CellVecData.hpp

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*/
 
#ifndef CELLVECDATA_HPP_
#define CELLVECDATA_HPP_
 
#include <boost/shared_ptr.hpp>
#include <map>
#include <string>
#include <vector>
 
#include <petscvec.h>
 
#include "AbstractCellProperty.hpp"
#include "ChasteSerialization.hpp"
#include <boost/serialization/base_object.hpp>
#include <boost/serialization/map.hpp>
#include <boost/serialization/array.hpp>
#include "Exception.hpp"
#include "ArchiveLocationInfo.hpp"
 
 
class CellVecData : public AbstractCellProperty
{
private:
 
    std::map<std::string, Vec> mCellVecData;
 
    bool mFreeVecs;
 
    friend class boost::serialization::access;
    template<class Archive>
    void serialize(Archive & archive, const unsigned int version)
    {
        archive & boost::serialization::base_object<AbstractCellProperty>(*this);
    }
 
public:
 
    CellVecData();
 
    CellVecData(const CellVecData& rAnotherCellVecData);
 
    CellVecData(const std::map<std::string, Vec>& rCellVecDataMap);
 
    virtual ~CellVecData();
 
    void SetItem(const std::string& rVariableName, Vec data);
 
    Vec GetItem(const std::string& rVariableName) const;
 
    unsigned GetNumItems() const;
 
    std::vector<std::string> GetKeys() const;
};
 
#include "SerializationExportWrapper.hpp"
// Declare identifier for the serializer
CHASTE_CLASS_EXPORT(CellVecData)
 
 
namespace boost
{
namespace serialization
{
template<class Archive>
inline void save_construct_data(
    Archive & ar, const CellVecData * t, const unsigned int file_version)
{
    unsigned map_size = t->GetNumItems();
    ar << map_size;
 
    std::vector<std::string> keys = t->GetKeys();
 
    for (std::vector<std::string>::iterator iter = keys.begin(); iter != keys.end(); ++iter)
    {
        std::string key = *iter;
        ar << key;
        Vec vec_data = t->GetItem(key);
 
        // Machinery for archiving a sequential PETSc Vec as a boost make_array.
        double *p_vec_data;
        VecGetArray(vec_data, &p_vec_data);
        PetscInt size, local_size;
        VecGetSize(vec_data, &size);
        VecGetLocalSize(vec_data, &local_size);
        // This will fail if we run in parallel and the vector is shared MPI (size is global)
        assert( local_size == size);
        ar << size;
        ar << make_array(p_vec_data, size);
        VecRestoreArray(vec_data, &p_vec_data);
 
        //std::string archive_filename = ArchiveLocationInfo::GetArchiveDirectory() + key + ".vec";
        //PetscTools::DumpPetscObject(t->GetItem(key), archive_filename);
    }
 
}
 
template<class Archive>
inline void load_construct_data(
    Archive & ar, CellVecData * t, const unsigned int file_version)
{
    unsigned map_size;
    ar >> map_size;
 
    std::map<std::string, Vec> archived_cell_vec_data;
    for (unsigned map_entry = 0; map_entry < map_size; ++map_entry)
    {
        std::string key;
        ar >> key;
 
        // Un-archive vector data and construct a new PETSc Vec for it
        PetscInt size;
        ar >> size;
        Vec archived_vec = PetscTools::CreateVec(size);
        double *p_archived_vec;
        VecGetArray(archived_vec, &p_archived_vec);
        ar >> make_array<double>(p_archived_vec, size);
        VecRestoreArray(archived_vec, &p_archived_vec);
 
        //std::string archive_filename = ArchiveLocationInfo::GetArchiveDirectory() + key + ".vec";
        //PetscTools::ReadPetscObject(archived_vec, archive_filename);
 
        archived_cell_vec_data[key] = archived_vec;
    }
 
     ::new(t)CellVecData(archived_cell_vec_data);
}
}
}
 
#endif /* CELLVECDATA_HPP_ */