cl_HDF5.hpp

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/*
 * BELFEM -- The Berkeley Lab Finite Element Framework
 * Copyright (c) 2026, The Regents of the University of California,
 * through Lawrence Berkeley National Laboratory (subject to receipt of any required
 * approvals from the U.S. Dept. of Energy).  All rights reserved.
 *
 * Developers: Christian Messe, Gregory Giard
 *
 * See the top-level LICENSE file for the complete license and disclaimer.
 */
 
#ifndef BELFEM_CL_HDF5_HPP
#define BELFEM_CL_HDF5_HPP
 
 
#include "typedefs.hpp"
#include "filetools.hpp"
 
#include "hdf5_tools.hpp"
 
#include "cl_Vector.hpp"
#include "cl_Matrix.hpp"
#include "cl_Cell.hpp"
 
//------------------------------------------------------------------------------
 
namespace belfem
{
 
//------------------------------------------------------------------------------

    class HDF5
    {
        // path to data file
        string mPath;
 
        // pointer to file
        hid_t  mFile;
 
        // pointer to active group
        hid_t  mActiveGroup = -1;
 
        string mActiveGroupLabel = "";
 
        // error status of file
        herr_t mStatus = 0;
 
        // flag telling if file is open
        bool   mFileIsOpen = false;
 
        Cell< string > mTreeLabels ;
        Cell< hid_t  > mTree ;
 
//------------------------------------------------------------------------------
    public:
//------------------------------------------------------------------------------

        HDF5(   const string & aPath,
             const enum FileMode aMode=FileMode::NEW,
             const bool aParallelMode=false );
 
//------------------------------------------------------------------------------

        ~HDF5();
 
//------------------------------------------------------------------------------

        void
        close();
 
//------------------------------------------------------------------------------
 
        herr_t &
        status();
 
//------------------------------------------------------------------------------
// GROUP FUNCTIONS
//------------------------------------------------------------------------------

        hid_t
        create_group( const string & aLabel );
 
//------------------------------------------------------------------------------

        hid_t
        create_group( const string & aLabel,
                      const hid_t    aParent );
 
//------------------------------------------------------------------------------

        hid_t
        select_group( const string & aLabel );
 
//------------------------------------------------------------------------------
 
        void
        close_active_group();
 
//------------------------------------------------------------------------------
 
        void
        close_tree();
 
//------------------------------------------------------------------------------
 
        hid_t
        active_group() const;
 
//------------------------------------------------------------------------------
 
        const string &
        tree() const ;
 
//------------------------------------------------------------------------------
// Save Strings
//------------------------------------------------------------------------------

        void
        save_data( const string & aLabel,
                   const string & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        void
        save_data( const string & aLabel,
                   const char *   aValue );
 
//------------------------------------------------------------------------------
// Load Strings
//------------------------------------------------------------------------------
 
        void
        load_data( const string & aLabel,
                         string & aValue );
 
//------------------------------------------------------------------------------
// Save Scalars
//------------------------------------------------------------------------------

        void
        save_data( const string & aLabel,
                   const sint   & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

        void
        save_data( const string & aLabel,
                   const uint   & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

        void
        save_data( const string & aLabel,
                   const luint  & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

        void
        save_data( const string & aLabel,
                   const lluint & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

        void
        save_data( const string & aLabel,
                   const real   & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

        void
        save_data( const string & aLabel,
                   const bool   & aValue );
 
//------------------------------------------------------------------------------
// Load Scalars
//------------------------------------------------------------------------------
 
        void
        load_data( const string & aLabel,
                         bool   & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        void
        load_data( const string & aLabel,
                         sint   & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        void
        load_data( const string & aLabel,
                         uint   & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        void
        load_data( const string & aLabel,
                         luint   & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        void
        load_data( const string & aLabel,
                         lluint  & aValue );
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        void
        load_data( const string & aLabel,
                         real   & aValue );
 
//------------------------------------------------------------------------------
// Cells
//------------------------------------------------------------------------------
 
        template< typename T >
        void
        save_data( const string    & aLabel,
                   const Cell< T > & aCell )
        {
            hdf5::save_array_to_file(
                mActiveGroup,
                aLabel,
                aCell.data(),
                aCell.size(),
                mStatus );
        }
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        template< typename T >
        void
        load_data( const string    & aLabel,
                         Cell< T > & aCell )
        {
            hsize_t tSize = hdf5::get_array_size( mActiveGroup, aLabel );
 
            aCell.set_size( tSize );
 
            hdf5::load_array_from_file(
                mActiveGroup,
                aLabel,
                aCell.data(),
                aCell.size(),
                mStatus );
        }
 
//------------------------------------------------------------------------------
// Vectors
//------------------------------------------------------------------------------
 
        template< typename T >
        void
        save_data( const string      & aLabel,
                   const Vector< T > & aVector )
        {
            // call interface
            hdf5::save_vector_to_file(
                    mActiveGroup,
                    aLabel,
                    aVector,
                    mStatus );
        }
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        template< typename T >
        void
        load_data( const string      & aLabel,
                         Vector< T > & aVector )
        {
            hdf5::load_vector_from_file(
                    mActiveGroup,
                    aLabel,
                    aVector,
                    mStatus );
        }
 
//------------------------------------------------------------------------------
//  Matrices
//------------------------------------------------------------------------------
 
        template< typename T >
        void
        save_data( const string      & aLabel,
                   const Matrix< T > & aMatrix,
                   const bool            aTranspose = false )
        {
            // call interface
            hdf5::save_matrix_to_file(
                    mActiveGroup,
                    aLabel,
                    aMatrix,
                    mStatus,
                    aTranspose );
        }
 
// - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
 
        template< typename T >
        void
        load_data( const string      & aLabel,
                         Matrix< T > & aMatrix,
                         const bool    aTranspose = false )
        {
            // call interface
            hdf5::load_matrix_from_file(
                    mActiveGroup,
                    aLabel,
                    aMatrix,
                    mStatus,
                    aTranspose );
        }
 
//------------------------------------------------------------------------------
//  Raw Arrays
//------------------------------------------------------------------------------
 
        template< typename T >
        void
        save_data(
            const string  & aLabel,
            const T       * aArray,
            const index_t   aMemorySize )
        {
            hdf5::save_array_to_file(
                mActiveGroup,
                aLabel,
                aArray,
                aMemorySize,
                mStatus );
        }
 
        template< typename T >
        void
        load_data(
            const string  & aLabel,
            T             * aArray,
            const index_t   aMemorySize ) // <-- must be known a priori
        {
            hdf5::load_array_from_file(
                mActiveGroup,
                aLabel,
                aArray,
                aMemorySize,
                mStatus );
        }
 
//------------------------------------------------------------------------------
    };
 
//------------------------------------------------------------------------------
// Cells of strings
//------------------------------------------------------------------------------
 
    template<>
    inline void
    HDF5::save_data( const string         & aLabel,
                     const Cell< string > & aCell )
    {
#ifdef BELFEM_HDF5
        hdf5::save_strings_to_file( mActiveGroup, aLabel, aCell, mStatus );
#endif
    }
 
    template<>
    inline void
    HDF5::load_data(
        const string         & aLabel,
        Cell< string > & aCell )
    {
#ifdef BELFEM_HDF5
      hdf5::load_strings_from_file( mActiveGroup, aLabel, aCell, mStatus );
#endif
    }
 
//------------------------------------------------------------------------------
} /* namespace belfem */
 
//------------------------------------------------------------------------------
#endif //BELFEM_CL_HDF5_HPP