SimpleBathProblemSetup.hpp

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*/
#ifndef SIMPLEBATHPROBLEMSETUP_HPP_
#define SIMPLEBATHPROBLEMSETUP_HPP_
 
#include "AbstractCardiacCellFactory.hpp"
#include "DistributedTetrahedralMesh.hpp"
#include "DistributedTetrahedralMeshPartitionType.hpp"
#include "SimpleStimulus.hpp"
#include "LuoRudy1991.hpp"
#include "HeartRegionCodes.hpp"
 
template<unsigned DIM, class CELLTYPE=CellLuoRudy1991FromCellML>
class BathCellFactory : public AbstractCardiacCellFactory<DIM>
{
private:
    boost::shared_ptr<SimpleStimulus> mpStimulus;
    c_vector<double,DIM> mStimulatedPoint;
 
public:
    BathCellFactory(double stimulusMagnitude, c_vector<double,DIM> stimulatedPoint)
        : AbstractCardiacCellFactory<DIM>(),
          mpStimulus(new SimpleStimulus(stimulusMagnitude, 0.5)),
          mStimulatedPoint(stimulatedPoint)
    {
    }
 
    AbstractCardiacCellInterface* CreateCardiacCellForTissueNode(Node<DIM>* pNode)
    {
        // paranoia - check this is really a tissue node
        assert(HeartRegionCode::IsRegionTissue( pNode->GetRegion() ));
 
        // stimulate centre node normally..
        bool is_centre;
 
        if (DIM==1)
        {
            is_centre = (fabs(pNode->GetPoint()[0]-mStimulatedPoint(0)) < 1e-6);
        }
        else if (DIM==2)
        {
            is_centre = (    (fabs(pNode->GetPoint()[0]-mStimulatedPoint(0)) < 1e-6)
                          && (fabs(pNode->GetPoint()[1]-mStimulatedPoint(1)) < 1e-6) );
        }
        else
        {
            is_centre = (    (fabs(pNode->GetPoint()[0]-mStimulatedPoint(0)) < 1e-6)
                          && (fabs(pNode->GetPoint()[1]-mStimulatedPoint(1)) < 1e-6)
                          && (fabs(pNode->GetPoint()[2]-mStimulatedPoint(2)) < 1e-6) );
        }
 
        if (is_centre)
        {
            return new CELLTYPE(this->mpSolver, mpStimulus);
        }
        else
        {
            return new CELLTYPE(this->mpSolver, this->mpZeroStimulus);
        }
    }
};
 
template<class MeshType>
void SetCircularTissueIn2dMesh(MeshType* pMesh,
                               double centreX, double centreY, double radius)
{
    for (typename MeshType::ElementIterator it = pMesh->GetElementIteratorBegin();
         it != pMesh->GetElementIteratorEnd();
         ++it)
    {
        double x = it->CalculateCentroid()[0];
        double y = it->CalculateCentroid()[1];
        if ((x-centreX)*(x-centreX) + (y-centreY)*(y-centreY) > radius*radius)
        {
            it->SetAttribute(HeartRegionCode::GetValidBathId());
        }
    }
    pMesh->SetMeshHasChangedSinceLoading();
}
 
template<class MeshType>
MeshType* Load2dMeshAndSetCircularTissue(const std::string& rMeshPath,
                                         double centreX, double centreY, double radius)
{
    TrianglesMeshReader<2,2> reader(rMeshPath);
    MeshType* p_mesh = new MeshType;
    p_mesh->ConstructFromMeshReader(reader);
 
    SetCircularTissueIn2dMesh(p_mesh, centreX, centreY, radius);
 
    return p_mesh;
}
 
template<>
DistributedTetrahedralMesh<2,2>* Load2dMeshAndSetCircularTissue(const std::string& rMeshPath,
                                                                double centreX, double centreY, double radius)
{
    TrianglesMeshReader<2,2> reader(rMeshPath);
    // Force dumb partitioning so migration tests pass!
    DistributedTetrahedralMesh<2,2>* p_mesh = new DistributedTetrahedralMesh<2,2>(DistributedTetrahedralMeshPartitionType::DUMB);
    p_mesh->ConstructFromMeshReader(reader);
 
    SetCircularTissueIn2dMesh(p_mesh, centreX, centreY, radius);
 
    return p_mesh;
}
 
#endif /*SIMPLEBATHPROBLEMSETUP_HPP_*/