mirror of
https://github.com/Unidata/netcdf-c.git
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6934aa2e8b
re: https://github.com/Unidata/netcdf-c/issues/1373 (partial) * Mark some global constants be const to indicate to make them easier to track. * Hide direct access to the ncrc_globalstate behind a function call. * Convert dispatch tables to constants (except the user defined ones) This has some consequences in terms of function arguments needing to be marked as const also. * Remove some no longer needed global fields * Aggregate all the globals in nclog.c * Uniformly replace nc_sizevector{0,1} with NC_coord_{zero,one} * Uniformly replace nc_ptrdffvector1 with NC_stride_one * Remove some obsolete code
475 lines
18 KiB
C
475 lines
18 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 This header file contains macros, types and prototypes
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* used to build and manipulate the netCDF metadata model.
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*
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* @author Ed Hartnett, Dennis Heimbigner, Ward Fisher
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*/
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#ifndef _NC4INTERNAL_
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#define _NC4INTERNAL_
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#include "config.h"
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#include <stdio.h>
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#include <stdlib.h>
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#include <ctype.h>
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#include <stdarg.h>
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#include <string.h>
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#include "ncdimscale.h"
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#include "nc_logging.h"
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#include "ncindex.h"
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#include "nc_provenance.h"
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#ifdef USE_PARALLEL
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#include "netcdf_par.h"
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#endif /* USE_PARALLEL */
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#include "netcdf.h"
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#include "netcdf_f.h"
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#include "netcdf_mem.h"
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/* Always needed */
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#include "nc.h"
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#define FILE_ID_MASK (0xffff0000)
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#define GRP_ID_MASK (0x0000ffff)
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#define ID_SHIFT (16)
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typedef enum {GET, PUT} NC_PG_T;
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typedef enum {NCNAT, NCVAR, NCDIM, NCATT, NCTYP, NCFLD, NCGRP} NC_SORT;
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#define NC_V2_ERR (-1)
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/* The name of the root group. */
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#define NC_GROUP_NAME "/"
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#define MEGABYTE 1048576
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/*
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* limits of the external representation
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*/
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#define X_SCHAR_MIN (-128)
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#define X_SCHAR_MAX 127
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#define X_UCHAR_MAX 255U
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#define X_SHORT_MIN (-32768)
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#define X_SHRT_MIN X_SHORT_MIN /* alias compatible with limits.h */
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#define X_SHORT_MAX 32767
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#define X_SHRT_MAX X_SHORT_MAX /* alias compatible with limits.h */
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#define X_USHORT_MAX 65535U
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#define X_USHRT_MAX X_USHORT_MAX /* alias compatible with limits.h */
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#define X_INT_MIN (-2147483647-1)
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#define X_INT_MAX 2147483647
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#define X_LONG_MIN X_INT_MIN
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#define X_LONG_MAX X_INT_MAX
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#define X_UINT_MAX 4294967295U
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#define X_INT64_MIN (-9223372036854775807LL-1LL)
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#define X_INT64_MAX 9223372036854775807LL
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#define X_UINT64_MAX 18446744073709551615ULL
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#ifdef WIN32 /* Windows, of course, has to be a *little* different. */
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#define X_FLOAT_MAX 3.402823466e+38f
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#else
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#define X_FLOAT_MAX 3.40282347e+38f
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#endif /* WIN32 */
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#define X_FLOAT_MIN (-X_FLOAT_MAX)
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#define X_DOUBLE_MAX 1.7976931348623157e+308
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#define X_DOUBLE_MIN (-X_DOUBLE_MAX)
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/** This is the number of netCDF atomic types. */
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#define NUM_ATOMIC_TYPES (NC_MAX_ATOMIC_TYPE + 1)
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/** Number of parameters needed for ZLIB filter. */
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#define CD_NELEMS_ZLIB 1
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/* Boolean type, to make the code easier to read */
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typedef enum {NC_FALSE = 0, NC_TRUE = 1} nc_bool_t;
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/*Forward*/
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struct NCPROVENANCE;
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struct NC_GRP_INFO;
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struct NC_TYPE_INFO;
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/*
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Indexed Access to Meta-data objects:
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See the document docs/indexing.dox for detailed information.
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Basically provide a common header and use NCindex instances
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instead of linked lists.
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WARNING: ALL OBJECTS THAT CAN BE INSERTED INTO AN NCindex
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MUST HAVE AN INSTANCE of NC_OBJ AS THE FIRST FIELD.
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*/
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typedef struct NC_OBJ {
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NC_SORT sort;
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char* name; /* assumed to be null terminated */
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size_t id;
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unsigned int hashkey; /* crc32(name) */
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} NC_OBJ;
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/* This is a struct to handle the dim metadata. */
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typedef struct NC_DIM_INFO
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{
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NC_OBJ hdr;
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struct NC_GRP_INFO *container; /* containing group */
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size_t len;
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nc_bool_t unlimited; /* True if the dimension is unlimited */
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nc_bool_t extended; /* True if the dimension needs to be extended */
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nc_bool_t too_long; /* True if len is too big to fit in local size_t. */
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void *format_dim_info; /* Pointer to format-specific dim info. */
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struct NC_VAR_INFO *coord_var; /* The coord var, if it exists. */
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} NC_DIM_INFO_T;
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typedef struct NC_ATT_INFO
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{
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NC_OBJ hdr;
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struct NC_OBJ *container; /* containing group|var */
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int len;
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nc_bool_t dirty; /* True if attribute modified */
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nc_bool_t created; /* True if attribute already created */
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nc_type nc_typeid; /* netCDF type of attribute's data */
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void *format_att_info;
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void *data;
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nc_vlen_t *vldata; /* only used for vlen */
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char **stdata; /* only for string type. */
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} NC_ATT_INFO_T;
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/* This is a struct to handle the var metadata. */
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typedef struct NC_VAR_INFO
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{
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NC_OBJ hdr;
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char *hdf5_name; /* used if different from name */
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struct NC_GRP_INFO *container; /* containing group */
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size_t ndims;
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int *dimids;
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NC_DIM_INFO_T **dim;
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nc_bool_t is_new_var; /* True if variable is newly created */
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nc_bool_t was_coord_var; /* True if variable was a coordinate var, but either the dim or var has been renamed */
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nc_bool_t became_coord_var; /* True if variable _became_ a coordinate var, because either the dim or var has been renamed */
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nc_bool_t fill_val_changed; /* True if variable's fill value changes after it has been created */
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nc_bool_t attr_dirty; /* True if variable's attributes are dirty and should be rewritten */
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nc_bool_t created; /* Variable has already been created (_not_ that it was just created) */
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nc_bool_t written_to; /* True if variable has data written to it */
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struct NC_TYPE_INFO *type_info;
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int atts_read; /* If true, the atts have been read. */
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nc_bool_t meta_read; /* True if this vars metadata has been completely read. */
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nc_bool_t coords_read; /* True if this var has hidden coordinates att, and it has been read. */
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NCindex *att; /* NCindex<NC_ATT_INFO_T*> */
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nc_bool_t no_fill; /* True if no fill value is defined for var */
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void *fill_value;
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size_t *chunksizes;
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nc_bool_t contiguous; /* True if variable is stored contiguously in HDF5 file */
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int parallel_access; /* Type of parallel access for I/O on variable (collective or independent) */
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nc_bool_t dimscale; /* True if var is a dimscale */
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nc_bool_t *dimscale_attached; /* Array of flags that are true if dimscale is attached for that dim index */
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nc_bool_t deflate; /* True if var has deflate filter applied */
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int deflate_level;
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nc_bool_t shuffle; /* True if var has shuffle filter applied */
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nc_bool_t fletcher32; /* True if var has fletcher32 filter applied */
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size_t chunk_cache_size, chunk_cache_nelems;
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float chunk_cache_preemption;
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void *format_var_info; /* Pointer to any binary format info. */
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/* Stuff for arbitrary filters */
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unsigned int filterid;
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size_t nparams;
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unsigned int *params;
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} NC_VAR_INFO_T;
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typedef struct NC_FIELD_INFO
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{
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NC_OBJ hdr;
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nc_type nc_typeid;
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size_t offset;
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int ndims;
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int *dim_size;
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void *format_field_info; /* Pointer to any binary format info for field. */
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} NC_FIELD_INFO_T;
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typedef struct NC_ENUM_MEMBER_INFO
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{
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char *name;
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void *value;
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} NC_ENUM_MEMBER_INFO_T;
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typedef struct NC_TYPE_INFO
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{
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NC_OBJ hdr; /* NetCDF type ID. */
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struct NC_GRP_INFO *container; /* Containing group */
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unsigned rc; /* Ref. count of objects using this type */
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int endianness; /* What endianness for the type? */
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size_t size; /* Size of the type in memory, in bytes */
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nc_bool_t committed; /* True when datatype is committed in the file */
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nc_type nc_type_class; /* NC_VLEN, NC_COMPOUND, NC_OPAQUE,
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* NC_ENUM, NC_INT, NC_FLOAT, or
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* NC_STRING. */
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void *format_type_info; /* HDF5-specific type info. */
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/* Information for each type or class */
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union {
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struct {
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NClist* enum_member; /* <! NClist<NC_ENUM_MEMBER_INFO_T*> */
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nc_type base_nc_typeid;
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} e; /* Enum */
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struct Fields {
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NClist* field; /* <! NClist<NC_FIELD_INFO_T*> */
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} c; /* Compound */
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struct {
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nc_type base_nc_typeid;
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} v; /* Variable-length */
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} u; /* Union of structs, for each type/class */
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} NC_TYPE_INFO_T;
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/* This holds information for one group. Groups reproduce with
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* parthenogenesis. */
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typedef struct NC_GRP_INFO
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{
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NC_OBJ hdr;
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void *format_grp_info;
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struct NC_FILE_INFO *nc4_info;
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struct NC_GRP_INFO *parent;
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int atts_read; /* True if atts have been read for this group. */
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NCindex* children; /* NCindex<struct NC_GRP_INFO*> */
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NCindex* dim; /* NCindex<NC_DIM_INFO_T> * */
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NCindex* att; /* NCindex<NC_ATT_INFO_T> * */
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NCindex* type; /* NCindex<NC_TYPE_INFO_T> * */
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/* Note that this is the list of vars with position == varid */
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NCindex* vars; /* NCindex<NC_VAR_INFO_T> * */
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} NC_GRP_INFO_T;
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/* These constants apply to the cmode parameter in the
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* HDF5_FILE_INFO_T defined below. */
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#define NC_CREAT 2 /* in create phase, cleared by ncendef */
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#define NC_INDEF 8 /* in define mode, cleared by ncendef */
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#define NC_NSYNC 0x10 /* synchronise numrecs on change */
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#define NC_HSYNC 0x20 /* synchronise whole header on change */
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#define NC_NDIRTY 0x40 /* numrecs has changed */
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#define NC_HDIRTY 0x80 /* header info has changed */
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/* This is the metadata we need to keep track of for each
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netcdf-4/HDF5 file. */
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typedef struct NC_FILE_INFO
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{
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NC* controller;
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#ifdef USE_PARALLEL4
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MPI_Comm comm; /* Copy of MPI Communicator used to open the file */
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MPI_Info info; /* Copy of MPI Information Object used to open the file */
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#endif
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int flags;
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int cmode;
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nc_bool_t parallel; /* True if file is open for parallel access */
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nc_bool_t redef; /* True if redefining an existing file */
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int fill_mode; /* Fill mode for vars - Unused internally currently */
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nc_bool_t no_write; /* true if nc_open has mode NC_NOWRITE. */
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NC_GRP_INFO_T *root_grp;
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/* Track indices to assign to grps, types, and dims */
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short next_nc_grpid;
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int next_typeid;
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int next_dimid;
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/* Provide convenience vectors indexed by the object id.
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This allows for direct conversion of e.g. an nc_type to
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the corresponding NC_TYPE_INFO_T object.
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*/
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NClist* alldims;
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NClist* alltypes;
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NClist* allgroups; /* including root group */
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void *format_file_info;
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struct NCPROVENANCE* provenance;
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struct NC4_Memio {
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NC_memio memio; /* What we sent to image_init and what comes back*/
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int locked; /* do not copy and do not free */
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int persist; /* Should file be persisted out on close? */
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int inmemory; /* NC_INMEMORY flag was set */
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int diskless; /* NC_DISKLESS flag was set => inmemory */
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int created; /* 1 => create, 0 => open */
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unsigned int imageflags; /* for H5LTopen_file_image */
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size_t initialsize;
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void* udata; /* extra memory allocated in NC4_image_init */
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} mem;
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} NC_FILE_INFO_T;
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/* Variable Length Datatype struct in memory. Must be identical to
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* HDF5 hvl_t. (This is only used for VL sequences, not VL strings,
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* which are stored in char *'s) */
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typedef struct {
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size_t len; /* Length of VL data (in base type units) */
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void *p; /* Pointer to VL data */
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} nc_hvl_t;
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extern const char* nc4_atomic_name[NC_MAX_ATOMIC_TYPE+1];
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/* These functions convert between netcdf and HDF5 types. */
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int nc4_get_typelen_mem(NC_FILE_INFO_T *h5, nc_type xtype, size_t *len);
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int nc4_convert_type(const void *src, void *dest, const nc_type src_type,
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const nc_type dest_type, const size_t len, int *range_error,
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const void *fill_value, int strict_nc3);
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/* These functions do HDF5 things. */
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int nc4_reopen_dataset(NC_GRP_INFO_T *grp, NC_VAR_INFO_T *var);
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int nc4_read_atts(NC_GRP_INFO_T *grp, NC_VAR_INFO_T *var);
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/* Find items in the in-memory lists of metadata. */
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int nc4_find_nc_grp_h5(int ncid, NC **nc, NC_GRP_INFO_T **grp,
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NC_FILE_INFO_T **h5);
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int nc4_find_grp_h5(int ncid, NC_GRP_INFO_T **grp, NC_FILE_INFO_T **h5);
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int nc4_find_nc4_grp(int ncid, NC_GRP_INFO_T **grp);
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int nc4_find_dim(NC_GRP_INFO_T *grp, int dimid, NC_DIM_INFO_T **dim,
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NC_GRP_INFO_T **dim_grp);
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int nc4_find_var(NC_GRP_INFO_T *grp, const char *name, NC_VAR_INFO_T **var);
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int nc4_find_dim_len(NC_GRP_INFO_T *grp, int dimid, size_t **len);
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int nc4_find_type(const NC_FILE_INFO_T *h5, int typeid1, NC_TYPE_INFO_T **type);
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NC_TYPE_INFO_T *nc4_rec_find_named_type(NC_GRP_INFO_T *start_grp, char *name);
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NC_TYPE_INFO_T *nc4_rec_find_equal_type(NC_GRP_INFO_T *start_grp, int ncid1,
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NC_TYPE_INFO_T *type);
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int nc4_find_nc_att(int ncid, int varid, const char *name, int attnum,
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NC_ATT_INFO_T **att);
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int nc4_find_grp_h5_var(int ncid, int varid, NC_FILE_INFO_T **h5,
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NC_GRP_INFO_T **grp, NC_VAR_INFO_T **var);
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int nc4_find_grp_att(NC_GRP_INFO_T *grp, int varid, const char *name,
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int attnum, NC_ATT_INFO_T **att);
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int nc4_get_typeclass(const NC_FILE_INFO_T *h5, nc_type xtype,
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int *type_class);
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/* Free various types */
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int nc4_type_free(NC_TYPE_INFO_T *type);
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/* These list functions add and delete vars, atts. */
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int nc4_nc4f_list_add(NC *nc, const char *path, int mode);
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void nc4_file_list_del(NC *nc);
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int nc4_var_list_add(NC_GRP_INFO_T* grp, const char* name, int ndims,
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NC_VAR_INFO_T **var);
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int nc4_var_list_add2(NC_GRP_INFO_T* grp, const char* name,
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NC_VAR_INFO_T **var);
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int nc4_var_set_ndims(NC_VAR_INFO_T *var, int ndims);
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int nc4_var_list_del(NC_GRP_INFO_T *grp, NC_VAR_INFO_T *var);
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int nc4_dim_list_add(NC_GRP_INFO_T *grp, const char *name, size_t len,
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int assignedid, NC_DIM_INFO_T **dim);
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int nc4_dim_list_del(NC_GRP_INFO_T *grp, NC_DIM_INFO_T *dim);
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int nc4_type_new(size_t size, const char *name, int assignedid,
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NC_TYPE_INFO_T **type);
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int nc4_type_list_add(NC_GRP_INFO_T *grp, size_t size, const char *name,
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NC_TYPE_INFO_T **type);
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int nc4_type_list_del(NC_GRP_INFO_T *grp, NC_TYPE_INFO_T *type);
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int nc4_type_free(NC_TYPE_INFO_T *type);
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int nc4_field_list_add(NC_TYPE_INFO_T* parent, const char *name,
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size_t offset, nc_type xtype, int ndims,
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const int *dim_sizesp);
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int nc4_att_list_add(NCindex *list, const char *name, NC_ATT_INFO_T **att);
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int nc4_att_list_del(NCindex *list, NC_ATT_INFO_T *att);
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int nc4_grp_list_add(NC_FILE_INFO_T *h5, NC_GRP_INFO_T *parent, char *name,
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NC_GRP_INFO_T **grp);
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int nc4_build_root_grp(NC_FILE_INFO_T *h5);
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int nc4_rec_grp_del(NC_GRP_INFO_T *grp);
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int nc4_enum_member_add(NC_TYPE_INFO_T *type, size_t size, const char *name,
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const void *value);
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/* Check and normalize names. */
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int NC_check_name(const char *name);
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int nc4_check_name(const char *name, char *norm_name);
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int nc4_normalize_name(const char *name, char *norm_name);
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int nc4_check_dup_name(NC_GRP_INFO_T *grp, char *norm_name);
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/* Find default fill value. */
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int nc4_get_default_fill_value(const NC_TYPE_INFO_T *type_info, void *fill_value);
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/* Get an att given pointers to file, group, and perhaps ver info. */
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int nc4_get_att_ptrs(NC_FILE_INFO_T *h5, NC_GRP_INFO_T *grp, NC_VAR_INFO_T *var,
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const char *name, nc_type *xtype, nc_type mem_type,
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size_t *lenp, int *attnum, void *data);
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/* Close the file. */
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int nc4_close_netcdf4_file(NC_FILE_INFO_T *h5, int abort, NC_memio *memio);
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/* HDF5 initialization/finalization */
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extern int nc4_hdf5_initialized;
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extern void nc4_hdf5_initialize(void);
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extern void nc4_hdf5_finalize(void);
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/* This is only included if --enable-logging is used for configure; it
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prints info about the metadata to stderr. */
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#ifdef LOGGING
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int log_metadata_nc(NC_FILE_INFO_T *h5);
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#endif
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/* Define accessors for the dispatchdata */
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#define NC4_DATA(nc) ((NC_FILE_INFO_T*)(nc)->dispatchdata)
|
|
#define NC4_DATA_SET(nc,data) ((nc)->dispatchdata = (void*)(data))
|
|
|
|
/* Reserved Attributes Info */
|
|
typedef struct NC_reservedatt {
|
|
const char* name;
|
|
int flags;
|
|
} NC_reservedatt;
|
|
|
|
/* Reserved attribute flags: must be powers of 2*/
|
|
/* Hidden dimscale-related, per-variable attributes; immutable and unreadable thru API */
|
|
#define DIMSCALEFLAG 1
|
|
/* Readonly global attributes; readable, but immutable thru the API */
|
|
#define READONLYFLAG 2
|
|
/* Subset of readonly flags; readable by name only thru the API */
|
|
#define NAMEONLYFLAG 4
|
|
/* Subset of readonly flags; Value is actually in file */
|
|
#define MATERIALIZEDFLAG 8
|
|
|
|
/* Binary searcher for reserved attributes */
|
|
extern const NC_reservedatt* NC_findreserved(const char* name);
|
|
|
|
/* Generic reserved Attributes */
|
|
#define NC_ATT_REFERENCE_LIST "REFERENCE_LIST"
|
|
#define NC_ATT_CLASS "CLASS"
|
|
#define NC_ATT_DIMENSION_LIST "DIMENSION_LIST"
|
|
#define NC_ATT_NAME "NAME"
|
|
#define NC_ATT_COORDINATES COORDINATES /*defined above*/
|
|
#define NC_ATT_FORMAT "_Format"
|
|
|
|
/**************************************************/
|
|
/**
|
|
For netcdf4 files, capture state information about the following:
|
|
1. Global: netcdf library version
|
|
2. Global: hdf5 library version
|
|
3. Per file: superblock version
|
|
4. Per File: was it created by netcdf-4?
|
|
5. Per file: _NCProperties attribute
|
|
*/
|
|
|
|
/* Most of this needs to be moved to hdf5internal.h */
|
|
|
|
#define NCPROPS "_NCProperties"
|
|
#define NCPVERSION "version" /* Of the properties format */
|
|
#define NCPHDF5LIB1 "hdf5libversion"
|
|
#define NCPNCLIB1 "netcdflibversion"
|
|
#define NCPHDF5LIB2 "hdf5"
|
|
#define NCPNCLIB2 "netcdf"
|
|
#define NCPROPS_VERSION (2)
|
|
/* Version 2 changes this because '|' was causing bash problems */
|
|
#define NCPROPSSEP1 '|'
|
|
#define NCPROPSSEP2 ','
|
|
|
|
/* Other hidden attributes */
|
|
#define ISNETCDF4ATT "_IsNetcdf4"
|
|
#define SUPERBLOCKATT "_SuperblockVersion"
|
|
|
|
|
|
struct NCPROVENANCE {
|
|
int superblockversion;
|
|
struct NCPROPINFO {
|
|
int version; /* 0 => not defined */
|
|
/* Following is filled from NCPROPS attribute or from global version */
|
|
/* Version 1 format is:
|
|
"netcdflibversion=<version|hdf5libversion=<version>"
|
|
Version 2 format is:
|
|
"<mainbuildlib>=<version|<supportlib1>=<version>...|<other>=..."
|
|
*/
|
|
/* The _NCProperties values are stored as an arbitrary
|
|
set of (key,value) pairs */
|
|
/* It is assumed that the first entry is the primary library
|
|
used to build the file, and it is followed by other libraries
|
|
used in the build, and finally an arbitrary list of other
|
|
(key,value) pairs. */
|
|
NClist* properties;
|
|
} propattr;
|
|
};
|
|
|
|
#endif /* _NC4INTERNAL_ */
|