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3ffe7be446
re: Discussion https://github.com/Unidata/netcdf-c/discussions/2214 The primary change is to support so-called "standard filters". A standard filter is one that is defined by the following netcdf-c API: ```` int nc_def_var_XXX(int ncid, int varid, size_t nparams, unsigned* params); int nc_inq_var_XXXX(int ncid, int varid, int* usefilterp, unsigned* params); ```` So for example, zstandard would be a standard filter by defining the functions *nc_def_var_zstandard* and *nc_inq_var_zstandard*. In order to define these functions, we need a new dispatch function: ```` int nc_inq_filter_avail(int ncid, unsigned filterid); ```` This function, combined with the existing filter API can be used to implement arbitrary standard filters using a simple code pattern. Note that I would have preferred that this function return a list of all available filters, but HDF5 does not support that functionality. So this PR implements the dispatch function and implements the following standard functions: + bzip2 + zstandard + blosc Specific test cases are also provided for HDF5 and NCZarr. Over time, other specific standard filters will be defined. ## Primary Changes * Add nc_inq_filter_avail() to netcdf-c API. * Add standard filter implementations to test use of *nc_inq_filter_avail*. * Bump the dispatch table version number and add to all the relevant dispatch tables (libsrc, libsrcp, etc). * Create a program to invoke nc_inq_filter_avail so that it is accessible to shell scripts. * Cleanup szip support to properly support szip when HDF5 is disabled. This involves detecting libsz separately from testing if HDF5 supports szip. * Integrate shuffle and fletcher32 into the existing filter API. This means that, for example, nc_def_var_fletcher32 is now a wrapper around nc_def_var_filter. * Extend the Codec defaulting to allow multiple default shared libraries. ## Misc. Changes * Modify configure.ac/CMakeLists.txt to look for the relevant libraries implementing standard filters. * Modify libnetcdf.settings to list available standard filters (including deflate and szip). * Add CMake test modules to locate libbz2 and libzstd. * Cleanup the HDF5 memory manager function use in the plugins. * remove unused file include//ncfilter.h * remove tests for the HDF5 memory operations e.g. H5allocate_memory. * Add flag to ncdump to force use of _Filter instead of _Deflate or _Shuffle or _Fletcher32. Used for testing.
205 lines
7.3 KiB
C
205 lines
7.3 KiB
C
/* Copyright 2018-2018 University Corporation for Atmospheric
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Research/Unidata. */
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/**
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* @file
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* @internal Includes prototypes for libzarr dispatch functions.
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*
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* @author Dennis Heimbigner, Ed Hartnett
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*/
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#ifndef ZDISPATCH_H
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#define ZDISPATCH_H
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#include "zincludes.h"
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#if defined(__cplusplus)
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extern "C" {
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#endif
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EXTERNL int NCZ_create(const char *path, int cmode, size_t initialsz, int basepe, size_t *chunksizehintp, void* parameters, const NC_Dispatch*, int);
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EXTERNL int NCZ_open(const char *path, int mode, int basepe, size_t *chunksizehintp, void* parameters, const NC_Dispatch*, int);
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EXTERNL int NCZ_redef(int ncid);
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EXTERNL int NCZ__enddef(int ncid, size_t h_minfree, size_t v_align, size_t v_minfree, size_t r_align);
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EXTERNL int NCZ_sync(int ncid);
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EXTERNL int NCZ_abort(int ncid);
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EXTERNL int NCZ_close(int ncid,void*);
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EXTERNL int NCZ_set_fill(int ncid, int fillmode, int *old_modep);
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EXTERNL int NCZ_set_base_pe(int ncid, int pe);
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EXTERNL int NCZ_inq_base_pe(int ncid, int *pe);
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EXTERNL int NCZ_inq_format(int ncid, int *formatp);
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EXTERNL int NCZ_inq_format_extended(int ncid, int *formatp, int *modep);
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EXTERNL int NCZ_inq(int ncid, int *ndimsp, int *nvarsp, int *nattsp, int *unlimdimidp);
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EXTERNL int NCZ_inq_type(int, nc_type, char *, size_t *);
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/* Begin _dim */
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EXTERNL int NCZ_def_dim(int ncid, const char *name, size_t len, int *idp);
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EXTERNL int NCZ_inq_dimid(int ncid, const char *name, int *idp);
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EXTERNL int NCZ_inq_dim(int ncid, int dimid, char *name, size_t *lenp);
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EXTERNL int NCZ_inq_unlimdim(int ncid, int *unlimdimidp);
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EXTERNL int NCZ_rename_dim(int ncid, int dimid, const char *name);
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/* End _dim */
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/* Begin _att */
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EXTERNL int NCZ_inq_att(int ncid, int varid, const char *name, nc_type *xtypep, size_t *lenp);
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EXTERNL int NCZ_inq_attid(int ncid, int varid, const char *name, int *idp);
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EXTERNL int NCZ_inq_attname(int ncid, int varid, int attnum, char *name);
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EXTERNL int NCZ_rename_att(int ncid, int varid, const char *name, const char *newname);
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EXTERNL int NCZ_del_att(int ncid, int varid, const char *name);
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/* End _att */
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/* Begin {put,get}_att */
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EXTERNL int NCZ_get_att(int ncid, int varid, const char *name, void *value, nc_type);
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EXTERNL int NCZ_put_att(int ncid, int varid, const char *name, nc_type file_type, size_t len, const void *data, nc_type mem_type);
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/* End {put,get}_att */
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/* Begin _var */
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EXTERNL int NCZ_def_var(int ncid, const char *name, nc_type xtype, int ndims, const int *dimidsp, int *varidp);
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EXTERNL int NCZ_inq_var_all(int ncid, int varid, char *name, nc_type *xtypep, int *ndimsp, int *dimidsp, int *nattsp, int *shufflep, int *deflatep, int *deflate_levelp, int *fletcher32p, int *contiguousp, size_t *chunksizesp, int *no_fill, void *fill_valuep, int *endiannessp, unsigned int* idp, size_t* nparamsp, unsigned int* params
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);
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EXTERNL int NCZ_inq_varid(int ncid, const char *name, int *varidp);
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EXTERNL int NCZ_rename_var(int ncid, int varid, const char *name);
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EXTERNL int NCZ_put_vara(int ncid, int varid, const size_t *start, const size_t *count, const void *value, nc_type);
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EXTERNL int NCZ_get_vara(int ncid, int varid, const size_t *start, const size_t *count, void *value, nc_type);
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extern int
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NCZ_put_vars(int ncid, int varid, const size_t *start, const size_t *count, const ptrdiff_t* stride, const void *value, nc_type);
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extern int
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NCZ_get_vars(int ncid, int varid, const size_t *start, const size_t *count, const ptrdiff_t* stride, void *value, nc_type);
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/* End _var */
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/* netCDF4 API only */
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EXTERNL int NCZ_inq_ncid(int, const char *, int *);
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EXTERNL int NCZ_inq_grps(int, int *, int *);
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EXTERNL int NCZ_inq_grpname(int, char *);
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EXTERNL int NCZ_inq_grpname_full(int, size_t *, char *);
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EXTERNL int NCZ_inq_grp_parent(int, int *);
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EXTERNL int NCZ_inq_grp_full_ncid(int, const char *, int *);
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EXTERNL int NCZ_inq_varids(int, int * nvars, int *);
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EXTERNL int NCZ_inq_dimids(int, int * ndims, int *, int);
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EXTERNL int NCZ_inq_typeids(int, int * ntypes, int *);
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EXTERNL int NCZ_inq_type_equal(int, nc_type, int, nc_type, int *);
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EXTERNL int NCZ_def_grp(int, const char *, int *);
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EXTERNL int NCZ_rename_grp(int, const char *);
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EXTERNL int NCZ_inq_user_type(int, nc_type, char *, size_t *, nc_type *, size_t *, int *);
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EXTERNL int NCZ_def_compound(int, size_t, const char *, nc_type *);
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EXTERNL int NCZ_insert_compound(int, nc_type, const char *, size_t, nc_type);
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EXTERNL int NCZ_insert_array_compound(int, nc_type, const char *, size_t, nc_type, int, const int *);
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EXTERNL int NCZ_inq_typeid(int, const char *, nc_type *);
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EXTERNL int NCZ_inq_compound_field(int, nc_type, int, char *, size_t *, nc_type *, int *, int *);
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EXTERNL int NCZ_inq_compound_fieldindex(int, nc_type, const char *, int *);
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EXTERNL int NCZ_def_vlen(int, const char *, nc_type base_typeid, nc_type *);
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EXTERNL int NCZ_put_vlen_element(int, int, void *, size_t, const void *);
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EXTERNL int NCZ_get_vlen_element(int, int, const void *, size_t *, void *);
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EXTERNL int NCZ_def_enum(int, nc_type, const char *, nc_type *);
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EXTERNL int NCZ_insert_enum(int, nc_type, const char *, const void *);
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EXTERNL int NCZ_inq_enum_member(int, nc_type, int, char *, void *);
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EXTERNL int NCZ_inq_enum_ident(int, nc_type, long long, char *);
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EXTERNL int NCZ_def_opaque(int, size_t, const char *, nc_type *);
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EXTERNL int NCZ_def_var_deflate(int, int, int, int, int);
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EXTERNL int NCZ_def_var_fletcher32(int, int, int);
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EXTERNL int NCZ_def_var_chunking(int, int, int, const size_t *);
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EXTERNL int NCZ_def_var_fill(int, int, int, const void *);
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EXTERNL int NCZ_def_var_endian(int, int, int);
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EXTERNL int NCZ_inq_unlimdims(int, int *, int *);
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EXTERNL int NCZ_def_var_filter(int ncid, int varid, unsigned int filterid, size_t nparams, const unsigned int *params);
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EXTERNL int NCZ_inq_var_filter_ids(int ncid, int varid, size_t* nfiltersp, unsigned int *filterids);
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EXTERNL int NCZ_inq_var_filter_info(int ncid, int varid, unsigned int filterid, size_t* nparamsp, unsigned int *params);
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EXTERNL int NCZ_inq_filter_avail(int ncid, unsigned id);
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EXTERNL int NCZ_def_var_quantize(int ncid, int varid, int quantize_mode, int nsd);
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EXTERNL int NCZ_inq_var_quantize(int ncid, int varid, int *quantize_modep, int *nsdp);
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/**************************************************/
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/* Following functions wrap libsrc4 */
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EXTERNL int NCZ_inq_type(int ncid, nc_type xtype, char *name, size_t *size);
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EXTERNL int NCZ_inq_dimid(int ncid, const char *name, int *idp);
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EXTERNL int NCZ_inq_unlimdim(int ncid, int *unlimdimidp);
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EXTERNL int NCZ_inq_attname(int ncid, int varid, int attnum, char *name);
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EXTERNL int NCZ_inq_varid(int ncid, const char* name, int *varidp);
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EXTERNL int NCZ_inq_ncid(int ncid, const char* name, int* grpidp);
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EXTERNL int NCZ_inq_grps(int ncid, int* n, int* ncids);
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EXTERNL int NCZ_inq_grpname(int ncid, char* name);
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EXTERNL int NCZ_inq_grpname_full(int ncid, size_t* lenp, char* fullname);
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EXTERNL int NCZ_inq_grp_parent(int ncid, int* parentidp);
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EXTERNL int NCZ_inq_grp_full_ncid(int ncid, const char* fullname, int* grpidp);
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EXTERNL int NCZ_inq_varids(int ncid, int* nvars, int* varids);
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EXTERNL int NCZ_inq_dimids(int ncid, int* ndims, int* dimids, int inclparents);
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EXTERNL int NCZ_inq_typeids(int ncid, int* ntypes, int* typeids);
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EXTERNL int NCZ_inq_user_type(int ncid, nc_type xtype, char* name, size_t* size, nc_type* basetid, size_t* nfields, int* classp);
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/**************************************************/
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#if defined(__cplusplus)
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}
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#endif
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#endif /* ZDISPATCH_H */
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