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Commit c7c1dc96 authored by Deike Kleberg's avatar Deike Kleberg
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Bugfix, dereferencing of pointer

parent 0962958d
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config/default
View file @ c7c1dc96
......@@ -11,6 +11,16 @@ fi
set -x
#
case "${HOSTNAME}" in
tornado*)
./configure --prefix=/scratch/work/mh0033/m300050/cdi-pio \
--disable-shared \
--enable-maintainer-mode \
--with-netcdf=/sw/sles10-x64/netcdf-4.1.3-static-nag52 \
--with-hdf5=/sw/sles10-x64/hdf5-1.8.7-static \
--with-zlib=/sw/sles10-x64/zlib-1.2.3 \
--with-szlib=/sw/sles10-x64/szip-2.1-static \
CC=gcc CFLAGS="-g -pipe -D_REENTRANT -Wall -W -Wfloat-equal -pedantic -O2 -DNAGf90Fortran"
;;
# i386-apple-darwin10
bailung*)
./configure --prefix=$HOME/local \
......
pioExamples/collectData.c
View file @ c7c1dc96
......@@ -5,7 +5,7 @@
#ifdef USE_MPI
#include <mpi.h>
#include "pio_c_temp.h"
#endif
#endif
#include "cdi.h"
#include "pio_util.h"
......@@ -21,7 +21,7 @@ void modelRun ()
nlon = 12,
nlat = 6,
maxlev = 5 };
static int nlev[nVars] = {1,1,5,5,2};
static char * name = "example";
......@@ -43,18 +43,18 @@ void modelRun ()
gridDefYvals ( gridID, lats );
for ( i = 0; i < nVars; i++ )
{
{
zaxisID[i] = zaxisCreate ( ZAXIS_PRESSURE, nlev[i] );
zaxisDefLevels ( zaxisID[i], levs );
}
vlistID = vlistCreate ();
for ( i = 0; i < nVars; i++ )
vlistID = vlistCreate ();
for ( i = 0; i < nVars; i++ )
varID[i] = vlistDefVar ( vlistID, gridID, zaxisID[i], TIME_VARIABLE );
taxisID = taxisCreate ( TAXIS_ABSOLUTE );
vlistDefTaxis ( vlistID, taxisID );
sprintf ( &filename[0], "%s_%d.grb", name, tfID );
streamID = streamOpenWrite ( filename, filetype );
xassert ( streamID >= 0 );
......@@ -82,7 +82,7 @@ void modelRun ()
start = pioInqVarDecoOff ( vlistID, varID[i] );
chunk = pioInqVarDecoChunk ( vlistID, varID[i] );
stop = start + chunk;
for ( j = start; j < stop; j++ ) var[j] = 2.2;
for ( j = start; j < stop; j++ ) var[j] = 2.2;
streamWriteVar ( streamID, varID[i], &var[start], nmiss );
start = CDI_UNDEFID;
chunk = CDI_UNDEFID;
......@@ -90,38 +90,38 @@ void modelRun ()
pioWriteTimestep ( tsID, vdate, vtime );
}
}
streamClose ( streamID );
vlistDestroy ( vlistID );
taxisDestroy ( taxisID );
for ( i = 0; i < nVars; i++ )
zaxisDestroy ( zaxisID[i] );
gridDestroy ( gridID );
gridDestroy ( gridID );
}
int main (int argc, char *argv[])
int main (int argc, char *argv[])
{
enum {
nProcsIO = 3,
//IOMode = PIO_NONE,
//IOMode = PIO_MPI,
IOMode = PIO_FPGUARD,
enum {
nProcsIO = 1,
IOMode = PIO_NONE,
//IOMode = PIO_MPI,
//IOMode = PIO_FPGUARD,
//IOMode = PIO_ASYNCH,
//IOMode = PIO_WRITER,
nNamespaces = 1 };
static int hasLocalFile[nNamespaces] = { 0 };
#ifdef USE_MPI
MPI_Comm commGlob, commModel;
MPI_Comm commGlob, commModel;
int sizeGlob;
int rankGlob;
xmpi ( MPI_Init ( &argc, &argv));
xmpi ( MPI_Init ( &argc, &argv));
xmpi ( MPI_Comm_dup ( MPI_COMM_WORLD, &commGlob ));
xmpi ( MPI_Comm_set_errhandler ( commGlob, MPI_ERRORS_RETURN ));
xmpi ( MPI_Comm_size ( commGlob, &sizeGlob ));
xmpi ( MPI_Comm_size ( commGlob, &sizeGlob ));
xmpi ( MPI_Comm_rank ( commGlob, &rankGlob ));
commModel = pioInit_c ( commGlob, nProcsIO, IOMode, nNamespaces, hasLocalFile );
......@@ -131,7 +131,7 @@ int main (int argc, char *argv[])
#ifdef USE_MPI
pioFinalize ();
MPI_Finalize ();
MPI_Finalize ();
#endif
return 0;
}
src/pio_dbuffer.c
View file @ c7c1dc96
......@@ -15,7 +15,7 @@
#include "pio_impl.h"
#include "pio_util.h"
bool ldebug =false;
bool localDebug =false;
int dbuffer_init ( struct dBuffer **dbuffer, size_t size )
......@@ -28,7 +28,7 @@ int dbuffer_init ( struct dBuffer **dbuffer, size_t size )
#ifndef _SX
pagesize = ( size_t ) sysconf ( _SC_PAGESIZE );
if ( ldebug )
if ( localDebug )
fprintf ( stdout, "dbuffer_init(): pagesize = %zu bytes, size = %zu \n", pagesize, size );
if ( dbuffer == NULL || size < pagesize )
......@@ -49,7 +49,7 @@ int dbuffer_init ( struct dBuffer **dbuffer, size_t size )
while ( db->size < size )
{
db->size <<= 1;
if ( ldebug )
if ( localDebug )
fprintf ( stdout,"size correction: %zu\n", db->size );
}
......
src/pio_interface.c
View file @ c7c1dc96
This diff is collapsed.
src/pio_rpc.c
View file @ c7c1dc96
......@@ -70,6 +70,8 @@ void rpcUnpackResources ( char * unpackBuffer, int unpackBufferSize,
int token1, token2, nspTarget;
int unpackBufferPos = 0;
char text[4096];
xdebug ();
while ( unpackBufferPos < unpackBufferSize )
{
......@@ -120,6 +122,7 @@ void rpcUnpackResources ( char * unpackBuffer, int unpackBufferSize,
&token2, 1, MPI_INT, comm ));
xassert ( token2 == SEPARATOR );
}
xdebug ();
}
#endif
......
src/pio_rpc.h
View file @ c7c1dc96
......@@ -37,7 +37,7 @@ enum
winBufferOverhead = 1,
winBufferOverheadChunk = 5,
winBufferOverheadFuncCall = 3,
MAXWINBUFFERSIZE = 128 * 1024,
MAXWINBUFFERSIZE = 128 * 1024 * 1024,
timestepSize = 3
};
......
src/pio_server.c
View file @ c7c1dc96
......@@ -465,6 +465,7 @@ void IOServer ()
tag, commCalc, &status ));
xdebug ( "RECEIVED MESSAGE WITH TAG \"RESOURCES\"" );
rpcUnpackResources ( buffer, size, commCalc );
xdebug ();
free ( buffer );
if ( ddebug > 0 && commInqRankGlob () == nProcsModel )
reshArrayPrint ( "reshArrayIOServer" );
......
src/pio_util.c
View file @ c7c1dc96
......@@ -23,12 +23,12 @@ void pcdiAssert ( bool assumption, const char * filename,
int rank;
MPI_Comm_rank ( MPI_COMM_WORLD, &rank );
fprintf ( stderr, "ERROR, ASSUMPTION FALSE: PE%d in %s, %s, line %d\n",
fprintf ( stderr, "ERROR, FALSE ASSUMPTION: PE%d in %s, %s, line %d\n",
rank, functionname, filename, line );
fflush ( stderr );
MPI_Abort ( MPI_COMM_WORLD, 1 );
#else
fprintf ( stderr, "ERROR ASSUMPTION FALSE, %s, %s, line %d\n",
fprintf ( stderr, "ERROR, FALSE ASSUMPTION, %s, %s, line %d\n",
functionname, filename, line );
fflush ( stderr );
abort();
......
src/pio_util.h
View file @ c7c1dc96
......@@ -36,11 +36,10 @@
#define MINFILETYPE 1
#define MAXFILETYPE 9
#define ddebug 0
#define ddebug 1
static char * debugString = "#####";
void pcdiAssert ( bool, const char *, const char *, int );
#define xassert(arg) pcdiAssert ( arg, __FILE__, __func__, __LINE__ );
......@@ -57,8 +56,8 @@ void pcdiAssert ( bool, const char *, const char *, int );
#else
#define xdebug(fmt, ...) \
if ( ddebug ){ \
fprintf ( stderr, "%s, %s, line %d: " fmt "\n", \
__func__, __FILE__, __LINE__, \
fprintf ( stderr, "%s %s, %s, line %d: " fmt "\n", \
debugString, __func__, __FILE__, __LINE__, \
## __VA_ARGS__ ); \
}
#endif
......
src/stream.c
View file @ c7c1dc96
......@@ -41,10 +41,10 @@ int pclose(FILE *stream);
void cdiPrintDefaults(void)
{
fprintf (stderr, "default instID : %d\n", cdiDefaultInstID);
fprintf (stderr, "default modelID : %d\n", cdiDefaultModelID);
fprintf (stderr, "default tableID : %d\n", cdiDefaultTableID);
fprintf (stderr, "default missval : %g\n", cdiDefaultMissval);
fprintf (stderr, "default instID : %d\n", cdiDefaultInstID);
fprintf (stderr, "default modelID : %d\n", cdiDefaultModelID);
fprintf (stderr, "default tableID : %d\n", cdiDefaultTableID);
fprintf (stderr, "default missval : %g\n", cdiDefaultMissval);
}
......@@ -244,7 +244,7 @@ int get_fnames(const char *argument, char *fnames[], int max_fnames)
{
pch = &argument[i+1];
len -= (i+1);
if ( len && ( memcmp(argument, "filelist:", i) == 0 ||
if ( len && ( memcmp(argument, "filelist:", i) == 0 ||
memcmp(argument, "flist:", i) == 0 ) )
{
for ( i = 0; i < len; ++i ) if ( pch[i] == ',' ) nfiles++;
......@@ -265,7 +265,7 @@ int get_fnames(const char *argument, char *fnames[], int max_fnames)
{
if ( line[0] == '#' || line[0] == '\0' ||
line[0] == ' ' ) continue;
if ( nfiles >= max_fnames )
{
Warning("Too many input files (limit: %d)", max_fnames);
......@@ -274,7 +274,7 @@ int get_fnames(const char *argument, char *fnames[], int max_fnames)
fnames[nfiles] = strdupx(line);
nfiles++;
}
fclose(fp);
if ( nfiles == 0 ) Error("No input file found in %s", pch);
......@@ -282,10 +282,10 @@ int get_fnames(const char *argument, char *fnames[], int max_fnames)
else
{
char xline[65536];
strcpy(xline, pch);
for ( i = 0; i < len; i++ ) if ( xline[i] == ',' ) xline[i] = 0;
nfiles++;
if ( nfiles >= max_fnames )
{
......@@ -305,14 +305,14 @@ int get_fnames(const char *argument, char *fnames[], int max_fnames)
{
char command[4096];
FILE *pfp;
strcpy(command, "ls ");
strcat(command, pch);
pfp = popen(command, "r");
if ( pfp == NULL )
SysError("popen %s failed", command);
nfiles = 0;
while ( _readline_(pfp, line, MAX_LINE) )
{
......@@ -333,7 +333,7 @@ int get_fnames(const char *argument, char *fnames[], int max_fnames)
}
num_fnames = nfiles;
return (num_fnames);
}
......@@ -618,8 +618,8 @@ int streamOpen(const char *filename, const char *filemode, int filetype)
if ( ! filename || ! filemode || filetype < 0 ) return (CDI_EINVAL);
xdebug( "filename = %s, filemode = %s, filetype = %d, "
"namespaceHasLocalFile(%d)=%s",
filename, filemode, filetype, namespaceGetActive(),
"namespaceHasLocalFile(%d)=%s",
filename, filemode, filetype, namespaceGetActive(),
namespaceHasLocalFile ( namespaceGetActive ()) ? "true":"false");
if ( hasLocalFile )
......@@ -710,7 +710,7 @@ int streamOpen(const char *filename, const char *filemode, int filetype)
}
}
#endif
if ( fileID < 0 && hasLocalFile )
{
......@@ -744,7 +744,7 @@ int streamOpen(const char *filename, const char *filemode, int filetype)
vlistptr->ntsteps = streamNtsteps(streamID);
}
}
return (streamID);
}
......@@ -853,7 +853,7 @@ int streamOpenA(const char *filename, const char *filemode, int filetype)
vlistptr = vlist_to_pointer(streamptr->vlistID);
vlistptr->ntsteps = cdiInqTimeSize(streamID);
}
switch (filetype)
{
#if defined (HAVE_LIBGRIB)
......@@ -1022,7 +1022,7 @@ int streamOpenRead(const char *filenames)
filename = filenames;
else
{
int i;
int i;
for ( i = 0; i < num_fnames; ++i ) printf("fnames: %d %s\n", i, fnames[i]);
filename = fnames[0];
}
......@@ -1100,7 +1100,7 @@ open stream. Otherwise, a negative number with the error status is returned.
@EndList
@Example
Here is an example using @func{streamOpenWrite} to create a new netCDF file
Here is an example using @func{streamOpenWrite} to create a new netCDF file
named @func{foo.nc} for writing:
@Source
......@@ -1148,10 +1148,10 @@ void streamClose(int streamID)
fileID = streamptr->fileID;
filetype = streamptr->filetype;
vlistID = streamptr->vlistID;
vlistID = streamptr->vlistID;
if ( namespaceHasLocalFile ( namespaceGetActive ()))
{
{
if ( fileID == CDI_UNDEFID )
Warning("File %s not open!", streamptr->filename);
else
......@@ -1225,14 +1225,14 @@ void streamClose(int streamID)
}
}
#endif
if ( streamptr->record )
{
if ( streamptr->record->buffer )
free(streamptr->record->buffer);
free(streamptr->record);
}
}
streamptr->filetype = 0;
if ( streamptr->filename ) free(streamptr->filename);
......@@ -1253,7 +1253,7 @@ void streamClose(int streamID)
if ( streamptr->tsteps[index].recIDs )
free(streamptr->tsteps[index].recIDs);
}
if ( streamptr->tsteps ) free(streamptr->tsteps);
if ( streamptr->nfiles > 0 )
......@@ -1611,7 +1611,7 @@ void streamReadVar(int streamID, int varID, double *data, int *nmiss)
@Item nmiss Number of missing values.
@Description
The function streamWriteVar writes the values of one time step of a variable
The function streamWriteVar writes the values of one time step of a variable
to an open dataset.
@EndFunction
*/
......@@ -1804,7 +1804,7 @@ void streamReadVarSlice(int streamID, int varID, int levelID, double *data, int
@Item nmiss Number of missing values.
@Description
The function streamWriteVarSlice writes the values of a horizontal slice of a
The function streamWriteVarSlice writes the values of a horizontal slice of a
variable to an open dataset.
@EndFunction
*/
......@@ -1941,7 +1941,7 @@ void streamWriteContents(int streamID, char *cname)
fprintf(cnp, "#\n");
fprintf(cnp, "tsID:nrecs:date:time\n");
tsID = 0;
while (1)
{
......@@ -2153,7 +2153,7 @@ int streamInqVlist(int streamID)
stream_t *streamptr;
streamptr = stream_to_pointer(streamID);
stream_check_ptr(__func__, streamptr);
return (streamptr->vlistID);
......@@ -2165,7 +2165,7 @@ int streamInqVlistIDorig(int streamID)
stream_t *streamptr;
streamptr = stream_to_pointer(streamID);
stream_check_ptr(__func__, streamptr);
return (streamptr->vlistIDorig);
......
src/vlist_var.c
View file @ c7c1dc96
......@@ -761,15 +761,10 @@ int vlistInqVarSize(int vlistID, int varID)
vlist_t *vlistptr;
vlistptr = vlist_to_pointer(vlistID);
vlistCheckVarID(__func__, vlistID, varID);
vlistInqVar(vlistID, varID, &gridID, &zaxisID, &timeID);
nlevs = zaxisInqSize(zaxisID);
gridsize = gridInqSize(gridID);
size = gridsize*nlevs;
return (size);
......
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