namespace Gambit::Printers::HDF5 #

[No description available]

Classes #

Functions #

Attributes #

Functions Documentation #

function openFile #

hid_t openFile(
    const std::string & fname,
    bool overwrite,
    bool & oldfile,
    const char access_type ='r'
)

File and group manipulation.

Create or open hdf5 file

Create or open hdf5 file third argument “oldfile” is used to report whether an existing file was opened (true if yes)

function openFile #

hid_t openFile(
    const std::string & fname,
    bool overwrite =false,
    const char access_type ='r'
)

Create or open hdf5 file (ignoring feedback regarding whether file already existed)

function closeFile #

hid_t closeFile(
    hid_t file
)

Close hdf5 file.

function checkFileReadable #

bool checkFileReadable(
    const std::string & fname,
    std::string & msg
)

Check if hdf5 file exists and can be opened in read/write mode.

Check if hdf5 file exists and can be opened in read mode.

function checkFileReadable #

inline bool checkFileReadable(
    const std::string & fname
)

Thin wrapper for the above to discard failure message.

function checkGroupReadable #

bool checkGroupReadable(
    hid_t location,
    const std::string & groupname,
    std::string & msg
)

Check if a group exists and can be accessed.

function checkGroupReadable #

inline bool checkGroupReadable(
    hid_t location,
    const std::string & groupname
)

Thin wrapper for the above to discard failure message.

function checkDatasetReadable #

std::pair< bool, std::size_t > checkDatasetReadable(
    hid_t location,
    const std::string & dsetname
)

Check if a dataset exists and can be read from fully (Reads through entire dataset to make sure! May take some time)

function createFile #

hid_t createFile(
    const std::string & fname
)

Create hdf5 file (always overwrite existing files)

function createGroup #

hid_t createGroup(
    hid_t location,
    const std::string & name
)

Create a group inside the specified location.

function errorsOff #

void errorsOff()

Silence error report (e.g. while probing for file existence)

Silence error report (e.g. while probing for file existence) Just silences default error stack, since we aren’t using anything else TESTING! I changed from using H5Eget_auto to H5Eget_auto2 If that still causes errors, try switching to H5Eget_auto1 and let me know if it works :)

function errorsOn #

void errorsOn()

Restore error report.

function openGroup #

hid_t openGroup(
    hid_t file_id,
    const std::string & name,
    bool nocreate =false
)

function closeGroup #

hid_t closeGroup(
    hid_t group
)

Close group.

function lsGroup #

std::vector< std::string > lsGroup(
    hid_t group_id
)

List object names in a group.

function getH5DatasetType #

hid_t getH5DatasetType(
    hid_t group_id,
    const std::string & dset_name
)

Get type of an object in a group.

Get type of a dataset in a group NOTE: Make sure to call closeType when the ID is no longer needed!

function closeType #

hid_t closeType(
    hid_t type_id
)

Release datatype identifier.

function openDataset #

hid_t openDataset(
    hid_t dset_id,
    const std::string & name,
    bool error_off =false
)

Dataset and dataspace manipulation.

Dataset manipulations.

Open dataset

function closeDataset #

hid_t closeDataset(
    hid_t dset_id
)

Close dataset.

function getSpace #

hid_t getSpace(
    hid_t dset_id
)

Get dataspace.

function closeSpace #

hid_t closeSpace(
    hid_t space_id
)

Close dataspace.

function getSimpleExtentNpoints #

hssize_t getSimpleExtentNpoints(
    hid_t dset_id
)

Get simple dataspace extent.

function getName #

std::string getName(
    hid_t dset_id
)

Get name of dataset.

Close dataset.

Open/close dataspace; input dataset, output dataspace Get simple dataspace extent (number of points); input dataspace, output data extent (size) Get dataset name

function selectChunk #

std::pair< hid_t, hid_t > selectChunk(
    const hid_t dset_id,
    std::size_t offset,
    std::size_t length
)

Select a simple hyperslab in a 1D dataset.

function isDataSet #

bool isDataSet(
    hid_t group_id,
    const std::string & name
)

Check if an object in a group is a dataset.

Check if an object in a file or group is a dataset.

function getChunk #

template <class T >
std::vector< T > getChunk(
    const hid_t dset_id,
    std::size_t offset,
    std::size_t length
)

Retrieve a chunk of data from a simple dataset NOTE! Doesn’t work for T=bool! Have a custom specialisation in the source file for that.

function getChunk #

std::vector< bool > getChunk(
    const hid_t dset_id,
    std::size_t offset,
    std::size_t length
)

function inttype_from_h5type #

int inttype_from_h5type(
    hid_t h5type
)

function is_float_type #

bool is_float_type(
    int inttype
)

function type_ret #

template <typename T >
inline T type_ret()

function Enter_HDF5 #

template <class U ,
typename... T>
inline void Enter_HDF5(
    hid_t dataset,
    T &... params
)

function combine_hdf5_files #

inline void combine_hdf5_files(
    const std::string output_file,
    const std::string & base_file_name,
    const std::string & group,
    const std::string & metadata_group,
    const size_t num,
    const bool resume,
    const bool cleanup,
    const bool skip,
    const std::vector< std::string > input_files =std::vector< std::string >()
)

function get_RA_write_hash #

std::unordered_map< PPIDpair, unsigned long long, PPIDHash, PPIDEqual > get_RA_write_hash(
    hid_t group_id,
    std::unordered_set< PPIDpair, PPIDHash, PPIDEqual > & left_to_match
)

Helper function to create output hash map for RA points note: left_to_match points will be erased as we go, and are passed by reference, so will be erased in calling context also.

function find_temporary_files #

std::pair< std::vector< std::string >, std::vector< size_t > > find_temporary_files(
    const std::string & finalfile
)

Search for temporary files to be combined.

function find_temporary_files #

std::pair< std::vector< std::string >, std::vector< size_t > > find_temporary_files(
    const std::string & finalfile,
    size_t & max_i
)

Search for temporary files to be combined.

function getGroupNum #

inline hsize_t getGroupNum(
    hid_t group_id
)

function getType #

inline hid_t getType(
    hid_t dataset
)

function get_dset_names #

std::vector< std::string > get_dset_names(
    hid_t group_id
)

function op_func #

inline herr_t op_func(
    hid_t loc_id,
    const char * name_in,
    const H5L_info_t * ,
    void * operator_data
)

function op_func_aux #

inline herr_t op_func_aux(
    hid_t loc_id,
    const char * name_in,
    const H5L_info_t * ,
    void * operator_data
)

function setup_hdf5_points #

inline void setup_hdf5_points(
    hid_t new_group,
    hid_t type,
    unsigned long long size_tot,
    const std::string & name
)

function setup_hdf5_points #

inline void setup_hdf5_points(
    hid_t new_group,
    hid_t type,
    hid_t type2,
    unsigned long long size_tot,
    const std::string & name
)

function getGroups #

inline std::vector< std::string > getGroups(
    std::string groups
)

function create_GAMBIT_fapl #

hid_t create_GAMBIT_fapl()

GAMBIT default file access property list.

function H5P_GAMBIT #

const hid_t H5P_GAMBIT(
    create_GAMBIT_fapl() 
)

Const global for the GAMBIT fapl.

function getChunk #

std::vector< bool > getChunk(
    const hid_t dset_id,
    std::size_t offset,
    std::size_t length
)

function _checkDatasetReadable_helper #

template <class T >
std::pair< bool, std::size_t > _checkDatasetReadable_helper(
    hid_t dset_id,
    const std::string dset_name
)

function group_ls #

herr_t group_ls(
    hid_t g_id,
    const char * name,
    const H5L_info_t * ,
    void * op_data
)

Attributes Documentation #

variable old_func #

H5E_auto2_t old_func;

Close hdf5 type ID.

Close hdf5 group global error variables (handler)

variable old_client_data #

void * old_client_data;

Updated on 2023-06-26 at 21:36:52 +0000