PostProcessingWriter.hpp

/*

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*/

#ifndef POSTPROCESSINGWRITER_HPP_
#define POSTPROCESSINGWRITER_HPP_


#include "Hdf5DataReader.hpp"
#include "PropagationPropertiesCalculator.hpp"
#include "AbstractTetrahedralMesh.hpp"
#include <string>

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class PostProcessingWriter
{
    friend class TestPostProcessingWriter;

private:
    FileFinder mDirectory; 
    std::string mHdf5File; 
    std::string mVoltageName; 
    Hdf5DataReader* mpDataReader; 
    PropagationPropertiesCalculator* mpCalculator; 
    unsigned mLo; 
    unsigned mHi; 
    AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>& mrMesh;
    hsize_t mHdf5DataWriterChunkSize; 
public:
    PostProcessingWriter(AbstractTetrahedralMesh<ELEMENT_DIM, SPACE_DIM>& rMesh,
                         const FileFinder& rDirectory,
                         const std::string& rHdf5FileName,
                         const std::string& rVoltageName = "V",
                         hsize_t hdf5DataWriterChunkSize=0);

    void WritePostProcessingFiles();

    ~PostProcessingWriter();

    void WriteAboveThresholdDepolarisationFile(double threshold);

private:

    void WriteVariablesOverTimeAtNodes(std::vector<unsigned>& rNodeIndices);

    void WriteApdMapFile(double repolarisationPercentage, double threshold);


    void WriteUpstrokeTimeMap(double threshold);

    void WriteMaxUpstrokeVelocityMap(double threshold);

    void WriteConductionVelocityMap(unsigned originNode, std::vector<double> distancesFromOriginNode);

    void WriteGenericFileToMeshalyzer(std::vector<std::vector<double> >& rDataPayload, const std::string& rFolder, const std::string& rFileName);

    void WriteOutputDataToHdf5(const std::vector<std::vector<double> >& rDataPayload,
                               const std::string& rDatasetName,
                               const std::string& rDatasetUnit,
                               const std::string& rUnlimitedVariableName = "PaceNumber",
                               const std::string& rUnlimitedVariableUnit = "dimensionless");

    std::string ConvertToHdf5FriendlyString(double threshold);
};

#endif /*POSTPROCESSINGWRITER_HPP_*/