diff options
Diffstat (limited to 'java/src/hdf')
| -rw-r--r-- | java/src/hdf/CMakeLists.txt | 2 | ||||
| -rw-r--r-- | java/src/hdf/hdf5lib/CMakeLists.txt | 9 | ||||
| -rw-r--r-- | java/src/hdf/hdf5lib/H5.java | 158 |
3 files changed, 144 insertions, 25 deletions
diff --git a/java/src/hdf/CMakeLists.txt b/java/src/hdf/CMakeLists.txt index ecff984..161ddf1 100644 --- a/java/src/hdf/CMakeLists.txt +++ b/java/src/hdf/CMakeLists.txt @@ -1,4 +1,4 @@ cmake_minimum_required (VERSION 3.10) -PROJECT (HDF5_JAVA_HDF) +project (HDF5_JAVA_HDF C) add_subdirectory (hdf5lib) diff --git a/java/src/hdf/hdf5lib/CMakeLists.txt b/java/src/hdf/hdf5lib/CMakeLists.txt index 9506fc1..c171ea8 100644 --- a/java/src/hdf/hdf5lib/CMakeLists.txt +++ b/java/src/hdf/hdf5lib/CMakeLists.txt @@ -1,14 +1,9 @@ cmake_minimum_required (VERSION 3.10) -PROJECT (HDF5_JAVA_HDF_HDF5 Java) +project (HDF5_JAVA_HDF_HDF5 Java) set (CMAKE_VERBOSE_MAKEFILE 1) -INCLUDE_DIRECTORIES ( - ${HDF5_JAVA_HDF_HDF5_SOURCE_DIR} - ${HDF5_JAVA_HDF_HDF5_BINARY_DIR} - ${HDF5_JAVA_LIB_DIR} - ${CMAKE_CURRENT_BINARY_DIR}/CMakeFiles/${HDF5_JAVA_HDF5_LIB_CORENAME}.dir/hdf/hdf5lib -) +set_directory_properties(PROPERTIES INCLUDE_DIRECTORIES "${HDF5_JAVA_HDF_HDF5_SOURCE_DIR};${HDF5_JAVA_HDF_HDF5_BINARY_DIR};${HDF5_JAVA_LIB_DIR};${CMAKE_CURRENT_BINARY_DIR}/CMakeFiles/${HDF5_JAVA_HDF5_LIB_CORENAME}.dir/hdf/hdf5lib") SET_GLOBAL_VARIABLE (HDF5_JAVA_SOURCE_PACKAGES "${HDF5_JAVA_SOURCE_PACKAGES};hdf.hdf5lib.callbacks;hdf.hdf5lib.exceptions;hdf.hdf5lib.structs;hdf.hdf5lib" diff --git a/java/src/hdf/hdf5lib/H5.java b/java/src/hdf/hdf5lib/H5.java index 5c4fc40..a37ddf8 100644 --- a/java/src/hdf/hdf5lib/H5.java +++ b/java/src/hdf/hdf5lib/H5.java @@ -1276,6 +1276,38 @@ public class H5 implements java.io.Serializable { // //////////////////////////////////////////////////////////// // // + // H5AC: Cache Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // No public Functions + + // //////////////////////////////////////////////////////////// + // // + // H5B: B-link-tree Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // No public Functions + + // //////////////////////////////////////////////////////////// + // // + // H5B2: v2 B-tree Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // No public Functions + + // //////////////////////////////////////////////////////////// + // // + // H5C: Cache Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // No public Functions + + // //////////////////////////////////////////////////////////// + // // // H5D: Datasets Interface Functions // // // // //////////////////////////////////////////////////////////// @@ -2109,6 +2141,10 @@ public class H5 implements java.io.Serializable { // /////// unimplemented //////// // H5_DLL herr_t H5Ddebug(hid_t dset_id); + // H5_DLL herr_t H5Dget_chunk_storage_size(hid_t dset_id, const hsize_t *offset, hsize_t *chunk_bytes); + // H5_DLL herr_t H5Dformat_convert(hid_t dset_id); + // H5_DLL herr_t H5Dget_chunk_index_type(hid_t did, H5D_chunk_index_t *idx_type); + // herr_t H5Dgather(hid_t src_space_id, const void *src_buf, hid_t type_id, // size_t dst_buf_size, void *dst_buf, H5D_gather_func_t op, void *op_data); // herr_t H5Dscatter(H5D_scatter_func_t op, void *op_data, hid_t type_id, hid_t dst_space_id, void *dst_buf); @@ -2912,12 +2948,22 @@ public class H5 implements java.io.Serializable { public synchronized static native void H5Fget_mdc_logging_status(long file_id, boolean[] mdc_logging_status) throws HDF5LibraryException, NullPointerException; - - // /////// unimplemented //////// + // H5_DLL herr_t H5Fget_eoa(hid_t file_id, haddr_t *eoa); + // H5_DLL herr_t H5Fincrement_filesize(hid_t file_id, hsize_t increment); // ssize_t H5Fget_file_image(hid_t file_id, void * buf_ptr, size_t buf_len); // herr_t H5Fget_metadata_read_retry_info(hid_t file_id, H5F_retry_info_t *info); // ssize_t H5Fget_free_sections(hid_t file_id, H5F_mem_t type, size_t nsects, H5F_sect_info_t *sect_info/*out*/); + // H5_DLL herr_t H5Fset_libver_bounds(hid_t file_id, H5F_libver_t low, H5F_libver_t high); + // H5_DLL herr_t H5Fformat_convert(hid_t fid); + // H5_DLL herr_t H5Freset_page_buffering_stats(hid_t file_id); + // H5_DLL herr_t H5Fget_page_buffering_stats(hid_t file_id, unsigned accesses[2], + // unsigned hits[2], unsigned misses[2], unsigned evictions[2], unsigned bypasses[2]); + // H5_DLL herr_t H5Fget_mdc_image_info(hid_t file_id, haddr_t *image_addr, hsize_t *image_size); + // #ifdef H5_HAVE_PARALLEL + // H5_DLL herr_t H5Fset_mpi_atomicity(hid_t file_id, hbool_t flag); + // H5_DLL herr_t H5Fget_mpi_atomicity(hid_t file_id, hbool_t *flag); + // #endif /* H5_HAVE_PARALLEL */ // /** // * H5Fget_vfd_handle returns a pointer to the file handle from the @@ -2971,6 +3017,41 @@ public class H5 implements java.io.Serializable { // //////////////////////////////////////////////////////////// // // + // H5FD: File Driver Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // /////// unimplemented //////// + // H5_DLL hid_t H5FDregister(const H5FD_class_t *cls); + // H5_DLL herr_t H5FDunregister(hid_t driver_id); + // H5_DLL H5FD_t *H5FDopen(const char *name, unsigned flags, hid_t fapl_id, haddr_t maxaddr); + // H5_DLL herr_t H5FDclose(H5FD_t *file); + // H5_DLL int H5FDcmp(const H5FD_t *f1, const H5FD_t *f2); + // H5_DLL int H5FDquery(const H5FD_t *f, unsigned long *flags); + // H5_DLL haddr_t H5FDalloc(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, hsize_t size); + // H5_DLL herr_t H5FDfree(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, haddr_t addr, hsize_t size); + // H5_DLL haddr_t H5FDget_eoa(H5FD_t *file, H5FD_mem_t type); + // H5_DLL herr_t H5FDset_eoa(H5FD_t *file, H5FD_mem_t type, haddr_t eoa); + // H5_DLL haddr_t H5FDget_eof(H5FD_t *file, H5FD_mem_t type); + // H5_DLL herr_t H5FDget_vfd_handle(H5FD_t *file, hid_t fapl, void**file_handle); + // H5_DLL herr_t H5FDread(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, haddr_t addr, size_t size, void *buf/*out*/); + // H5_DLL herr_t H5FDwrite(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, haddr_t addr, size_t size, const void *buf); + // H5_DLL herr_t H5FDflush(H5FD_t *file, hid_t dxpl_id, hbool_t closing); + // H5_DLL herr_t H5FDtruncate(H5FD_t *file, hid_t dxpl_id, hbool_t closing); + // H5_DLL herr_t H5FDlock(H5FD_t *file, hbool_t rw); + // H5_DLL herr_t H5FDunlock(H5FD_t *file); + // H5_DLL herr_t H5FDdriver_query(hid_t driver_id, unsigned long *flags/*out*/); + + // //////////////////////////////////////////////////////////// + // // + // H5FS: File Free Space Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // No public Functions + + // //////////////////////////////////////////////////////////// + // // // H5G: Group Interface Functions // // // // //////////////////////////////////////////////////////////// @@ -3408,6 +3489,30 @@ public class H5 implements java.io.Serializable { // //////////////////////////////////////////////////////////// // // + // H5HF: Fractal Heap Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // No public Functions + + // //////////////////////////////////////////////////////////// + // // + // H5HG: Global Heap Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // No public Functions + + // //////////////////////////////////////////////////////////// + // // + // H5HL: Local Heap Interface Functions // + // // + // //////////////////////////////////////////////////////////// + + // No public Functions + + // //////////////////////////////////////////////////////////// + // // // H5I: HDF5 1.8 Identifier Interface API Functions // // // // //////////////////////////////////////////////////////////// @@ -4033,6 +4138,15 @@ public class H5 implements java.io.Serializable { // H5_index_t idx_type, H5_iter_order_t order, hsize_t n, // void *buf/*out*/, size_t size, hid_t lapl_id); + // //////////////////////////////////////////////////////////// + // // + // H5MM: Memory Management Interface API Functions // + // // + // //////////////////////////////////////////////////////////// + + // /////// unimplemented //////// + // typedef void *(*H5MM_allocate_t)(size_t size, void *alloc_info); + // typedef void (*H5MM_free_t)(void *mem, void *free_info); // //////////////////////////////////////////////////////////// // // @@ -4450,6 +4564,9 @@ public class H5 implements java.io.Serializable { public synchronized static native void H5Orefresh(long object_id) throws HDF5LibraryException; // /////// unimplemented //////// + // H5_DLL herr_t H5Odisable_mdc_flushes(hid_t object_id); + // H5_DLL herr_t H5Oenable_mdc_flushes(hid_t object_id); + // H5_DLL herr_t H5Oare_mdc_flushes_disabled(hid_t object_id, hbool_t *are_disabled); // //////////////////////////////////////////////////////////// // // @@ -7273,9 +7390,15 @@ public class H5 implements java.io.Serializable { // herr_t H5Pset_file_image_callbacks(hid_t fapl_id, H5FD_file_image_callbacks_t *callbacks_ptr); // herr_t H5Pset_core_write_tracking(hid_t fapl_id, hbool_t is_enabled, size_t page_size); // herr_t H5Pget_core_write_tracking(hid_t fapl_id, hbool_t *is_enabled, size_t *page_size); + // #ifdef H5_HAVE_PARALLEL // herr_t H5Pset_all_coll_metadata_ops(hid_t accpl_id, hbool_t is_collective); + // H5_DLL herr_t H5Pget_all_coll_metadata_ops(hid_t plist_id, hbool_t *is_collective); // herr_t H5Pset_coll_metadata_write(hid_t fapl_id, hbool_t is_collective); // herr_t H5Pget_coll_metadata_write(hid_t fapl_id, hbool_t *is_collective); + // #endif /* H5_HAVE_PARALLEL */ + // H5_DLL herr_t H5Pset_mdc_image_config(hid_t plist_id, H5AC_cache_image_config_t *config_ptr); + // H5_DLL herr_t H5Pget_mdc_image_config(hid_t plist_id, H5AC_cache_image_config_t *config_ptr /*out*/); + // H5_DLL herr_t H5Pset_page_buffer_size(hid_t plist_id, size_t buf_size, unsigned min_meta_per, unsigned min_raw_per); // herr_t H5Pget_page_buffer_size(hid_t fapl_id, size_t *buf_size, unsigned *min_meta_perc, unsigned *min_raw_perc); // herr_t H5Pset_object_flush_cb (hid_t fapl_id, H5F_flush_cb_t func, void *user_data); // herr_t H5Pget_object_flush_cb (hid_t fapl_id, H5F_flush_cb_t *func, void **user_data); @@ -7297,6 +7420,11 @@ public class H5 implements java.io.Serializable { // *free_info ) // herr_t H5Pget_type_conv_cb(hid_t plist, H5T_conv_except_func_t *func, void **op_data) // herr_t H5Pset_type_conv_cb( hid_t plist, H5T_conv_except_func_t func, void *op_data) + // #ifdef H5_HAVE_PARALLEL + // H5_DLL herr_t H5Pget_mpio_actual_chunk_opt_mode(hid_t plist_id, H5D_mpio_actual_chunk_opt_mode_t *actual_chunk_opt_mode); + // H5_DLL herr_t H5Pget_mpio_actual_io_mode(hid_t plist_id, H5D_mpio_actual_io_mode_t *actual_io_mode); + // H5_DLL herr_t H5Pget_mpio_no_collective_cause(hid_t plist_id, uint32_t *local_no_collective_cause, uint32_t *global_no_collective_cause); + // #endif /* H5_HAVE_PARALLEL */ // Link creation property list (LCPL) routines // @@ -7314,21 +7442,6 @@ public class H5 implements java.io.Serializable { // herr_t H5Pget_mcdt_search_cb(hid_t plist_id, H5O_mcdt_search_cb_t *func, void **op_data); // herr_t H5Pset_mcdt_search_cb(hid_t plist_id, H5O_mcdt_search_cb_t func, void *op_data); - - // Other/Older property list routines // - // herr_t H5Pget_fapl_mpio( int fapl_id, MPI_Comm *comm, MPI_Info *info ) - // herr_t H5Pset_fapl_mpio( int fapl_id, MPI_Comm comm, MPI_Info info ) - - // herr_t H5Pget_fapl_mpiposix( int fapl_id, MPI_Comm *comm, hbool_t *use_gpfs_hints ) - // herr_t H5Pset_fapl_mpiposix( int fapl_id, MPI_Comm comm, hbool_t use_gpfs_hints ) - - // herr_t H5Pget_dxpl_mpio( hid_t dxpl_id, H5FD_mpio_xfer_t *xfer_mode ) - // herr_t H5Pset_dxpl_mpio( hid_t dxpl_id, H5FD_mpio_xfer_t xfer_mode ) - // herr_t H5Pset_dxpl_mpio_chunk_opt (hid_t dxpl_id, H5FD_mpio_chunk_opt_t opt_mode) - // herr_t H5Pset_dxpl_mpio_chunk_opt_num (hid_t dxpl_id, unsigned num_chunk_per_proc) - // herr_t H5Pset_dxpl_mpio_chunk_opt_ratio (hid_t dxpl_id, unsigned percent_proc_per_chunk) - // herr_t H5Pset_dxpl_mpio_collective_opt (hid_t dxpl_id, H5FD_mpio_collective_opt_t opt_mode) - // //////////////////////////////////////////////////////////// // // // H5PL: HDF5 1.8 Plugin API Functions // @@ -8252,6 +8365,17 @@ public class H5 implements java.io.Serializable { public synchronized static native boolean H5Sis_regular_hyperslab(long space_id) throws HDF5LibraryException; // /////// unimplemented //////// + // #ifdef NEW_HYPERSLAB_API + // H5_DLL hid_t H5Scombine_hyperslab(hid_t space_id, H5S_seloper_t op, + // const hsize_t start[], + // const hsize_t _stride[], + // const hsize_t count[], + // const hsize_t _block[]); + // H5_DLL herr_t H5Sselect_select(hid_t space1_id, H5S_seloper_t op, + // hid_t space2_id); + // H5_DLL hid_t H5Scombine_select(hid_t space1_id, H5S_seloper_t op, + // hid_t space2_id); + // #endif /* NEW_HYPERSLAB_API */ |