
effAlg->setProperty("MaskedFullComponent", maskFullComponent);
effAlg->setProperty("MaskedComponent", maskComponent);
effAlg->setPropertyValue("MaskedEdges", maskEdgesStringStream.str());
// Beam center option for sensitivity data
const std::string centerMethod =
getPropertyValue("SensitivityBeamCenterMethod");
if (boost::iequals(centerMethod, "Value")) {
if (!isEmpty(sensitivityBeamCenterX) &&
!isEmpty(sensitivityBeamCenterY)) {
effAlg->setProperty("BeamCenterX", sensitivityBeamCenterX);
effAlg->setProperty("BeamCenterY", sensitivityBeamCenterY);
}
} else if (boost::iequals(centerMethod, "DirectBeam") ||
boost::iequals(centerMethod, "Scattering")) {
const std::string beamCenterFile =
getProperty("SensitivityBeamCenterFile");
const double sensitivityBeamRadius =
getProperty("SensitivityBeamCenterRadius");
bool useDirectBeam = boost::iequals(centerMethod, "DirectBeam");
if (beamCenterFile.size() > 0) {
IAlgorithm_sptr ctrAlg = createChildAlgorithm("SANSBeamFinder");
ctrAlg->setProperty("Filename", beamCenterFile);
ctrAlg->setProperty("UseDirectBeamMethod", useDirectBeam);
ctrAlg->setProperty("PersistentCorrection", false);
if (useDirectBeam && !isEmpty(sensitivityBeamRadius))
ctrAlg->setProperty("BeamRadius", sensitivityBeamRadius);
ctrAlg->setPropertyValue("ReductionProperties", reductionManagerName);
auto beamCentreAlgProp =
make_unique<AlgorithmProperty>("SensitivityBeamCenterAlgorithm");
beamCentreAlgProp->setValue(ctrAlg->toString());
reductionManager->declareProperty(std::move(beamCentreAlgProp));
} else {
g_log.error()
<< "ERROR: Sensitivity beam center determination was required"
" but no file was provided\n";
}
}
effAlg->setProperty("OutputSensitivityWorkspace", outputSensitivityWS);
effAlg->setPropertyValue("ReductionProperties", reductionManagerName);
auto effAlgProp = make_unique<AlgorithmProperty>("SensitivityAlgorithm");
effAlgProp->setValue(effAlg->toString());
reductionManager->declareProperty(std::move(effAlgProp));
}
}
void SetupHFIRReduction::setupBackground(
boost::shared_ptr<PropertyManager> reductionManager) {
const std::string reductionManagerName = getProperty("ReductionProperties");
// Background
const std::string backgroundFile = getPropertyValue("BackgroundFiles");
if (backgroundFile.size() > 0)
reductionManager->declareProperty(
Kernel::make_unique<PropertyWithValue<std::string>>("BackgroundFiles",
backgroundFile));
else
return;
const std::string darkCurrent =
getPropertyValue("BckTransmissionDarkCurrentFile");
const bool bckThetaDependentTrans =
getProperty("BckThetaDependentTransmission");
const std::string bckTransMethod = getProperty("BckTransmissionMethod");
if (boost::iequals(bckTransMethod, "Value")) {
const double transValue = getProperty("BckTransmissionValue");
const double transError = getProperty("BckTransmissionError");
if (!isEmpty(transValue) && !isEmpty(transError)) {
IAlgorithm_sptr transAlg =
createChildAlgorithm("ApplyTransmissionCorrection");
transAlg->setProperty("TransmissionValue", transValue);