std::vector<double> computeDistances(MeshType::Pointer mesh1, MeshType::Pointer mesh2, unsigned numberOfSamplingPoints) { #if (ITK_VERSION_MAJOR == 4 && ITK_VERSION_MINOR >= 4) typedef itk::PointsLocator< MeshType::PointsContainer > PointsLocatorType; #else typedef itk::PointsLocator<int, 3, double, MeshType::PointsContainer > PointsLocatorType; #endif PointsLocatorType::Pointer ptLocator = PointsLocatorType::New(); ptLocator->SetPoints(mesh2->GetPoints()); ptLocator->Initialize(); // we assume that the mesh points are approximately uniformely distributed. // TODO replace with a real uniform sampling std::vector<double> distanceValues; double totalDist = 0; vnl_random randGen; for (unsigned i = 0; i < numberOfSamplingPoints; i++) { unsigned ptId = randGen.lrand32(mesh1->GetNumberOfPoints() - 1); MeshType::PointType sourcePt = mesh1->GetPoint(ptId); int closestPointId = ptLocator->FindClosestPoint(sourcePt); MeshType::PointType targetPt = mesh2->GetPoint(closestPointId); distanceValues.push_back(computeEuclideanPointDist(sourcePt, targetPt)); } return distanceValues; }
void mitk::SurfaceStampImageFilter::SurfaceStamp(int time) { mitk::Image::Pointer inputImage = this->GetInput(); const mitk::TimeGeometry *surfaceTimeGeometry = GetInput()->GetTimeGeometry(); const mitk::TimeGeometry *imageTimeGeometry = inputImage->GetTimeGeometry(); // Convert time step from image time-frame to surface time-frame mitk::TimePointType matchingTimePoint = imageTimeGeometry->TimeStepToTimePoint(time); mitk::TimeStepType surfaceTimeStep = surfaceTimeGeometry->TimePointToTimeStep(matchingTimePoint); vtkPolyData *polydata = m_Surface->GetVtkPolyData(surfaceTimeStep); if (!polydata) mitkThrow() << "Polydata is null."; vtkSmartPointer<vtkTransformPolyDataFilter> transformFilter = vtkSmartPointer<vtkTransformPolyDataFilter>::New(); transformFilter->SetInputData(polydata); // transformFilter->ReleaseDataFlagOn(); vtkSmartPointer<vtkTransform> transform = vtkSmartPointer<vtkTransform>::New(); BaseGeometry::Pointer geometry = surfaceTimeGeometry->GetGeometryForTimeStep(surfaceTimeStep); transform->PostMultiply(); transform->Concatenate(geometry->GetVtkTransform()->GetMatrix()); // take image geometry into account. vtk-Image information will be changed to unit spacing and zero origin below. BaseGeometry::Pointer imageGeometry = imageTimeGeometry->GetGeometryForTimeStep(time); transform->Concatenate(imageGeometry->GetVtkTransform()->GetLinearInverse()); transformFilter->SetTransform(transform); transformFilter->Update(); polydata = transformFilter->GetOutput(); if (!polydata || !polydata->GetNumberOfPoints()) mitkThrow() << "Polydata retrieved from transformation is null or has no points."; MeshType::Pointer mesh = MeshType::New(); mesh->SetCellsAllocationMethod(MeshType::CellsAllocatedDynamicallyCellByCell); unsigned int numberOfPoints = polydata->GetNumberOfPoints(); mesh->GetPoints()->Reserve(numberOfPoints); vtkPoints *points = polydata->GetPoints(); MeshType::PointType point; for (unsigned int i = 0; i < numberOfPoints; i++) { double *aux = points->GetPoint(i); point[0] = aux[0]; point[1] = aux[1]; point[2] = aux[2]; mesh->SetPoint(i, point); } // Load the polygons into the itk::Mesh typedef MeshType::CellAutoPointer CellAutoPointerType; typedef MeshType::CellType CellType; typedef itk::TriangleCell<CellType> TriangleCellType; typedef MeshType::PointIdentifier PointIdentifierType; typedef MeshType::CellIdentifier CellIdentifierType; // Read the number of polygons CellIdentifierType numberOfPolygons = 0; numberOfPolygons = polydata->GetNumberOfPolys(); PointIdentifierType numberOfCellPoints = 3; CellIdentifierType i = 0; for (i = 0; i < numberOfPolygons; i++) { vtkIdList *cellIds; vtkCell *vcell = polydata->GetCell(i); cellIds = vcell->GetPointIds(); CellAutoPointerType cell; auto *triangleCell = new TriangleCellType; PointIdentifierType k; for (k = 0; k < numberOfCellPoints; k++) { triangleCell->SetPointId(k, cellIds->GetId(k)); } cell.TakeOwnership(triangleCell); mesh->SetCell(i, cell); } if (!mesh->GetNumberOfPoints()) mitkThrow() << "Generated itk mesh is empty."; if (m_MakeOutputBinary) { this->SurfaceStampBinaryOutputProcessing(mesh); } else { AccessFixedDimensionByItk_1(inputImage, SurfaceStampProcessing, 3, mesh); } }