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Libs/Optimize/Domain/ImageDomainWithCurvature.h

Namespaces

Name
shapeworks
User usage reporting (telemetry)

Classes

Name
class shapeworks::ImageDomainWithCurvature

Source code

#pragma once

#include "ImageDomainWithGradN.h"
#include "Logging.h"
#include "itkDiscreteGaussianImageFilter.h"
#include "itkImageRegionIterator.h"
#include "itkImageRegionIteratorWithIndex.h"

namespace shapeworks {
template <class T>
class ImageDomainWithCurvature : public ImageDomainWithGradN<T> {
 public:
  typedef ImageDomainWithGradN<T> Superclass;

  typedef typename Superclass::PointType PointType;
  typedef typename Superclass::ImageType ImageType;
  typedef typename Superclass::VnlMatrixType VnlMatrixType;

  void SetImage(ImageType* I, double narrow_band) {
    // Computes partial derivatives in parent class
    Superclass::SetImage(I, narrow_band);
    m_VDBCurvature = openvdb::tools::meanCurvature(*this->GetVDBImage());
    this->ComputeSurfaceStatistics(I);
  }

  double GetCurvature(const PointType& p, int idx) const override {
    if (this->m_FixedDomain) {
      return 0;
    }
    const auto coord = this->ToVDBCoord(p);
    return openvdb::tools::BoxSampler::sample(m_VDBCurvature->tree(), coord);
  }

  inline double GetSurfaceMeanCurvature() const override { return m_SurfaceMeanCurvature; }

  inline double GetSurfaceStdDevCurvature() const override { return m_SurfaceStdDevCurvature; }

 protected:
  ImageDomainWithCurvature() {}

  void PrintSelf(std::ostream& os, itk::Indent indent) const {
    Superclass::PrintSelf(os, indent);
    os << indent << "VDB Active Voxels = " << m_VDBCurvature->activeVoxelCount() << std::endl;
  }
  virtual ~ImageDomainWithCurvature(){};

 private:
  openvdb::FloatGrid::Ptr m_VDBCurvature;

  // Cache surface statistics
  double m_SurfaceMeanCurvature;
  double m_SurfaceStdDevCurvature;

  void ComputeSurfaceStatistics(ImageType* I) {
    // TODO: This computation is copied from itkParticleMeanCurvatureAttribute
    // Since the entire Image is not available after the initial load, its simplest
    // to calculate it now. But it should be a part of itkParticleMeanCurvatureAttribute

    // Loop through a zero crossing image, project all the zero crossing points
    // to the surface, and use those points to comput curvature stats.
    typedef itk::ZeroCrossingImageFilter<ImageType, ImageType> ZeroCrossingImageFilterType;
    typename ZeroCrossingImageFilterType::Pointer zc = ZeroCrossingImageFilterType::New();

    zc->SetInput(I);
    zc->Update();

    itk::ImageRegionConstIteratorWithIndex<ImageType> it(zc->GetOutput(), zc->GetOutput()->GetRequestedRegion());
    std::vector<double> datalist;
    m_SurfaceMeanCurvature = 0.0;
    m_SurfaceStdDevCurvature = 0.0;

    for (; !it.IsAtEnd(); ++it) {
      if (it.Get() == 1.0) {
        // Find closest pixel location to surface.
        PointType pos;
        // dynamic_cast<const DomainType
        //*>(system->GetDomain(d))->GetImage()->TransformIndexToPhysicalPoint(it.GetIndex(), pos);
        I->TransformIndexToPhysicalPoint(it.GetIndex(), pos);

        // Project point to surface.
        // Make sure constraints are enabled
        //      bool c = domain->GetConstraintsEnabled();

        //      domain->EnableConstraints();
        this->ApplyConstraints(pos);

        //      domain->SetConstraintsEnabled(c);

        // Compute curvature at point.
        //      std::cout << "pos : " << pos[0] << ' ' << pos[1] << ' ' << pos[2] << std::endl;
        double mc = this->GetCurvature(pos, -1);
        m_SurfaceMeanCurvature += mc;
        datalist.push_back(mc);
      }
    }
    double n = static_cast<double>(datalist.size());
    m_SurfaceMeanCurvature /= n;

    // Compute std deviation using point list
    for (unsigned int i = 0; i < datalist.size(); i++) {
      m_SurfaceStdDevCurvature += (datalist[i] - m_SurfaceMeanCurvature) * (datalist[i] - m_SurfaceMeanCurvature);
    }
    m_SurfaceStdDevCurvature = sqrt(m_SurfaceStdDevCurvature / (n - 1));
  }
};

}  // end namespace shapeworks

Updated on 2024-07-14 at 17:07:25 +0000