DistributedBoxCollection.hpp

/*

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*/
#ifndef DISTRIBUTEDBOXCOLLECTION_HPP_
#define DISTRIBUTEDBOXCOLLECTION_HPP_

#include "ChasteSerialization.hpp"
#include <boost/serialization/vector.hpp>

#include "Node.hpp"
#include "Element.hpp"
#include "Box.hpp"
#include "PetscTools.hpp"
#include "DistributedVectorFactory.hpp"
#include <map>
#include <vector>


template<unsigned DIM>
class DistributedBoxCollection
{
private:
    friend class TestDistributedBoxCollection;

    std::vector< Box<DIM> > mBoxes;

    std::vector< Box<DIM> > mHaloBoxes;

    std::vector<unsigned> mHalosRight;

    std::vector<unsigned> mHalosLeft;

    std::vector<unsigned> mHaloNodesRight;

    std::vector<unsigned> mHaloNodesLeft;

    std::map<unsigned, unsigned> mBoxesMapping;

    std::map<unsigned, unsigned> mHaloBoxesMapping;

    c_vector<double, 2*DIM> mDomainSize;

    double mBoxWidth;

    unsigned mNumBoxes;

    c_vector<unsigned, DIM> mNumBoxesEachDirection;

    unsigned mNumBoxesInAFace;

    std::vector< std::set<unsigned> > mLocalBoxes;

    unsigned mMinBoxIndex;

    unsigned mMaxBoxIndex;

    bool mIsPeriodicInX;

    bool mAreLocalBoxesSet;

    static const double msFudge;

    DistributedVectorFactory* mpDistributedBoxStackFactory;

    bool mCalculateNodeNeighbours;

    friend class boost::serialization::access;

    template<class Archive>
    void serialize(Archive & archive, const unsigned int version)
    {
        //All methods over-ridden below.
    }

public:

    DistributedBoxCollection(double boxWidth, c_vector<double, 2*DIM> domainSize, bool isPeriodicInX = false, int localRows = PETSC_DECIDE);


    ~DistributedBoxCollection();

    void EmptyBoxes();

    void SetupHaloBoxes();

    void UpdateHaloBoxes();

    unsigned GetNumLocalRows() const;

    bool GetBoxOwnership(unsigned globalIndex);

    bool IsInteriorBox(unsigned globalIndex);

    bool GetHaloBoxOwnership(unsigned globalIndex);

    unsigned CalculateGlobalIndex(c_vector<unsigned, DIM> coordinateIndices);

    unsigned CalculateContainingBox(Node<DIM>* pNode);

    unsigned CalculateContainingBox(c_vector<double, DIM>& rLocation);

    c_vector<unsigned, DIM> CalculateCoordinateIndices(unsigned globalIndex);

    Box<DIM>& rGetBox(unsigned boxIndex);

    Box<DIM>& rGetHaloBox(unsigned boxIndex);

    unsigned GetNumBoxes();

    unsigned GetNumLocalBoxes();

    c_vector<double, 2*DIM> rGetDomainSize() const;

    bool GetAreLocalBoxesSet() const;

    double GetBoxWidth() const;

    unsigned GetNumRowsOfBoxes() const;

    int LoadBalance(std::vector<int> localDistribution);

    void SetupLocalBoxesHalfOnly();

    void SetupAllLocalBoxes();

    std::set<unsigned> GetLocalBoxes(unsigned boxIndex);

    bool IsOwned(Node<DIM>* pNode);

    bool IsOwned(c_vector<double, DIM>& location);

    unsigned GetProcessOwningNode(Node<DIM>* pNode);

    std::vector<unsigned>& rGetHaloNodesRight();

    std::vector<unsigned>& rGetHaloNodesLeft();

    void SetCalculateNodeNeighbours(bool calculateNodeNeighbours);

    void CalculateNodePairs(std::vector<Node<DIM>*>& rNodes, std::vector<std::pair<Node<DIM>*, Node<DIM>*> >& rNodePairs, std::map<unsigned, std::set<unsigned> >& rNodeNeighbours);

    void CalculateInteriorNodePairs(std::vector<Node<DIM>*>& rNodes, std::vector<std::pair<Node<DIM>*, Node<DIM>*> >& rNodePairs, std::map<unsigned, std::set<unsigned> >& rNodeNeighbours);

    void CalculateBoundaryNodePairs(std::vector<Node<DIM>*>& rNodes, std::vector<std::pair<Node<DIM>*, Node<DIM>*> >& rNodePairs, std::map<unsigned, std::set<unsigned> >& rNodeNeighbours);

    void AddPairsFromBox(unsigned boxIndex, std::vector<std::pair<Node<DIM>*, Node<DIM>*> >& rNodePairs, std::map<unsigned, std::set<unsigned> >& rNodeNeighbours);

    std::vector<int> CalculateNumberOfNodesInEachStrip();
};

#include "SerializationExportWrapper.hpp"
// Declare identifier for the serializer
EXPORT_TEMPLATE_CLASS_SAME_DIMS(DistributedBoxCollection)


namespace boost
{
namespace serialization
{
template<class Archive, unsigned DIM>
inline void save_construct_data(
    Archive & ar, const DistributedBoxCollection<DIM> * t, const unsigned int file_version)
{
    // Save the number of rows that each process owns, so that on loading we can resume with
    // good load balance
    int num_local_rows = (int)(t->GetNumRowsOfBoxes());
    std::vector<int> num_rows(PetscTools::GetNumProcs());
    MPI_Gather(&num_local_rows, 1, MPI_INT, &num_rows[0], 1, MPI_INT, 0, PETSC_COMM_WORLD);

    if (PetscTools::AmMaster())
    {
        bool are_boxes_set = t->GetAreLocalBoxesSet();
        ar << are_boxes_set;

        c_vector<double, 2*DIM> domain_size = t->rGetDomainSize();
        for (unsigned i=0; i<2*DIM; i++)
        {
            ar << domain_size[i];
        }

        double box_width = t->GetBoxWidth();
        ar << box_width;

        unsigned num_procs = PetscTools::GetNumProcs();
        ar << num_procs;

        std::vector<int> const const_num_rows = num_rows;
        ar << const_num_rows;
    }
}
template<class Archive, unsigned DIM>
inline void load_construct_data(
    Archive & ar, DistributedBoxCollection<DIM> * t, const unsigned int file_version)
{
    bool are_boxes_set;
    ar >> are_boxes_set;

    // Retrieve data from archive required to construct new instance of Node
    c_vector<double,2*DIM> domain_size;
    for (unsigned i=0; i<2*DIM; i++)
    {
        double coordinate;
        ar & coordinate; //resume coordinates one by one
        domain_size[i] = coordinate;
    }

    // Shrink the domain size slightly so we get the correct size on construction
    for (unsigned i=0; i<DIM; i++)
    {
        domain_size[2*i+1] -= 1e-14;
    }
    double cut_off;
    ar >> cut_off;

    unsigned num_original_procs;
    ar >> num_original_procs;

    int num_rows = PETSC_DECIDE;
    std::vector<int> original_rows;
    ar >> original_rows;
    if (num_original_procs == PetscTools::GetNumProcs())
    {
        num_rows = original_rows[PetscTools::GetMyRank()];
    }

    // Invoke inplace constructor to initialise instance. Assume non-periodic
    ::new(t)DistributedBoxCollection<DIM>(cut_off, domain_size, false, num_rows);

    if (are_boxes_set)
    {
        t->SetupHaloBoxes();
        t->SetupLocalBoxesHalfOnly();
    }
}
}
} // namespace ...


#endif /*DISTRIBUTEDBOXCOLLECTION_HPP_*/