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tst_ar4_3d.c
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tst_ar4_3d.c
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/*
Copyright 2009, UCAR/Unidata
See COPYRIGHT file for copying and redistribution conditions.
This program tests netcdf-4 performance with some AR-4 3D data.
$Id: tst_ar4_3d.c,v 1.1 2010/01/11 19:28:28 ed Exp $
*/
#include <nc_tests.h>
#include "err_macros.h"
#include <time.h>
#include <sys/time.h>
#include <unistd.h>
#define MEGABYTE 1048576
#define HALF_MEG (MEGABYTE/2)
#define MILLION 1000000
#define SIXTEEN_MEG 16777216
#define FOUR_MEG (SIXTEEN_MEG/4)
#define THIRTY_TWO_MEG (SIXTEEN_MEG * 2)
#define SIXTY_FOUR_MEG (SIXTEEN_MEG * 4)
#define ONE_TWENTY_EIGHT_MEG (SIXTEEN_MEG * 8)
/* From the data file we are using:
netcdf pr_A1.20C3M_8.CCSM.atmm.1870-01_cat_1999-12 {
dimensions:
lon = 256 ;
lat = 128 ;
bnds = 2 ;
time = UNLIMITED ; // (1560 currently)
variables:
double lon_bnds(lon, bnds) ;
double lat_bnds(lat, bnds) ;
double time_bnds(time, bnds) ;
double time(time) ;
time:calendar = "noleap" ;
time:standard_name = "time" ;
time:axis = "T" ;
time:units = "days since 0000-1-1" ;
time:bounds = "time_bnds" ;
time:long_name = "time" ;
double lat(lat) ;
lat:axis = "Y" ;
lat:standard_name = "latitude" ;
lat:bounds = "lat_bnds" ;
lat:long_name = "latitude" ;
lat:units = "degrees_north" ;
double lon(lon) ;
lon:axis = "X" ;
lon:standard_name = "longitude" ;
lon:bounds = "lon_bnds" ;
lon:long_name = "longitude" ;
lon:units = "degrees_east" ;
float pr(time, lat, lon) ;
pr:comment = "Created using NCL code CCSM_atmm_2cf.ncl on\n",
" machine mineral" ;
pr:missing_value = 1.e+20f ;
pr:_FillValue = 1.e+20f ;
pr:cell_methods = "time: mean (interval: 1 month)" ;
pr:history = "(PRECC+PRECL)*r[h2o]" ;
pr:original_units = "m-1 s-1" ;
pr:original_name = "PRECC, PRECL" ;
pr:standard_name = "precipitation_flux" ;
pr:units = "kg m-2 s-1" ;
pr:long_name = "precipitation_flux" ;
pr:cell_method = "time: mean" ;
*/
#define USAGE "\
[-v] Verbose\n\
[-h] Print output header\n\
[-t] Do a time-series read\n\
[-c CACHE_SIZE] Set the HDF5 chunk cache to this size before read\n\
file Name of netCDF file\n"
static void
usage(char* msg)
{
fprintf(stderr, "%s\nusage: tst_ar4 -v -h -t -c CACHE_SIZE file\n%s", msg,USAGE);
}
#define NDIMS3 3
#define DATA_VAR_NAME "pr"
#define NUM_CACHE_TRIES 1
#define LON_DIMID 0
#define LAT_DIMID 1
#define BNDS_DIMID 2
#define TIME_DIMID 3
#define LON_LEN 256
#define LAT_LEN 128
#define BNDS_LEN 2
#define TIME_LEN 1560
#define NUM_TS 1
int
main(int argc, char **argv)
{
extern int optind;
extern int opterr;
extern char *optarg;
int c, header = 0, verbose = 0, timeseries = 0;
int ncid, varid, storage;
char name_in[NC_MAX_NAME + 1];
size_t len;
size_t cs[NDIMS3] = {0, 0, 0};
int cache = MEGABYTE;
int ndims, dimid[NDIMS3];
float hor_data[LAT_LEN * LON_LEN];
int read_1_us, avg_read_us;
float ts_data[TIME_LEN];
size_t start[NDIMS3], count[NDIMS3];
int deflate, shuffle, deflate_level;
struct timeval start_time, end_time, diff_time;
while ((c = getopt(argc, argv, "vhtc:")) != EOF)
switch(c)
{
case 'v':
verbose++;
break;
case 'h':
header++;
break;
case 't':
timeseries++;
break;
case 'c':
sscanf(optarg, "%d", &cache);
break;
case '?':
usage("unknown option");
return 1;
}
argc -= optind;
argv += optind;
/* If no file arguments left, report and exit */
if (argc < 1)
{
printf("no file specified\n");
return 0;
}
/* Print the header if desired. */
if (header)
{
printf("cs[0]\tcs[1]\tcs[2]\tcache(MB)\tdeflate\tshuffle");
if (timeseries)
printf("\t1st_read_ser(us)\tavg_read_ser(us)\n");
else
printf("\t1st_read_hor(us)\tavg_read_hor(us)\n");
}
#define PREEMPTION .75
/* Also tried NELEMS of 2500009*/
#define NELEMS 7919
if (nc_set_chunk_cache(cache, NELEMS, PREEMPTION)) ERR;
if (nc_open(argv[0], 0, &ncid)) ERR;
/* Check to make sure that all the dimension information is
* correct. */
if (nc_inq_varid(ncid, DATA_VAR_NAME, &varid)) ERR;
if (nc_inq_dim(ncid, LON_DIMID, name_in, &len)) ERR;
if (strcmp(name_in, "lon") || len != LON_LEN) ERR;
if (nc_inq_dim(ncid, LAT_DIMID, name_in, &len)) ERR;
if (strcmp(name_in, "lat") || len != LAT_LEN) ERR;
if (nc_inq_dim(ncid, BNDS_DIMID, name_in, &len)) ERR;
if (strcmp(name_in, "bnds") || len != BNDS_LEN) ERR;
if (nc_inq_dim(ncid, TIME_DIMID, name_in, &len)) ERR;
if (strcmp(name_in, "time") || len != TIME_LEN) ERR;
if (nc_inq_var(ncid, varid, NULL, NULL, &ndims, dimid, NULL)) ERR;
if (ndims != NDIMS3 || dimid[0] != TIME_DIMID ||
dimid[1] != LAT_DIMID || dimid[2] != LON_DIMID) ERR;
/* Get info about the main data var. */
if (nc_inq_var_chunking(ncid, varid, &storage, cs)) ERR;
if (nc_inq_var_deflate(ncid, varid, &shuffle, &deflate,
&deflate_level)) ERR;
if (timeseries)
{
/* Read the var as a time series. */
start[0] = 0;
start[1] = 0;
start[2] = 0;
count[0] = TIME_LEN;
count[1] = 1;
count[2] = 1;
/* Read the first timeseries. */
if (gettimeofday(&start_time, NULL)) ERR;
if (nc_get_vara_float(ncid, varid, start, count, ts_data)) ERR_RET;
if (gettimeofday(&end_time, NULL)) ERR;
if (nc4_timeval_subtract(&diff_time, &end_time, &start_time)) ERR;
read_1_us = (int)diff_time.tv_sec * MILLION + (int)diff_time.tv_usec;
/* Read all the rest. */
if (gettimeofday(&start_time, NULL)) ERR;
for (start[1] = 0; start[1] < LAT_LEN; start[1]++)
for (start[2] = 1; start[2] < LON_LEN; start[2]++)
if (nc_get_vara_float(ncid, varid, start, count, ts_data)) ERR_RET;
if (gettimeofday(&end_time, NULL)) ERR;
if (nc4_timeval_subtract(&diff_time, &end_time, &start_time)) ERR;
avg_read_us = ((int)diff_time.tv_sec * MILLION + (int)diff_time.tv_usec + read_1_us) /
(LAT_LEN * LON_LEN);
}
else
{
/* Read the data variable in horizontal slices. */
start[0] = 0;
start[1] = 0;
start[2] = 0;
count[0] = 1;
count[1] = LAT_LEN;
count[2] = LON_LEN;
/* Read (and time) the first one. */
if (gettimeofday(&start_time, NULL)) ERR;
if (nc_get_vara_float(ncid, varid, start, count, hor_data)) ERR_RET;
if (gettimeofday(&end_time, NULL)) ERR;
if (nc4_timeval_subtract(&diff_time, &end_time, &start_time)) ERR;
read_1_us = (int)diff_time.tv_sec * MILLION + (int)diff_time.tv_usec;
/* Read (and time) all the rest. */
if (gettimeofday(&start_time, NULL)) ERR;
for (start[0] = 1; start[0] < TIME_LEN; start[0]++)
if (nc_get_vara_float(ncid, varid, start, count, hor_data)) ERR_RET;
if (gettimeofday(&end_time, NULL)) ERR;
if (nc4_timeval_subtract(&diff_time, &end_time, &start_time)) ERR;
avg_read_us = ((int)diff_time.tv_sec * MILLION + (int)diff_time.tv_usec +
read_1_us) / TIME_LEN;
}
/* Close file. */
if (nc_close(ncid)) ERR;
/* Print results. */
printf("%d\t%d\t%d\t%.1f\t\t%d\t%d\t\t",
(int)cs[0], (int)cs[1], (int)cs[2],
(storage == NC_CHUNKED) ? (cache/(float)MEGABYTE) : 0,
deflate, shuffle);
if (timeseries)
printf("%d\t\t%d\n", (int)read_1_us, (int)avg_read_us);
else
printf("%d\t\t%d\n", (int)read_1_us, (int)avg_read_us);
return 0;
}