netcdf-c/oc2/occompile.c
Dennis Heimbigner 8714066b18 Fix errors when building on big-endian machine
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
2019-01-31 21:13:06 -07:00

469 lines
12 KiB
C

/* Copyright 2018, UCAR/Unidata and OPeNDAP, Inc.
See the COPYRIGHT file for more information. */
#include "config.h"
#ifdef HAVE_UNISTD_H
#include <unistd.h>
#endif
#ifdef HAVE_SYS_TYPES_H
#include <sys/types.h>
#endif
#include "ocinternal.h"
#include "ocdebug.h"
#include "ocdump.h"
/* Mnemonic */
#define TOPLEVEL 1
/* Forward */
static OCdata* newocdata(OCnode* pattern);
static size_t ocxdrsize(OCtype etype,int isscalar);
static OCerror occompile1(OCstate*, OCnode*, XXDR*, OCdata**);
static OCerror occompilerecord(OCstate*, OCnode*, XXDR*, OCdata**);
static OCerror occompilefields(OCstate*, OCdata*, XXDR*, int istoplevel);
static OCerror occompileatomic(OCstate*, OCdata*, XXDR*);
static int ocerrorstring(XXDR* xdrs);
static int istoplevel(OCnode* node);
/* Sequence tag constant */
static const char StartOfSequence = '\x5A';
static const char EndOfSequence = '\xA5';
/*
Provide an option that makes a single pass over
the data packet and record pointers into it
to speed up access.
*/
/* Assume we are operating on the datadds tree */
OCerror
occompile(OCstate* state, OCnode* xroot)
{
OCerror ocstat = OC_NOERR;
XXDR* xxdrs;
OCtree* xtree;
OCdata* data;
OCASSERT(state != NULL);
OCASSERT(xroot != NULL);
OCASSERT(xroot->tree != NULL);
OCASSERT(xroot->tree->dxdclass == OCDATADDS);
OCASSERT(xroot->tree->data.data == NULL);
xtree = xroot->tree;
xxdrs = xtree->data.xdrs;
if(xxdrs == NULL) return OCTHROW(OC_EXDR);
ocstat = occompile1(state,xroot,xxdrs,&data);
if(ocstat == OC_NOERR)
xtree->data.data = data;
#ifdef OCDEBUG
{
Ncbytes* buffer = ncbytesnew();
ocdumpdatatree(state,data,buffer,0);
fprintf(stderr,"datatree:\n%s",ncbytescontents(buffer));
ncbytesfree(buffer);
}
#endif
return OCTHROW(ocstat);
}
static OCerror
occompile1(OCstate* state, OCnode* xnode, XXDR* xxdrs, OCdata** datap)
{
OCerror ocstat = OC_NOERR;
size_t i;
OCdata* data = NULL;
size_t nelements = 0;
NClist* records = NULL;
/* Allocate instance for this node */
data = newocdata(xnode);
MEMFAIL(data);
/* Capture position(s) */
data->xdroffset = xxdr_getpos(xxdrs);
switch (xnode->octype) {
case OC_Dataset:
case OC_Grid: /* Always scalars */
ocstat = occompilefields(state,data,xxdrs,istoplevel(xnode));
if(ocstat != OC_NOERR) goto fail;
break;
case OC_Structure:
if(xnode->array.rank == 0) {/* scalar */
ocstat = occompilefields(state,data,xxdrs,istoplevel(xnode));
if(ocstat != OC_NOERR) goto fail;
} else { /* dimensioned structure */
unsigned int xdrcount;
fset(data->datamode,OCDT_ARRAY);
/* Determine # of instances */
nelements = octotaldimsize(xnode->array.rank,xnode->array.sizes);
if(nelements == 0) {ocstat = OCTHROW(OC_ENODATA); goto fail;}
/* Validate and skip the leading count field */
if(!xxdr_uint(xxdrs,&xdrcount))
{ocstat = OC_EXDR; goto fail;}
if(xdrcount != nelements)
{ocstat=OCTHROW(OC_EINVALCOORDS); goto fail;}
/* allocate space to capture all the element instances */
data->instances = (OCdata**)malloc(nelements*sizeof(OCdata*));
MEMGOTO(data->instances,ocstat,fail);
data->ninstances = 0;
/* create and fill the element instances */
for(i=0;i<nelements;i++) {
OCdata* instance = newocdata(xnode);
MEMGOTO(instance,ocstat,fail);
fset(instance->datamode,OCDT_ELEMENT);
data->instances[i] = instance;
data->ninstances++;
/* Capture the back link */
instance->container = data;
instance->index = i;
/* capture the current instance position */
instance->xdroffset = xxdr_getpos(xxdrs);
/* Now compile the fields of this instance */
ocstat = occompilefields(state,instance,xxdrs,!TOPLEVEL);
if(ocstat != OC_NOERR) {goto fail;}
}
}
break;
case OC_Sequence:
/* Since we do not know the # records beforehand,
use a list to collect the record instances.
*/
fset(data->datamode,OCDT_SEQUENCE);
records = nclistnew();
for(nelements=0;;nelements++) {
/* pick up the sequence record begin marker*/
char tmp[sizeof(unsigned int)];
/* extract the tag byte*/
if(!xxdr_opaque(xxdrs,tmp,(off_t)sizeof(tmp)))
{ocstat = OC_EXDR; goto fail;}
if(tmp[0] == StartOfSequence) {
/* Allocate a record instance */
OCdata* record = NULL;
ocstat = occompilerecord(state,xnode,xxdrs,&record);
if(ocstat != OC_NOERR || !record) goto fail;
/* Capture the back link */
record->container = data;
record->index = nelements;
nclistpush(records,(void*)record);
record = NULL;
} else if(tmp[0] == EndOfSequence) {
break; /* we are done with the this sequence instance*/
} else {
nclog(NCLOGERR,"missing/invalid begin/end record marker\n");
ocstat = OCTHROW(OC_EINVALCOORDS);
goto fail;
}
}
OCASSERT(nelements == nclistlength(records));
/* extract the content */
data->ninstances = nelements;
data->instances = (OCdata**)nclistdup(records);
MEMGOTO(data,ocstat,fail);
nclistfree(records);
records = NULL;
break;
case OC_Atomic:
fset(data->datamode,OCDT_ATOMIC);
ocstat = occompileatomic(state,data,xxdrs);
if(ocstat != OC_NOERR) goto fail;
break;
default:
OCPANIC1("occompile: encountered unexpected node type: %x",xnode->octype);
break;
}
/*ok:*/
if(datap) {
*datap = data;
data = NULL;
}
if(data != NULL)
ocdata_free(state,data);
return OCTHROW(ocstat);
fail:
/* See if we can extract error info from the response */
ocerrorstring(xxdrs);
if(records != NULL) {
for(i=0;i<nclistlength(records);i++)
ocdata_free(state,(OCdata*)nclistget(records,i));
nclistfree(records);
}
if(data != NULL)
ocdata_free(state,data);
return OCTHROW(ocstat);
}
static OCerror
occompilerecord(OCstate* state, OCnode* xnode, XXDR* xxdrs, OCdata** recordp)
{
OCerror ocstat = OC_NOERR;
OCdata* record = newocdata(xnode);/* create record record */
MEMFAIL(record);
fset(record->datamode,OCDT_RECORD);
record->pattern = xnode;
/* capture the current record position */
record->xdroffset = xxdr_getpos(xxdrs);
/* Compile the fields of this record */
ocstat = OCTHROW(occompilefields(state,record,xxdrs,!TOPLEVEL));
if(ocstat == OC_NOERR) {
if(recordp) {
*recordp = record;
record = NULL;
}
if(record != NULL)
ocdata_free(state,record);
}
return OCTHROW(ocstat);
}
static OCerror
occompilefields(OCstate* state, OCdata* data, XXDR* xxdrs, int istoplevel)
{
size_t i;
OCerror ocstat = OC_NOERR;
size_t nelements;
OCnode* xnode = data->pattern;
assert(data != NULL);
nelements = nclistlength(xnode->subnodes);
if(nelements == 0)
goto done;
data->instances = (OCdata**)malloc(nelements*sizeof(OCdata*));
MEMFAIL(data->instances);
for(i=0;i<nelements;i++) {
OCnode* fieldnode;
OCdata* fieldinstance;
fieldnode = (OCnode*)nclistget(xnode->subnodes,i);
ocstat = occompile1(state,fieldnode,xxdrs,&fieldinstance);
if(ocstat != OC_NOERR)
goto fail;
fset(fieldinstance->datamode,OCDT_FIELD);
data->instances[i] = fieldinstance;
data->ninstances++;
/* Capture the back link */
fieldinstance->container = data;
fieldinstance->index = i;
}
/* If top-level, then link the OCnode to the OCdata directly */
if(istoplevel) {
for(i=0;i<nelements;i++) {
OCnode* fieldnode = (OCnode*)nclistget(xnode->subnodes,i);
OCdata* fieldinstance = data->instances[i];
fieldnode->data = fieldinstance;
}
}
done:
return OCTHROW(ocstat);
fail:
if(data->instances != NULL) {
for(i=0;i<data->ninstances;i++)
ocdata_free(state,data->instances[i]);
data->ninstances = 0;
}
return OCTHROW(ocstat);
}
static OCerror
occompileatomic(OCstate* state, OCdata* data, XXDR* xxdrs)
{
OCerror ocstat = OC_NOERR;
int i;
off_t nelements,xdrsize;
unsigned int xxdrcount;
OCnode* xnode = data->pattern;
int scalar = (xnode->array.rank == 0);
OCASSERT((xnode->octype == OC_Atomic));
if(!scalar) {
/* Use the count from the datadds */
nelements = octotaldimsize(xnode->array.rank,xnode->array.sizes);
/* Get first copy of the dimension count */
if(!xxdr_uint(xxdrs,&xxdrcount)) {ocstat = OC_EXDR; goto fail;}
if(xxdrcount != nelements) {ocstat=OCTHROW(OC_EINVALCOORDS); goto fail;}
if(xnode->etype != OC_String && xnode->etype != OC_URL) {
/* Get second copy of the dimension count */
if(!xxdr_uint(xxdrs,&xxdrcount)) {ocstat = OC_EXDR; goto fail;}
if(xxdrcount != nelements) {ocstat=OCTHROW(OC_EINVALCOORDS); goto fail;}
}
} else { /*scalar*/
nelements = 1;
xxdrcount = 1;
}
data->xdroffset = xxdr_getpos(xxdrs);
data->ninstances = xxdrcount;
data->xdrsize = ocxdrsize(xnode->etype,scalar);
switch (xnode->etype) {
/* Do the fixed sized, non-packed cases */
case OC_Int16: case OC_UInt16:
case OC_Int32: case OC_UInt32:
case OC_Int64: case OC_UInt64:
case OC_Float32: case OC_Float64:
/* Skip the data */
xxdr_skip(xxdrs,data->ninstances*data->xdrsize);
break;
/* Do the fixed sized, possibly packed cases */
case OC_Byte:
case OC_UByte:
case OC_Char:
/* Get the totalsize and round up to multiple of XDRUNIT */
xdrsize = data->ninstances*data->xdrsize;
xdrsize = RNDUP(xdrsize);
/* Skip the data */
xxdr_skip(xxdrs,xdrsize);
break;
/* Hard case, because strings are variable length */
case OC_String: case OC_URL:
/* Start by allocating a set of pointers for each string */
data->nstrings = xxdrcount;
data->strings = (off_t*)malloc(sizeof(off_t)*data->nstrings);
/* We need to walk each string, get size, then skip */
for(i=0;i<data->nstrings;i++) {
unsigned int len;
off_t lenz;
data->strings[i] = xxdr_getpos(xxdrs);
/* get exact string length */
if(!xxdr_uint(xxdrs,&len)) {ocstat = OC_EXDR; goto fail;}
lenz = (off_t)len;
lenz = RNDUP(lenz);
/* Skip the data */
xxdr_skip(xxdrs,lenz);
}
break;
default:
OCPANIC1("unexpected etype: %d",xnode->etype);
} /* switch */
/*ok:*/
return OCTHROW(ocstat);
fail:
if(data->strings != NULL)
free(data->strings);
data->strings = NULL;
data->ninstances = 0;
return OCTHROW(ocstat);
}
void
ocdata_free(OCstate* state, OCdata* data)
{
if(data == NULL)
return;
if(data->instances != NULL) {
int i;
for(i=0;i<data->ninstances;i++)
ocdata_free(state,data->instances[i]);
free(data->instances);
}
if(data->strings != NULL)
free(data->strings);
free(data);
}
static OCdata*
newocdata(OCnode* pattern)
{
OCdata* data = (OCdata*)calloc(1,sizeof(OCdata));
MEMCHECK(data,NULL);
data->header.magic = OCMAGIC;
data->header.occlass = OC_Data;
data->pattern = pattern;
return data;
}
static int
istoplevel(OCnode* node)
{
if(node == NULL)
return 1; /* base case */
if(!istoplevel(node->container))
return 0;
switch (node->octype) {
case OC_Dataset: case OC_Grid: case OC_Atomic: return 1;
case OC_Structure:
return (node->array.rank == 0 ? 1 : 0); /* Toplevel if scalar */
case OC_Sequence: default: return 0;
}
return 1;
}
/* XDR representation size depends on if this is scalar or not */
static size_t
ocxdrsize(OCtype etype, int isscalar)
{
switch (etype) {
case OC_Char:
case OC_Byte:
case OC_UByte:
return (isscalar? XDRUNIT : 1);
case OC_Int16:
case OC_UInt16:
case OC_Int32:
case OC_UInt32:
case OC_Float32:
return XDRUNIT;
case OC_Float64:
case OC_Int64:
case OC_UInt64:
return 2*XDRUNIT;
default:
break; /* no simple size */
}
return 0;
}
#define tag "Error {\n"
static int
ocerrorstring(XXDR* xdrs)
{
/* Check to see if the xdrs contains "Error {\n'; assume it is at the beginning of data */
off_t avail = xxdr_getavail(xdrs);
char* data;
if(!xxdr_setpos(xdrs,(off_t)0)) return 0;
data = (char*)malloc((size_t)avail);
MEMCHECK(data,0);
if(!xxdr_opaque(xdrs,data,avail)) {free(data); return 0;}
/* check for error tag at front */
if(ocstrncmp(data,tag,sizeof(tag))==0) {
char* p;
if((p=strchr(data,'}')) != NULL) *(++p)='\0';
nclog(NCLOGERR,"Server error: %s",data);
/* Since important, report to stderr as well */
fprintf(stderr,"Server error: %s",data);
return 1;
}
return 0;
}