Example #1
0
/** Constructor with normal and point
 *
 * @param normal :: normal to the plane. Points that are in the direction of the
 *normal of the plane are considered to be bounded by it.
 * @param point :: any point that is on the plane
 */
MDPlane::MDPlane(const Mantid::Kernel::VMD &normal,
                 const Mantid::Kernel::VMD &point) {
  m_nd = normal.getNumDims();
  if ((m_nd < 1) || (m_nd > 100))
    throw std::invalid_argument(
        "MDPlane::ctor(): Invalid number of dimensions in the normal vector !");
  if (point.getNumDims() != normal.getNumDims())
    throw std::invalid_argument("MDPlane::ctor(): Inconsistent number of "
                                "dimensions in the normal/point vectors!");
  construct(normal, point);
}
/** Constructor
 *
 * @param workspace :: IMDWorkspace to plot
 * @param logScale :: true to plot Y in log scale
 * @param start :: start point in N-dimensions of the line
 * @param end :: end point in N-dimensions of the line
 * @param normalize :: method for normalizing the line
 * @param isDistribution :: is this a distribution (divide by bin width?)
 * @return
 */
MantidQwtIMDWorkspaceData::MantidQwtIMDWorkspaceData(Mantid::API::IMDWorkspace_const_sptr workspace, const bool logScale,
    Mantid::Kernel::VMD start, Mantid::Kernel::VMD end,
    Mantid::API::MDNormalization normalize,
    bool isDistribution)
 : m_workspace(workspace),
   m_logScale(logScale), m_minPositive(0),
   m_preview(false),
   m_start(start),
   m_end(end),
   m_normalization(normalize),
   m_isDistribution(isDistribution),
   m_transform(NULL),
   m_plotAxis(PlotDistance), m_currentPlotAxis(PlotDistance)
{
  if (start.getNumDims() == 1 && end.getNumDims() == 1)
  {
    if (start[0] == 0.0 && end[0] == 0.0)
    {
      // Default start and end. Find the limits
      Mantid::Geometry::VecIMDDimension_const_sptr nonIntegDims = m_workspace->getNonIntegratedDimensions();
      std::string alongDim = "";
      if (!nonIntegDims.empty())
        alongDim = nonIntegDims[0]->getName();
      else
        alongDim = m_workspace->getDimension(0)->getName();

      size_t nd = m_workspace->getNumDims();
      m_start = VMD(nd);
      m_end = VMD(nd);
      for (size_t d=0; d<nd; d++)
      {
        IMDDimension_const_sptr dim = m_workspace->getDimension(d);
        if (dim->getDimensionId() == alongDim)
        {
          // All the way through in the single dimension
          m_start[d] = dim->getMinimum();
          m_end[d] = dim->getMaximum();
        }
        else
        {
          // Mid point along each dimension
          m_start[d] = (dim->getMaximum() + dim->getMinimum()) / 2.0f;
          m_end[d] = m_start[d];
        }
      }
    }
  }
  // Unit direction of the line
  m_dir = m_end - m_start;
  m_dir.normalize();
  // And cache the X/Y values
  this->cacheLinePlot();
}
Example #3
0
/** Set the width of the line in each dimensions
 * @param width :: vector for the width in each dimension. X dimension stands in for the XY plane width */
void LineViewer::setThickness(Mantid::Kernel::VMD width)
{
  if (m_ws && width.getNumDims() != m_ws->getNumDims())
    throw std::runtime_error("LineViewer::setThickness(): Invalid number of dimensions in the width vector.");
  m_thickness = width;
  updateStartEnd();
}
Example #4
0
/** Set the end point of the line to integrate
 * @param end :: vector for the end point */
void LineViewer::setEnd(Mantid::Kernel::VMD end)
{
  if (m_ws && end.getNumDims() != m_ws->getNumDims())
    throw std::runtime_error("LineViewer::setEnd(): Invalid number of dimensions in the end vector.");
  m_end = end;
  updateStartEnd();
}
Example #5
0
/** Set the start point of the line to integrate
 * @param start :: vector for the start point */
void LineViewer::setStart(Mantid::Kernel::VMD start)
{
  if (m_ws && start.getNumDims() != m_ws->getNumDims())
    throw std::runtime_error("LineViewer::setStart(): Invalid number of dimensions in the start vector.");
  m_start = start;
  updateStartEnd();
}
Example #6
0
/** Apply the transformation to an input vector (as a VMD type).
 * This wraps the apply(in,out) method (and will be slower!)
 *
 * @param inputVector :: an inD-length vector
 * @return the output vector as VMD
 */
Mantid::Kernel::VMD
CoordTransform::applyVMD(const Mantid::Kernel::VMD &inputVector) const {
  if (inputVector.getNumDims() != inD)
    throw std::runtime_error("CoordTransform::apply(): inputVector has the "
                             "wrong number of coordinates!");
  coord_t *outArray = new coord_t[outD];
  this->apply(inputVector.getBareArray(), outArray);
  VMD out(outD, outArray);
  delete[] outArray;
  return out;
}
Example #7
0
/** Obtain coordinates for a line plot through a MDWorkspace.
 * Cross the workspace from start to end points, recording the signal along the
 *lin at either bin boundaries, or halfway between bin boundaries (which is bin
 *centres if the line is dimension aligned). If recording halfway values then
 *omit points in masked bins.
 *
 * @param start :: coordinates of the start point of the line
 * @param end :: coordinates of the end point of the line
 * @param normalize :: how to normalize the signal
 * @returns :: LinePlot with x as the boundaries of the bins, relative
 * to start of the line, y set to the normalized signal for each bin with
 * Length = length(x) - 1 and e as the error vector for each bin.
 * @param bin_centres :: if true then record points halfway between bin
 *boundaries, otherwise record on bin boundaries
 */
IMDWorkspace::LinePlot MDHistoWorkspace::getLinePoints(
    const Mantid::Kernel::VMD &start, const Mantid::Kernel::VMD &end,
    Mantid::API::MDNormalization normalize, const bool bin_centres) const {
  LinePlot line;

  size_t nd = this->getNumDims();
  if (start.getNumDims() != nd)
    throw std::runtime_error("Start point must have the same number of "
                             "dimensions as the workspace.");
  if (end.getNumDims() != nd)
    throw std::runtime_error(
        "End point must have the same number of dimensions as the workspace.");

  // Unit-vector of the direction
  VMD dir = end - start;
  const auto length = dir.normalize();

// Vector with +1 where direction is positive, -1 where negative
#define sgn(x) ((x < 0) ? -1.0f : ((x > 0.) ? 1.0f : 0.0f))
  VMD dirSign(nd);
  for (size_t d = 0; d < nd; d++) {
    dirSign[d] = sgn(dir[d]);
  }
  const size_t BADINDEX = size_t(-1);

  // Dimensions of the workspace
  boost::scoped_array<size_t> index(new size_t[nd]);
  boost::scoped_array<size_t> numBins(new size_t[nd]);
  for (size_t d = 0; d < nd; d++) {
    IMDDimension_const_sptr dim = this->getDimension(d);
    index[d] = BADINDEX;
    numBins[d] = dim->getNBins();
  }

  const std::set<coord_t> boundaries =
      getBinBoundariesOnLine(start, end, nd, dir, length);

  if (boundaries.empty()) {
    this->makeSinglePointWithNaN(line.x, line.y, line.e);

    // Require x.size() = y.size()+1 if recording bin boundaries
    if (!bin_centres)
      line.x.push_back(length);

    return line;
  } else {
    // Get the first point
    std::set<coord_t>::iterator it;
    it = boundaries.cbegin();

    coord_t lastLinePos = *it;
    VMD lastPos = start + (dir * lastLinePos);
    if (!bin_centres) {
      line.x.push_back(lastLinePos);
    }

    ++it;
    coord_t linePos = 0;
    for (; it != boundaries.cend(); ++it) {
      // This is our current position along the line
      linePos = *it;

      // This is the full position at this boundary
      VMD pos = start + (dir * linePos);

      // Position in the middle of the bin
      VMD middle = (pos + lastPos) * 0.5;

      // Find the signal in this bin
      const auto linearIndex =
          this->getLinearIndexAtCoord(middle.getBareArray());

      if (bin_centres && !this->getIsMaskedAt(linearIndex)) {
        coord_t bin_centrePos =
            static_cast<coord_t>((linePos + lastLinePos) * 0.5);
        line.x.push_back(bin_centrePos);
      } else if (!bin_centres)
        line.x.push_back(linePos);

      if (linearIndex < m_length) {

        auto normalizer = getNormalizationFactor(normalize, linearIndex);
        // And add the normalized signal/error to the list too
        auto signal = this->getSignalAt(linearIndex) * normalizer;
        if (boost::math::isinf(signal)) {
          // The plotting library (qwt) doesn't like infs.
          signal = std::numeric_limits<signal_t>::quiet_NaN();
        }
        if (!bin_centres || !this->getIsMaskedAt(linearIndex)) {
          line.y.push_back(signal);
          line.e.push_back(this->getErrorAt(linearIndex) * normalizer);
        }
        // Save the position for next bin
        lastPos = pos;
      } else {
        // Invalid index. This shouldn't happen
        line.y.push_back(std::numeric_limits<signal_t>::quiet_NaN());
        line.e.push_back(std::numeric_limits<signal_t>::quiet_NaN());
      }

      lastLinePos = linePos;

    } // for each unique boundary

    // If all bins were masked
    if (line.x.size() == 0) {
      this->makeSinglePointWithNaN(line.x, line.y, line.e);
    }
  }
  return line;
}