/**
Determine in the WorkspaceGroup is multiperiod.
* @return True if the WorkspaceGroup instance is multiperiod.
*/
bool WorkspaceGroup::isMultiperiod() const {
std::lock_guard<std::recursive_mutex> _lock(m_mutex);
if (m_workspaces.empty()) {
g_log.debug("Not a multiperiod-group with < 1 nested workspace.");
return false;
}
// Loop through all inner workspaces, checking each one in turn.
for (const auto &workspace : m_workspaces) {
if (MatrixWorkspace_sptr ws =
boost::dynamic_pointer_cast<MatrixWorkspace>(workspace)) {
try {
Kernel::Property *nPeriodsProp = ws->run().getLogData("nperiods");
int num = -1;
Kernel::Strings::convert(nPeriodsProp->value(), num);
if (num < 1) {
g_log.debug("Not a multiperiod-group with nperiods log < 1.");
return false;
}
} catch (Kernel::Exception::NotFoundError &) {
g_log.debug("Not a multiperiod-group without nperiods log on all "
"nested workspaces.");
return false;
}
} else {
g_log.debug("Not a multiperiod-group unless all inner workspaces are "
"Matrix Workspaces.");
return false;
}
}
return true;
}
/**
* Set up starting values for cached variables
*/
void MDNormDirectSC::cacheInputs() {
m_inputWS = getProperty("InputWorkspace");
bool skipCheck = getProperty("SkipSafetyCheck");
if (!skipCheck && (inputEnergyMode() != "Direct")) {
throw std::invalid_argument("Invalid energy transfer mode. Algorithm only "
"supports direct geometry spectrometers.");
}
// Min/max dimension values
const auto hdim(m_inputWS->getDimension(0)), kdim(m_inputWS->getDimension(1)),
ldim(m_inputWS->getDimension(2)), edim(m_inputWS->getDimension(3));
m_hmin = hdim->getMinimum();
m_kmin = kdim->getMinimum();
m_lmin = ldim->getMinimum();
m_dEmin = edim->getMinimum();
m_hmax = hdim->getMaximum();
m_kmax = kdim->getMaximum();
m_lmax = ldim->getMaximum();
m_dEmax = edim->getMaximum();
const auto &exptInfoZero = *(m_inputWS->getExperimentInfo(0));
auto source = exptInfoZero.getInstrument()->getSource();
auto sample = exptInfoZero.getInstrument()->getSample();
if (source == nullptr || sample == nullptr) {
throw Kernel::Exception::InstrumentDefinitionError(
"Instrument not sufficiently defined: failed to get source and/or "
"sample");
}
m_samplePos = sample->getPos();
m_beamDir = m_samplePos - source->getPos();
m_beamDir.normalize();
double originaldEmin = exptInfoZero.run().getBinBoundaries().front();
double originaldEmax = exptInfoZero.run().getBinBoundaries().back();
if (exptInfoZero.run().hasProperty("Ei")) {
Kernel::Property *eiprop = exptInfoZero.run().getProperty("Ei");
m_Ei = boost::lexical_cast<double>(eiprop->value());
if (m_Ei <= 0) {
throw std::invalid_argument("Ei stored in the workspace is not positive");
}
} else {
throw std::invalid_argument("Could not find Ei value in the workspace.");
}
double eps = 1e-7;
if (m_Ei - originaldEmin < eps) {
originaldEmin = m_Ei - eps;
}
if (m_Ei - originaldEmax < eps) {
originaldEmax = m_Ei - 1e-7;
}
if (originaldEmin == originaldEmax) {
throw std::runtime_error("The limits of the original workspace used in "
"ConvertToMD are incorrect");
}
const double energyToK = 8.0 * M_PI * M_PI * PhysicalConstants::NeutronMass *
PhysicalConstants::meV * 1e-20 /
(PhysicalConstants::h * PhysicalConstants::h);
m_ki = std::sqrt(energyToK * m_Ei);
m_kfmin = std::sqrt(energyToK * (m_Ei - originaldEmin));
m_kfmax = std::sqrt(energyToK * (m_Ei - originaldEmax));
}
/** Loads and checks the values passed to the algorithm
*
* @throw invalid_argument if there is an incapatible property value so the algorithm can't continue
*/
void DetectorEfficiencyCor::retrieveProperties()
{
// these first three properties are fully checked by validators
m_inputWS = getProperty("InputWorkspace");
m_paraMap = &(m_inputWS->instrumentParameters());
m_Ei = getProperty("IncidentEnergy");
// If we're not given an Ei, see if one has been set.
if( m_Ei == EMPTY_DBL() )
{
if( m_inputWS->run().hasProperty("Ei") )
{
Kernel::Property* eiprop = m_inputWS->run().getProperty("Ei");
m_Ei = boost::lexical_cast<double>(eiprop->value());
g_log.debug() << "Using stored Ei value " << m_Ei << "\n";
}
else
{
throw std::invalid_argument("No Ei value has been set or stored within the run information.");
}
}
m_outputWS = getProperty("OutputWorkspace");
// If input and output workspaces are not the same, create a new workspace for the output
if (m_outputWS != m_inputWS )
{
m_outputWS = WorkspaceFactory::Instance().create(m_inputWS);
}
}
/**
* Copy logs from the input workspace to the output workspace
* and don't replace any mathcing logs in the output workspace.
*/
void CopyLogs::mergeKeepExisting(
const std::vector<Kernel::Property *> &inputLogs, Run &outputRun) {
for (auto iter = inputLogs.begin(); iter != inputLogs.end(); ++iter) {
Kernel::Property *prop = *iter;
// add the log only if it doesn't already exist
if (!outputRun.hasProperty(prop->name())) {
outputRun.addLogData(prop->clone());
}
}
}
T ConvertEmptyToTof::getPropertyFromRun(API::MatrixWorkspace_const_sptr inputWS,
const std::string &propertyName) {
if (inputWS->run().hasProperty(propertyName)) {
Kernel::Property *prop = inputWS->run().getProperty(propertyName);
return boost::lexical_cast<T>(prop->value());
} else {
std::string mesg =
"No '" + propertyName + "' property found in the input workspace....";
throw std::runtime_error(mesg);
}
}
/**
* Copy logs from the input workspace to the output workspace
* and replace any matching logs with the ones from the input workspace.
*/
void CopyLogs::mergeReplaceExisting(
const std::vector<Kernel::Property *> &inputLogs, Run &outputRun) {
for (auto iter = inputLogs.begin(); iter != inputLogs.end(); ++iter) {
Kernel::Property *prop = *iter;
// if the log exists, remove and replace it
if (outputRun.hasProperty(prop->name())) {
outputRun.removeLogData(prop->name());
}
outputRun.addLogData(prop->clone());
}
}
std::string AlgorithmHasProperty::checkValidity(
const boost::shared_ptr<IAlgorithm> &value) const {
std::string message;
if (value->existsProperty(m_propName)) {
Kernel::Property *p = value->getProperty(m_propName);
if (!p->isValid().empty()) {
message = "Algorithm object contains the required property \"" +
m_propName + "\" but it has an invalid value: " + p->value();
}
} else {
message = "Algorithm object does not have the required property \"" +
m_propName + "\"";
}
return message;
}
TimeAtSampleStrategy *FilterEvents::setupDirectTOFCorrection() const {
// Get incident energy Ei
double ei = 0.;
if (m_eventWS->run().hasProperty("Ei")) {
Kernel::Property *eiprop = m_eventWS->run().getProperty("Ei");
ei = boost::lexical_cast<double>(eiprop->value());
g_log.debug() << "Using stored Ei value " << ei << "\n";
} else {
ei = getProperty("IncidentEnergy");
if (isEmpty(ei))
throw std::invalid_argument(
"No Ei value has been set or stored within the run information.");
g_log.debug() << "Using user-input Ei value " << ei << "\n";
}
return new TimeAtSampleStrategyDirect(m_eventWS, ei);
}
/** This method creates an XML element named "Run"
* @param sasRun :: string for run element in the xml
*/
void SaveCanSAS1D::createSASRunElement(std::string& sasRun)
{
//initialise the run number to an empty string, this may or may not be changed later
std::string run;
if( m_workspace->run().hasProperty("run_number") )
{
Kernel::Property *logP = m_workspace->run().getLogData("run_number");
run = logP->value();
}
else
{
g_log.debug() << "Didn't find RunNumber log in workspace. Writing <Run></Run> to the CANSAS file\n";
}
searchandreplaceSpecialChars(run);
sasRun="\n\t\t<Run>";
sasRun+=run;
sasRun+="</Run>";
}
/** Write value from a RunInfo property (i.e., log) to a stream
*/
void writeLogValue(std::ostream &os, const Run &runinfo,
const std::string &name,
const std::string &defValue = "UNKNOWN") {
// Return without property exists
if (!runinfo.hasProperty(name)) {
os << defValue;
return;
}
// Get handler of property
Kernel::Property *prop = runinfo.getProperty(name);
// Return without a valid pointer to property
if (prop == NULL) {
os << defValue;
return;
}
// Get value
Kernel::TimeSeriesProperty<double> *log =
dynamic_cast<Kernel::TimeSeriesProperty<double> *>(prop);
if (log) {
// Time series to get mean
os << log->getStatistics().mean;
} else {
// None time series
os << prop->value();
}
// Unit
std::string units = prop->units();
if (!units.empty())
os << " " << units;
return;
}
/** Execute the algorithm.
*/
void ConvertToDiffractionMDWorkspace::exec() {
Timer tim, timtotal;
CPUTimer cputim, cputimtotal;
// ---------------------- Extract properties
// --------------------------------------
ClearInputWorkspace = getProperty("ClearInputWorkspace");
Append = getProperty("Append");
std::string OutputDimensions = getPropertyValue("OutputDimensions");
LorentzCorrection = getProperty("LorentzCorrection");
OneEventPerBin = getProperty("OneEventPerBin");
// -------- Input workspace -> convert to Event
// ------------------------------------
m_inWS = getProperty("InputWorkspace");
Workspace2D_sptr m_InWS2D = boost::dynamic_pointer_cast<Workspace2D>(m_inWS);
if (LorentzCorrection) {
API::Run &run = m_inWS->mutableRun();
if (run.hasProperty("LorentzCorrection")) {
Kernel::Property *prop = run.getProperty("LorentzCorrection");
bool lorentzDone = boost::lexical_cast<bool, std::string>(prop->value());
if (lorentzDone) {
LorentzCorrection = false;
g_log.warning() << "Lorentz Correction was already done for this "
"workspace. LorentzCorrection was changed to false."
<< std::endl;
}
}
}
m_inEventWS = boost::dynamic_pointer_cast<EventWorkspace>(m_inWS);
// check the input units
if (m_inWS->getAxis(0)->unit()->unitID() != "TOF")
throw std::invalid_argument(
"Input event workspace's X axis must be in TOF units.");
// Try to get the output workspace
IMDEventWorkspace_sptr i_out = getProperty("OutputWorkspace");
ws = boost::dynamic_pointer_cast<
DataObjects::MDEventWorkspace<DataObjects::MDLeanEvent<3>, 3>>(i_out);
// Initalize the matrix to 3x3 identity
mat = Kernel::Matrix<double>(3, 3, true);
// ----------------- Handle the type of output
// -------------------------------------
std::string dimensionNames[3] = {"Q_lab_x", "Q_lab_y", "Q_lab_z"};
Mantid::Kernel::SpecialCoordinateSystem coordinateSystem =
Mantid::Kernel::QLab;
// Setup the MDFrame
auto frameFactory = makeMDFrameFactoryChain();
Mantid::Geometry::MDFrame_uptr frame;
if (OutputDimensions == "Q (sample frame)") {
// Set the matrix based on goniometer angles
mat = m_inWS->mutableRun().getGoniometerMatrix();
// But we need to invert it, since we want to get the Q in the sample frame.
mat.Invert();
// Names
dimensionNames[0] = "Q_sample_x";
dimensionNames[1] = "Q_sample_y";
dimensionNames[2] = "Q_sample_z";
coordinateSystem = Mantid::Kernel::QSample;
// Frame
MDFrameArgument frameArgQSample(QSample::QSampleName, "");
frame = frameFactory->create(frameArgQSample);
} else if (OutputDimensions == "HKL") {
// Set the matrix based on UB etc.
Kernel::Matrix<double> ub =
m_inWS->mutableSample().getOrientedLattice().getUB();
Kernel::Matrix<double> gon = m_inWS->mutableRun().getGoniometerMatrix();
// As per Busing and Levy 1967, q_lab_frame = 2pi * Goniometer * UB * HKL
// Therefore, HKL = (2*pi * Goniometer * UB)^-1 * q_lab_frame
mat = gon * ub;
mat.Invert();
// Divide by 2 PI to account for our new convention, |Q| = 2pi / wl
// (December 2011, JZ)
mat /= (2 * M_PI);
dimensionNames[0] = "H";
dimensionNames[1] = "K";
dimensionNames[2] = "L";
coordinateSystem = Mantid::Kernel::HKL;
MDFrameArgument frameArgQLab(HKL::HKLName, Units::Symbol::RLU.ascii());
frame = frameFactory->create(frameArgQLab);
} else {
MDFrameArgument frameArgQLab(QLab::QLabName, "");
frame = frameFactory->create(frameArgQLab);
}
// Q in the lab frame is the default, so nothing special to do.
if (ws && Append) {
// Check that existing workspace dimensions make sense with the desired one
// (using the name)
if (ws->getDimension(0)->getName() != dimensionNames[0])
throw std::runtime_error("The existing MDEventWorkspace " +
ws->getName() +
" has different dimensions than were requested! "
"Either give a different name for the output, "
"or change the OutputDimensions parameter.");
}
// ------------------- Create the output workspace if needed
// ------------------------
if (!ws || !Append) {
// Create an output workspace with 3 dimensions.
size_t nd = 3;
i_out = DataObjects::MDEventFactory::CreateMDWorkspace(nd, "MDLeanEvent");
ws = boost::dynamic_pointer_cast<DataObjects::MDEventWorkspace3Lean>(i_out);
// ---------------- Get the extents -------------
std::vector<double> extents = getProperty("Extents");
// Replicate a single min,max into several
if (extents.size() == 2) {
for (size_t d = 1; d < nd; d++) {
extents.push_back(extents[0]);
extents.push_back(extents[1]);
}
}
if (extents.size() != nd * 2)
throw std::invalid_argument(
"You must specify either 2 or 6 extents (min,max).");
// Give all the dimensions
for (size_t d = 0; d < nd; d++) {
MDHistoDimension *dim =
new MDHistoDimension(dimensionNames[d], dimensionNames[d], *frame,
static_cast<coord_t>(extents[d * 2]),
static_cast<coord_t>(extents[d * 2 + 1]), 10);
ws->addDimension(MDHistoDimension_sptr(dim));
}
ws->initialize();
// Build up the box controller, using the properties in
// BoxControllerSettingsAlgorithm
BoxController_sptr bc = ws->getBoxController();
this->setBoxController(bc, m_inWS->getInstrument());
// We always want the box to be split (it will reject bad ones)
ws->splitBox();
// Perform minimum recursion depth splitting
int minDepth = this->getProperty("MinRecursionDepth");
int maxDepth = this->getProperty("MaxRecursionDepth");
if (minDepth > maxDepth)
throw std::invalid_argument(
"MinRecursionDepth must be <= MaxRecursionDepth ");
ws->setMinRecursionDepth(size_t(minDepth));
}
ws->splitBox();
if (!ws)
throw std::runtime_error("Error creating a 3D MDEventWorkspace!");
BoxController_sptr bc = ws->getBoxController();
if (!bc)
throw std::runtime_error(
"Output MDEventWorkspace does not have a BoxController!");
// Cache the extents for speed.
m_extentsMin = new coord_t[3];
m_extentsMax = new coord_t[3];
for (size_t d = 0; d < 3; d++) {
m_extentsMin[d] = ws->getDimension(d)->getMinimum();
m_extentsMax[d] = ws->getDimension(d)->getMaximum();
}
// Copy ExperimentInfo (instrument, run, sample) to the output WS
ExperimentInfo_sptr ei(m_inWS->cloneExperimentInfo());
uint16_t runIndex = ws->addExperimentInfo(ei);
UNUSED_ARG(runIndex);
// ------------------- Cache values that are common for all
// ---------------------------
// Extract some parameters global to the instrument
m_inWS->getInstrument()->getInstrumentParameters(l1, beamline, beamline_norm,
samplePos);
beamline_norm = beamline.norm();
beamDir = beamline / beamline.norm();
// To get all the detector ID's
m_inWS->getInstrument()->getDetectors(allDetectors);
// Estimate the number of events in the final workspace
size_t totalEvents = m_inWS->size();
if (m_inEventWS && !OneEventPerBin)
totalEvents = m_inEventWS->getNumberEvents();
prog = boost::make_shared<Progress>(this, 0, 1.0, totalEvents);
// Is the addition of events thread-safe?
bool MultiThreadedAdding = m_inWS->threadSafe();
// Create the thread pool that will run all of these.
ThreadScheduler *ts = new ThreadSchedulerFIFO();
ThreadPool tp(ts, 0);
// To track when to split up boxes
this->failedDetectorLookupCount = 0;
size_t eventsAdded = 0;
size_t approxEventsInOutput = 0;
size_t lastNumBoxes = ws->getBoxController()->getTotalNumMDBoxes();
if (DODEBUG)
g_log.information() << cputim << ": initial setup. There are "
<< lastNumBoxes << " MDBoxes.\n";
for (size_t wi = 0; wi < m_inWS->getNumberHistograms(); wi++) {
// Get an idea of how many events we'll be adding
size_t eventsAdding = m_inWS->blocksize();
if (m_inEventWS && !OneEventPerBin)
eventsAdding = m_inEventWS->getEventList(wi).getNumberEvents();
if (MultiThreadedAdding) {
// Equivalent to calling "this->convertSpectrum(wi)"
boost::function<void()> func =
boost::bind(&ConvertToDiffractionMDWorkspace::convertSpectrum, &*this,
static_cast<int>(wi));
// Give this task to the scheduler
double cost = static_cast<double>(eventsAdding);
ts->push(new FunctionTask(func, cost));
} else {
// Not thread-safe. Just add right now
this->convertSpectrum(static_cast<int>(wi));
}
// Keep a running total of how many events we've added
eventsAdded += eventsAdding;
approxEventsInOutput += eventsAdding;
if (bc->shouldSplitBoxes(approxEventsInOutput, eventsAdded, lastNumBoxes)) {
if (DODEBUG)
g_log.information() << cputim << ": Added tasks worth " << eventsAdded
<< " events. WorkspaceIndex " << wi << std::endl;
// Do all the adding tasks
tp.joinAll();
if (DODEBUG)
g_log.information() << cputim
<< ": Performing the addition of these events.\n";
// Now do all the splitting tasks
ws->splitAllIfNeeded(ts);
if (ts->size() > 0)
prog->doReport("Splitting Boxes");
tp.joinAll();
// Count the new # of boxes.
lastNumBoxes = ws->getBoxController()->getTotalNumMDBoxes();
if (DODEBUG)
g_log.information() << cputim
<< ": Performing the splitting. There are now "
<< lastNumBoxes << " boxes.\n";
eventsAdded = 0;
}
}
if (this->failedDetectorLookupCount > 0) {
if (this->failedDetectorLookupCount == 1)
g_log.warning() << "Unable to find a detector for "
<< this->failedDetectorLookupCount
<< " spectrum. It has been skipped." << std::endl;
else
g_log.warning() << "Unable to find detectors for "
<< this->failedDetectorLookupCount
<< " spectra. They have been skipped." << std::endl;
}
if (DODEBUG)
g_log.information() << cputim << ": We've added tasks worth " << eventsAdded
<< " events.\n";
tp.joinAll();
if (DODEBUG)
g_log.information() << cputim
<< ": Performing the FINAL addition of these events.\n";
// Do a final splitting of everything
ws->splitAllIfNeeded(ts);
tp.joinAll();
if (DODEBUG)
g_log.information()
<< cputim << ": Performing the FINAL splitting of boxes. There are now "
<< ws->getBoxController()->getTotalNumMDBoxes() << " boxes\n";
// Recount totals at the end.
cputim.reset();
ws->refreshCache();
if (DODEBUG)
g_log.information() << cputim << ": Performing the refreshCache().\n";
// TODO: Centroid in parallel, maybe?
// ws->getBox()->refreshCentroid(NULL);
// if (DODEBUG) g_log.information() << cputim << ": Performing the
// refreshCentroid().\n";
if (DODEBUG) {
g_log.information() << "Workspace has " << ws->getNPoints()
<< " events. This took " << cputimtotal
<< " in total.\n";
std::vector<std::string> stats = ws->getBoxControllerStats();
for (auto &stat : stats)
g_log.information() << stat << "\n";
g_log.information() << std::endl;
}
// Set the special coordinate system.
ws->setCoordinateSystem(coordinateSystem);
// Save the output
setProperty("OutputWorkspace",
boost::dynamic_pointer_cast<IMDEventWorkspace>(ws));
// Clean up
delete[] m_extentsMin;
delete[] m_extentsMax;
}
/** Write the header information, which is independent of bank, from the given
* workspace
* @param format :: The string containing the header formatting
* @param os :: The stream to use to write the information
* @param primaryflightpath :: Value for the moderator to sample distance
*/
void SaveGSS::writeHeaders(const std::string &format, std::stringstream &os,
double primaryflightpath) const {
const Run &runinfo = inputWS->run();
// Run number
if (format.compare(SLOG) == 0) {
os << "Sample Run: ";
writeLogValue(os, runinfo, "run_number");
os << " Vanadium Run: ";
writeLogValue(os, runinfo, "van_number");
os << " Wavelength: ";
writeLogValue(os, runinfo, "LambdaRequest");
os << "\n";
}
if (this->getProperty("ExtendedHeader")) {
// the instrument parameter file
if (runinfo.hasProperty("iparm_file")) {
Kernel::Property *prop = runinfo.getProperty("iparm_file");
if (prop != NULL && (!prop->value().empty())) {
std::stringstream line;
line << "#Instrument parameter file: " << prop->value();
os << std::setw(80) << std::left << line.str() << "\n";
}
}
// write out the gsas monitor counts
os << "Monitor: ";
if (runinfo.hasProperty("gsas_monitor")) {
writeLogValue(os, runinfo, "gsas_monitor");
} else {
writeLogValue(os, runinfo, "gd_prtn_chrg", "1");
}
os << "\n";
}
if (format.compare(SLOG) == 0) {
os << "# "; // make the next line a comment
}
os << inputWS->getTitle() << "\n";
os << "# " << inputWS->getNumberHistograms() << " Histograms\n";
os << "# File generated by Mantid:\n";
os << "# Instrument: " << inputWS->getInstrument()->getName() << "\n";
os << "# From workspace named : " << inputWS->getName() << "\n";
if (getProperty("MultiplyByBinWidth"))
os << "# with Y multiplied by the bin widths.\n";
os << "# Primary flight path " << primaryflightpath << "m \n";
if (format.compare(SLOG) == 0) {
os << "# Sample Temperature: ";
writeLogValue(os, runinfo, "SampleTemp");
os << " Freq: ";
writeLogValue(os, runinfo, "SpeedRequest1");
os << " Guide: ";
writeLogValue(os, runinfo, "guide");
os << "\n";
// print whether it is normalized by monitor or pcharge
bool norm_by_current = false;
bool norm_by_monitor = false;
const Mantid::API::AlgorithmHistories &algohist =
inputWS->getHistory().getAlgorithmHistories();
for (Mantid::API::AlgorithmHistories::const_iterator it = algohist.begin();
it != algohist.end(); ++it) {
if ((*it)->name().compare("NormaliseByCurrent") == 0)
norm_by_current = true;
if ((*it)->name().compare("NormaliseToMonitor") == 0)
norm_by_monitor = true;
}
os << "#";
if (norm_by_current)
os << " Normalised to pCharge";
if (norm_by_monitor)
os << " Normalised to monitor";
os << "\n";
}
return;
}
/**
* Clear the vector of strings and then add pairs of strings giving information
* about the specified point, x, y. The first string in a pair should
* generally be a string describing the value being presented and the second
* string should contain the value.
*
* @param x The x-coordinate of the point of interest in the data.
* @param y The y-coordinate of the point of interest in the data.
* @param list Vector that will be filled out with the information strings.
*/
void MatrixWSDataSource::getInfoList( double x,
double y,
std::vector<std::string> &list )
{
// First get the info that is always available for any matrix workspace
list.clear();
int row = (int)y;
restrictRow( row );
const ISpectrum* spec = m_matWs->getSpectrum( row );
double spec_num = spec->getSpectrumNo();
SVUtils::PushNameValue( "Spec Num", 8, 0, spec_num, list );
std::string x_label = "";
Unit_sptr& old_unit = m_matWs->getAxis(0)->unit();
if ( old_unit != 0 )
{
x_label = old_unit->caption();
SVUtils::PushNameValue( x_label, 8, 3, x, list );
}
std::set<detid_t> ids = spec->getDetectorIDs();
if ( !ids.empty() )
{
list.push_back("Det ID");
const int64_t id = static_cast<int64_t>(*(ids.begin()));
list.push_back(boost::lexical_cast<std::string>(id));
}
/* Now try to do various unit conversions to get equivalent info */
/* first make sure we can get the needed information */
if ( !(m_instrument && m_source && m_sample) )
{
return;
}
try
{
if ( old_unit == 0 )
{
g_log.debug("No UNITS on MatrixWorkspace X-axis");
return;
}
auto det = m_matWs->getDetector( row );
if ( det == 0 )
{
g_log.debug() << "No DETECTOR for row " << row << " in MatrixWorkspace" << std::endl;
return;
}
double l1 = m_source->getDistance(*m_sample);
double l2 = 0.0;
double two_theta = 0.0;
double azi = 0.0;
if ( det->isMonitor() )
{
l2 = det->getDistance(*m_source);
l2 = l2-l1;
}
else
{
l2 = det->getDistance(*m_sample);
two_theta = m_matWs->detectorTwoTheta(det);
azi = det->getPhi();
}
SVUtils::PushNameValue( "L2", 8, 4, l2, list );
SVUtils::PushNameValue( "TwoTheta", 8, 2, two_theta*180./M_PI, list );
SVUtils::PushNameValue( "Azimuthal", 8, 2, azi*180./M_PI, list );
/* For now, only support diffractometers and monitors. */
/* We need a portable way to determine emode and */
/* and efixed that will work for any matrix workspace! */
int emode = 0;
double efixed = 0.0;
double delta = 0.0;
// First try to get emode & efixed from the user
if ( m_emodeHandler != NULL )
{
efixed = m_emodeHandler->getEFixed();
if ( efixed != 0 )
{
emode = m_emodeHandler->getEMode();
if ( emode == 0 )
{
g_log.information("EMode invalid, spectrometer needed if emode != 0");
g_log.information("Assuming Direct Geometry Spectrometer....");
emode = 1;
}
}
}
// Did NOT get emode & efixed from user, try getting direct geometry information from the run object
if ( efixed == 0 )
{
const API::Run & run = m_matWs->run();
if ( run.hasProperty("Ei") )
{
Kernel::Property* prop = run.getProperty("Ei");
efixed = boost::lexical_cast<double,std::string>(prop->value());
emode = 1; // only correct if direct geometry
}
else if ( run.hasProperty("EnergyRequested") )
{
Kernel::Property* prop = run.getProperty("EnergyRequested");
efixed = boost::lexical_cast<double,std::string>(prop->value());
emode = 1;
}
else if ( run.hasProperty("EnergyEstimate") )
{
Kernel::Property* prop = run.getProperty("EnergyEstimate");
efixed = boost::lexical_cast<double,std::string>(prop->value());
emode = 1;
}
}
// Finally, try getting indirect geometry information from the detector object
if ( efixed == 0 )
{
if ( !(det->isMonitor() && det->hasParameter("Efixed")))
{
try
{
const ParameterMap& pmap = m_matWs->constInstrumentParameters();
Parameter_sptr par = pmap.getRecursive(det.get(),"Efixed");
if (par)
{
efixed = par->value<double>();
emode = 2;
}
}
catch ( std::runtime_error& )
{
g_log.debug() << "Failed to get Efixed from detector ID: "
<< det->getID() << " in MatrixWSDataSource" << std::endl;
efixed = 0;
}
}
}
if ( efixed == 0 )
emode = 0;
if ( m_emodeHandler != NULL )
{
m_emodeHandler -> setEFixed( efixed );
m_emodeHandler -> setEMode ( emode );
}
double tof = old_unit->convertSingleToTOF( x, l1, l2, two_theta,
emode, efixed, delta );
if ( ! (x_label == "Time-of-flight") )
SVUtils::PushNameValue( "Time-of-flight", 8, 1, tof, list );
if ( ! (x_label == "Wavelength") )
{
const Unit_sptr& wl_unit = UnitFactory::Instance().create("Wavelength");
double wavelength = wl_unit->convertSingleFromTOF( tof, l1, l2, two_theta,
emode, efixed, delta );
SVUtils::PushNameValue( "Wavelength", 8, 4, wavelength, list );
}
if ( ! (x_label == "Energy") )
{
const Unit_sptr& e_unit = UnitFactory::Instance().create("Energy");
double energy = e_unit->convertSingleFromTOF( tof, l1, l2, two_theta,
emode, efixed, delta );
SVUtils::PushNameValue( "Energy", 8, 4, energy, list );
}
if ( (! (x_label == "d-Spacing")) && (two_theta != 0.0) && ( emode == 0 ) )
{
const Unit_sptr& d_unit = UnitFactory::Instance().create("dSpacing");
double d_spacing = d_unit->convertSingleFromTOF( tof, l1, l2, two_theta,
emode, efixed, delta );
SVUtils::PushNameValue( "d-Spacing", 8, 4, d_spacing, list );
}
if ( (! (x_label == "q")) && (two_theta != 0.0) )
{
const Unit_sptr& q_unit=UnitFactory::Instance().create("MomentumTransfer");
double mag_q = q_unit->convertSingleFromTOF( tof, l1, l2, two_theta,
emode, efixed, delta );
SVUtils::PushNameValue( "|Q|", 8, 4, mag_q, list );
}
if ( (! (x_label == "DeltaE")) && (two_theta != 0.0) && ( emode != 0 ) )
{
const Unit_sptr& deltaE_unit=UnitFactory::Instance().create("DeltaE");
double delta_E = deltaE_unit->convertSingleFromTOF( tof, l1, l2, two_theta,
emode, efixed, delta );
SVUtils::PushNameValue( "DeltaE", 8, 4, delta_E, list );
}
}
catch (std::exception & e)
{
g_log.debug() << "Failed to get information from Workspace:" << e.what() << std::endl;
}
}
void ModeratorTzero::execEvent(const std::string &emode) {
g_log.information("Processing event workspace");
const MatrixWorkspace_const_sptr matrixInputWS =
getProperty("InputWorkspace");
EventWorkspace_const_sptr inputWS =
boost::dynamic_pointer_cast<const EventWorkspace>(matrixInputWS);
// generate the output workspace pointer
const size_t numHists = static_cast<size_t>(inputWS->getNumberHistograms());
Mantid::API::MatrixWorkspace_sptr matrixOutputWS =
getProperty("OutputWorkspace");
EventWorkspace_sptr outputWS;
if (matrixOutputWS == matrixInputWS) {
outputWS = boost::dynamic_pointer_cast<EventWorkspace>(matrixOutputWS);
} else {
// Make a brand new EventWorkspace
outputWS = boost::dynamic_pointer_cast<EventWorkspace>(
WorkspaceFactory::Instance().create("EventWorkspace", numHists, 2, 1));
// Copy geometry over.
WorkspaceFactory::Instance().initializeFromParent(inputWS, outputWS, false);
// You need to copy over the data as well.
outputWS->copyDataFrom((*inputWS));
// Cast to the matrixOutputWS and save it
matrixOutputWS = boost::dynamic_pointer_cast<MatrixWorkspace>(outputWS);
setProperty("OutputWorkspace", matrixOutputWS);
}
// Get pointers to sample and source
IComponent_const_sptr source = m_instrument->getSource();
IComponent_const_sptr sample = m_instrument->getSample();
double Lss = source->getDistance(*sample); // distance from source to sample
// calculate tof shift once for all neutrons if emode==Direct
double t0_direct(-1);
if (emode == "Direct") {
Kernel::Property *eiprop = inputWS->run().getProperty("Ei");
double Ei = boost::lexical_cast<double>(eiprop->value());
mu::Parser parser;
parser.DefineVar("incidentEnergy", &Ei); // associate E1 to this parser
parser.SetExpr(m_formula);
t0_direct = parser.Eval();
}
// Loop over the spectra
Progress prog(this, 0.0, 1.0, numHists); // report progress of algorithm
PARALLEL_FOR1(outputWS)
for (int i = 0; i < static_cast<int>(numHists); ++i) {
PARALLEL_START_INTERUPT_REGION
size_t wsIndex = static_cast<size_t>(i);
EventList &evlist = outputWS->getEventList(wsIndex);
if (evlist.getNumberEvents() > 0) // don't bother with empty lists
{
IDetector_const_sptr det;
double L1(Lss); // distance from source to sample
double L2(-1); // distance from sample to detector
try {
det = inputWS->getDetector(i);
if (det->isMonitor()) {
// redefine the sample as the monitor
L1 = source->getDistance(*det);
L2 = 0;
} else {
L2 = sample->getDistance(*det);
}
} catch (Exception::NotFoundError &) {
g_log.error() << "Unable to calculate distances to/from detector" << i
<< std::endl;
}
if (L2 >= 0) {
// One parser for each parallel processor needed (except Edirect mode)
double E1;
mu::Parser parser;
parser.DefineVar("incidentEnergy", &E1); // associate E1 to this parser
parser.SetExpr(m_formula);
// fast neutrons are shifted by min_t0_next, irrespective of tof
double v1_max = L1 / m_t1min;
E1 = m_convfactor * v1_max * v1_max;
double min_t0_next = parser.Eval();
if (emode == "Indirect") {
double t2(-1.0); // time from sample to detector. (-1) signals error
if (det->isMonitor()) {
t2 = 0.0;
} else {
static const double convFact =
1.0e-6 * sqrt(2 * PhysicalConstants::meV /
PhysicalConstants::NeutronMass);
std::vector<double> wsProp = det->getNumberParameter("Efixed");
if (!wsProp.empty()) {
double E2 = wsProp.at(0); //[E2]=meV
double v2 = convFact * sqrt(E2); //[v2]=meter/microsec
t2 = L2 / v2;
} else {
// t2 is kept to -1 if no Efixed is found
g_log.debug() << "Efixed not found for detector " << i
<< std::endl;
}
}
if (t2 >= 0) // t2 < 0 when no detector info is available
{
// fix the histogram bins
MantidVec &x = evlist.dataX();
for (double &tof : x) {
if (tof < m_t1min + t2)
tof -= min_t0_next;
else
tof -= CalculateT0indirect(tof, L1, t2, E1, parser);
}
MantidVec tofs = evlist.getTofs();
for (double &tof : tofs) {
if (tof < m_t1min + t2)
tof -= min_t0_next;
else
tof -= CalculateT0indirect(tof, L1, t2, E1, parser);
}
evlist.setTofs(tofs);
evlist.setSortOrder(Mantid::DataObjects::EventSortType::UNSORTED);
} // end of if( t2>= 0)
} // end of if(emode=="Indirect")
else if (emode == "Elastic") {
// Apply t0 correction to histogram bins
MantidVec &x = evlist.dataX();
for (double &tof : x) {
if (tof < m_t1min * (L1 + L2) / L1)
tof -= min_t0_next;
else
tof -= CalculateT0elastic(tof, L1 + L2, E1, parser);
}
MantidVec tofs = evlist.getTofs();
for (double &tof : tofs) {
// add a [-0.1,0.1] microsecond noise to avoid artifacts
// resulting from original tof data
if (tof < m_t1min * (L1 + L2) / L1)
tof -= min_t0_next;
else
tof -= CalculateT0elastic(tof, L1 + L2, E1, parser);
}
evlist.setTofs(tofs);
evlist.setSortOrder(Mantid::DataObjects::EventSortType::UNSORTED);
MantidVec tofs_b = evlist.getTofs();
MantidVec xarray = evlist.readX();
} // end of else if(emode=="Elastic")
else if (emode == "Direct") {
// fix the histogram bins
MantidVec &x = evlist.dataX();
for (double &tof : x) {
tof -= t0_direct;
}
MantidVec tofs = evlist.getTofs();
for (double &tof : tofs) {
tof -= t0_direct;
}
evlist.setTofs(tofs);
evlist.setSortOrder(Mantid::DataObjects::EventSortType::UNSORTED);
} // end of else if(emode=="Direct")
} // end of if(L2 >= 0)
} // end of if (evlist.getNumberEvents() > 0)
prog.report();
PARALLEL_END_INTERUPT_REGION
} // end of for (int i = 0; i < static_cast<int>(numHists); ++i)
PARALLEL_CHECK_INTERUPT_REGION
outputWS->clearMRU(); // Clears the Most Recent Used lists */
} // end of void ModeratorTzero::execEvent()
void ModeratorTzero::execEvent(const std::string &emode) {
g_log.information("Processing event workspace");
const MatrixWorkspace_const_sptr matrixInputWS =
getProperty("InputWorkspace");
// generate the output workspace pointer
API::MatrixWorkspace_sptr matrixOutputWS = getProperty("OutputWorkspace");
if (matrixOutputWS != matrixInputWS) {
matrixOutputWS = matrixInputWS->clone();
setProperty("OutputWorkspace", matrixOutputWS);
}
auto outputWS = boost::dynamic_pointer_cast<EventWorkspace>(matrixOutputWS);
// calculate tof shift once for all neutrons if emode==Direct
double t0_direct(-1);
if (emode == "Direct") {
Kernel::Property *eiprop = outputWS->run().getProperty("Ei");
double Ei = boost::lexical_cast<double>(eiprop->value());
mu::Parser parser;
parser.DefineVar("incidentEnergy", &Ei); // associate E1 to this parser
parser.SetExpr(m_formula);
t0_direct = parser.Eval();
}
const auto &spectrumInfo = outputWS->spectrumInfo();
const double Lss = spectrumInfo.l1();
// Loop over the spectra
const size_t numHists = static_cast<size_t>(outputWS->getNumberHistograms());
Progress prog(this, 0.0, 1.0, numHists); // report progress of algorithm
PARALLEL_FOR_IF(Kernel::threadSafe(*outputWS))
for (int i = 0; i < static_cast<int>(numHists); ++i) {
PARALLEL_START_INTERUPT_REGION
size_t wsIndex = static_cast<size_t>(i);
EventList &evlist = outputWS->getSpectrum(wsIndex);
if (evlist.getNumberEvents() > 0) // don't bother with empty lists
{
double L1(Lss); // distance from source to sample
double L2(-1); // distance from sample to detector
if (spectrumInfo.hasDetectors(i)) {
if (spectrumInfo.isMonitor(i)) {
// redefine the sample as the monitor
L1 = Lss + spectrumInfo.l2(i); // L2 in SpectrumInfo defined negative
L2 = 0;
} else {
L2 = spectrumInfo.l2(i);
}
} else {
g_log.error() << "Unable to calculate distances to/from detector" << i
<< '\n';
}
if (L2 >= 0) {
// One parser for each parallel processor needed (except Edirect mode)
double E1;
mu::Parser parser;
parser.DefineVar("incidentEnergy", &E1); // associate E1 to this parser
parser.SetExpr(m_formula);
// fast neutrons are shifted by min_t0_next, irrespective of tof
double v1_max = L1 / m_t1min;
E1 = m_convfactor * v1_max * v1_max;
double min_t0_next = parser.Eval();
if (emode == "Indirect") {
double t2(-1.0); // time from sample to detector. (-1) signals error
if (spectrumInfo.isMonitor(i)) {
t2 = 0.0;
} else {
static const double convFact =
1.0e-6 * sqrt(2 * PhysicalConstants::meV /
PhysicalConstants::NeutronMass);
std::vector<double> wsProp =
spectrumInfo.detector(i).getNumberParameter("Efixed");
if (!wsProp.empty()) {
double E2 = wsProp.at(0); //[E2]=meV
double v2 = convFact * sqrt(E2); //[v2]=meter/microsec
t2 = L2 / v2;
} else {
// t2 is kept to -1 if no Efixed is found
g_log.debug() << "Efixed not found for detector " << i << '\n';
}
}
if (t2 >= 0) // t2 < 0 when no detector info is available
{
// fix the histogram bins
auto &x = evlist.mutableX();
for (double &tof : x) {
if (tof < m_t1min + t2)
tof -= min_t0_next;
else
tof -= CalculateT0indirect(tof, L1, t2, E1, parser);
}
MantidVec tofs = evlist.getTofs();
for (double &tof : tofs) {
if (tof < m_t1min + t2)
tof -= min_t0_next;
else
tof -= CalculateT0indirect(tof, L1, t2, E1, parser);
}
evlist.setTofs(tofs);
evlist.setSortOrder(Mantid::DataObjects::EventSortType::UNSORTED);
} // end of if( t2>= 0)
} // end of if(emode=="Indirect")
else if (emode == "Elastic") {
// Apply t0 correction to histogram bins
auto &x = evlist.mutableX();
for (double &tof : x) {
if (tof < m_t1min * (L1 + L2) / L1)
tof -= min_t0_next;
else
tof -= CalculateT0elastic(tof, L1 + L2, E1, parser);
}
MantidVec tofs = evlist.getTofs();
for (double &tof : tofs) {
// add a [-0.1,0.1] microsecond noise to avoid artifacts
// resulting from original tof data
if (tof < m_t1min * (L1 + L2) / L1)
tof -= min_t0_next;
else
tof -= CalculateT0elastic(tof, L1 + L2, E1, parser);
}
evlist.setTofs(tofs);
evlist.setSortOrder(Mantid::DataObjects::EventSortType::UNSORTED);
} // end of else if(emode=="Elastic")
else if (emode == "Direct") {
// fix the histogram bins
evlist.mutableX() -= t0_direct;
MantidVec tofs = evlist.getTofs();
for (double &tof : tofs) {
tof -= t0_direct;
}
evlist.setTofs(tofs);
evlist.setSortOrder(Mantid::DataObjects::EventSortType::UNSORTED);
} // end of else if(emode=="Direct")
} // end of if(L2 >= 0)
} // end of if (evlist.getNumberEvents() > 0)
prog.report();
PARALLEL_END_INTERUPT_REGION
} // end of for (int i = 0; i < static_cast<int>(numHists); ++i)
PARALLEL_CHECK_INTERUPT_REGION
outputWS->clearMRU(); // Clears the Most Recent Used lists */
} // end of void ModeratorTzero::execEvent()
void CorrectKiKf::exec()
{
// Get the workspaces
this->inputWS = this->getProperty("InputWorkspace");
this->outputWS = this->getProperty("OutputWorkspace");
// If input and output workspaces are not the same, create a new workspace for the output
if (this->outputWS != this->inputWS)
{
this->outputWS = API::WorkspaceFactory::Instance().create(this->inputWS);
}
//Check if it is an event workspace
EventWorkspace_const_sptr eventW = boost::dynamic_pointer_cast<const EventWorkspace>(inputWS);
if (eventW != NULL)
{
this->execEvent();
return;
}
const size_t size = this->inputWS->blocksize();
// Calculate the number of spectra in this workspace
const int numberOfSpectra = static_cast<int>(this->inputWS->size() / size);
API::Progress prog(this,0.0,1.0,numberOfSpectra);
const bool histogram = this->inputWS->isHistogramData();
bool negativeEnergyWarning = false;
const std::string emodeStr = getProperty("EMode");
double efixedProp = getProperty("EFixed");
if( efixedProp == EMPTY_DBL() )
{
if (emodeStr == "Direct")
{
// Check if it has been store on the run object for this workspace
if( this->inputWS->run().hasProperty("Ei"))
{
Kernel::Property* eiprop = this->inputWS->run().getProperty("Ei");
efixedProp = boost::lexical_cast<double>(eiprop->value());
g_log.debug() << "Using stored Ei value " << efixedProp << "\n";
}
else
{
throw std::invalid_argument("No Ei value has been set or stored within the run information.");
}
}
else
{
// If not specified, will try to get Ef from the parameter file for indirect geometry,
// but it will be done for each spectrum separately, in case of different analyzer crystals
}
}
PARALLEL_FOR2(inputWS,outputWS)
for (int64_t i = 0; i < int64_t(numberOfSpectra); ++i)
{
PARALLEL_START_INTERUPT_REGION
double Efi = 0;
// Now get the detector object for this histogram to check if monitor
// or to get Ef for indirect geometry
if (emodeStr == "Indirect")
{
if ( efixedProp != EMPTY_DBL()) Efi = efixedProp;
else try
{
IDetector_const_sptr det = inputWS->getDetector(i);
if (!det->isMonitor())
{
std::vector< double > wsProp=det->getNumberParameter("Efixed");
if ( wsProp.size() > 0 )
{
Efi=wsProp.at(0);
g_log.debug() << i << " Ef: "<< Efi<<" (from parameter file)\n";
}
else
{
g_log.information() <<"Ef not found for spectrum "<< i << std::endl;
throw std::invalid_argument("No Ef value has been set or found.");
}
}
}
catch(std::runtime_error&) { g_log.information() << "Spectrum " << i << ": cannot find detector" << "\n"; }
}
MantidVec& yOut = outputWS->dataY(i);
MantidVec& eOut = outputWS->dataE(i);
const MantidVec& xIn = inputWS->readX(i);
const MantidVec& yIn = inputWS->readY(i);
const MantidVec& eIn = inputWS->readE(i);
//Copy the energy transfer axis
outputWS->setX( i, inputWS->refX(i) );
for (unsigned int j = 0; j < size; ++j)
{
const double deltaE = histogram ? 0.5*(xIn[j]+xIn[j+1]) : xIn[j];
double Ei=0.;
double Ef=0.;
double kioverkf = 1.;
if (emodeStr == "Direct") //Ei=Efixed
{
Ei = efixedProp;
Ef = Ei - deltaE;
} else //Ef=Efixed
{
Ef = Efi;
Ei = Efi + deltaE;
}
// if Ei or Ef is negative, it should be a warning
// however, if the intensity is 0 (histogram goes to energy transfer higher than Ei) it is still ok, so no warning.
if ((Ei <= 0)||(Ef <= 0))
{
kioverkf=0.;
if (yIn[j]!=0) negativeEnergyWarning=true;
}
else kioverkf = std::sqrt( Ei / Ef );
yOut[j] = yIn[j]*kioverkf;
eOut[j] = eIn[j]*kioverkf;
}
prog.report();
PARALLEL_END_INTERUPT_REGION
}//end for i
PARALLEL_CHECK_INTERUPT_REGION
if (negativeEnergyWarning) g_log.information() <<"Ef <= 0 or Ei <= 0 in at least one spectrum!!!!"<<std::endl;
if ((negativeEnergyWarning) && ( efixedProp == EMPTY_DBL())) g_log.information()<<"Try to set fixed energy"<<std::endl ;
this->setProperty("OutputWorkspace",this->outputWS);
return;
}
/**
* Execute the algorithm.
*/
void LoadBBY::exec() {
// Delete the output workspace name if it existed
std::string outName = getPropertyValue("OutputWorkspace");
if (API::AnalysisDataService::Instance().doesExist(outName))
API::AnalysisDataService::Instance().remove(outName);
// Get the name of the data file.
std::string filename = getPropertyValue(FilenameStr);
ANSTO::Tar::File tarFile(filename);
if (!tarFile.good())
throw std::invalid_argument("invalid BBY file");
// region of intreset
std::vector<bool> roi = createRoiVector(getPropertyValue(MaskStr));
double tofMinBoundary = getProperty(FilterByTofMinStr);
double tofMaxBoundary = getProperty(FilterByTofMaxStr);
double timeMinBoundary = getProperty(FilterByTimeStartStr);
double timeMaxBoundary = getProperty(FilterByTimeStopStr);
if (isEmpty(tofMaxBoundary))
tofMaxBoundary = std::numeric_limits<double>::infinity();
if (isEmpty(timeMaxBoundary))
timeMaxBoundary = std::numeric_limits<double>::infinity();
API::Progress prog(this, 0.0, 1.0, Progress_Total);
prog.doReport("creating instrument");
// create workspace
DataObjects::EventWorkspace_sptr eventWS =
boost::make_shared<DataObjects::EventWorkspace>();
eventWS->initialize(HISTO_BINS_Y * HISTO_BINS_X,
2, // number of TOF bin boundaries
1);
// set the units
eventWS->getAxis(0)->unit() = Kernel::UnitFactory::Instance().create("TOF");
eventWS->setYUnit("Counts");
// set title
const std::vector<std::string> &subFiles = tarFile.files();
for (const auto &subFile : subFiles)
if (subFile.compare(0, 3, "BBY") == 0) {
std::string title = subFile;
if (title.rfind(".hdf") == title.length() - 4)
title.resize(title.length() - 4);
if (title.rfind(".nx") == title.length() - 3)
title.resize(title.length() - 3);
eventWS->setTitle(title);
break;
}
// create instrument
InstrumentInfo instrumentInfo;
// Geometry::Instrument_sptr instrument =
createInstrument(tarFile, /* ref */ instrumentInfo);
// eventWS->setInstrument(instrument);
// load events
size_t numberHistograms = eventWS->getNumberHistograms();
std::vector<EventVector_pt> eventVectors(numberHistograms, nullptr);
std::vector<size_t> eventCounts(numberHistograms, 0);
// phase correction
Kernel::Property *periodMasterProperty =
getPointerToProperty(PeriodMasterStr);
Kernel::Property *periodSlaveProperty = getPointerToProperty(PeriodSlaveStr);
Kernel::Property *phaseSlaveProperty = getPointerToProperty(PhaseSlaveStr);
double periodMaster;
double periodSlave;
double phaseSlave;
if (periodMasterProperty->isDefault() || periodSlaveProperty->isDefault() ||
phaseSlaveProperty->isDefault()) {
if (!periodMasterProperty->isDefault() ||
!periodSlaveProperty->isDefault() || !phaseSlaveProperty->isDefault()) {
throw std::invalid_argument("Please specify PeriodMaster, PeriodSlave "
"and PhaseSlave or none of them.");
}
// if values have not been specified in loader then use values from hdf file
periodMaster = instrumentInfo.period_master;
periodSlave = instrumentInfo.period_slave;
phaseSlave = instrumentInfo.phase_slave;
} else {
periodMaster = getProperty(PeriodMasterStr);
periodSlave = getProperty(PeriodSlaveStr);
phaseSlave = getProperty(PhaseSlaveStr);
if ((periodMaster < 0.0) || (periodSlave < 0.0))
throw std::invalid_argument(
"Please specify a positive value for PeriodMaster and PeriodSlave.");
}
double period = periodSlave;
double shift = -1.0 / 6.0 * periodMaster - periodSlave * phaseSlave / 360.0;
// count total events per pixel to reserve necessary memory
ANSTO::EventCounter eventCounter(
roi, HISTO_BINS_Y, period, shift, tofMinBoundary, tofMaxBoundary,
timeMinBoundary, timeMaxBoundary, eventCounts);
loadEvents(prog, "loading neutron counts", tarFile, eventCounter);
// prepare event storage
ANSTO::ProgressTracker progTracker(prog, "creating neutron event lists",
numberHistograms, Progress_ReserveMemory);
for (size_t i = 0; i != numberHistograms; ++i) {
DataObjects::EventList &eventList = eventWS->getEventList(i);
eventList.setSortOrder(DataObjects::PULSETIME_SORT);
eventList.reserve(eventCounts[i]);
eventList.setDetectorID(static_cast<detid_t>(i));
eventList.setSpectrumNo(static_cast<detid_t>(i));
DataObjects::getEventsFrom(eventList, eventVectors[i]);
progTracker.update(i);
}
progTracker.complete();
ANSTO::EventAssigner eventAssigner(
roi, HISTO_BINS_Y, period, shift, tofMinBoundary, tofMaxBoundary,
timeMinBoundary, timeMaxBoundary, eventVectors);
loadEvents(prog, "loading neutron events", tarFile, eventAssigner);
Kernel::cow_ptr<MantidVec> axis;
MantidVec &xRef = axis.access();
xRef.resize(2, 0.0);
xRef[0] = std::max(
0.0,
floor(eventCounter.tofMin())); // just to make sure the bins hold it all
xRef[1] = eventCounter.tofMax() + 1;
eventWS->setAllX(axis);
// count total number of masked bins
size_t maskedBins = 0;
for (size_t i = 0; i != roi.size(); i++)
if (!roi[i])
maskedBins++;
if (maskedBins > 0) {
// create list of masked bins
std::vector<size_t> maskIndexList(maskedBins);
size_t maskIndex = 0;
for (size_t i = 0; i != roi.size(); i++)
if (!roi[i])
maskIndexList[maskIndex++] = i;
API::IAlgorithm_sptr maskingAlg = createChildAlgorithm("MaskDetectors");
maskingAlg->setProperty("Workspace", eventWS);
maskingAlg->setProperty("WorkspaceIndexList", maskIndexList);
maskingAlg->executeAsChildAlg();
}
// set log values
API::LogManager &logManager = eventWS->mutableRun();
logManager.addProperty("filename", filename);
logManager.addProperty("att_pos", static_cast<int>(instrumentInfo.att_pos));
logManager.addProperty("frame_count",
static_cast<int>(eventCounter.numFrames()));
logManager.addProperty("period", period);
// currently beam monitor counts are not available, instead number of frames
// times period is used
logManager.addProperty(
"bm_counts", static_cast<double>(eventCounter.numFrames()) * period /
1.0e6); // static_cast<double>(instrumentInfo.bm_counts)
// currently
Kernel::time_duration duration =
boost::posix_time::microseconds(static_cast<boost::int64_t>(
static_cast<double>(eventCounter.numFrames()) * period));
Kernel::DateAndTime start_time("2000-01-01T00:00:00");
Kernel::DateAndTime end_time(start_time + duration);
logManager.addProperty("start_time", start_time.toISO8601String());
logManager.addProperty("end_time", end_time.toISO8601String());
std::string time_str = start_time.toISO8601String();
AddSinglePointTimeSeriesProperty(logManager, time_str, "L1_chopper_value",
instrumentInfo.L1_chopper_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_det_value",
instrumentInfo.L2_det_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_curtainl_value",
instrumentInfo.L2_curtainl_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_curtainr_value",
instrumentInfo.L2_curtainr_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_curtainu_value",
instrumentInfo.L2_curtainu_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_curtaind_value",
instrumentInfo.L2_curtaind_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "D_det_value",
instrumentInfo.D_det_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "D_curtainl_value",
instrumentInfo.D_curtainl_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "D_curtainr_value",
instrumentInfo.D_curtainr_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "D_curtainu_value",
instrumentInfo.D_curtainu_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "D_curtaind_value",
instrumentInfo.D_curtaind_value);
AddSinglePointTimeSeriesProperty(logManager, time_str, "curtain_rotation",
10.0);
API::IAlgorithm_sptr loadInstrumentAlg =
createChildAlgorithm("LoadInstrument");
loadInstrumentAlg->setProperty("Workspace", eventWS);
loadInstrumentAlg->setPropertyValue("InstrumentName", "BILBY");
loadInstrumentAlg->setProperty("RewriteSpectraMap",
Mantid::Kernel::OptionalBool(false));
loadInstrumentAlg->executeAsChildAlg();
setProperty("OutputWorkspace", eventWS);
}
void CorrectKiKf::execEvent()
{
g_log.information("Processing event workspace");
const MatrixWorkspace_const_sptr matrixInputWS = this->getProperty("InputWorkspace");
EventWorkspace_const_sptr inputWS= boost::dynamic_pointer_cast<const EventWorkspace>(matrixInputWS);
// generate the output workspace pointer
API::MatrixWorkspace_sptr matrixOutputWS = this->getProperty("OutputWorkspace");
EventWorkspace_sptr outputWS;
if (matrixOutputWS == matrixInputWS)
outputWS = boost::dynamic_pointer_cast<EventWorkspace>(matrixOutputWS);
else
{
//Make a brand new EventWorkspace
outputWS = boost::dynamic_pointer_cast<EventWorkspace>(
API::WorkspaceFactory::Instance().create("EventWorkspace", inputWS->getNumberHistograms(), 2, 1));
//Copy geometry over.
API::WorkspaceFactory::Instance().initializeFromParent(inputWS, outputWS, false);
//You need to copy over the data as well.
outputWS->copyDataFrom( (*inputWS) );
//Cast to the matrixOutputWS and save it
matrixOutputWS = boost::dynamic_pointer_cast<MatrixWorkspace>(outputWS);
this->setProperty("OutputWorkspace", matrixOutputWS);
}
const std::string emodeStr = getProperty("EMode");
double efixedProp = getProperty("EFixed"),efixed;
if( efixedProp == EMPTY_DBL() )
{
if (emodeStr == "Direct")
{
// Check if it has been store on the run object for this workspace
if( this->inputWS->run().hasProperty("Ei"))
{
Kernel::Property* eiprop = this->inputWS->run().getProperty("Ei");
efixedProp = boost::lexical_cast<double>(eiprop->value());
g_log.debug() << "Using stored Ei value " << efixedProp << "\n";
}
else
{
throw std::invalid_argument("No Ei value has been set or stored within the run information.");
}
}
else
{
// If not specified, will try to get Ef from the parameter file for indirect geometry,
// but it will be done for each spectrum separately, in case of different analyzer crystals
}
}
// Get the parameter map
const ParameterMap& pmap = outputWS->constInstrumentParameters();
int64_t numHistograms = static_cast<int64_t>(inputWS->getNumberHistograms());
API::Progress prog = API::Progress(this, 0.0, 1.0, numHistograms);
PARALLEL_FOR1(outputWS)
for (int64_t i=0; i < numHistograms; ++i)
{
PARALLEL_START_INTERUPT_REGION
double Efi = 0;
// Now get the detector object for this histogram to check if monitor
// or to get Ef for indirect geometry
if (emodeStr == "Indirect")
{
if ( efixedProp != EMPTY_DBL()) Efi = efixedProp;
else try
{
IDetector_const_sptr det = inputWS->getDetector(i);
if (!det->isMonitor())
{
try
{
Parameter_sptr par = pmap.getRecursive(det.get(),"Efixed");
if (par)
{
Efi = par->value<double>();
g_log.debug() << "Detector: " << det->getID() << " EFixed: " << Efi << "\n";
}
}
catch (std::runtime_error&) { /* Throws if a DetectorGroup, use single provided value */ }
}
}
catch(std::runtime_error&) { g_log.information() << "Workspace Index " << i << ": cannot find detector" << "\n"; }
}
if (emodeStr == "Indirect") efixed=Efi;
else efixed=efixedProp;
//Do the correction
EventList *evlist=outputWS->getEventListPtr(i);
switch (evlist->getEventType())
{
case TOF:
//Switch to weights if needed.
evlist->switchTo(WEIGHTED);
/* no break */
// Fall through
case WEIGHTED:
correctKiKfEventHelper(evlist->getWeightedEvents(), efixed,emodeStr);
break;
case WEIGHTED_NOTIME:
correctKiKfEventHelper(evlist->getWeightedEventsNoTime(), efixed,emodeStr);
break;
}
prog.report();
PARALLEL_END_INTERUPT_REGION
}
PARALLEL_CHECK_INTERUPT_REGION
outputWS->clearMRU();
if (inputWS->getNumberEvents( ) != outputWS->getNumberEvents( ))
{
g_log.information() <<"Ef <= 0 or Ei <= 0 for "<<inputWS->getNumberEvents( )-outputWS->getNumberEvents( )<<" events, out of "<<inputWS->getNumberEvents( )<<std::endl;
if ( efixedProp == EMPTY_DBL()) g_log.information()<<"Try to set fixed energy"<<std::endl ;
}
}
