closeAllHDF5Handles

C++ Function Reference

1 Signature

void BigDataStatMeth::closeAllHDF5Handles()

2 Description

Close all open HDF5 handles at the C library level.

3 Details

Uses HDF5 C API to find and close all open objects (files, datasets, groups, datatypes, attributes) regardless of how they were opened. Equivalent to rhdf5::h5closeAll(). Safe to call at any time — invalid IDs are skipped silently.

4 Source Code

Implementation

File: inst/include/hdf5Utilities/hdf5CheckClose.hpp • Lines 108-123

inline void closeAllHDF5Handles() {
        try {
            // Exclude H5F_OBJ_DATATYPE: the HDF5 library keeps pre-defined types
            // (H5T_NATIVE_DOUBLE, etc.) permanently open as library-level objects.
            // Closing them corrupts the library state for subsequent operations.
            const unsigned types = H5F_OBJ_FILE | H5F_OBJ_DATASET |
                H5F_OBJ_GROUP | H5F_OBJ_ATTR;
            ssize_t n = H5Fget_obj_count(H5F_OBJ_ALL, types);
            if (n <= 0) return;
            std::vector<hid_t> ids(static_cast<size_t>(n));
            H5Fget_obj_ids(H5F_OBJ_ALL, types,
                           static_cast<size_t>(n), ids.data());
            for (hid_t id : ids)
                if (H5Iis_valid(id) > 0) H5Oclose(id);
        } catch (...) {}
    }

5 Usage Example

#include "BigDataStatMeth.hpp"

// Example usage
auto result = closeAllHDF5Handles(...);