Example #1
0
int MaskPeaksWorkspace::findPixelID(std::string bankName, int col, int row) {
  Geometry::Instrument_const_sptr Iptr = m_inputW->getInstrument();
  boost::shared_ptr<const IComponent> parent =
      Iptr->getComponentByName(bankName);
  if (parent->type().compare("RectangularDetector") == 0) {
    boost::shared_ptr<const RectangularDetector> RDet =
        boost::dynamic_pointer_cast<const RectangularDetector>(parent);

    boost::shared_ptr<Detector> pixel = RDet->getAtXY(col, row);
    return pixel->getID();
  } else {
    std::string bankName0 = bankName;
    // Only works for WISH
    bankName0.erase(0, 4);
    std::ostringstream pixelString;
    pixelString << Iptr->getName() << "/" << bankName0 << "/" << bankName
                << "/tube" << std::setw(3) << std::setfill('0') << col
                << "/pixel" << std::setw(4) << std::setfill('0') << row;
    boost::shared_ptr<const Geometry::IComponent> component =
        Iptr->getComponentByName(pixelString.str());
    boost::shared_ptr<const Detector> pixel =
        boost::dynamic_pointer_cast<const Detector>(component);
    return pixel->getID();
  }
}
Example #2
0
/** Execute the algorithm.
 */
void EditInstrumentGeometry::exec() {
  // Lots of things have to do with the input workspace
  MatrixWorkspace_sptr workspace = getProperty("Workspace");
  Geometry::Instrument_const_sptr originstrument = workspace->getInstrument();

  // Get and check the primary flight path
  double l1 = this->getProperty("PrimaryFlightPath");
  if (isEmpty(l1)) {
    // Use the original L1
    if (!originstrument) {
      std::string errmsg(
          "It is not supported that L1 is not given, ",
          "while there is no instrument associated to input workspace.");
      g_log.error(errmsg);
      throw std::runtime_error(errmsg);
    }
    Geometry::IComponent_const_sptr source = originstrument->getSource();
    Geometry::IComponent_const_sptr sample = originstrument->getSample();
    l1 = source->getDistance(*sample);
    g_log.information() << "Retrieve L1 from input data workspace. \n";
  }
  g_log.information() << "Using L1 = " << l1 << "\n";

  // Get spectra number in case they are in a funny order
  std::vector<int32_t> specids = this->getProperty("SpectrumIDs");
  if (specids.empty()) // they are using the order of the input workspace
  {
    size_t numHist = workspace->getNumberHistograms();
    for (size_t i = 0; i < numHist; ++i) {
      specids.push_back(workspace->getSpectrum(i).getSpectrumNo());
      g_log.information() << "Add spectrum "
                          << workspace->getSpectrum(i).getSpectrumNo() << ".\n";
    }
  }

  // Get the detector ids - empsy means ignore it
  const vector<int> vec_detids = getProperty("DetectorIDs");
  const bool renameDetID(!vec_detids.empty());

  // Get individual detector geometries ordered by input spectrum Numbers
  const std::vector<double> l2s = this->getProperty("L2");
  const std::vector<double> tths = this->getProperty("Polar");
  std::vector<double> phis = this->getProperty("Azimuthal");

  // empty list of L2 and 2-theta is not allowed
  if (l2s.empty()) {
    throw std::runtime_error("User must specify L2 for all spectra. ");
  }
  if (tths.empty()) {
    throw std::runtime_error("User must specify 2theta for all spectra.");
  }

  // empty list of phi means that they are all zero
  if (phis.empty()) {
    phis.assign(l2s.size(), 0.);
  }

  // Validate
  for (size_t ib = 0; ib < l2s.size(); ib++) {
    g_log.information() << "Detector " << specids[ib] << "  L2 = " << l2s[ib]
                        << "  2Theta = " << tths[ib] << '\n';
    if (specids[ib] < 0) {
      // Invalid spectrum Number : less than 0.
      stringstream errmsgss;
      errmsgss << "Detector ID = " << specids[ib] << " cannot be less than 0.";
      throw std::invalid_argument(errmsgss.str());
    }
    if (l2s[ib] <= 0.0) {
      throw std::invalid_argument("L2 cannot be less or equal to 0");
    }
  }

  // Keep original instrument and set the new instrument, if necessary
  const auto spec2indexmap = workspace->getSpectrumToWorkspaceIndexMap();

  // ??? Condition: spectrum has 1 and only 1 detector
  size_t nspec = workspace->getNumberHistograms();

  // Initialize another set of L2/2-theta/Phi/DetectorIDs vector ordered by
  // workspace index
  std::vector<double> storL2s(nspec, 0.);
  std::vector<double> stor2Thetas(nspec, 0.);
  std::vector<double> storPhis(nspec, 0.);
  vector<int> storDetIDs(nspec, 0);

  // Map the properties from spectrum Number to workspace index
  for (size_t i = 0; i < specids.size(); i++) {
    // Find spectrum's workspace index
    auto it = spec2indexmap.find(specids[i]);
    if (it == spec2indexmap.end()) {
      stringstream errss;
      errss << "Spectrum Number " << specids[i] << " is not found. "
            << "Instrument won't be edited for this spectrum. \n";
      g_log.error(errss.str());
      throw std::runtime_error(errss.str());
    }

    // Store and set value
    size_t workspaceindex = it->second;

    storL2s[workspaceindex] = l2s[i];
    stor2Thetas[workspaceindex] = tths[i];
    storPhis[workspaceindex] = phis[i];
    if (renameDetID)
      storDetIDs[workspaceindex] = vec_detids[i];

    g_log.debug() << "workspace index = " << workspaceindex
                  << " is for Spectrum " << specids[i] << '\n';
  }

  // Generate a new instrument
  // Name of the new instrument
  std::string name = std::string(getProperty("InstrumentName"));
  if (name.empty()) {
    // Use the original L1
    if (!originstrument) {
      std::string errmsg(
          "It is not supported that InstrumentName is not given, ",
          "while there is no instrument associated to input workspace.");
      g_log.error(errmsg);
      throw std::runtime_error(errmsg);
    }
    name = originstrument->getName();
  }

  // Create a new instrument from scratch any way.
  auto instrument = boost::make_shared<Geometry::Instrument>(name);
  if (!bool(instrument)) {
    stringstream errss;
    errss << "Trying to use a Parametrized Instrument as an Instrument.";
    g_log.error(errss.str());
    throw std::runtime_error(errss.str());
  }

  // Set up source and sample information
  Geometry::ObjComponent *samplepos =
      new Geometry::ObjComponent("Sample", instrument.get());
  instrument->add(samplepos);
  instrument->markAsSamplePos(samplepos);
  samplepos->setPos(0.0, 0.0, 0.0);

  Geometry::ObjComponent *source =
      new Geometry::ObjComponent("Source", instrument.get());
  instrument->add(source);
  instrument->markAsSource(source);
  source->setPos(0.0, 0.0, -1.0 * l1);

  // Add/copy detector information
  auto indexInfo = workspace->indexInfo();
  std::vector<detid_t> detIDs;
  for (size_t i = 0; i < workspace->getNumberHistograms(); i++) {
    // Create a new detector.
    //    (Instrument will take ownership of pointer so no need to delete.)
    detid_t newdetid;
    if (renameDetID)
      newdetid = storDetIDs[i];
    else
      newdetid = detid_t(i) + 100;
    Geometry::Detector *detector =
        new Geometry::Detector("det", newdetid, samplepos);

    // Set up new detector parameters related to new instrument
    double l2 = storL2s[i];
    double tth = stor2Thetas[i];
    double phi = storPhis[i];

    Kernel::V3D pos;
    pos.spherical(l2, tth, phi);
    detector->setPos(pos);

    // Add new detector to spectrum and instrument
    // Good and do some debug output
    g_log.debug() << "Orignal spectrum " << indexInfo.spectrumNumber(i)
                  << "has " << indexInfo.detectorIDs(i).size()
                  << " detectors. \n";

    detIDs.push_back(newdetid);
    instrument->add(detector);
    instrument->markAsDetector(detector);

  } // ENDFOR workspace index
  indexInfo.setDetectorIDs(std::move(detIDs));
  workspace->setIndexInfo(indexInfo);

  // Add the new instrument
  workspace->setInstrument(instrument);
}
void SaveDetectorsGrouping::printToXML(std::map<int, std::vector<detid_t> > groupdetidrangemap, std::string xmlfilename) {

    // 1. Get Instrument information
    Geometry::Instrument_const_sptr instrument = mGroupWS->getInstrument();
    std::string name = instrument->getName();
    g_log.debug() << "Instrument " << name << std::endl;

    // 2. Start document (XML)
    AutoPtr<Document> pDoc = new Document;
    AutoPtr<Element> pRoot = pDoc->createElement("detector-grouping");
    pDoc->appendChild(pRoot);
    pRoot->setAttribute("instrument", name);

    // Set description if was specified by user
    if(mGroupWS->run().hasProperty("Description"))
    {
        std::string description = mGroupWS->run().getProperty("Description")->value();
        pRoot->setAttribute("description", description);
    }

    // 3. Append Groups
    for (std::map<int, std::vector<detid_t> >::iterator it = groupdetidrangemap.begin();
            it != groupdetidrangemap.end(); ++it) {

        // a) Group Node
        int groupid = it->first;
        std::stringstream sid;
        sid << groupid;

        AutoPtr<Element> pChildGroup = pDoc->createElement("group");
        pChildGroup->setAttribute("ID",  sid.str());
        // Set name if was specified by user
        std::string groupNameProp = "GroupName_" + sid.str();
        if(mGroupWS->run().hasProperty(groupNameProp))
        {
            std::string groupName = mGroupWS->run().getProperty(groupNameProp)->value();
            pChildGroup->setAttribute("name", groupName);
        }

        pRoot->appendChild(pChildGroup);

        g_log.debug() << "Group ID = " << groupid << std::endl;

        // b) Detector ID Child Nodes
        std::stringstream ss;

        for (size_t i = 0; i < it->second.size()/2; i ++)
        {
            // i. Generate text value

            bool writedata = true;
            detid_t ist = it->second[i*2];
            detid_t ied = it->second[i*2+1];
            // "a-b" or "a"
            if (ist < ied) {
                ss << ist << "-" << ied;
            } else if (ist == ied) {
                ss << ist;
            } else {
                writedata = false;
                g_log.error() << "Impossible to have this situation!" << std::endl;
                throw std::invalid_argument("Impossible to have this sitaution!");
            }
            // add ","
            if (writedata && i < it->second.size()/2-1) {
                ss << ",";
            }

            g_log.debug() << "Detectors:  " << it->second[i*2] << ", " << it->second[i*2+1] << std::endl;
        } // FOREACH Detectors Range Set


        std::string textvalue = ss.str();

        g_log.debug() << "Detector IDs Node: " << textvalue << std::endl;

        // c) Create element
        AutoPtr<Element> pDetid = pDoc->createElement("detids");
        AutoPtr<Text> pText1 = pDoc->createTextNode(textvalue);
        pDetid->appendChild(pText1);
        pChildGroup->appendChild(pDetid);

    } // FOREACH GroupID

    // 4. Write file
    DOMWriter writer;
    writer.setNewLine("\n");
    writer.setOptions(XMLWriter::PRETTY_PRINT);

    std::ofstream ofs;
    ofs.open(xmlfilename.c_str(), std::fstream::out);

    ofs << "<?xml version=\"1.0\"?>\n";

    writer.writeNode(std::cout, pDoc);
    writer.writeNode(ofs, pDoc);
    ofs.close();

}
/** method does preliminary calculations of the detectors positions to convert
results into k-dE space ;
and places the results into static cash to be used in subsequent calls to this
algorithm */
void PreprocessDetectorsToMD::processDetectorsPositions(
    const API::MatrixWorkspace_const_sptr &inputWS,
    DataObjects::TableWorkspace_sptr &targWS) {
  g_log.information()
      << "Preprocessing detector locations in a target reciprocal space\n";
  //
  Geometry::Instrument_const_sptr instrument = inputWS->getInstrument();
  // this->pBaseInstr                = instrument->baseInstrument();
  //
  Geometry::IComponent_const_sptr source = instrument->getSource();
  Geometry::IComponent_const_sptr sample = instrument->getSample();
  if ((!source) || (!sample)) {
    g_log.error() << " Instrument is not fully defined. Can not identify "
                     "source or sample\n";
    throw Kernel::Exception::InstrumentDefinitionError(
        "Instrument not sufficiently defined: failed to get source and/or "
        "sample");
  }

  // L1
  try {
    double L1 = source->getDistance(*sample);
    targWS->logs()->addProperty<double>("L1", L1, true);
    g_log.debug() << "Source-sample distance: " << L1 << '\n';
  } catch (Kernel::Exception::NotFoundError &) {
    throw Kernel::Exception::InstrumentDefinitionError(
        "Unable to calculate source-sample distance for workspace",
        inputWS->getTitle());
  }
  // Instrument name
  std::string InstrName = instrument->getName();
  targWS->logs()->addProperty<std::string>(
      "InstrumentName", InstrName,
      true); // "The name which should unique identify current instrument");
  targWS->logs()->addProperty<bool>("FakeDetectors", false, true);

  // get access to the workspace memory
  auto &sp2detMap = targWS->getColVector<size_t>("spec2detMap");
  auto &detId = targWS->getColVector<int32_t>("DetectorID");
  auto &detIDMap = targWS->getColVector<size_t>("detIDMap");
  auto &L2 = targWS->getColVector<double>("L2");
  auto &TwoTheta = targWS->getColVector<double>("TwoTheta");
  auto &Azimuthal = targWS->getColVector<double>("Azimuthal");
  auto &detDir = targWS->getColVector<Kernel::V3D>("DetDirections");

  // Efixed; do we need one and does one exist?
  double Efi = targWS->getLogs()->getPropertyValueAsType<double>("Ei");
  float *pEfixedArray(nullptr);
  const Geometry::ParameterMap &pmap = inputWS->constInstrumentParameters();
  if (m_getEFixed)
    pEfixedArray = targWS->getColDataArray<float>("eFixed");

  // check if one needs to generate masked detectors column.
  int *pMasksArray(nullptr);
  if (m_getIsMasked)
    pMasksArray = targWS->getColDataArray<int>("detMask");

  //// progress message appearance
  size_t div = 100;
  size_t nHist = targWS->rowCount();
  Mantid::API::Progress theProgress(this, 0, 1, nHist);
  //// Loop over the spectra
  uint32_t liveDetectorsCount(0);
  const auto &spectrumInfo = inputWS->spectrumInfo();
  for (size_t i = 0; i < nHist; i++) {
    sp2detMap[i] = std::numeric_limits<uint64_t>::quiet_NaN();
    detId[i] = std::numeric_limits<int32_t>::quiet_NaN();
    detIDMap[i] = std::numeric_limits<uint64_t>::quiet_NaN();
    L2[i] = std::numeric_limits<double>::quiet_NaN();
    TwoTheta[i] = std::numeric_limits<double>::quiet_NaN();
    Azimuthal[i] = std::numeric_limits<double>::quiet_NaN();
    //     detMask[i]  = true;

    if (!spectrumInfo.hasDetectors(i) || spectrumInfo.isMonitor(i))
      continue;

    // if masked detectors state is not used, masked detectors just ignored;
    bool maskDetector = spectrumInfo.isMasked(i);
    if (m_getIsMasked)
      *(pMasksArray + liveDetectorsCount) = maskDetector ? 1 : 0;
    else if (maskDetector)
      continue;

    const auto &spDet = spectrumInfo.detector(i);

    // calculate the requested values;
    sp2detMap[i] = liveDetectorsCount;
    detId[liveDetectorsCount] = int32_t(spDet.getID());
    detIDMap[liveDetectorsCount] = i;
    L2[liveDetectorsCount] = spectrumInfo.l2(i);

    double polar = spectrumInfo.twoTheta(i);
    double azim = spDet.getPhi();
    TwoTheta[liveDetectorsCount] = polar;
    Azimuthal[liveDetectorsCount] = azim;

    double sPhi = sin(polar);
    double ez = cos(polar);
    double ex = sPhi * cos(azim);
    double ey = sPhi * sin(azim);

    detDir[liveDetectorsCount].setX(ex);
    detDir[liveDetectorsCount].setY(ey);
    detDir[liveDetectorsCount].setZ(ez);

    // double sinTheta=sin(0.5*polar);
    // this->SinThetaSq[liveDetectorsCount]  = sinTheta*sinTheta;

    // specific code which should work and makes sense
    // for indirect instrument but may be deployed on any code with Ei property
    // defined;
    if (pEfixedArray) {
      try {
        Geometry::Parameter_sptr par = pmap.getRecursive(&spDet, "eFixed");
        if (par)
          Efi = par->value<double>();
      } catch (std::runtime_error &) {
      }
      // set efixed for each existing detector
      *(pEfixedArray + liveDetectorsCount) = static_cast<float>(Efi);
    }

    liveDetectorsCount++;
    if (i % div == 0)
      theProgress.report(i, "Preprocessing detectors");
  }
  targWS->logs()->addProperty<uint32_t>("ActualDetectorsNum",
                                        liveDetectorsCount, true);

  theProgress.report();
  g_log.information() << "Finished preprocessing detector locations. Found: "
                      << liveDetectorsCount << " detectors out of: " << nHist
                      << " histograms\n";
}