bin_interpolate.h

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//
//
/*
    Copyright (C) 2003- 2005, Hammersmith Imanet Ltd
    For internal GE use only.
*/
#include "stir/ProjDataInfoCylindricalNoArcCorr.h"
#include "stir/VectorWithOffset.h"
#include "stir/SegmentByView.h"
#include "stir/Bin.h"
#include "stir/shared_ptr.h"
#include "stir/Succeeded.h"
#include "stir_experimental/motion/RigidObject3DTransformation.h"
#include "stir/Coordinate4D.h"
#include "stir/LORCoordinates.h"
#include "stir/DetectionPositionPair.h"
#include "stir/error.h"
 
START_NAMESPACE_STIR
 
static Succeeded
get_transformed_LOR(LORInAxialAndNoArcCorrSinogramCoordinates<float>& out_lor,
                    const RigidObject3DTransformation& transformation,
                    const Bin& bin,
                    const ProjDataInfo& in_proj_data_info)
{
  LORInAxialAndNoArcCorrSinogramCoordinates<float> lor;
  in_proj_data_info.get_LOR(lor, bin);
  LORAs2Points<float> lor_as_points;
  lor.get_intersections_with_cylinder(lor_as_points, lor.radius());
  // TODO origin
  // currently, the origin used for  proj_data_info is in the centre of the scanner,
  // while for standard images it is in the centre of the first ring.
  // This is pretty horrible though, as the transform_point function has no clue
  // where the origin is
  // Note that the present shift will make this version compatible with the
  // version above, as find_bin_given_cartesian_coordinates_of_detection
  // also uses an origin in the centre of the first ring
  const float z_shift = (in_proj_data_info.get_scanner_ptr()->get_num_rings() - 1) / 2.F
                        * in_proj_data_info.get_scanner_ptr()->get_ring_spacing();
  lor_as_points.p1().z() += z_shift;
  lor_as_points.p2().z() += z_shift;
  LORAs2Points<float> transformed_lor_as_points(transformation.transform_point(lor_as_points.p1()),
                                                transformation.transform_point(lor_as_points.p2()));
  transformed_lor_as_points.p1().z() -= z_shift;
  transformed_lor_as_points.p2().z() -= z_shift;
  return transformed_lor_as_points.change_representation(out_lor, lor.radius());
}
 
static Coordinate4D<float>
lor_to_coords(const LORInAxialAndNoArcCorrSinogramCoordinates<float>& lor)
{
  Coordinate4D<float> coord;
  coord[1] = lor.z2() - lor.z1();
  coord[2] = (lor.z2() + lor.z1()) / 2;
  coord[3] = lor.phi();
  coord[4] = lor.beta();
  return coord;
}
 
static Coordinate4D<int>
bin_to_coords(const Bin& bin)
{
  Coordinate4D<int> coord;
  coord[1] = bin.segment_num();
  coord[2] = bin.axial_pos_num();
  coord[3] = bin.view_num();
  coord[4] = bin.tangential_pos_num();
  return coord;
}
 
static Bin
coords_to_bin(const Coordinate4D<int>& coord)
{
  Bin bin;
  bin.segment_num() = coord[1];
  bin.axial_pos_num() = coord[2];
  bin.view_num() = coord[3];
  bin.tangential_pos_num() = coord[4];
  return bin;
}
 
inline int
sign(float x)
{
  return x >= 0 ? 1 : -1;
}
 
inline Coordinate4D<int>
sign(const Coordinate4D<float>& c)
{
  return Coordinate4D<int>(sign(c[1]), sign(c[2]), sign(c[3]), sign(c[4]));
}
 
inline Coordinate4D<float>
abs(const Coordinate4D<float>& c)
{
  return Coordinate4D<float>(fabs(c[1]), fabs(c[2]), fabs(c[3]), fabs(c[4]));
}
 
inline void
add_to_bin(VectorWithOffset<shared_ptr<SegmentByView<float>>>& segments, const Bin& bin, const float value)
{
  (*segments[bin.segment_num()])[bin.view_num()][bin.axial_pos_num()][bin.tangential_pos_num()] += value;
}
 
static bool
is_in_range(const Bin& bin, const ProjDataInfo& proj_data_info)
{
  if (bin.segment_num() >= proj_data_info.get_min_segment_num() && bin.segment_num() <= proj_data_info.get_max_segment_num()
      && bin.tangential_pos_num() >= proj_data_info.get_min_tangential_pos_num()
      && bin.tangential_pos_num() <= proj_data_info.get_max_tangential_pos_num()
      && bin.axial_pos_num() >= proj_data_info.get_min_axial_pos_num(bin.segment_num())
      && bin.axial_pos_num() <= proj_data_info.get_max_axial_pos_num(bin.segment_num()))
    {
      assert(bin.view_num() >= proj_data_info.get_min_view_num());
      assert(bin.view_num() <= proj_data_info.get_max_view_num());
      return true;
    }
  else
    return false;
}
 
static Bin
standardise(const Bin& in_bin, const ProjDataInfo& proj_data_info)
{
  Bin bin = in_bin;
  bool swap_direction = false;
  if (bin.view_num() < proj_data_info.get_min_view_num())
    {
      swap_direction = true;
      bin.view_num() += proj_data_info.get_num_views();
    }
  else if (bin.view_num() > proj_data_info.get_max_view_num())
    {
      swap_direction = true;
      bin.view_num() -= proj_data_info.get_num_views();
    }
  assert(bin.view_num() >= proj_data_info.get_min_view_num());
  assert(bin.view_num() <= proj_data_info.get_max_view_num());
 
  if (swap_direction)
    {
      bin.tangential_pos_num() *= -1;
      bin.segment_num() *= -1;
    }
  return bin;
}
 
static Succeeded
find_sampling(Coordinate4D<float>& sampling, const Bin& bin, const ProjDataInfo& proj_data_info)
{
  LORInAxialAndNoArcCorrSinogramCoordinates<float> tmp_lor;
  LORInAxialAndNoArcCorrSinogramCoordinates<float> lor;
  proj_data_info.get_LOR(lor, bin);
  for (int d = 1; d <= 4; ++d)
    {
      Coordinate4D<int> neighbour_coords = bin_to_coords(bin);
      neighbour_coords[d] += 1;
      const Bin neighbour = standardise(coords_to_bin(neighbour_coords), proj_data_info);
      if (!is_in_range(neighbour, proj_data_info))
        return Succeeded::no;
      proj_data_info.get_LOR(tmp_lor, neighbour);
      sampling[d] = (lor_to_coords(tmp_lor) - lor_to_coords(lor))[d];
    }
  return Succeeded::yes;
}
 
static void
bin_interpolate(VectorWithOffset<shared_ptr<SegmentByView<float>>>& seg_ptr,
                const LORInAxialAndNoArcCorrSinogramCoordinates<float>& lor,
                const ProjDataInfo& out_proj_data_info,
                const ProjDataInfo& proj_data_info,
                const float value)
{
  Coordinate4D<float> sampling;
  // warning assuming uniform sampling to avoid problem of neighbour dropping of at the edge
  if (find_sampling(sampling, Bin(0, 0, 0, 0), proj_data_info) != Succeeded::yes)
    error("error in finding sampling");
 
  const Bin central_bin = proj_data_info.get_bin(lor);
  if (central_bin.get_bin_value() < 0)
    return;
  LORInAxialAndNoArcCorrSinogramCoordinates<float> central_lor;
  proj_data_info.get_LOR(central_lor, central_bin);
  const Coordinate4D<float> central_lor_coords = lor_to_coords(central_lor);
  const Coordinate4D<float> lor_coords = lor_to_coords(lor);
  const Coordinate4D<int> central_bin_coords = bin_to_coords(central_bin);
  const Coordinate4D<float> diff = (lor_coords - central_lor_coords) / sampling;
  assert(diff[1] <= 1.001 && diff[1] >= -1.001);
  assert(diff[2] <= .5001 && diff[2] >= -.5001);
  assert(diff[3] <= .5001 && diff[3] >= -.5001);
  assert(diff[4] <= .5001 && diff[4] >= -.5001);
  const Coordinate4D<int> bin_inc = sign(sampling);
  assert(bin_inc == Coordinate4D<int>(1, 1, 1, 1));
  const Coordinate4D<int> inc = sign(diff);
  Coordinate4D<int> offset;
 
#if 0
  for (offset[1]=0; offset[1]!=2*inc[1]; offset[1]+=inc[1]) 
    for (offset[2]=0; offset[2]!=2*inc[2]; offset[2]+=inc[2]) 
      for (offset[3]=0; offset[3]!=2*inc[3]; offset[3]+=inc[3]) 
        for (offset[4]=0; offset[4]!=2*inc[4]; offset[4]+=inc[4])
#else
  for (offset[1] = -1; offset[1] != 2; offset[1]++)
    for (offset[2] = -1; offset[2] != 2; offset[2]++)
      for (offset[3] = -1; offset[3] != 2; offset[3]++)
        for (offset[4] = -1; offset[4] != 2; offset[4]++)
#endif
  {
    const Bin target_bin = standardise(coords_to_bin(central_bin_coords + offset), proj_data_info);
    if (is_in_range(target_bin, proj_data_info))
      {
 
        // const BasicCoordinate<4,float> float_offset(offset);
        // Coordinate4D<float> weights = abs(diff - float_offset);
 
        LORInAxialAndNoArcCorrSinogramCoordinates<float> new_lor;
        proj_data_info.get_LOR(new_lor, target_bin);
        Coordinate4D<float> new_lor_coords = lor_to_coords(new_lor);
        Coordinate4D<float> new_diff = (lor_coords - new_lor_coords) / sampling;
        if (fabs(new_diff[3]) > 2)
          {
            new_lor_coords[1] *= -1;
            new_lor_coords[3] += _PI * sign(new_diff[3]);
            new_lor_coords[4] *= -1;
            new_diff = (lor_coords - new_lor_coords) / sampling;
          }
 
#if 0
              assert(new_diff[1]<=1.001 && new_diff[1]>=-1.001);
              assert(new_diff[2]<=1.101 && new_diff[2]>=-1.101);
              assert(new_diff[3]<=1.001 && new_diff[3]>=-1.001);
              assert(new_diff[4]<=1.001 && new_diff[4]>=-1.001);
#endif
        // assert(norm(new_diff - (diff - float_offset))<.001);
        Coordinate4D<float> weights = abs(new_diff);
        if (weights[4] > 1 || weights[3] > 1 || weights[2] > 1 || weights[1] > 1)
          continue;
        const float weight = (1 - weights[1]) * (1 - weights[2]) * (1 - weights[3]) * (1 - weights[4]);
        if (weight < 0.001)
          continue;
#if 0
              const Bin out_bin = target_bin;
#else
#  if 0
              const Bin out_bin = out_proj_data_info.get_bin(new_lor);
              if (out_bin.get_bin_value()<0)
                continue;
#  else
                DetectionPositionPair<> detection_positions;
                dynamic_cast<const ProjDataInfoCylindricalNoArcCorr&>(proj_data_info)
                    .get_det_pos_pair_for_bin(detection_positions, target_bin);
                Bin out_bin;
                if (dynamic_cast<const ProjDataInfoCylindricalNoArcCorr&>(out_proj_data_info)
                        .get_bin_for_det_pos_pair(out_bin, detection_positions)
                    == Succeeded::no)
                  continue;
                if (!is_in_range(out_bin, out_proj_data_info))
                  continue;
#  endif
#endif
 
        add_to_bin(seg_ptr, out_bin, value * weight);
      }
  }
}
 
END_NAMESPACE_STIR