MixedDimensionMesh.cpp

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#include "MixedDimensionMesh.hpp"
#include "Exception.hpp"

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::MixedDimensionMesh(DistributedTetrahedralMeshPartitionType::type partitioningMethod)
    : DistributedTetrahedralMesh<ELEMENT_DIM, SPACE_DIM>::DistributedTetrahedralMesh(partitioningMethod)
{
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::~MixedDimensionMesh()
{
    for (unsigned i=0; i<mCableElements.size(); i++)
    {
        delete mCableElements[i];
    }
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::ConstructFromMeshReader(AbstractMeshReader<ELEMENT_DIM,SPACE_DIM>& rMeshReader)
{
    DistributedTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>::ConstructFromMeshReader(rMeshReader);
    //Note that the above method may permute the node (for a parMETIS partition) after construction
    //We have to convert to the permuted form first

    // Add cable elements
    mNumCableElements = rMeshReader.GetNumCableElements();
    //this->mCableElements.reserve(mNumCableElements);

    for (unsigned element_index=0; element_index < mNumCableElements; element_index++)
    {
        ElementData element_data = rMeshReader.GetNextCableElementData();
        //Convert the node indices from the original to the permuted
        if (!this->mNodePermutation.empty())
        {
            for (unsigned j=0; j<2; j++) // cables are always 1d
            {
                element_data.NodeIndices[j] = this->mNodePermutation[ element_data.NodeIndices[j] ];
            }
        }

        //Determine if we own any nodes on this cable element
        bool node_owned = false;
        for (unsigned j=0; j<2; j++) // cables are always 1d
        {
            try
            {
                this->SolveNodeMapping(element_data.NodeIndices[j]);
                node_owned = true;
                break;
            }
            catch (Exception &)
            {
                //We deal with non-owned nodes in the next part
            }
        }

        //If we don't locally own either node, then we don't construct the cable
        if (node_owned)
        {
            std::vector<Node<SPACE_DIM>*> nodes;
            nodes.reserve(2u);

            for (unsigned j=0; j<2; j++) // cables are always 1d
            {
                //Note that if we own one node on a cable element then we are likely to own the other.
                //If not, we are likely to have a halo.
                //If not, (free-running Purkinje with monodomain mesh?), then this will terminate.
                try
                {
                    nodes.push_back(this->GetNodeOrHaloNode(element_data.NodeIndices[j]) );
                }
                // LCOV_EXCL_START
                catch (Exception&)
                {
                    NEVER_REACHED;
                }
                // LCOV_EXCL_STOP
            }

            Element<1u, SPACE_DIM>* p_element = new Element<1u,SPACE_DIM>(element_index, nodes, false);
            RegisterCableElement(element_index);
            this->mCableElements.push_back(p_element);
            for (unsigned node_index=0; node_index<p_element->GetNumNodes(); ++node_index)
            {
                mNodeToCablesMapping.insert(std::pair<Node<SPACE_DIM>*, Element<1u, SPACE_DIM>*>(
                        p_element->GetNode(node_index), p_element));
            }

            if (rMeshReader.GetNumCableElementAttributes() > 0)
            {
                assert(rMeshReader.GetNumCableElementAttributes() == 1);
                p_element->SetAttribute(element_data.AttributeValue);
            }
        }
    }

    rMeshReader.Reset();
}

template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::RegisterCableElement(unsigned index)
{
    mCableElementsMapping[index] = this->mCableElements.size();
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
unsigned MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::GetNumCableElements() const
{
   return mNumCableElements;
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
unsigned MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::GetNumLocalCableElements() const
{
   return mCableElements.size();
}

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
Element<1u, SPACE_DIM>* MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::GetCableElement(unsigned globalElementIndex) const
{
    std::map<unsigned, unsigned>::const_iterator element_position = mCableElementsMapping.find(globalElementIndex);

    if (element_position == mCableElementsMapping.end())
    {
        EXCEPTION("Requested cable element " << globalElementIndex << " does not belong to processor " << PetscTools::GetMyRank());
    }

    unsigned index = element_position->second;

    return mCableElements[index];
}

template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
bool MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::CalculateDesignatedOwnershipOfCableElement( unsigned elementIndex )
{
    //This should not throw in the distributed parallel case
    try
    {
        unsigned tie_break_index = this->GetCableElement(elementIndex)->GetNodeGlobalIndex(0);

        //if it is in my range
        if (this->GetDistributedVectorFactory()->IsGlobalIndexLocal(tie_break_index))
        {
            return true;
        }
        else
        {
            return false;
        }
    }
    catch (Exception &)
    {
        //We don't own this cable element
        return false;
    }
}


template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
typename MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::CableRangeAtNode MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::GetCablesAtNode(const Node<SPACE_DIM>* pNode)
{
    return mNodeToCablesMapping.equal_range(pNode);
}


template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
typename MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::CableElementIterator MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::GetCableElementIteratorBegin() const
{
    return mCableElements.begin();
}

template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
typename MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::CableElementIterator MixedDimensionMesh<ELEMENT_DIM, SPACE_DIM>::GetCableElementIteratorEnd() const
{
    return mCableElements.end();
}

// Explicit instantiation
template class MixedDimensionMesh<1,1>;
template class MixedDimensionMesh<1,2>;
template class MixedDimensionMesh<1,3>;
template class MixedDimensionMesh<2,2>;
template class MixedDimensionMesh<2,3>;
template class MixedDimensionMesh<3,3>;

// Serialization for Boost >= 1.36
#include "SerializationExportWrapperForCpp.hpp"
EXPORT_TEMPLATE_CLASS_ALL_DIMS(MixedDimensionMesh)