1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306
|
/*
Copyright 2018, UCAR/Unidata
See COPYRIGHT file for copying and redistribution conditions.
*/
/*! \file
Example program for write then read of a variable using bzip2 compression.
\ingroup tutorial
This is an example which
creates a file with a variable that is compressed using bzip2.
Then it reads that file and verifies that it returned the correct
uncompressed data.
The meta-data (.cdl) for the created file is as follows:
\code
netcdf bzip2 {
dimensions:
dim0 = 4 ;
dim1 = 4 ;
dim2 = 4 ;
dim3 = 4 ;
variables:
float var(dim0, dim1, dim2, dim3) ;
var:_Storage = "chunked" ;
var:_ChunkSizes = 4, 4, 4, 4 ;
var:_Filter = "307,9" ;
var:_NoFill = "true" ;
data:
var =
0, 1, 2, 3,
4, 5, 6, 7,
...
252, 253, 254, 255 ;
}
\endcode
*/
#include "config.h"
#include <stdio.h>
#include <string.h>
#include <stdlib.h>
#include <hdf5.h>
#include "netcdf.h"
/* The HDF assigned id for bzip compression */
#define BZIP2_ID 307
/* The compression level used in this example */
#define BZIP2_LEVEL 9
#define TESTFILE "bzip2.nc"
/* Point at which we give up */
#define MAXERRS 8
#define NDIMS 4
#define DIMSIZE 4
#define CHUNKSIZE 4 /* Note: not the total size of the chunk, but size wrt a dim*/
static size_t dimsize = DIMSIZE;
static size_t chunksize = CHUNKSIZE;
static size_t actualdims = NDIMS;
static size_t actualproduct = 1; /* x-product over dim sizes */
static size_t chunkproduct = 1; /* x-product over chunksizes */
static size_t dims[NDIMS];
static size_t chunks[NDIMS];
static int nerrs = 0;
static int ncid, varid;
static int dimids[NDIMS];
static float* array = NULL;
static float* expected = NULL;
static unsigned int filterid = 0;
static unsigned int* params = NULL;
/* Forward */
static void init(int argc, char** argv);
static int test_bzip2(void);
static int verifychunks(void);
#define ERRR do { \
fflush(stdout); /* Make sure our stdout is synced with stderr. */ \
fprintf(stderr, "Sorry! Unexpected result, %s, line: %d\n", \
__FILE__, __LINE__); \
nerrs++;\
} while (0)
static int
check(int err,int line)
{
if(err != NC_NOERR) {
fprintf(stderr,"fail (%d): %s\n",line,nc_strerror(err));
fflush(stderr);
exit(1);
}
return NC_NOERR;
}
#define CHECK(x) check(x,__LINE__)
/*
Read the chunking information about the variable
and verify that it is as expected.
*/
static int
verifychunks(void)
{
int i;
int store = -1;
size_t chunksizes[NDIMS];
memset(chunksizes,0,sizeof(chunksizes));
CHECK(nc_inq_var_chunking(ncid, varid, &store, chunksizes));
/* Storate must be chunked, not contiguous */
if(store != NC_CHUNKED) {
fprintf(stderr,"bad chunk store\n");
return NC_ESTORAGE;
}
/* Chunk sizes must match our predefined set */
for(i=0;i<actualdims;i++) {
if(chunksizes[i] != chunks[i]) {
fprintf(stderr,"bad chunk size: %d\n",i);
return NC_EBADCHUNK;
}
}
return 1;
}
/*
Compare the data we wrote against the data we read.
*/
static int
compare(void)
{
int errs = 0;
int i;
printf("data comparison: |array|=%ld\n",(unsigned long)actualproduct);
for(i=0;i<actualproduct;i++) {
if(expected[i] != array[i]) {
printf("mismatch: array[%d]=%f expected[%d]=%f\n",
i,array[i],i,expected[i]);
errs++;
if(errs >= MAXERRS)
break;
}
}
if(errs == 0)
printf("no data errors\n");
if(actualproduct <= 1)
return NC_EBADDIM;
return (errs == 0 ? NC_NOERR: NC_EINVAL);
}
/*
Create the file, write it, then re-read for comparison.
*/
static int
test_bzip2(void)
{
int i;
unsigned int level = BZIP2_LEVEL;
unsigned int id=0;
size_t nparams = 0;
printf("\n*** Testing API: bzip2 compression.\n");
/* Clear the data array */
memset(array,0,sizeof(float)*actualproduct);
/* Create a file */
CHECK(nc_create(TESTFILE, NC_NETCDF4|NC_CLOBBER, &ncid));
/* Do not use fill for this file */
CHECK(nc_set_fill(ncid, NC_NOFILL, NULL));
/* Define the dimensions */
for(i=0;i<actualdims;i++) {
char dimname[1024];
snprintf(dimname,sizeof(dimname),"dim%d",i);
CHECK(nc_def_dim(ncid, dimname, dims[i], &dimids[i]));
}
/* Define the variable */
CHECK(nc_def_var(ncid, "var", NC_FLOAT, actualdims, dimids, &varid));
/* Set chunking on the variable */
CHECK(nc_def_var_chunking(ncid,varid,NC_CHUNKED,chunks));
/* Verify that chunking succeeded */
if(!verifychunks())
return NC_EINVAL;
/* Set bzip2 compression for the variable: takes one parameter == level */
CHECK(nc_def_var_filter(ncid,varid,BZIP2_ID,1,&level));
/* Read back the compression info and verify it */
level = 0;
CHECK(nc_inq_var_filter(ncid,varid,&id,&nparams,&level));
if(id != BZIP2_ID || nparams != 1 || level != BZIP2_LEVEL) {
printf("test_filter: filter def/inq mismatch\n");
return NC_EFILTER;
}
/* Show the level */
printf("show parameters for bzip2: level=%u\n",level);
/* Show chunking */
printf("show chunks:");
for(i=0;i<actualdims;i++)
printf("%s%ld",(i==0?" chunks=":","),(unsigned long)chunks[i]);
printf("\n");
/* prepare to write */
CHECK(nc_enddef(ncid));
/* Fill in the array */
for(i=0;i<actualproduct;i++)
expected[i] = (float)i;
/* write array */
CHECK(nc_put_var(ncid,varid,expected));
/* Close file */
CHECK(nc_close(ncid));
/* Now re-open and verify */
printf("\n*** Testing API: bzip2 decompression.\n");
/* Clear the data array */
memset(array,0,sizeof(float)*actualproduct);
/* Open the file */
CHECK(nc_open(TESTFILE, NC_NOWRITE, &ncid));
/* Get the variable id */
CHECK(nc_inq_varid(ncid, "var", &varid));
/* Check the compression algorithm */
filterid = 0;
nparams = 0;
params = NULL;
CHECK(nc_inq_var_filter(ncid,varid,&filterid,&nparams,NULL));
if(nparams > 0) {
params = (unsigned int*)malloc(sizeof(unsigned int)*nparams);
if(params == NULL)
return NC_ENOMEM;
CHECK(nc_inq_var_filter(ncid,varid,&filterid,&nparams,params));
}
if(filterid != BZIP2_ID) {
printf("Bzip2 id mismatch: %d\n",filterid);
return NC_EFILTER;
}
if(nparams != 1 && params != NULL && params[0] != BZIP2_LEVEL) {
printf("Compression parameter mismatch\n");
return NC_EFILTER;
}
/* Verify chunking */
if(!verifychunks())
return 0;
/* Read the data */
CHECK(nc_get_var_float(ncid, varid, array));
/* Close the file */
CHECK(nc_close(ncid));
return (compare() == NC_NOERR ? 0 : 1);
}
/**************************************************/
/* Utilities */
static void
init(int argc, char** argv)
{
int i;
/* Setup various variables */
actualproduct = 1;
chunkproduct = 1;
for(i=0;i<NDIMS;i++) {
dims[i] = dimsize;
chunks[i] = chunksize;
if(i < actualdims) {
actualproduct *= dims[i];
chunkproduct *= chunks[i];
}
}
/* Allocate max size */
array = (float*)calloc(1,sizeof(float)*actualproduct);
expected = (float*)calloc(1,sizeof(float)*actualproduct);
}
/**************************************************/
int
main(int argc, char **argv)
{
H5Eprint(stderr);
init(argc,argv);
if(test_bzip2() != NC_NOERR) ERRR;
exit(nerrs > 0?1:0);
}
|