/*
This file is part of the Open Porous Media project (OPM).
OPM is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 2 of the License, or
(at your option) any later version.
OPM is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with OPM. If not, see .
Consult the COPYING file in the top-level source directory of this
module for the precise wording of the license and the list of
copyright holders.
*/
#ifndef HDF5_FILE_HPP
#define HDF5_FILE_HPP
#include
#include
#include
#include
namespace Opm {
//! \brief Class handling simple output to HDF5.
class HDF5File {
public:
//! \brief Enumeration of file opening modes.
enum class OpenMode {
APPEND, //!< Append to an existing file (creates new if not)
OVERWRITE, //!< Overwrite and write to an existing file
READ //!< Open existing file for reading
};
//! \brief Enumeration of dataset modes.
enum class DataSetMode {
ROOT_ONLY, //!< A single dataset created at the root process
PROCESS_SPLIT //!< One separate data set for each parallel process
};
//! \brief Opens HDF5 file for I/O.
//! \param fileName Name of file to open
//! \param mode Open mode for file
HDF5File(const std::string& fileName,
OpenMode mode,
Parallel::Communication comm);
//! \brief Destructor clears up any opened files.
~HDF5File();
//! \brief Write a char buffer to a specified location in file.
//! \param group Group ("directory") to write data to
//! \param dset Data set ("file") to write data to
//! \param buffer Data to write
//! \details Throws exception on failure
void write(const std::string& group,
const std::string& dset,
const std::vector& buffer,
DataSetMode mode = DataSetMode::PROCESS_SPLIT) const;
//! \brief Read a char buffer from a specified location in file.
//! \param group Group ("directory") to read data from
//! \param dset Data set ("file") to read data from
//! \param buffer Vector to store read data in
//! \details Throws exception on failure
void read(const std::string& group,
const std::string& dset,
std::vector& buffer,
DataSetMode Mode = DataSetMode::PROCESS_SPLIT) const;
//! \brief Lists the entries in a given group.
//! \details Note: Both datasets and subgroups are returned
std::vector list(const std::string& group) const;
private:
//! \brief Write data from each process to a separate dataset.
//! \param grp Handle for group to store dataset in
//! \param buffer Data to write
//! \param dset Name of dataset
void writeSplit(hid_t grp,
const std::vector& buffer,
const std::string& dset) const;
//! \brief Write data from root process only.
//! \param grp Handle for group to store dataset in
//! \param buffer Data to write
//! \param dset Name of dataset
void writeRootOnly(hid_t grp,
const std::vector& buffer,
const std::string& group,
const std::string& dset) const;
//! \brief Return a dataset creation properly list with compression settings.
//! \param size Size of dataset
hid_t getCompression(hsize_t size) const;
//! \brief Helper function to write a dataset.
//! \param rank Process rank that should write
//! \param dataset_id Handle for dataset to write
//! \param dxpl Dataset transfer property list
//! \param size Size of dataset
//! \param data Data to write
void writeDset(int rank, hid_t dataset_id,
hid_t dxpl, hsize_t size, const void* data) const;
hid_t m_file = H5I_INVALID_HID; //!< File handle
Parallel::Communication comm_;
};
}
#endif