mirror of
https://github.com/Unidata/netcdf-c.git
synced 2024-12-03 08:01:25 +08:00
8714066b18
re: issue https://github.com/Unidata/netcdf-c/issues/1278 re: issue https://github.com/Unidata/netcdf-c/issues/876 re: issue https://github.com/Unidata/netcdf-c/issues/806 * Major change to the handling of 8-byte parameters for nc_def_var_filter. The old code was not well thought out. * The new algorithm is documented in docs/filters.md. * Added new utility file plugins/H5Zutil.c to support * Modified plugins/H5Zmisc.c to use new algorithm the new algorithm. * Renamed include/ncfilter.h to include/netcdf_filter.h and made it an installed header so clients can access the new algorithm utility. * Fixed nc_test4/tst_filterparser.c and nc_test4/test_filter_misc.c to use the new algorithm * libdap4/ fixes: * d4swap.c has an error in the endian pre-processing such that record counts were not being swapped correctly. * d4data.c had an error in that checksums were being computed after endian swapping rather than before. * ocinitialize() was never being called, so xxdr bigendian handling was never set correctly. * Required adding debug statements to occompile * Found and fixed memory leak in ncdump.c Not tested: * HDF4 * Pnetcdf * parallel HDF5
469 lines
12 KiB
C
469 lines
12 KiB
C
/* Copyright 2018, UCAR/Unidata and OPeNDAP, Inc.
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See the COPYRIGHT file for more information. */
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#include "config.h"
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#ifdef HAVE_UNISTD_H
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#include <unistd.h>
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#endif
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#ifdef HAVE_SYS_TYPES_H
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#include <sys/types.h>
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#endif
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#include "ocinternal.h"
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#include "ocdebug.h"
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#include "ocdump.h"
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/* Mnemonic */
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#define TOPLEVEL 1
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/* Forward */
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static OCdata* newocdata(OCnode* pattern);
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static size_t ocxdrsize(OCtype etype,int isscalar);
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static OCerror occompile1(OCstate*, OCnode*, XXDR*, OCdata**);
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static OCerror occompilerecord(OCstate*, OCnode*, XXDR*, OCdata**);
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static OCerror occompilefields(OCstate*, OCdata*, XXDR*, int istoplevel);
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static OCerror occompileatomic(OCstate*, OCdata*, XXDR*);
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static int ocerrorstring(XXDR* xdrs);
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static int istoplevel(OCnode* node);
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/* Sequence tag constant */
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static const char StartOfSequence = '\x5A';
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static const char EndOfSequence = '\xA5';
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/*
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Provide an option that makes a single pass over
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the data packet and record pointers into it
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to speed up access.
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*/
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/* Assume we are operating on the datadds tree */
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OCerror
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occompile(OCstate* state, OCnode* xroot)
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{
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OCerror ocstat = OC_NOERR;
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XXDR* xxdrs;
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OCtree* xtree;
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OCdata* data;
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OCASSERT(state != NULL);
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OCASSERT(xroot != NULL);
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OCASSERT(xroot->tree != NULL);
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OCASSERT(xroot->tree->dxdclass == OCDATADDS);
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OCASSERT(xroot->tree->data.data == NULL);
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xtree = xroot->tree;
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xxdrs = xtree->data.xdrs;
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if(xxdrs == NULL) return OCTHROW(OC_EXDR);
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ocstat = occompile1(state,xroot,xxdrs,&data);
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if(ocstat == OC_NOERR)
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xtree->data.data = data;
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#ifdef OCDEBUG
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{
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Ncbytes* buffer = ncbytesnew();
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ocdumpdatatree(state,data,buffer,0);
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fprintf(stderr,"datatree:\n%s",ncbytescontents(buffer));
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ncbytesfree(buffer);
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}
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#endif
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return OCTHROW(ocstat);
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}
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static OCerror
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occompile1(OCstate* state, OCnode* xnode, XXDR* xxdrs, OCdata** datap)
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{
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OCerror ocstat = OC_NOERR;
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size_t i;
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OCdata* data = NULL;
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size_t nelements = 0;
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NClist* records = NULL;
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/* Allocate instance for this node */
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data = newocdata(xnode);
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MEMFAIL(data);
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/* Capture position(s) */
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data->xdroffset = xxdr_getpos(xxdrs);
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switch (xnode->octype) {
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case OC_Dataset:
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case OC_Grid: /* Always scalars */
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ocstat = occompilefields(state,data,xxdrs,istoplevel(xnode));
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if(ocstat != OC_NOERR) goto fail;
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break;
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case OC_Structure:
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if(xnode->array.rank == 0) {/* scalar */
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ocstat = occompilefields(state,data,xxdrs,istoplevel(xnode));
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if(ocstat != OC_NOERR) goto fail;
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} else { /* dimensioned structure */
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unsigned int xdrcount;
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fset(data->datamode,OCDT_ARRAY);
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/* Determine # of instances */
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nelements = octotaldimsize(xnode->array.rank,xnode->array.sizes);
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if(nelements == 0) {ocstat = OCTHROW(OC_ENODATA); goto fail;}
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/* Validate and skip the leading count field */
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if(!xxdr_uint(xxdrs,&xdrcount))
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{ocstat = OC_EXDR; goto fail;}
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if(xdrcount != nelements)
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{ocstat=OCTHROW(OC_EINVALCOORDS); goto fail;}
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/* allocate space to capture all the element instances */
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data->instances = (OCdata**)malloc(nelements*sizeof(OCdata*));
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MEMGOTO(data->instances,ocstat,fail);
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data->ninstances = 0;
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/* create and fill the element instances */
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for(i=0;i<nelements;i++) {
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OCdata* instance = newocdata(xnode);
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MEMGOTO(instance,ocstat,fail);
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fset(instance->datamode,OCDT_ELEMENT);
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data->instances[i] = instance;
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data->ninstances++;
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/* Capture the back link */
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instance->container = data;
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instance->index = i;
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/* capture the current instance position */
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instance->xdroffset = xxdr_getpos(xxdrs);
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/* Now compile the fields of this instance */
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ocstat = occompilefields(state,instance,xxdrs,!TOPLEVEL);
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if(ocstat != OC_NOERR) {goto fail;}
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}
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}
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break;
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case OC_Sequence:
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/* Since we do not know the # records beforehand,
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use a list to collect the record instances.
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*/
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fset(data->datamode,OCDT_SEQUENCE);
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records = nclistnew();
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for(nelements=0;;nelements++) {
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/* pick up the sequence record begin marker*/
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char tmp[sizeof(unsigned int)];
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/* extract the tag byte*/
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if(!xxdr_opaque(xxdrs,tmp,(off_t)sizeof(tmp)))
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{ocstat = OC_EXDR; goto fail;}
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if(tmp[0] == StartOfSequence) {
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/* Allocate a record instance */
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OCdata* record = NULL;
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ocstat = occompilerecord(state,xnode,xxdrs,&record);
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if(ocstat != OC_NOERR || !record) goto fail;
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/* Capture the back link */
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record->container = data;
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record->index = nelements;
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nclistpush(records,(void*)record);
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record = NULL;
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} else if(tmp[0] == EndOfSequence) {
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break; /* we are done with the this sequence instance*/
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} else {
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nclog(NCLOGERR,"missing/invalid begin/end record marker\n");
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ocstat = OCTHROW(OC_EINVALCOORDS);
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goto fail;
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}
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}
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OCASSERT(nelements == nclistlength(records));
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/* extract the content */
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data->ninstances = nelements;
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data->instances = (OCdata**)nclistdup(records);
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MEMGOTO(data,ocstat,fail);
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nclistfree(records);
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records = NULL;
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break;
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case OC_Atomic:
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fset(data->datamode,OCDT_ATOMIC);
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ocstat = occompileatomic(state,data,xxdrs);
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if(ocstat != OC_NOERR) goto fail;
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break;
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default:
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OCPANIC1("occompile: encountered unexpected node type: %x",xnode->octype);
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break;
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}
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/*ok:*/
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if(datap) {
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*datap = data;
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data = NULL;
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}
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if(data != NULL)
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ocdata_free(state,data);
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return OCTHROW(ocstat);
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fail:
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/* See if we can extract error info from the response */
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ocerrorstring(xxdrs);
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if(records != NULL) {
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for(i=0;i<nclistlength(records);i++)
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ocdata_free(state,(OCdata*)nclistget(records,i));
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nclistfree(records);
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}
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if(data != NULL)
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ocdata_free(state,data);
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return OCTHROW(ocstat);
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}
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static OCerror
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occompilerecord(OCstate* state, OCnode* xnode, XXDR* xxdrs, OCdata** recordp)
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{
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OCerror ocstat = OC_NOERR;
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OCdata* record = newocdata(xnode);/* create record record */
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MEMFAIL(record);
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fset(record->datamode,OCDT_RECORD);
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record->pattern = xnode;
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/* capture the current record position */
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record->xdroffset = xxdr_getpos(xxdrs);
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/* Compile the fields of this record */
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ocstat = OCTHROW(occompilefields(state,record,xxdrs,!TOPLEVEL));
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if(ocstat == OC_NOERR) {
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if(recordp) {
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*recordp = record;
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record = NULL;
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}
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if(record != NULL)
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ocdata_free(state,record);
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}
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return OCTHROW(ocstat);
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}
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static OCerror
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occompilefields(OCstate* state, OCdata* data, XXDR* xxdrs, int istoplevel)
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{
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size_t i;
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OCerror ocstat = OC_NOERR;
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size_t nelements;
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OCnode* xnode = data->pattern;
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assert(data != NULL);
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nelements = nclistlength(xnode->subnodes);
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if(nelements == 0)
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goto done;
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data->instances = (OCdata**)malloc(nelements*sizeof(OCdata*));
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MEMFAIL(data->instances);
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for(i=0;i<nelements;i++) {
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OCnode* fieldnode;
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OCdata* fieldinstance;
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fieldnode = (OCnode*)nclistget(xnode->subnodes,i);
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ocstat = occompile1(state,fieldnode,xxdrs,&fieldinstance);
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if(ocstat != OC_NOERR)
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goto fail;
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fset(fieldinstance->datamode,OCDT_FIELD);
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data->instances[i] = fieldinstance;
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data->ninstances++;
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/* Capture the back link */
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fieldinstance->container = data;
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fieldinstance->index = i;
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}
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/* If top-level, then link the OCnode to the OCdata directly */
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if(istoplevel) {
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for(i=0;i<nelements;i++) {
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OCnode* fieldnode = (OCnode*)nclistget(xnode->subnodes,i);
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OCdata* fieldinstance = data->instances[i];
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fieldnode->data = fieldinstance;
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}
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}
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done:
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return OCTHROW(ocstat);
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fail:
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if(data->instances != NULL) {
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for(i=0;i<data->ninstances;i++)
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ocdata_free(state,data->instances[i]);
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data->ninstances = 0;
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}
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return OCTHROW(ocstat);
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}
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static OCerror
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occompileatomic(OCstate* state, OCdata* data, XXDR* xxdrs)
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{
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OCerror ocstat = OC_NOERR;
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int i;
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off_t nelements,xdrsize;
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unsigned int xxdrcount;
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OCnode* xnode = data->pattern;
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int scalar = (xnode->array.rank == 0);
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OCASSERT((xnode->octype == OC_Atomic));
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if(!scalar) {
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/* Use the count from the datadds */
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nelements = octotaldimsize(xnode->array.rank,xnode->array.sizes);
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/* Get first copy of the dimension count */
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if(!xxdr_uint(xxdrs,&xxdrcount)) {ocstat = OC_EXDR; goto fail;}
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if(xxdrcount != nelements) {ocstat=OCTHROW(OC_EINVALCOORDS); goto fail;}
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if(xnode->etype != OC_String && xnode->etype != OC_URL) {
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/* Get second copy of the dimension count */
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if(!xxdr_uint(xxdrs,&xxdrcount)) {ocstat = OC_EXDR; goto fail;}
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if(xxdrcount != nelements) {ocstat=OCTHROW(OC_EINVALCOORDS); goto fail;}
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}
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} else { /*scalar*/
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nelements = 1;
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xxdrcount = 1;
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}
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data->xdroffset = xxdr_getpos(xxdrs);
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data->ninstances = xxdrcount;
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data->xdrsize = ocxdrsize(xnode->etype,scalar);
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switch (xnode->etype) {
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/* Do the fixed sized, non-packed cases */
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case OC_Int16: case OC_UInt16:
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case OC_Int32: case OC_UInt32:
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case OC_Int64: case OC_UInt64:
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case OC_Float32: case OC_Float64:
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/* Skip the data */
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xxdr_skip(xxdrs,data->ninstances*data->xdrsize);
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break;
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/* Do the fixed sized, possibly packed cases */
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case OC_Byte:
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case OC_UByte:
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case OC_Char:
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/* Get the totalsize and round up to multiple of XDRUNIT */
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xdrsize = data->ninstances*data->xdrsize;
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xdrsize = RNDUP(xdrsize);
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/* Skip the data */
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xxdr_skip(xxdrs,xdrsize);
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break;
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/* Hard case, because strings are variable length */
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case OC_String: case OC_URL:
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/* Start by allocating a set of pointers for each string */
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data->nstrings = xxdrcount;
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data->strings = (off_t*)malloc(sizeof(off_t)*data->nstrings);
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/* We need to walk each string, get size, then skip */
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for(i=0;i<data->nstrings;i++) {
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unsigned int len;
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off_t lenz;
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data->strings[i] = xxdr_getpos(xxdrs);
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/* get exact string length */
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if(!xxdr_uint(xxdrs,&len)) {ocstat = OC_EXDR; goto fail;}
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lenz = (off_t)len;
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lenz = RNDUP(lenz);
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/* Skip the data */
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xxdr_skip(xxdrs,lenz);
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}
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break;
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default:
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OCPANIC1("unexpected etype: %d",xnode->etype);
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} /* switch */
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/*ok:*/
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return OCTHROW(ocstat);
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fail:
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if(data->strings != NULL)
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free(data->strings);
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data->strings = NULL;
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data->ninstances = 0;
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return OCTHROW(ocstat);
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}
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void
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ocdata_free(OCstate* state, OCdata* data)
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{
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if(data == NULL)
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return;
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if(data->instances != NULL) {
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int i;
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for(i=0;i<data->ninstances;i++)
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ocdata_free(state,data->instances[i]);
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free(data->instances);
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}
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if(data->strings != NULL)
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free(data->strings);
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free(data);
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}
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static OCdata*
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newocdata(OCnode* pattern)
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{
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OCdata* data = (OCdata*)calloc(1,sizeof(OCdata));
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MEMCHECK(data,NULL);
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data->header.magic = OCMAGIC;
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data->header.occlass = OC_Data;
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data->pattern = pattern;
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return data;
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}
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static int
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istoplevel(OCnode* node)
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{
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if(node == NULL)
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return 1; /* base case */
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if(!istoplevel(node->container))
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return 0;
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switch (node->octype) {
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case OC_Dataset: case OC_Grid: case OC_Atomic: return 1;
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case OC_Structure:
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return (node->array.rank == 0 ? 1 : 0); /* Toplevel if scalar */
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case OC_Sequence: default: return 0;
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}
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return 1;
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}
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/* XDR representation size depends on if this is scalar or not */
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static size_t
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ocxdrsize(OCtype etype, int isscalar)
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{
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switch (etype) {
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case OC_Char:
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case OC_Byte:
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case OC_UByte:
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return (isscalar? XDRUNIT : 1);
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case OC_Int16:
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case OC_UInt16:
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case OC_Int32:
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case OC_UInt32:
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case OC_Float32:
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return XDRUNIT;
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case OC_Float64:
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case OC_Int64:
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case OC_UInt64:
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return 2*XDRUNIT;
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default:
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break; /* no simple size */
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}
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return 0;
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}
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#define tag "Error {\n"
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static int
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ocerrorstring(XXDR* xdrs)
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{
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/* Check to see if the xdrs contains "Error {\n'; assume it is at the beginning of data */
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off_t avail = xxdr_getavail(xdrs);
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char* data;
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if(!xxdr_setpos(xdrs,(off_t)0)) return 0;
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data = (char*)malloc((size_t)avail);
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MEMCHECK(data,0);
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if(!xxdr_opaque(xdrs,data,avail)) {free(data); return 0;}
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/* check for error tag at front */
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if(ocstrncmp(data,tag,sizeof(tag))==0) {
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char* p;
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if((p=strchr(data,'}')) != NULL) *(++p)='\0';
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nclog(NCLOGERR,"Server error: %s",data);
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/* Since important, report to stderr as well */
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fprintf(stderr,"Server error: %s",data);
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return 1;
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}
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return 0;
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}
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