mirror of
https://github.com/Unidata/netcdf-c.git
synced 2024-12-15 08:30:11 +08:00
68a98f6e81
The current ncgen does not properly handle very large data sections. Apparently this is very uncommon because it was only discovered in testing the new zarr code. The fix required a new approach to processing data sections. Unfortunately, the resulting ncgen is slower than before but at least it is, I think, now correct. The added test cases are in libnczarr, and so will not show up until that is incorporated into master. Note also that fortran code generation changed, but has not been tested here. Misc. Changes 1. Cleanup error handling in ncgen -lc and -lb output 2. Cleanup Makefiles for ncgen to remove unused code 3. Added a program, ncgen/ncdumpchunks, to print the data for a .nc file on a per-chunk format. 4. Made the XGetOpt change in PR https://github.com/Unidata/netcdf-c/pull/1694 for ncdump/ncvalidator
671 lines
14 KiB
C
671 lines
14 KiB
C
/*********************************************************************
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* Copyright 2018, UCAR/Unidata
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* See netcdf/COPYRIGHT file for copying and redistribution conditions.
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* $Header: /upc/share/CVS/netcdf-3/ncgen/util.c,v 1.4 2010/04/14 22:04:59 dmh Exp $
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*********************************************************************/
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#include "includes.h"
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/* Track primitive symbol instances (initialized in ncgen.y) */
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Symbol* primsymbols[PRIMNO];
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char*
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append(const char* s1, const char* s2)
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{
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int len = (s1?strlen(s1):0)+(s2?strlen(s2):0);
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char* result = (char*)ecalloc(len+1);
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result[0] = '\0';
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if(s1) strcat(result,s1);
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if(s2) strcat(result,s2);
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return result;
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}
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unsigned int
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chartohex(char c)
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{
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switch (c) {
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case '0': case '1': case '2': case '3': case '4':
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case '5': case '6': case '7': case '8': case '9':
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return (c - '0');
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case 'A': case 'B': case 'C':
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case 'D': case 'E': case 'F':
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return (c - 'A') + 0x0a;
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case 'a': case 'b': case 'c':
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case 'd': case 'e': case 'f':
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return (c - 'a') + 0x0a;
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}
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return 0;
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}
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/*
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* For generated Fortran, change 'e' to 'd' in exponent of double precision
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* constants.
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*/
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void
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expe2d(
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char *cp) /* string containing double constant */
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{
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char *expchar = strrchr(cp,'e');
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if (expchar) {
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*expchar = 'd';
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}
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}
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/* Returns non-zero if n is a power of 2, 0 otherwise */
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int
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pow2(
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int n)
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{
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int m = n;
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int p = 1;
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while (m > 0) {
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m /= 2;
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p *= 2;
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}
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return p == 2*n;
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}
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/*
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* Remove trailing zeros (after decimal point) but not trailing decimal
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* point from ss, a string representation of a floating-point number that
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* might include an exponent part.
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*/
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void
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tztrim(
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char *ss /* returned string representing dd */
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)
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{
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char *cp, *ep;
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cp = ss;
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if (*cp == '-')
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cp++;
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while(isdigit((int)*cp) || *cp == '.')
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cp++;
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if (*--cp == '.')
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return;
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ep = cp+1;
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while (*cp == '0')
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cp--;
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cp++;
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if (cp == ep)
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return;
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while (*ep)
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*cp++ = *ep++;
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*cp = '\0';
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return;
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}
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static void
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clearSpecialdata(Specialdata* data)
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{
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if(data == NULL) return;
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reclaimdatalist(data->_Fillvalue);
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if(data->_ChunkSizes)
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efree(data->_ChunkSizes);
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if(data->_Filters) {
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int i;
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for(i=0;i<data->nfilters;i++) {
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NC4_Filterspec* f = (NC4_Filterspec*)data->_Filters[i];
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efree(f->params);
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efree(f);
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}
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efree(data->_Filters);
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}
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}
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void
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freeSymbol(Symbol* sym)
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{
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if(sym == NULL) return;
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switch (sym->objectclass) {
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case NC_VAR:
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clearSpecialdata(&sym->var.special);
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listfree(sym->var.attributes);
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break;
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case NC_TYPE:
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if(sym->typ.econst)
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reclaimconstant(sym->typ.econst);
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if(sym->typ._Fillvalue)
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reclaimdatalist(sym->typ._Fillvalue);
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break;
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case NC_GRP:
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if(sym->file.filename)
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efree(sym->file.filename);
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break;
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default: break;
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}
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/* Universal */
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if(sym->name) efree(sym->name);
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if(sym->fqn) efree(sym->fqn);
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listfree(sym->prefix);
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if(sym->data)
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reclaimdatalist(sym->data);
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listfree(sym->subnodes);
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efree(sym);
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}
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char* nctypenames[17] = {
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"NC_NAT",
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"NC_BYTE", "NC_CHAR", "NC_SHORT", "NC_INT",
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"NC_FLOAT", "NC_DOUBLE",
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"NC_UBYTE", "NC_USHORT", "NC_UINT",
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"NC_INT64", "NC_UINT64",
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"NC_STRING",
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"NC_VLEN", "NC_OPAQUE", "NC_ENUM", "NC_COMPOUND"
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};
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char* nctypenamesextend[9] = {
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"NC_GRP", "NC_DIM", "NC_VAR", "NC_ATT", "NC_TYPE",
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"NC_ECONST","NC_FIELD", "NC_ARRAY","NC_PRIM"
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};
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char*
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nctypename(nc_type nctype)
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{
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char* s;
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if(nctype >= NC_NAT && nctype <= NC_COMPOUND)
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return nctypenames[nctype];
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if(nctype >= NC_GRP && nctype <= NC_PRIM)
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return nctypenamesextend[(nctype - NC_GRP)];
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if(nctype == NC_FILLVALUE) return "NC_FILL";
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if(nctype == NC_NIL) return "NC_NIL";
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s = poolalloc(128);
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sprintf(s,"NC_<%d>",nctype);
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return s;
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}
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/* These are the augmented NC_ values (0 based from NC_GRP)*/
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char* ncclassnames[9] = {
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"NC_GRP", "NC_DIM", "NC_VAR", "NC_ATT",
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"NC_TYP", "NC_ECONST", "NC_FIELD", "NC_ARRAY",
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"NC_PRIM"
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};
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char*
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ncclassname(nc_class ncc)
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{
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char* s;
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if(ncc >= NC_NAT && ncc <= NC_COMPOUND)
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return nctypename((nc_type)ncc);
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if(ncc == NC_FILLVALUE) return "NC_FILL";
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if(ncc >= NC_GRP && ncc <= NC_PRIM)
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return ncclassnames[ncc - NC_GRP];
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s = poolalloc(128);
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sprintf(s,"NC_<%d>",ncc);
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return s;
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}
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int ncsizes[17] = {
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0,
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1,1,2,4,
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4,8,
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1,2,4,
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8,8,
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sizeof(char*),
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sizeof(nc_vlen_t),
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0,0,0
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};
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int
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ncsize(nc_type nctype)
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{
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if(nctype >= NC_NAT && nctype <= NC_COMPOUND)
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return ncsizes[nctype];
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return 0;
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}
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int
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hasunlimited(Dimset* dimset)
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{
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int i;
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for(i=0;i<dimset->ndims;i++) {
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Symbol* dim = dimset->dimsyms[i];
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if(dim->dim.declsize == NC_UNLIMITED) return 1;
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}
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return 0;
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}
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/* return 1 if first dimension is unlimited*/
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int
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isunlimited0(Dimset* dimset)
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{
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return (dimset->ndims > 0 && dimset->dimsyms[0]->dim.declsize == NC_UNLIMITED);
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}
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/* True only if dim[0] is unlimited all rest are bounded*/
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/* or all are bounded*/
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int
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classicunlimited(Dimset* dimset)
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{
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int i;
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int last = -1;
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for(i=0;i<dimset->ndims;i++) {
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Symbol* dim = dimset->dimsyms[i];
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if(dim->dim.declsize == NC_UNLIMITED) last = i;
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}
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return (last < 1);
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}
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/* True only iff no dimension is unlimited*/
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int
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isbounded(Dimset* dimset)
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{
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int i;
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for(i=0;i<dimset->ndims;i++) {
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Symbol* dim = dimset->dimsyms[i];
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if(dim->dim.declsize == NC_UNLIMITED) return 0;
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}
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return 1;
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}
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int
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signedtype(nc_type nctype)
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{
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switch (nctype) {
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case NC_BYTE:
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case NC_SHORT:
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case NC_INT:
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case NC_INT64:
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return nctype;
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case NC_UBYTE: return NC_BYTE;
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case NC_USHORT: return NC_SHORT;
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case NC_UINT: return NC_INT;
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case NC_UINT64: return NC_INT64;
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default: break;
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}
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return nctype;
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}
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int
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unsignedtype(nc_type nctype)
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{
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switch (nctype) {
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case NC_UBYTE:
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case NC_USHORT:
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case NC_UINT:
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case NC_UINT64:
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return nctype;
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case NC_BYTE: return NC_UBYTE;
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case NC_SHORT: return NC_USHORT;
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case NC_INT: return NC_UINT;
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case NC_INT64: return NC_UINT64;
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default: break;
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}
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return nctype;
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}
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int
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isinttype(nc_type nctype)
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{
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return (nctype != NC_CHAR)
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&& ((nctype >= NC_BYTE && nctype <= NC_INT)
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|| (nctype >= NC_UBYTE && nctype <= NC_UINT64));
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}
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int
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isuinttype(nc_type t)
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{
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return isinttype(t)
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&& t >= NC_UBYTE
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&& t <= NC_UINT64
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&& t != NC_INT64;
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}
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int
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isfloattype(nc_type nctype)
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{
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return (nctype == NC_FLOAT || nctype <= NC_DOUBLE);
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}
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int
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isclassicprim(nc_type nctype)
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{
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return (nctype >= NC_BYTE && nctype <= NC_DOUBLE)
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;
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}
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int
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isclassicprimplus(nc_type nctype)
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{
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return (nctype >= NC_BYTE && nctype <= NC_DOUBLE)
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|| (nctype == NC_STRING)
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;
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}
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int
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isprim(nc_type nctype)
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{
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return (nctype >= NC_BYTE && nctype <= NC_STRING)
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;
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}
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int
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isprimplus(nc_type nctype)
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{
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return (nctype >= NC_BYTE && nctype <= NC_STRING)
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|| (nctype == NC_ECONST)
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|| (nctype == NC_OPAQUE)
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;
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}
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void
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collectpath(Symbol* grp, List* grpstack)
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{
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while(grp != NULL) {
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listpush(grpstack,(void*)grp);
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grp = grp->container;
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}
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}
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#ifdef USE_NETCDF4
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/* Result is pool'd*/
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char*
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prefixtostring(List* prefix, char* separator)
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{
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int slen=0;
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int plen;
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int i;
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char* result;
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if(prefix == NULL) return pooldup("");
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plen = prefixlen(prefix);
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if(plen == 0) { /* root prefix*/
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slen=0;
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/* slen += strlen(separator);*/
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slen++; /* for null terminator*/
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result = poolalloc(slen);
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result[0] = '\0';
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/*strcat(result,separator);*/
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} else {
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for(i=0;i<plen;i++) {
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Symbol* sym = (Symbol*)listget(prefix,i);
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slen += (strlen(separator)+strlen(sym->name));
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}
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slen++; /* for null terminator*/
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result = poolalloc(slen);
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result[0] = '\0';
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for(i=0;i<plen;i++) {
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Symbol* sym = (Symbol*)listget(prefix,i);
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strcat(result,separator);
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strcat(result,sym->name); /* append "/<prefix[i]>"*/
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}
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}
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return result;
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}
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#endif
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/* Result is pool'd*/
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char*
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fullname(Symbol* sym)
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{
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#ifdef USE_NETCDF4
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char* s1;
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char* result;
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char* prefix;
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prefix = prefixtostring(sym->prefix,PATHSEPARATOR);
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s1 = poolcat(prefix,PATHSEPARATOR);
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result = poolcat(s1,sym->name);
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return result;
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#else
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return nulldup(sym->name);
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#endif
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}
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int
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prefixeq(List* x1, List* x2)
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{
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Symbol** l1;
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Symbol** l2;
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int len,i;
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if((len=listlength(x1)) != listlength(x2)) return 0;
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l1=(Symbol**)listcontents(x1);
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l2=(Symbol**)listcontents(x2);
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for(i=0;i<len;i++) {
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if(strcmp(l1[i]->name,l2[i]->name) != 0) return 0;
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}
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return 1;
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}
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List*
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prefixdup(List* prefix)
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{
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List* dupseq;
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int i;
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if(prefix == NULL) return listnew();
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dupseq = listnew();
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listsetalloc(dupseq,listlength(prefix));
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for(i=0;i<listlength(prefix);i++) listpush(dupseq,listget(prefix,i));
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return dupseq;
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}
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/*
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Many of the generate routines need to construct
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heap strings for short periods. Remembering to
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free such space is error prone, so provide a
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pseudo-GC to handle these short term requests.
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The idea is to have a fixed size pool
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tracking malloc requests and automatically
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releasing when the pool gets full.
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*/
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/* Max number of allocated pool items*/
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#define POOLMAX 100
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static char* pool[POOLMAX];
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static int poolindex = -1;
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#define POOL_DEFAULT 256
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char*
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poolalloc(size_t length)
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{
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if(poolindex == -1) { /* initialize*/
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memset((void*)pool,0,sizeof(pool));
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poolindex = 0;
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}
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if(poolindex == POOLMAX) poolindex=0;
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if(length == 0) length = POOL_DEFAULT;
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if(pool[poolindex] != NULL) efree(pool[poolindex]);
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pool[poolindex] = (char*)ecalloc(length);
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return pool[poolindex++];
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}
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char*
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pooldup(const char* s)
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{
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char* sdup = poolalloc(strlen(s)+1);
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strncpy(sdup,s,(strlen(s)+1));
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return sdup;
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}
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char*
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poolcat(const char* s1, const char* s2)
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{
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int len1, len2;
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char* cat;
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if(s1 == NULL && s2 == NULL) return NULL;
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len1 = (s1?strlen(s1):0);
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len2 = (s2?strlen(s2):0);
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cat = poolalloc(len1+len2+1);
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cat[0] = '\0';
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if(s1 != NULL) strcat(cat,s1);
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if(s2 != NULL) strcat(cat,s2);
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return cat;
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}
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/* Result is malloc'd*/
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unsigned char*
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makebytestring(char* s, size_t* lenp)
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{
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unsigned char* bytes;
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unsigned char* b;
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size_t slen = strlen(s); /* # nibbles */
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size_t blen = slen/2; /* # bytes */
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int i;
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ASSERT((slen%2) == 0);
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ASSERT(blen > 0);
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bytes = (unsigned char*)ecalloc(blen);
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b = bytes;
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for(i=0;i<slen;i+=2) {
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unsigned int digit1 = chartohex(*s++);
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unsigned int digit2 = chartohex(*s++);
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unsigned int byte = (digit1 << 4) | digit2;
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*b++ = byte;
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}
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if(lenp) *lenp = blen;
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return bytes;
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}
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int
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getpadding(int offset, int alignment)
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{
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int rem = (alignment==0?0:(offset % alignment));
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int pad = (rem==0?0:(alignment - rem));
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return pad;
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}
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static void
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reclaimSymbols(void)
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{
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int i;
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for(i=0;i<listlength(symlist);i++) {
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Symbol* sym = listget(symlist,i);
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freeSymbol(sym);
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}
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}
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void
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cleanup()
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{
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reclaimSymbols();
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listfree(symlist);
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listfree(grpdefs);
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listfree(dimdefs);
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listfree(attdefs);
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listfree(gattdefs);
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|
listfree(xattdefs);
|
|
listfree(typdefs);
|
|
listfree(vardefs);
|
|
filldatalist->readonly = 0;
|
|
freedatalist(filldatalist);
|
|
}
|
|
|
|
/* compute the total n-dimensional size as 1 long array;
|
|
if stop == 0, then stop = dimset->ndims.
|
|
*/
|
|
size_t
|
|
crossproduct(Dimset* dimset, int start, int stop)
|
|
{
|
|
size_t totalsize = 1;
|
|
int i;
|
|
for(i=start;i<stop;i++) {
|
|
totalsize = totalsize * dimset->dimsyms[i]->dim.declsize;
|
|
}
|
|
return totalsize;
|
|
}
|
|
|
|
/* Do the "complement" of crossproduct;
|
|
compute the total n-dimensional size of an array
|
|
starting at 0 thru the 'last' array index.
|
|
stop if we encounter an unlimited dimension
|
|
*/
|
|
size_t
|
|
prefixarraylength(Dimset* dimset, int last)
|
|
{
|
|
return crossproduct(dimset,0,last+1);
|
|
}
|
|
|
|
|
|
|
|
#ifdef USE_HDF5
|
|
extern int H5Eprint1(FILE * stream);
|
|
#endif
|
|
|
|
void
|
|
check_err(const int stat, const int line, const char* file, const char* func)
|
|
{
|
|
check_err2(stat,-1,line,file,func);
|
|
}
|
|
|
|
void check_err2(const int stat, const int cdlline, const int line, const char* file, const char* func)
|
|
{
|
|
if (stat != NC_NOERR) {
|
|
if(cdlline >= 0)
|
|
fprintf(stderr, "ncgen: cdl line %d; %s\n", cdlline, nc_strerror(stat));
|
|
else
|
|
fprintf(stderr, "ncgen: %s\n", nc_strerror(stat));
|
|
fprintf(stderr, "\t(%s:%s:%d)\n", file,func,line);
|
|
#ifdef USE_HDF5
|
|
H5Eprint1(stderr);
|
|
#endif
|
|
fflush(stderr);
|
|
finalize_netcdf(1);
|
|
}
|
|
}
|
|
|
|
/**
|
|
Find the index of the first unlimited
|
|
dimension at or after 'start'.
|
|
If no unlimited exists, return |dimset|
|
|
*/
|
|
int
|
|
findunlimited(Dimset* dimset, int start)
|
|
{
|
|
for(;start<dimset->ndims;start++) {
|
|
if(dimset->dimsyms[start]->dim.isunlimited)
|
|
return start;
|
|
}
|
|
return dimset->ndims;
|
|
}
|
|
|
|
/**
|
|
Find the index of the last unlimited
|
|
dimension.
|
|
If no unlimited exists, return |dimset|
|
|
*/
|
|
int
|
|
findlastunlimited(Dimset* dimset)
|
|
{
|
|
int i;
|
|
for(i=dimset->ndims-1;i>=0;i--) {
|
|
if(dimset->dimsyms[i]->dim.isunlimited)
|
|
return i;
|
|
}
|
|
return dimset->ndims;
|
|
}
|
|
|
|
/**
|
|
Count the number of unlimited dimensions.
|
|
*/
|
|
int
|
|
countunlimited(Dimset* dimset)
|
|
{
|
|
int i, count;
|
|
for(count=0,i=dimset->ndims-1;i>=0;i--) {
|
|
if(dimset->dimsyms[i]->dim.isunlimited)
|
|
count++;
|
|
}
|
|
return count;
|
|
}
|
|
|
|
/* Return standard format string */
|
|
const char *
|
|
kind_string(int kind)
|
|
{
|
|
switch (kind) {
|
|
case 1: return "classic";
|
|
case 2: return "64-bit offset";
|
|
case 3: return "netCDF-4";
|
|
case 4: return "netCDF-4 classic model";
|
|
default:
|
|
derror("Unknown format index: %d\n",kind);
|
|
}
|
|
return NULL;
|
|
}
|
|
|