NCWriteHelper.hpp

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/*
 * NCWriteHelper.hpp
 *
 * Purpose       : Climate NC writer file helper; abstract, will be implemented for each type
 *
 *  Created on: Mar 28, 2014
 */

#ifndef NCWRITEHELPER_HPP_
#define NCWRITEHELPER_HPP_
#include "WriteNC.hpp"

#ifdef WIN32
#ifdef size_t
#undef size_t
#endif
#endif

namespace moab
{

class NCWriteHelper
{
  public:
    NCWriteHelper( WriteNC* writeNC, int fileId, const FileOptions& opts, EntityHandle fileSet )
        : _writeNC( writeNC ), _fileId( fileId ), _opts( opts ), _fileSet( fileSet ), nTimeSteps( 0 ), nLevels( 1 ),
          tDim( -1 ), levDim( -1 )
    {
    }
    virtual ~NCWriteHelper(){};

    //! Get appropriate helper instance for WriteNC class based on some info in the file set
    static NCWriteHelper* get_nc_helper( WriteNC* writeNC, int fileId, const FileOptions& opts, EntityHandle fileSet );

    //! Collect necessary info about local mesh (implemented in child classes)
    virtual ErrorCode collect_mesh_info() = 0;

    //! Collect data for specified variables (partially implemented in child classes)
    virtual ErrorCode collect_variable_data( std::vector< std::string >& var_names, std::vector< int >& tstep_nums );

    //! Initialize file: this is where all defines are done
    //! The VarData dimension ids are filled up after define
    ErrorCode init_file( std::vector< std::string >& var_names,
                         std::vector< std::string >& desired_names,
                         bool _append );

    //! Take the info from VarData and write first non-set variables, then set variables
    ErrorCode write_values( std::vector< std::string >& var_names, std::vector< int >& tstep_nums );

  private:
    // Write set variables (common to scd mesh and ucd mesh)
    ErrorCode write_set_variables( std::vector< WriteNC::VarData >& vsetdatas, std::vector< int >& tstep_nums );

  protected:
    // Write non-set variables (implemented in child classes)
    virtual ErrorCode write_nonset_variables( std::vector< WriteNC::VarData >& vdatas,
                                              std::vector< int >& tstep_nums ) = 0;

    //! Allow NCWriteHelper to directly access members of WriteNC
    WriteNC* _writeNC;

    //! Cache some information from WriteNC
    int _fileId;
    const FileOptions& _opts;
    EntityHandle _fileSet;

    //! Dimensions of time and level
    int nTimeSteps, nLevels;

    //! Dimension numbers for time and level
    int tDim, levDim;

    //! Local owned cells, edges and vertices
    Range localCellsOwned, localEdgesOwned, localVertsOwned;

    //! Time values of output timesteps
    std::vector< double > timeStepVals;
};

//! Child helper class for scd mesh, e.g. CAM_EL or CAM_FV
class ScdNCWriteHelper : public NCWriteHelper
{
  public:
    ScdNCWriteHelper( WriteNC* writeNC, int fileId, const FileOptions& opts, EntityHandle fileSet )
        : NCWriteHelper( writeNC, fileId, opts, fileSet )
    {
        for( unsigned int i = 0; i < 6; i++ )
        {
            lDims[i]  = -1;
            lCDims[i] = -1;
        }
    }
    virtual ~ScdNCWriteHelper() {}

  private:
    //! Implementation of NCWriteHelper::collect_mesh_info()
    virtual ErrorCode collect_mesh_info();

    //! Collect data for specified variables
    virtual ErrorCode collect_variable_data( std::vector< std::string >& var_names, std::vector< int >& tstep_nums );

    //! Implementation of NCWriteHelper::write_nonset_variables()
    virtual ErrorCode write_nonset_variables( std::vector< WriteNC::VarData >& vdatas, std::vector< int >& tstep_nums );

    template < typename T >
    void jik_to_kji( size_t ni, size_t nj, size_t nk, T* dest, T* source )
    {
        size_t nik = ni * nk, nij = ni * nj;
        for( std::size_t k = 0; k != nk; k++ )
            for( std::size_t j = 0; j != nj; j++ )
                for( std::size_t i = 0; i != ni; i++ )
                    dest[k * nij + j * ni + i] = source[j * nik + i * nk + k];
    }

  protected:
    //! Dimensions of my local part of grid
    int lDims[6];

    //! Center dimensions of my local part of grid
    int lCDims[6];
};

//! Child helper class for ucd mesh, e.g. CAM_SE (HOMME) or MPAS
class UcdNCWriteHelper : public NCWriteHelper
{
  public:
    UcdNCWriteHelper( WriteNC* writeNC, int fileId, const FileOptions& opts, EntityHandle fileSet )
        : NCWriteHelper( writeNC, fileId, opts, fileSet ), cDim( -1 ), eDim( -1 ), vDim( -1 )
    {
    }
    virtual ~UcdNCWriteHelper() {}

  protected:
    //! This version takes as input the moab range, from which we actually need just the
    //! size of each sequence, for a proper transpose of the data
    template < typename T >
    void jik_to_kji_stride( size_t, size_t nj, size_t nk, T* dest, T* source, Range& localGid )
    {
        std::size_t idxInSource = 0;  // Position of the start of the stride
        // For each subrange, we will transpose a matrix of size
        // subrange*nj*nk (subrange takes the role of ni)
        for( Range::pair_iterator pair_iter = localGid.pair_begin(); pair_iter != localGid.pair_end(); ++pair_iter )
        {
            std::size_t size_range = pair_iter->second - pair_iter->first + 1;
            std::size_t nik = size_range * nk, nij = size_range * nj;
            for( std::size_t k = 0; k != nk; k++ )
                for( std::size_t j = 0; j != nj; j++ )
                    for( std::size_t i = 0; i != size_range; i++ )
                        dest[idxInSource + k * nij + j * size_range + i] = source[idxInSource + j * nik + i * nk + k];
            idxInSource += ( size_range * nj * nk );
        }
    }

    //! Dimension numbers for nCells, nEdges and nVertices
    int cDim, eDim, vDim;

    //! Local global ID for owned cells, edges and vertices
    Range localGidCellsOwned, localGidEdgesOwned, localGidVertsOwned;
};

}  // namespace moab

#endif