mirror of
https://github.com/Unidata/netcdf-c.git
synced 2024-12-03 08:01:25 +08:00
1904 lines
44 KiB
C
1904 lines
44 KiB
C
/*
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* Copyright 2018, Unuiversity Corporation for Atmospheric Research
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* See netcdf/COPYRIGHT file for copying and redistribution conditions.
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*/
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#if HAVE_CONFIG_H
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#include <config.h>
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#endif
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#include <stdlib.h>
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#include <string.h>
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#include <assert.h>
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#if defined(LOCKNUMREC) /* && _CRAYMPP */
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# include <mpp/shmem.h>
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# include <intrinsics.h>
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#endif
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#ifdef HAVE_UNISTD_H
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#include <unistd.h>
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#endif
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#include "nc3internal.h"
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#include "netcdf_mem.h"
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#include "rnd.h"
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#include "ncx.h"
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/* These have to do with version numbers. */
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#define MAGIC_NUM_LEN 4
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#define VER_CLASSIC 1
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#define VER_64BIT_OFFSET 2
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#define VER_HDF5 3
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#define NC_NUMRECS_OFFSET 4
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/* For netcdf classic */
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#define NC_NUMRECS_EXTENT3 4
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/* For cdf5 */
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#define NC_NUMRECS_EXTENT5 8
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/* Internal function; breaks ncio abstraction */
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extern int memio_extract(ncio* const nciop, size_t* sizep, void** memoryp);
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static void
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free_NC3INFO(NC3_INFO *nc3)
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{
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if(nc3 == NULL)
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return;
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free_NC_dimarrayV(&nc3->dims);
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free_NC_attrarrayV(&nc3->attrs);
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free_NC_vararrayV(&nc3->vars);
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#if _CRAYMPP && defined(LOCKNUMREC)
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shfree(nc3);
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#else
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free(nc3);
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#endif /* _CRAYMPP && LOCKNUMREC */
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}
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static NC3_INFO *
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new_NC3INFO(const size_t *chunkp)
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{
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NC3_INFO *ncp;
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ncp = (NC3_INFO*)calloc(1,sizeof(NC3_INFO));
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if(ncp == NULL) return ncp;
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ncp->chunk = chunkp != NULL ? *chunkp : NC_SIZEHINT_DEFAULT;
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/* Note that ncp->xsz is not set yet because we do not know the file format */
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return ncp;
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}
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static NC3_INFO *
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dup_NC3INFO(const NC3_INFO *ref)
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{
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NC3_INFO *ncp;
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ncp = (NC3_INFO*)calloc(1,sizeof(NC3_INFO));
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if(ncp == NULL) return ncp;
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if(dup_NC_dimarrayV(&ncp->dims, &ref->dims) != NC_NOERR)
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goto err;
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if(dup_NC_attrarrayV(&ncp->attrs, &ref->attrs) != NC_NOERR)
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goto err;
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if(dup_NC_vararrayV(&ncp->vars, &ref->vars) != NC_NOERR)
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goto err;
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ncp->xsz = ref->xsz;
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ncp->begin_var = ref->begin_var;
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ncp->begin_rec = ref->begin_rec;
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ncp->recsize = ref->recsize;
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NC_set_numrecs(ncp, NC_get_numrecs(ref));
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return ncp;
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err:
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free_NC3INFO(ncp);
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return NULL;
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}
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/*
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* Verify that this is a user nc_type
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* Formerly NCcktype()
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* Sense of the return is changed.
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*/
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int
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nc3_cktype(int mode, nc_type type)
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{
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#ifdef ENABLE_CDF5
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if (mode & NC_CDF5) { /* CDF-5 format */
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if (type >= NC_BYTE && type < NC_STRING) return NC_NOERR;
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} else
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#endif
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if (mode & NC_64BIT_OFFSET) { /* CDF-2 format */
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if (type >= NC_BYTE && type <= NC_DOUBLE) return NC_NOERR;
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} else if ((mode & NC_64BIT_OFFSET) == 0) { /* CDF-1 format */
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if (type >= NC_BYTE && type <= NC_DOUBLE) return NC_NOERR;
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}
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return(NC_EBADTYPE);
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}
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/*
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* How many objects of 'type'
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* will fit into xbufsize?
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*/
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size_t
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ncx_howmany(nc_type type, size_t xbufsize)
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{
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switch(type){
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case NC_BYTE:
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case NC_CHAR:
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return xbufsize;
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case NC_SHORT:
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return xbufsize/X_SIZEOF_SHORT;
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case NC_INT:
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return xbufsize/X_SIZEOF_INT;
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case NC_FLOAT:
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return xbufsize/X_SIZEOF_FLOAT;
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case NC_DOUBLE:
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return xbufsize/X_SIZEOF_DOUBLE;
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case NC_UBYTE:
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return xbufsize;
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case NC_USHORT:
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return xbufsize/X_SIZEOF_USHORT;
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case NC_UINT:
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return xbufsize/X_SIZEOF_UINT;
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case NC_INT64:
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return xbufsize/X_SIZEOF_LONGLONG;
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case NC_UINT64:
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return xbufsize/X_SIZEOF_ULONGLONG;
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default:
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assert("ncx_howmany: Bad type" == 0);
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return(0);
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}
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}
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#define D_RNDUP(x, align) _RNDUP(x, (off_t)(align))
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/*
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* Compute each variable's 'begin' offset,
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* update 'begin_rec' as well.
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*/
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static int
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NC_begins(NC3_INFO* ncp,
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size_t h_minfree, size_t v_align,
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size_t v_minfree, size_t r_align)
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{
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size_t ii, j;
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int sizeof_off_t;
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off_t index = 0;
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off_t old_ncp_begin_var;
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NC_var **vpp;
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NC_var *last = NULL;
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NC_var *first_var = NULL; /* first "non-record" var */
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if(v_align == NC_ALIGN_CHUNK)
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v_align = ncp->chunk;
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if(r_align == NC_ALIGN_CHUNK)
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r_align = ncp->chunk;
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if (fIsSet(ncp->flags, NC_64BIT_OFFSET) || fIsSet(ncp->flags, NC_64BIT_DATA)) {
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sizeof_off_t = 8;
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} else {
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sizeof_off_t = 4;
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}
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ncp->xsz = ncx_len_NC(ncp,sizeof_off_t);
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if(ncp->vars.nelems == 0)
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return NC_NOERR;
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old_ncp_begin_var = ncp->begin_var;
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/* only (re)calculate begin_var if there is not sufficient space in header
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or start of non-record variables is not aligned as requested by valign */
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if (ncp->begin_var < ncp->xsz + h_minfree ||
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ncp->begin_var != D_RNDUP(ncp->begin_var, v_align) )
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{
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index = (off_t) ncp->xsz;
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ncp->begin_var = D_RNDUP(index, v_align);
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if(ncp->begin_var < index + h_minfree)
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{
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ncp->begin_var = D_RNDUP(index + (off_t)h_minfree, v_align);
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}
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}
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if (ncp->old != NULL) {
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/* check whether the new begin_var is smaller */
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if (ncp->begin_var < ncp->old->begin_var)
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ncp->begin_var = ncp->old->begin_var;
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}
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index = ncp->begin_var;
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/* loop thru vars, first pass is for the 'non-record' vars */
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j = 0;
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vpp = ncp->vars.value;
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for(ii = 0; ii < ncp->vars.nelems ; ii++, vpp++)
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{
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if( IS_RECVAR(*vpp) )
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{
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/* skip record variables on this pass */
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continue;
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}
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if (first_var == NULL) first_var = *vpp;
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#if 0
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fprintf(stderr, " VAR %d %s: %ld\n", ii, (*vpp)->name->cp, (long)index);
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#endif
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if( sizeof_off_t == 4 && (index > X_OFF_MAX || index < 0) )
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{
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ncp->begin_var = old_ncp_begin_var;
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return NC_EVARSIZE;
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}
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(*vpp)->begin = index;
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if (ncp->old != NULL) {
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/* move to the next fixed variable */
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for (; j<ncp->old->vars.nelems; j++) {
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if (!IS_RECVAR(ncp->old->vars.value[j]))
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break;
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}
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if (j < ncp->old->vars.nelems) {
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if ((*vpp)->begin < ncp->old->vars.value[j]->begin) {
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/* the first ncp->vars.nelems fixed variables
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should be the same. If the new begin is smaller,
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reuse the old begin */
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(*vpp)->begin = ncp->old->vars.value[j]->begin;
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index = (*vpp)->begin;
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}
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j++;
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}
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}
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index += (*vpp)->len;
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}
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if (ncp->old != NULL) {
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/* check whether the new begin_rec is smaller */
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if (ncp->begin_rec < ncp->old->begin_rec)
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ncp->begin_rec = ncp->old->begin_rec;
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}
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/* only (re)calculate begin_rec if there is not sufficient
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space at end of non-record variables or if start of record
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variables is not aligned as requested by r_align */
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if (ncp->begin_rec < index + v_minfree ||
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ncp->begin_rec != D_RNDUP(ncp->begin_rec, r_align) )
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{
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ncp->begin_rec = D_RNDUP(index, r_align);
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if(ncp->begin_rec < index + v_minfree)
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{
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ncp->begin_rec = D_RNDUP(index + (off_t)v_minfree, r_align);
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}
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}
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if (first_var != NULL)
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ncp->begin_var = first_var->begin;
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else
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ncp->begin_var = ncp->begin_rec;
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index = ncp->begin_rec;
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ncp->recsize = 0;
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/* loop thru vars, second pass is for the 'record' vars */
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j = 0;
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vpp = (NC_var **)ncp->vars.value;
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for(ii = 0; ii < ncp->vars.nelems; ii++, vpp++)
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{
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if( !IS_RECVAR(*vpp) )
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{
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/* skip non-record variables on this pass */
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continue;
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}
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#if 0
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fprintf(stderr, " REC %d %s: %ld\n", ii, (*vpp)->name->cp, (long)index);
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#endif
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if( sizeof_off_t == 4 && (index > X_OFF_MAX || index < 0) )
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{
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ncp->begin_var = old_ncp_begin_var;
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return NC_EVARSIZE;
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}
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(*vpp)->begin = index;
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if (ncp->old != NULL) {
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/* move to the next record variable */
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for (; j<ncp->old->vars.nelems; j++)
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if (IS_RECVAR(ncp->old->vars.value[j]))
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break;
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if (j < ncp->old->vars.nelems) {
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if ((*vpp)->begin < ncp->old->vars.value[j]->begin)
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/* if the new begin is smaller, use the old begin */
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(*vpp)->begin = ncp->old->vars.value[j]->begin;
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j++;
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}
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}
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index += (*vpp)->len;
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/* check if record size must fit in 32-bits */
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#if SIZEOF_OFF_T == SIZEOF_SIZE_T && SIZEOF_SIZE_T == 4
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if( ncp->recsize > X_UINT_MAX - (*vpp)->len )
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{
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ncp->begin_var = old_ncp_begin_var;
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return NC_EVARSIZE;
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}
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#endif
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ncp->recsize += (*vpp)->len;
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last = (*vpp);
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}
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/*
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* for special case (Check CDF-1 and CDF-2 file format specifications.)
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* "A special case: Where there is exactly one record variable, we drop the
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* requirement that each record be four-byte aligned, so in this case there
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* is no record padding."
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*/
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if (last != NULL) {
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if (ncp->recsize == last->len) {
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/* exactly one record variable, pack value */
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ncp->recsize = *last->dsizes * last->xsz;
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}
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}
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if(NC_IsNew(ncp))
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NC_set_numrecs(ncp, 0);
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return NC_NOERR;
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}
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/*
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* Read just the numrecs member.
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* (A relatively expensive way to do things.)
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*/
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int
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read_numrecs(NC3_INFO *ncp)
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{
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int status = NC_NOERR;
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const void *xp = NULL;
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size_t new_nrecs = 0;
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size_t old_nrecs = NC_get_numrecs(ncp);
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size_t nc_numrecs_extent = NC_NUMRECS_EXTENT3; /* CDF-1 and CDF-2 */
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assert(!NC_indef(ncp));
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if (fIsSet(ncp->flags, NC_64BIT_DATA))
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nc_numrecs_extent = NC_NUMRECS_EXTENT5; /* CDF-5 */
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status = ncio_get(ncp->nciop,
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NC_NUMRECS_OFFSET, nc_numrecs_extent, 0, (void **)&xp);/* cast away const */
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if(status != NC_NOERR)
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return status;
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if (fIsSet(ncp->flags, NC_64BIT_DATA)) {
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unsigned long long tmp=0;
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status = ncx_get_uint64(&xp, &tmp);
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new_nrecs = (size_t)tmp;
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} else
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status = ncx_get_size_t(&xp, &new_nrecs);
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(void) ncio_rel(ncp->nciop, NC_NUMRECS_OFFSET, 0);
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if(status == NC_NOERR && old_nrecs != new_nrecs)
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{
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NC_set_numrecs(ncp, new_nrecs);
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fClr(ncp->flags, NC_NDIRTY);
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}
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return status;
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}
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/*
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* Write out just the numrecs member.
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* (A relatively expensive way to do things.)
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*/
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int
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write_numrecs(NC3_INFO *ncp)
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{
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int status = NC_NOERR;
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void *xp = NULL;
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size_t nc_numrecs_extent = NC_NUMRECS_EXTENT3; /* CDF-1 and CDF-2 */
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assert(!NC_readonly(ncp));
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assert(!NC_indef(ncp));
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if (fIsSet(ncp->flags, NC_64BIT_DATA))
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nc_numrecs_extent = NC_NUMRECS_EXTENT5; /* CDF-5 */
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status = ncio_get(ncp->nciop,
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NC_NUMRECS_OFFSET, nc_numrecs_extent, RGN_WRITE, &xp);
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if(status != NC_NOERR)
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return status;
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{
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const size_t nrecs = NC_get_numrecs(ncp);
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if (fIsSet(ncp->flags, NC_64BIT_DATA))
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status = ncx_put_uint64(&xp, (unsigned long long)nrecs);
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else
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status = ncx_put_size_t(&xp, &nrecs);
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}
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(void) ncio_rel(ncp->nciop, NC_NUMRECS_OFFSET, RGN_MODIFIED);
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if(status == NC_NOERR)
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fClr(ncp->flags, NC_NDIRTY);
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return status;
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}
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/*
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* Read in the header
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* It is expensive.
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*/
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static int
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read_NC(NC3_INFO *ncp)
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{
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int status = NC_NOERR;
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free_NC_dimarrayV(&ncp->dims);
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free_NC_attrarrayV(&ncp->attrs);
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free_NC_vararrayV(&ncp->vars);
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status = nc_get_NC(ncp);
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if(status == NC_NOERR)
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fClr(ncp->flags, NC_NDIRTY | NC_HDIRTY);
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return status;
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}
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/*
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* Write out the header
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*/
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static int
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write_NC(NC3_INFO *ncp)
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{
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int status = NC_NOERR;
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assert(!NC_readonly(ncp));
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status = ncx_put_NC(ncp, NULL, 0, 0);
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if(status == NC_NOERR)
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fClr(ncp->flags, NC_NDIRTY | NC_HDIRTY);
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return status;
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}
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/*
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* Write the header or the numrecs if necessary.
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*/
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int
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NC_sync(NC3_INFO *ncp)
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{
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assert(!NC_readonly(ncp));
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if(NC_hdirty(ncp))
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{
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return write_NC(ncp);
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}
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/* else */
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if(NC_ndirty(ncp))
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{
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return write_numrecs(ncp);
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}
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/* else */
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return NC_NOERR;
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}
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/*
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* Initialize the 'non-record' variables.
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*/
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static int
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fillerup(NC3_INFO *ncp)
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{
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int status = NC_NOERR;
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size_t ii;
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NC_var **varpp;
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assert(!NC_readonly(ncp));
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/* loop thru vars */
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varpp = ncp->vars.value;
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for(ii = 0; ii < ncp->vars.nelems; ii++, varpp++)
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{
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if ((*varpp)->no_fill) continue;
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if(IS_RECVAR(*varpp))
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{
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/* skip record variables */
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continue;
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}
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status = fill_NC_var(ncp, *varpp, (*varpp)->len, 0);
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if(status != NC_NOERR)
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break;
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}
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return status;
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}
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/* Begin endef */
|
|
|
|
/*
|
|
*/
|
|
static int
|
|
fill_added_recs(NC3_INFO *gnu, NC3_INFO *old)
|
|
{
|
|
NC_var ** const gnu_varpp = (NC_var **)gnu->vars.value;
|
|
|
|
const int old_nrecs = (int) NC_get_numrecs(old);
|
|
int recno = 0;
|
|
NC_var **vpp = gnu_varpp;
|
|
NC_var *const *const end = &vpp[gnu->vars.nelems];
|
|
int numrecvars = 0;
|
|
|
|
/* Determine if there is only one record variable. If so, we
|
|
must treat as a special case because there's no record padding */
|
|
for(; vpp < end; vpp++) {
|
|
if(IS_RECVAR(*vpp)) {
|
|
numrecvars++;
|
|
}
|
|
}
|
|
|
|
for(; recno < old_nrecs; recno++)
|
|
{
|
|
int varid = (int)old->vars.nelems;
|
|
for(; varid < (int)gnu->vars.nelems; varid++)
|
|
{
|
|
const NC_var *const gnu_varp = *(gnu_varpp + varid);
|
|
|
|
if (gnu_varp->no_fill) continue;
|
|
|
|
if(!IS_RECVAR(gnu_varp))
|
|
{
|
|
/* skip non-record variables */
|
|
continue;
|
|
}
|
|
/* else */
|
|
{
|
|
size_t varsize = numrecvars == 1 ? gnu->recsize : gnu_varp->len;
|
|
const int status = fill_NC_var(gnu, gnu_varp, varsize, recno);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
}
|
|
}
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/*
|
|
*/
|
|
static int
|
|
fill_added(NC3_INFO *gnu, NC3_INFO *old)
|
|
{
|
|
NC_var ** const gnu_varpp = (NC_var **)gnu->vars.value;
|
|
int varid = (int)old->vars.nelems;
|
|
|
|
for(; varid < (int)gnu->vars.nelems; varid++)
|
|
{
|
|
const NC_var *const gnu_varp = *(gnu_varpp + varid);
|
|
|
|
if (gnu_varp->no_fill) continue;
|
|
|
|
if(IS_RECVAR(gnu_varp))
|
|
{
|
|
/* skip record variables */
|
|
continue;
|
|
}
|
|
/* else */
|
|
{
|
|
const int status = fill_NC_var(gnu, gnu_varp, gnu_varp->len, 0);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
}
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
|
|
/*
|
|
* Move the records "out".
|
|
* Fill as needed.
|
|
*/
|
|
static int
|
|
move_recs_r(NC3_INFO *gnu, NC3_INFO *old)
|
|
{
|
|
int status;
|
|
int recno;
|
|
int varid;
|
|
NC_var **gnu_varpp = (NC_var **)gnu->vars.value;
|
|
NC_var **old_varpp = (NC_var **)old->vars.value;
|
|
NC_var *gnu_varp;
|
|
NC_var *old_varp;
|
|
off_t gnu_off;
|
|
off_t old_off;
|
|
const size_t old_nrecs = NC_get_numrecs(old);
|
|
|
|
/* Don't parallelize this loop */
|
|
for(recno = (int)old_nrecs -1; recno >= 0; recno--)
|
|
{
|
|
/* Don't parallelize this loop */
|
|
for(varid = (int)old->vars.nelems -1; varid >= 0; varid--)
|
|
{
|
|
gnu_varp = *(gnu_varpp + varid);
|
|
if(!IS_RECVAR(gnu_varp))
|
|
{
|
|
/* skip non-record variables on this pass */
|
|
continue;
|
|
}
|
|
/* else */
|
|
|
|
/* else, a pre-existing variable */
|
|
old_varp = *(old_varpp + varid);
|
|
gnu_off = gnu_varp->begin + (off_t)(gnu->recsize * recno);
|
|
old_off = old_varp->begin + (off_t)(old->recsize * recno);
|
|
|
|
if(gnu_off == old_off)
|
|
continue; /* nothing to do */
|
|
|
|
assert(gnu_off > old_off);
|
|
|
|
status = ncio_move(gnu->nciop, gnu_off, old_off,
|
|
old_varp->len, 0);
|
|
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
|
|
}
|
|
}
|
|
|
|
NC_set_numrecs(gnu, old_nrecs);
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
|
|
/*
|
|
* Move the "non record" variables "out".
|
|
* Fill as needed.
|
|
*/
|
|
static int
|
|
move_vars_r(NC3_INFO *gnu, NC3_INFO *old)
|
|
{
|
|
int err, status=NC_NOERR;
|
|
int varid;
|
|
NC_var **gnu_varpp = (NC_var **)gnu->vars.value;
|
|
NC_var **old_varpp = (NC_var **)old->vars.value;
|
|
NC_var *gnu_varp;
|
|
NC_var *old_varp;
|
|
off_t gnu_off;
|
|
off_t old_off;
|
|
|
|
/* Don't parallelize this loop */
|
|
for(varid = (int)old->vars.nelems -1;
|
|
varid >= 0; varid--)
|
|
{
|
|
gnu_varp = *(gnu_varpp + varid);
|
|
if(IS_RECVAR(gnu_varp))
|
|
{
|
|
/* skip record variables on this pass */
|
|
continue;
|
|
}
|
|
/* else */
|
|
|
|
old_varp = *(old_varpp + varid);
|
|
gnu_off = gnu_varp->begin;
|
|
old_off = old_varp->begin;
|
|
|
|
if (gnu_off > old_off) {
|
|
err = ncio_move(gnu->nciop, gnu_off, old_off,
|
|
old_varp->len, 0);
|
|
if (status == NC_NOERR) status = err;
|
|
}
|
|
}
|
|
return status;
|
|
}
|
|
|
|
|
|
/*
|
|
* Given a valid ncp, return NC_EVARSIZE if any variable has a bad len
|
|
* (product of non-rec dim sizes too large), else return NC_NOERR.
|
|
*/
|
|
int
|
|
NC_check_vlens(NC3_INFO *ncp)
|
|
{
|
|
NC_var **vpp;
|
|
/* maximum permitted variable size (or size of one record's worth
|
|
of a record variable) in bytes. This is different for format 1
|
|
and format 2. */
|
|
long long vlen_max;
|
|
size_t ii;
|
|
size_t large_vars_count;
|
|
size_t rec_vars_count;
|
|
int last = 0;
|
|
|
|
if(ncp->vars.nelems == 0)
|
|
return NC_NOERR;
|
|
|
|
if (fIsSet(ncp->flags,NC_64BIT_DATA)) /* CDF-5 */
|
|
vlen_max = X_INT64_MAX - 3; /* "- 3" handles rounded-up size */
|
|
else if (fIsSet(ncp->flags,NC_64BIT_OFFSET) && sizeof(off_t) > 4)
|
|
/* CDF2 format and LFS */
|
|
vlen_max = X_UINT_MAX - 3; /* "- 3" handles rounded-up size */
|
|
else /* CDF1 format */
|
|
vlen_max = X_INT_MAX - 3;
|
|
|
|
/* Loop through vars, first pass is for non-record variables. */
|
|
large_vars_count = 0;
|
|
rec_vars_count = 0;
|
|
vpp = ncp->vars.value;
|
|
for (ii = 0; ii < ncp->vars.nelems; ii++, vpp++) {
|
|
if( !IS_RECVAR(*vpp) ) {
|
|
last = 0;
|
|
if( NC_check_vlen(*vpp, vlen_max) == 0 ) {
|
|
if (fIsSet(ncp->flags,NC_64BIT_DATA)) /* too big for CDF-5 */
|
|
return NC_EVARSIZE;
|
|
large_vars_count++;
|
|
last = 1;
|
|
}
|
|
} else {
|
|
rec_vars_count++;
|
|
}
|
|
}
|
|
/* OK if last non-record variable size too large, since not used to
|
|
compute an offset */
|
|
if( large_vars_count > 1) { /* only one "too-large" variable allowed */
|
|
return NC_EVARSIZE;
|
|
}
|
|
/* and it has to be the last one */
|
|
if( large_vars_count == 1 && last == 0) {
|
|
return NC_EVARSIZE;
|
|
}
|
|
if( rec_vars_count > 0 ) {
|
|
/* and if it's the last one, there can't be any record variables */
|
|
if( large_vars_count == 1 && last == 1) {
|
|
return NC_EVARSIZE;
|
|
}
|
|
/* Loop through vars, second pass is for record variables. */
|
|
large_vars_count = 0;
|
|
vpp = ncp->vars.value;
|
|
for (ii = 0; ii < ncp->vars.nelems; ii++, vpp++) {
|
|
if( IS_RECVAR(*vpp) ) {
|
|
last = 0;
|
|
if( NC_check_vlen(*vpp, vlen_max) == 0 ) {
|
|
if (fIsSet(ncp->flags,NC_64BIT_DATA)) /* too big for CDF-5 */
|
|
return NC_EVARSIZE;
|
|
large_vars_count++;
|
|
last = 1;
|
|
}
|
|
}
|
|
}
|
|
/* OK if last record variable size too large, since not used to
|
|
compute an offset */
|
|
if( large_vars_count > 1) { /* only one "too-large" variable allowed */
|
|
return NC_EVARSIZE;
|
|
}
|
|
/* and it has to be the last one */
|
|
if( large_vars_count == 1 && last == 0) {
|
|
return NC_EVARSIZE;
|
|
}
|
|
}
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/*----< NC_check_voffs() >---------------------------------------------------*/
|
|
/*
|
|
* Given a valid ncp, check whether the file starting offsets (begin) of all
|
|
* variables follows the same increasing order as they were defined.
|
|
*/
|
|
int
|
|
NC_check_voffs(NC3_INFO *ncp)
|
|
{
|
|
size_t i;
|
|
off_t prev_off;
|
|
NC_var *varp;
|
|
|
|
if (ncp->vars.nelems == 0) return NC_NOERR;
|
|
|
|
/* Loop through vars, first pass is for non-record variables */
|
|
prev_off = ncp->begin_var;
|
|
for (i=0; i<ncp->vars.nelems; i++) {
|
|
varp = ncp->vars.value[i];
|
|
if (IS_RECVAR(varp)) continue;
|
|
|
|
if (varp->begin < prev_off) {
|
|
#if 0
|
|
fprintf(stderr,"Variable \"%s\" begin offset (%lld) is less than previous variable end offset (%lld)\n", varp->name->cp, varp->begin, prev_off);
|
|
#endif
|
|
return NC_ENOTNC;
|
|
}
|
|
prev_off = varp->begin + varp->len;
|
|
}
|
|
|
|
if (ncp->begin_rec < prev_off) {
|
|
#if 0
|
|
fprintf(stderr,"Record variable section begin offset (%lld) is less than fix-sized variable section end offset (%lld)\n", varp->begin, prev_off);
|
|
#endif
|
|
return NC_ENOTNC;
|
|
}
|
|
|
|
/* Loop through vars, second pass is for record variables */
|
|
prev_off = ncp->begin_rec;
|
|
for (i=0; i<ncp->vars.nelems; i++) {
|
|
varp = ncp->vars.value[i];
|
|
if (!IS_RECVAR(varp)) continue;
|
|
|
|
if (varp->begin < prev_off) {
|
|
#if 0
|
|
fprintf(stderr,"Variable \"%s\" begin offset (%lld) is less than previous variable end offset (%lld)\n", varp->name->cp, varp->begin, prev_off);
|
|
#endif
|
|
return NC_ENOTNC;
|
|
}
|
|
prev_off = varp->begin + varp->len;
|
|
}
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/*
|
|
* End define mode.
|
|
* Common code for ncendef, ncclose(endef)
|
|
* Flushes I/O buffers.
|
|
*/
|
|
static int
|
|
NC_endef(NC3_INFO *ncp,
|
|
size_t h_minfree, size_t v_align,
|
|
size_t v_minfree, size_t r_align)
|
|
{
|
|
int status = NC_NOERR;
|
|
|
|
assert(!NC_readonly(ncp));
|
|
assert(NC_indef(ncp));
|
|
|
|
status = NC_check_vlens(ncp);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
status = NC_begins(ncp, h_minfree, v_align, v_minfree, r_align);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
status = NC_check_voffs(ncp);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
|
|
if(ncp->old != NULL)
|
|
{
|
|
/* a plain redef, not a create */
|
|
assert(!NC_IsNew(ncp));
|
|
assert(fIsSet(ncp->flags, NC_INDEF));
|
|
assert(ncp->begin_rec >= ncp->old->begin_rec);
|
|
assert(ncp->begin_var >= ncp->old->begin_var);
|
|
|
|
if(ncp->vars.nelems != 0)
|
|
{
|
|
if(ncp->begin_rec > ncp->old->begin_rec)
|
|
{
|
|
status = move_recs_r(ncp, ncp->old);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
if(ncp->begin_var > ncp->old->begin_var)
|
|
{
|
|
status = move_vars_r(ncp, ncp->old);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
/* else if (ncp->begin_var == ncp->old->begin_var) { NOOP } */
|
|
}
|
|
else
|
|
{
|
|
/* due to fixed variable alignment, it is possible that header
|
|
grows but begin_rec did not change */
|
|
if(ncp->begin_var > ncp->old->begin_var)
|
|
{
|
|
status = move_vars_r(ncp, ncp->old);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
/* Even if (ncp->begin_rec == ncp->old->begin_rec)
|
|
and (ncp->begin_var == ncp->old->begin_var)
|
|
might still have added a new record variable */
|
|
if(ncp->recsize > ncp->old->recsize)
|
|
{
|
|
status = move_recs_r(ncp, ncp->old);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
}
|
|
}
|
|
}
|
|
|
|
status = write_NC(ncp);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
|
|
/* fill mode is now per variable */
|
|
{
|
|
if(NC_IsNew(ncp))
|
|
{
|
|
status = fillerup(ncp);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
|
|
}
|
|
else if(ncp->old == NULL ? 0
|
|
: (ncp->vars.nelems > ncp->old->vars.nelems))
|
|
{
|
|
status = fill_added(ncp, ncp->old);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
status = fill_added_recs(ncp, ncp->old);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
}
|
|
|
|
if(ncp->old != NULL)
|
|
{
|
|
free_NC3INFO(ncp->old);
|
|
ncp->old = NULL;
|
|
}
|
|
|
|
fClr(ncp->flags, NC_CREAT | NC_INDEF);
|
|
|
|
return ncio_sync(ncp->nciop);
|
|
}
|
|
|
|
#ifdef LOCKNUMREC
|
|
static int
|
|
NC_init_pe(NC *ncp, int basepe) {
|
|
if (basepe < 0 || basepe >= _num_pes()) {
|
|
return NC_EINVAL; /* invalid base pe */
|
|
}
|
|
/* initialize common values */
|
|
ncp->lock[LOCKNUMREC_VALUE] = 0;
|
|
ncp->lock[LOCKNUMREC_LOCK] = 0;
|
|
ncp->lock[LOCKNUMREC_SERVING] = 0;
|
|
ncp->lock[LOCKNUMREC_BASEPE] = basepe;
|
|
return NC_NOERR;
|
|
}
|
|
#endif
|
|
|
|
|
|
/*
|
|
* Compute the expected size of the file.
|
|
*/
|
|
int
|
|
NC_calcsize(const NC3_INFO *ncp, off_t *calcsizep)
|
|
{
|
|
NC_var **vpp = (NC_var **)ncp->vars.value;
|
|
NC_var *const *const end = &vpp[ncp->vars.nelems];
|
|
NC_var *last_fix = NULL; /* last "non-record" var */
|
|
int numrecvars = 0; /* number of record variables */
|
|
|
|
if(ncp->vars.nelems == 0) { /* no non-record variables and
|
|
no record variables */
|
|
*calcsizep = ncp->xsz; /* size of header */
|
|
return NC_NOERR;
|
|
}
|
|
|
|
for( /*NADA*/; vpp < end; vpp++) {
|
|
if(IS_RECVAR(*vpp)) {
|
|
numrecvars++;
|
|
} else {
|
|
last_fix = *vpp;
|
|
}
|
|
}
|
|
|
|
if(numrecvars == 0) {
|
|
off_t varsize;
|
|
assert(last_fix != NULL);
|
|
varsize = last_fix->len;
|
|
if(last_fix->len == X_UINT_MAX) { /* huge last fixed var */
|
|
int i;
|
|
varsize = 1;
|
|
for(i = 0; i < last_fix->ndims; i++ ) {
|
|
varsize *= (last_fix->shape ? last_fix->shape[i] : 1);
|
|
}
|
|
}
|
|
*calcsizep = last_fix->begin + varsize;
|
|
/*last_var = last_fix;*/
|
|
} else { /* we have at least one record variable */
|
|
*calcsizep = ncp->begin_rec + ncp->numrecs * ncp->recsize;
|
|
}
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/* Public */
|
|
|
|
#if 0 /* no longer needed */
|
|
int NC3_new_nc(NC3_INFO** ncpp)
|
|
{
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
#if _CRAYMPP && defined(LOCKNUMREC)
|
|
ncp = (NC *) shmalloc(sizeof(NC));
|
|
#else
|
|
ncp = (NC *) malloc(sizeof(NC));
|
|
#endif /* _CRAYMPP && LOCKNUMREC */
|
|
if(ncp == NULL)
|
|
return NC_ENOMEM;
|
|
(void) memset(ncp, 0, sizeof(NC));
|
|
|
|
ncp->xsz = MIN_NC_XSZ;
|
|
assert(ncp->xsz == ncx_len_NC(ncp,0));
|
|
|
|
if(ncpp) *ncpp = ncp;
|
|
return NC_NOERR;
|
|
|
|
}
|
|
#endif
|
|
|
|
/* WARNING: SIGNATURE CHANGE */
|
|
int
|
|
NC3_create(const char *path, int ioflags, size_t initialsz, int basepe,
|
|
size_t *chunksizehintp, void *parameters,
|
|
NC_Dispatch *dispatch, NC *nc)
|
|
{
|
|
int status = NC_NOERR;
|
|
void *xp = NULL;
|
|
int sizeof_off_t = 0;
|
|
NC3_INFO* nc3 = NULL;
|
|
|
|
/* Create our specific NC3_INFO instance */
|
|
nc3 = new_NC3INFO(chunksizehintp);
|
|
|
|
#if ALWAYS_NC_SHARE /* DEBUG */
|
|
fSet(ioflags, NC_SHARE);
|
|
#endif
|
|
|
|
#if defined(LOCKNUMREC) /* && _CRAYMPP */
|
|
if (status = NC_init_pe(nc3, basepe)) {
|
|
return status;
|
|
}
|
|
#else
|
|
/*
|
|
* !_CRAYMPP, only pe 0 is valid
|
|
*/
|
|
if(basepe != 0) {
|
|
if(nc3) free(nc3);
|
|
return NC_EINVAL;
|
|
}
|
|
#endif
|
|
|
|
assert(nc3->flags == 0);
|
|
|
|
/* Now we can set min size */
|
|
if (fIsSet(ioflags, NC_64BIT_DATA))
|
|
nc3->xsz = MIN_NC5_XSZ; /* CDF-5 has minimum 16 extra bytes */
|
|
else
|
|
nc3->xsz = MIN_NC3_XSZ;
|
|
|
|
if (fIsSet(ioflags, NC_64BIT_OFFSET)) {
|
|
fSet(nc3->flags, NC_64BIT_OFFSET);
|
|
sizeof_off_t = 8;
|
|
} else if (fIsSet(ioflags, NC_64BIT_DATA)) {
|
|
fSet(nc3->flags, NC_64BIT_DATA);
|
|
sizeof_off_t = 8;
|
|
} else {
|
|
sizeof_off_t = 4;
|
|
}
|
|
|
|
assert(nc3->xsz == ncx_len_NC(nc3,sizeof_off_t));
|
|
|
|
status = ncio_create(path, ioflags, initialsz,
|
|
0, nc3->xsz, &nc3->chunk, NULL,
|
|
&nc3->nciop, &xp);
|
|
if(status != NC_NOERR)
|
|
{
|
|
/* translate error status */
|
|
if(status == EEXIST)
|
|
status = NC_EEXIST;
|
|
goto unwind_alloc;
|
|
}
|
|
|
|
fSet(nc3->flags, NC_CREAT);
|
|
|
|
if(fIsSet(nc3->nciop->ioflags, NC_SHARE))
|
|
{
|
|
/*
|
|
* NC_SHARE implies sync up the number of records as well.
|
|
* (File format version one.)
|
|
* Note that other header changes are not shared
|
|
* automatically. Some sort of IPC (external to this package)
|
|
* would be used to trigger a call to nc_sync().
|
|
*/
|
|
fSet(nc3->flags, NC_NSYNC);
|
|
}
|
|
|
|
status = ncx_put_NC(nc3, &xp, sizeof_off_t, nc3->xsz);
|
|
if(status != NC_NOERR)
|
|
goto unwind_ioc;
|
|
|
|
if(chunksizehintp != NULL)
|
|
*chunksizehintp = nc3->chunk;
|
|
|
|
/* Link nc3 and nc */
|
|
NC3_DATA_SET(nc,nc3);
|
|
nc->int_ncid = nc3->nciop->fd;
|
|
|
|
return NC_NOERR;
|
|
|
|
unwind_ioc:
|
|
if(nc3 != NULL) {
|
|
(void) ncio_close(nc3->nciop, 1); /* N.B.: unlink */
|
|
nc3->nciop = NULL;
|
|
}
|
|
/*FALLTHRU*/
|
|
unwind_alloc:
|
|
free_NC3INFO(nc3);
|
|
if(nc)
|
|
NC3_DATA_SET(nc,NULL);
|
|
return status;
|
|
}
|
|
|
|
#if 0
|
|
/* This function sets a default create flag that will be logically
|
|
or'd to whatever flags are passed into nc_create for all future
|
|
calls to nc_create.
|
|
Valid default create flags are NC_64BIT_OFFSET, NC_CDF5, NC_CLOBBER,
|
|
NC_LOCK, NC_SHARE. */
|
|
int
|
|
nc_set_default_format(int format, int *old_formatp)
|
|
{
|
|
/* Return existing format if desired. */
|
|
if (old_formatp)
|
|
*old_formatp = default_create_format;
|
|
|
|
/* Make sure only valid format is set. */
|
|
#ifdef USE_NETCDF4
|
|
if (format != NC_FORMAT_CLASSIC && format != NC_FORMAT_64BIT_OFFSET &&
|
|
format != NC_FORMAT_NETCDF4 && format != NC_FORMAT_NETCDF4_CLASSIC)
|
|
return NC_EINVAL;
|
|
#else
|
|
if (format != NC_FORMAT_CLASSIC && format != NC_FORMAT_64BIT_OFFSET
|
|
#ifdef ENABLE_CDF5
|
|
&& format != NC_FORMAT_CDF5
|
|
#endif
|
|
)
|
|
return NC_EINVAL;
|
|
#endif
|
|
default_create_format = format;
|
|
return NC_NOERR;
|
|
}
|
|
#endif
|
|
|
|
int
|
|
NC3_open(const char *path, int ioflags, int basepe, size_t *chunksizehintp,
|
|
void *parameters, NC_Dispatch *dispatch, NC *nc)
|
|
{
|
|
int status;
|
|
NC3_INFO* nc3 = NULL;
|
|
|
|
/* Create our specific NC3_INFO instance */
|
|
nc3 = new_NC3INFO(chunksizehintp);
|
|
|
|
#if ALWAYS_NC_SHARE /* DEBUG */
|
|
fSet(ioflags, NC_SHARE);
|
|
#endif
|
|
|
|
#if defined(LOCKNUMREC) /* && _CRAYMPP */
|
|
if (status = NC_init_pe(nc3, basepe)) {
|
|
goto unwind_alloc;
|
|
}
|
|
#else
|
|
/*
|
|
* !_CRAYMPP, only pe 0 is valid
|
|
*/
|
|
if(basepe != 0) {
|
|
if(nc3) {
|
|
free(nc3);
|
|
nc3 = NULL;
|
|
}
|
|
status = NC_EINVAL;
|
|
goto unwind_alloc;
|
|
}
|
|
#endif
|
|
|
|
status = ncio_open(path, ioflags, 0, 0, &nc3->chunk, parameters,
|
|
&nc3->nciop, NULL);
|
|
if(status)
|
|
goto unwind_alloc;
|
|
|
|
assert(nc3->flags == 0);
|
|
|
|
if(fIsSet(nc3->nciop->ioflags, NC_SHARE))
|
|
{
|
|
/*
|
|
* NC_SHARE implies sync up the number of records as well.
|
|
* (File format version one.)
|
|
* Note that other header changes are not shared
|
|
* automatically. Some sort of IPC (external to this package)
|
|
* would be used to trigger a call to nc_sync().
|
|
*/
|
|
fSet(nc3->flags, NC_NSYNC);
|
|
}
|
|
|
|
status = nc_get_NC(nc3);
|
|
if(status != NC_NOERR)
|
|
goto unwind_ioc;
|
|
|
|
if(chunksizehintp != NULL)
|
|
*chunksizehintp = nc3->chunk;
|
|
|
|
/* Link nc3 and nc */
|
|
NC3_DATA_SET(nc,nc3);
|
|
nc->int_ncid = nc3->nciop->fd;
|
|
|
|
return NC_NOERR;
|
|
|
|
unwind_ioc:
|
|
if(nc3) {
|
|
(void) ncio_close(nc3->nciop, 0);
|
|
nc3->nciop = NULL;
|
|
}
|
|
/*FALLTHRU*/
|
|
unwind_alloc:
|
|
free_NC3INFO(nc3);
|
|
if(nc)
|
|
NC3_DATA_SET(nc,NULL);
|
|
return status;
|
|
}
|
|
|
|
int
|
|
NC3__enddef(int ncid,
|
|
size_t h_minfree, size_t v_align,
|
|
size_t v_minfree, size_t r_align)
|
|
{
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
if(!NC_indef(nc3))
|
|
return(NC_ENOTINDEFINE);
|
|
|
|
return (NC_endef(nc3, h_minfree, v_align, v_minfree, r_align));
|
|
}
|
|
|
|
/*
|
|
* In data mode, same as ncclose.
|
|
* In define mode, restore previous definition.
|
|
* In create, remove the file.
|
|
*/
|
|
int
|
|
NC3_abort(int ncid)
|
|
{
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
int doUnlink = 0;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
doUnlink = NC_IsNew(nc3);
|
|
|
|
if(nc3->old != NULL)
|
|
{
|
|
/* a plain redef, not a create */
|
|
assert(!NC_IsNew(nc3));
|
|
assert(fIsSet(nc3->flags, NC_INDEF));
|
|
free_NC3INFO(nc3->old);
|
|
nc3->old = NULL;
|
|
fClr(nc3->flags, NC_INDEF);
|
|
}
|
|
else if(!NC_readonly(nc3))
|
|
{
|
|
status = NC_sync(nc3);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
|
|
|
|
(void) ncio_close(nc3->nciop, doUnlink);
|
|
nc3->nciop = NULL;
|
|
|
|
free_NC3INFO(nc3);
|
|
if(nc)
|
|
NC3_DATA_SET(nc,NULL);
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
int
|
|
NC3_close(int ncid, void* params)
|
|
{
|
|
int status = NC_NOERR;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
if(NC_indef(nc3))
|
|
{
|
|
status = NC_endef(nc3, 0, 1, 0, 1); /* TODO: defaults */
|
|
if(status != NC_NOERR )
|
|
{
|
|
(void) NC3_abort(ncid);
|
|
return status;
|
|
}
|
|
}
|
|
else if(!NC_readonly(nc3))
|
|
{
|
|
status = NC_sync(nc3);
|
|
/* flush buffers before any filesize comparisons */
|
|
(void) ncio_sync(nc3->nciop);
|
|
}
|
|
|
|
/*
|
|
* If file opened for writing and filesize is less than
|
|
* what it should be (due to previous use of NOFILL mode),
|
|
* pad it to correct size, as reported by NC_calcsize().
|
|
*/
|
|
if (status == NC_NOERR) {
|
|
off_t filesize; /* current size of open file */
|
|
off_t calcsize; /* calculated file size, from header */
|
|
status = ncio_filesize(nc3->nciop, &filesize);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
status = NC_calcsize(nc3, &calcsize);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
if(filesize < calcsize && !NC_readonly(nc3)) {
|
|
status = ncio_pad_length(nc3->nciop, calcsize);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
}
|
|
|
|
if(params != NULL && (nc->mode & NC_INMEMORY) != 0) {
|
|
NC_memio* memio = (NC_memio*)params;
|
|
/* Extract the final memory size &/or contents */
|
|
status = memio_extract(nc3->nciop,&memio->size,&memio->memory);
|
|
}
|
|
|
|
(void) ncio_close(nc3->nciop, 0);
|
|
nc3->nciop = NULL;
|
|
|
|
free_NC3INFO(nc3);
|
|
NC3_DATA_SET(nc,NULL);
|
|
|
|
return status;
|
|
}
|
|
|
|
int
|
|
NC3_redef(int ncid)
|
|
{
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
if(NC_readonly(nc3))
|
|
return NC_EPERM;
|
|
|
|
if(NC_indef(nc3))
|
|
return NC_EINDEFINE;
|
|
|
|
|
|
if(fIsSet(nc3->nciop->ioflags, NC_SHARE))
|
|
{
|
|
/* read in from disk */
|
|
status = read_NC(nc3);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
|
|
nc3->old = dup_NC3INFO(nc3);
|
|
if(nc3->old == NULL)
|
|
return NC_ENOMEM;
|
|
|
|
fSet(nc3->flags, NC_INDEF);
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
|
|
int
|
|
NC3_inq(int ncid,
|
|
int *ndimsp,
|
|
int *nvarsp,
|
|
int *nattsp,
|
|
int *xtendimp)
|
|
{
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
if(ndimsp != NULL)
|
|
*ndimsp = (int) nc3->dims.nelems;
|
|
if(nvarsp != NULL)
|
|
*nvarsp = (int) nc3->vars.nelems;
|
|
if(nattsp != NULL)
|
|
*nattsp = (int) nc3->attrs.nelems;
|
|
if(xtendimp != NULL)
|
|
*xtendimp = find_NC_Udim(&nc3->dims, NULL);
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
int
|
|
NC3_inq_unlimdim(int ncid, int *xtendimp)
|
|
{
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
if(xtendimp != NULL)
|
|
*xtendimp = find_NC_Udim(&nc3->dims, NULL);
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
int
|
|
NC3_sync(int ncid)
|
|
{
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
if(NC_indef(nc3))
|
|
return NC_EINDEFINE;
|
|
|
|
if(NC_readonly(nc3))
|
|
{
|
|
return read_NC(nc3);
|
|
}
|
|
/* else, read/write */
|
|
|
|
status = NC_sync(nc3);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
|
|
status = ncio_sync(nc3->nciop);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
|
|
#ifdef USE_FSYNC
|
|
/* may improve concurrent access, but slows performance if
|
|
* called frequently */
|
|
#ifndef WIN32
|
|
status = fsync(nc3->nciop->fd);
|
|
#else
|
|
status = _commit(nc3->nciop->fd);
|
|
#endif /* WIN32 */
|
|
#endif /* USE_FSYNC */
|
|
|
|
return status;
|
|
}
|
|
|
|
|
|
int
|
|
NC3_set_fill(int ncid,
|
|
int fillmode, int *old_mode_ptr)
|
|
{
|
|
int i, status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
int oldmode;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
if(NC_readonly(nc3))
|
|
return NC_EPERM;
|
|
|
|
oldmode = fIsSet(nc3->flags, NC_NOFILL) ? NC_NOFILL : NC_FILL;
|
|
|
|
if(fillmode == NC_NOFILL)
|
|
{
|
|
fSet(nc3->flags, NC_NOFILL);
|
|
}
|
|
else if(fillmode == NC_FILL)
|
|
{
|
|
if(fIsSet(nc3->flags, NC_NOFILL))
|
|
{
|
|
/*
|
|
* We are changing back to fill mode
|
|
* so do a sync
|
|
*/
|
|
status = NC_sync(nc3);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
}
|
|
fClr(nc3->flags, NC_NOFILL);
|
|
}
|
|
else
|
|
{
|
|
return NC_EINVAL; /* Invalid fillmode */
|
|
}
|
|
|
|
if(old_mode_ptr != NULL)
|
|
*old_mode_ptr = oldmode;
|
|
|
|
/* loop thru all variables to set/overwrite its fill mode */
|
|
for (i=0; i<nc3->vars.nelems; i++)
|
|
nc3->vars.value[i]->no_fill = (fillmode == NC_NOFILL);
|
|
|
|
/* once the file's fill mode is set, any new variables defined after
|
|
* this call will check NC_dofill(nc3) and set their no_fill accordingly.
|
|
* See NC3_def_var() */
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
#ifdef LOCKNUMREC
|
|
|
|
/* create function versions of the NC_*_numrecs macros */
|
|
size_t
|
|
NC_get_numrecs(const NC *nc3) {
|
|
shmem_t numrec;
|
|
shmem_short_get(&numrec, (shmem_t *) nc3->lock + LOCKNUMREC_VALUE, 1,
|
|
nc3->lock[LOCKNUMREC_BASEPE]);
|
|
return (size_t) numrec;
|
|
}
|
|
|
|
void
|
|
NC_set_numrecs(NC *nc3, size_t nrecs)
|
|
{
|
|
shmem_t numrec = (shmem_t) nrecs;
|
|
/* update local value too */
|
|
nc3->lock[LOCKNUMREC_VALUE] = (ushmem_t) numrec;
|
|
shmem_short_put((shmem_t *) nc3->lock + LOCKNUMREC_VALUE, &numrec, 1,
|
|
nc3->lock[LOCKNUMREC_BASEPE]);
|
|
}
|
|
|
|
void NC_increase_numrecs(NC *nc3, size_t nrecs)
|
|
{
|
|
/* this is only called in one place that's already protected
|
|
* by a lock ... so don't worry about it */
|
|
if (nrecs > NC_get_numrecs(nc3))
|
|
NC_set_numrecs(nc3, nrecs);
|
|
}
|
|
|
|
#endif /* LOCKNUMREC */
|
|
|
|
/* everyone in communicator group will be executing this */
|
|
/*ARGSUSED*/
|
|
int
|
|
NC3_set_base_pe(int ncid, int pe)
|
|
{
|
|
#if _CRAYMPP && defined(LOCKNUMREC)
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
shmem_t numrecs;
|
|
|
|
if ((status = NC_check_id(ncid, &nc) != NC_NOERR) {
|
|
return status;
|
|
}
|
|
if (pe < 0 || pe >= _num_pes()) {
|
|
return NC_EINVAL; /* invalid base pe */
|
|
}
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
numrecs = (shmem_t) NC_get_numrecs(nc3);
|
|
|
|
nc3->lock[LOCKNUMREC_VALUE] = (ushmem_t) numrecs;
|
|
|
|
/* update serving & lock values for a "smooth" transition */
|
|
/* note that the "real" server will being doing this as well */
|
|
/* as all the rest in the group */
|
|
/* must have synchronization before & after this step */
|
|
shmem_short_get(
|
|
(shmem_t *) nc3->lock + LOCKNUMREC_SERVING,
|
|
(shmem_t *) nc3->lock + LOCKNUMREC_SERVING,
|
|
1, nc3->lock[LOCKNUMREC_BASEPE]);
|
|
|
|
shmem_short_get(
|
|
(shmem_t *) nc3->lock + LOCKNUMREC_LOCK,
|
|
(shmem_t *) nc3->lock + LOCKNUMREC_LOCK,
|
|
1, nc3->lock[LOCKNUMREC_BASEPE]);
|
|
|
|
/* complete transition */
|
|
nc3->lock[LOCKNUMREC_BASEPE] = (ushmem_t) pe;
|
|
|
|
#endif /* _CRAYMPP && LOCKNUMREC */
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/*ARGSUSED*/
|
|
int
|
|
NC3_inq_base_pe(int ncid, int *pe)
|
|
{
|
|
#if _CRAYMPP && defined(LOCKNUMREC)
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
if ((status = NC_check_id(ncid, &nc)) != NC_NOERR) {
|
|
return status;
|
|
}
|
|
|
|
*pe = (int) nc3->lock[LOCKNUMREC_BASEPE];
|
|
nc3 = NC3_DATA(nc);
|
|
#else
|
|
/*
|
|
* !_CRAYMPP, only pe 0 is valid
|
|
*/
|
|
if (pe) *pe = 0;
|
|
#endif /* _CRAYMPP && LOCKNUMREC */
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/**
|
|
* Return the file format.
|
|
*
|
|
* \param ncid the ID of the open file.
|
|
|
|
* \param formatp a pointer that gets the format. Ignored if NULL.
|
|
*
|
|
* \returns NC_NOERR No error.
|
|
* \returns NC_EBADID Bad ncid.
|
|
* \internal
|
|
* \author Ed Hartnett, Dennis Heimbigner
|
|
*/
|
|
int
|
|
NC3_inq_format(int ncid, int *formatp)
|
|
{
|
|
int status;
|
|
NC *nc;
|
|
NC3_INFO* nc3;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
nc3 = NC3_DATA(nc);
|
|
|
|
/* Why even call this function with no format pointer? */
|
|
if (!formatp)
|
|
return NC_NOERR;
|
|
|
|
/* only need to check for netCDF-3 variants, since this is never called for netCDF-4 files */
|
|
#ifdef ENABLE_CDF5
|
|
if (fIsSet(nc3->flags, NC_64BIT_DATA))
|
|
*formatp = NC_FORMAT_CDF5;
|
|
else
|
|
#endif
|
|
if (fIsSet(nc3->flags, NC_64BIT_OFFSET))
|
|
*formatp = NC_FORMAT_64BIT_OFFSET;
|
|
else
|
|
*formatp = NC_FORMAT_CLASSIC;
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/**
|
|
* Return the extended format (i.e. the dispatch model), plus the mode
|
|
* associated with an open file.
|
|
*
|
|
* \param ncid the ID of the open file.
|
|
* \param formatp a pointer that gets the extended format. Note that
|
|
* this is not the same as the format provided by nc_inq_format(). The
|
|
* extended foramt indicates the dispatch layer model. Classic, 64-bit
|
|
* offset, and CDF5 files all have an extended format of
|
|
* ::NC_FORMATX_NC3. Ignored if NULL.
|
|
* \param modep a pointer that gets the open/create mode associated with
|
|
* this file. Ignored if NULL.
|
|
*
|
|
* \returns NC_NOERR No error.
|
|
* \returns NC_EBADID Bad ncid.
|
|
* \internal
|
|
* \author Dennis Heimbigner
|
|
*/
|
|
int
|
|
NC3_inq_format_extended(int ncid, int *formatp, int *modep)
|
|
{
|
|
int status;
|
|
NC *nc;
|
|
|
|
status = NC_check_id(ncid, &nc);
|
|
if(status != NC_NOERR)
|
|
return status;
|
|
if(formatp) *formatp = NC_FORMATX_NC3;
|
|
if(modep) *modep = nc->mode;
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/**
|
|
* Determine name and size of netCDF type. This netCDF-4 function
|
|
* proved so popular that a netCDF-classic version is provided. You're
|
|
* welcome.
|
|
*
|
|
* \param ncid The ID of an open file.
|
|
* \param typeid The ID of a netCDF type.
|
|
* \param name Pointer that will get the name of the type. Maximum
|
|
* size will be NC_MAX_NAME. Ignored if NULL.
|
|
* \param size Pointer that will get size of type in bytes. Ignored if
|
|
* null.
|
|
*
|
|
* \returns NC_NOERR No error.
|
|
* \returns NC_EBADID Bad ncid.
|
|
* \returns NC_EBADTYPE Bad typeid.
|
|
* \internal
|
|
* \author Ed Hartnett
|
|
*/
|
|
int
|
|
NC3_inq_type(int ncid, nc_type typeid, char *name, size_t *size)
|
|
{
|
|
NC *ncp;
|
|
int stat = NC_check_id(ncid, &ncp);
|
|
if (stat != NC_NOERR)
|
|
return stat;
|
|
|
|
if(typeid < NC_BYTE || typeid > NC_STRING)
|
|
return NC_EBADTYPE;
|
|
|
|
/* Give the user the values they want. */
|
|
if (name)
|
|
strcpy(name, NC_atomictypename(typeid));
|
|
if (size)
|
|
*size = NC_atomictypelen(typeid);
|
|
|
|
return NC_NOERR;
|
|
}
|
|
|
|
/**************************************************/
|
|
int
|
|
nc_delete_mp(const char * path, int basepe)
|
|
{
|
|
NC *nc;
|
|
int status;
|
|
int ncid;
|
|
|
|
status = nc_open(path,NC_NOWRITE,&ncid);
|
|
if(status) return status;
|
|
|
|
status = NC_check_id(ncid,&nc);
|
|
if(status) return status;
|
|
|
|
#if defined(LOCKNUMREC) /* && _CRAYMPP */
|
|
if (status = NC_init_pe(nc3, basepe)) {
|
|
return status;
|
|
}
|
|
#else
|
|
/*
|
|
* !_CRAYMPP, only pe 0 is valid
|
|
*/
|
|
if(basepe != 0)
|
|
return NC_EINVAL;
|
|
#endif
|
|
|
|
(void) nc_close(ncid);
|
|
if(unlink(path) == -1) {
|
|
return NC_EIO; /* No more specific error code is appropriate */
|
|
}
|
|
return NC_NOERR;
|
|
}
|
|
|
|
int
|
|
nc_delete(const char * path)
|
|
{
|
|
return nc_delete_mp(path, 0);
|
|
}
|
|
|
|
/*----< NC3_inq_default_fill_value() >---------------------------------------*/
|
|
/* copy the default fill value to the memory space pointed by fillp */
|
|
int
|
|
NC3_inq_default_fill_value(int xtype, void *fillp)
|
|
{
|
|
if (fillp == NULL) return NC_NOERR;
|
|
|
|
switch(xtype) {
|
|
case NC_CHAR : *(char*)fillp = NC_FILL_CHAR; break;
|
|
case NC_BYTE : *(signed char*)fillp = NC_FILL_BYTE; break;
|
|
case NC_SHORT : *(short*)fillp = NC_FILL_SHORT; break;
|
|
case NC_INT : *(int*)fillp = NC_FILL_INT; break;
|
|
case NC_FLOAT : *(float*)fillp = NC_FILL_FLOAT; break;
|
|
case NC_DOUBLE : *(double*)fillp = NC_FILL_DOUBLE; break;
|
|
case NC_UBYTE : *(unsigned char*)fillp = NC_FILL_UBYTE; break;
|
|
case NC_USHORT : *(unsigned short*)fillp = NC_FILL_USHORT; break;
|
|
case NC_UINT : *(unsigned int*)fillp = NC_FILL_UINT; break;
|
|
case NC_INT64 : *(long long*)fillp = NC_FILL_INT64; break;
|
|
case NC_UINT64 : *(unsigned long long*)fillp = NC_FILL_UINT64; break;
|
|
default : return NC_EBADTYPE;
|
|
}
|
|
return NC_NOERR;
|
|
}
|
|
|
|
|
|
/*----< NC3_inq_var_fill() >-------------------------------------------------*/
|
|
/* inquire the fill value of a variable */
|
|
int
|
|
NC3_inq_var_fill(const NC_var *varp, void *fill_value)
|
|
{
|
|
NC_attr **attrpp = NULL;
|
|
|
|
if (fill_value == NULL) return NC_EINVAL;
|
|
|
|
/*
|
|
* find fill value
|
|
*/
|
|
attrpp = NC_findattr(&varp->attrs, _FillValue);
|
|
if ( attrpp != NULL ) {
|
|
const void *xp;
|
|
/* User defined fill value */
|
|
if ( (*attrpp)->type != varp->type || (*attrpp)->nelems != 1 )
|
|
return NC_EBADTYPE;
|
|
|
|
xp = (*attrpp)->xvalue;
|
|
/* value stored in xvalue is in external representation, may need byte-swap */
|
|
switch(varp->type) {
|
|
case NC_CHAR: return ncx_getn_text (&xp, 1, (char*)fill_value);
|
|
case NC_BYTE: return ncx_getn_schar_schar (&xp, 1, (signed char*)fill_value);
|
|
case NC_UBYTE: return ncx_getn_uchar_uchar (&xp, 1, (unsigned char*)fill_value);
|
|
case NC_SHORT: return ncx_getn_short_short (&xp, 1, (short*)fill_value);
|
|
case NC_USHORT: return ncx_getn_ushort_ushort (&xp, 1, (unsigned short*)fill_value);
|
|
case NC_INT: return ncx_getn_int_int (&xp, 1, (int*)fill_value);
|
|
case NC_UINT: return ncx_getn_uint_uint (&xp, 1, (unsigned int*)fill_value);
|
|
case NC_FLOAT: return ncx_getn_float_float (&xp, 1, (float*)fill_value);
|
|
case NC_DOUBLE: return ncx_getn_double_double (&xp, 1, (double*)fill_value);
|
|
case NC_INT64: return ncx_getn_longlong_longlong (&xp, 1, (long long*)fill_value);
|
|
case NC_UINT64: return ncx_getn_ulonglong_ulonglong(&xp, 1, (unsigned long long*)fill_value);
|
|
default: return NC_EBADTYPE;
|
|
}
|
|
}
|
|
else {
|
|
/* use the default */
|
|
switch(varp->type){
|
|
case NC_CHAR: *(char *)fill_value = NC_FILL_CHAR;
|
|
break;
|
|
case NC_BYTE: *(signed char *)fill_value = NC_FILL_BYTE;
|
|
break;
|
|
case NC_SHORT: *(short *)fill_value = NC_FILL_SHORT;
|
|
break;
|
|
case NC_INT: *(int *)fill_value = NC_FILL_INT;
|
|
break;
|
|
case NC_UBYTE: *(unsigned char *)fill_value = NC_FILL_UBYTE;
|
|
break;
|
|
case NC_USHORT: *(unsigned short *)fill_value = NC_FILL_USHORT;
|
|
break;
|
|
case NC_UINT: *(unsigned int *)fill_value = NC_FILL_UINT;
|
|
break;
|
|
case NC_INT64: *(long long *)fill_value = NC_FILL_INT64;
|
|
break;
|
|
case NC_UINT64: *(unsigned long long *)fill_value = NC_FILL_UINT64;
|
|
break;
|
|
case NC_FLOAT: *(float *)fill_value = NC_FILL_FLOAT;
|
|
break;
|
|
case NC_DOUBLE: *(double *)fill_value = NC_FILL_DOUBLE;
|
|
break;
|
|
default:
|
|
return NC_EINVAL;
|
|
}
|
|
}
|
|
return NC_NOERR;
|
|
}
|