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netcdf-c/nc_test4/tst_vars4.c
Dennis Heimbigner 3ffe7be446 Enhance/Fix filter support 
re: Discussion https://github.com/Unidata/netcdf-c/discussions/2214

The primary change is to support so-called "standard filters".
A standard filter is one that is defined by the following
netcdf-c API:
````
int nc_def_var_XXX(int ncid, int varid, size_t nparams, unsigned* params);
int nc_inq_var_XXXX(int ncid, int varid, int* usefilterp, unsigned* params);
````
So for example, zstandard would be a standard filter by defining
the functions *nc_def_var_zstandard* and *nc_inq_var_zstandard*.

In order to define these functions, we need a new dispatch function:
````
int nc_inq_filter_avail(int ncid, unsigned filterid);
````
This function, combined with the existing filter API can be used
to implement arbitrary standard filters using a simple code pattern.
Note that I would have preferred that this function return a list
of all available filters, but HDF5 does not support that functionality.

So this PR implements the dispatch function and implements
the following standard functions:
    + bzip2
    + zstandard
    + blosc
Specific test cases are also provided for HDF5 and NCZarr.
Over time, other specific standard filters will be defined.

## Primary Changes
* Add nc_inq_filter_avail() to netcdf-c API.
* Add standard filter implementations to test use of *nc_inq_filter_avail*.
* Bump the dispatch table version number and add to all the relevant
   dispatch tables (libsrc, libsrcp, etc).
* Create a program to invoke nc_inq_filter_avail so that it is accessible
  to shell scripts.
* Cleanup szip support to properly support szip
  when HDF5 is disabled. This involves detecting
  libsz separately from testing if HDF5 supports szip.
* Integrate shuffle and fletcher32 into the existing
  filter API. This means that, for example, nc_def_var_fletcher32
  is now a wrapper around nc_def_var_filter.
* Extend the Codec defaulting to allow multiple default shared libraries.

## Misc. Changes
* Modify configure.ac/CMakeLists.txt to look for the relevant
  libraries implementing standard filters.
* Modify libnetcdf.settings to list available standard filters
  (including deflate and szip).
* Add CMake test modules to locate libbz2 and libzstd.
* Cleanup the HDF5 memory manager function use in the plugins.
* remove unused file include//ncfilter.h
* remove tests for the HDF5 memory operations e.g. H5allocate_memory.
* Add flag to ncdump to force use of _Filter instead of _Deflate
  or _Shuffle or _Fletcher32. Used for testing.
2022-03-14 12:39:37 -06:00

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/* This is part of the netCDF package.
Copyright 2018 University Corporation for Atmospheric Research/Unidata
See COPYRIGHT file for conditions of use.
Test netcdf-4 variables.
Ed Hartnett
*/
#include <nc_tests.h>
#include "err_macros.h"
#define FILE_NAME "tst_vars4.nc"
#define NDIM2 2
#define NUM_VARS 1
#define Y_NAME "y"
#define X_NAME "x"
#define Z_NAME "z"
#define VAR_NAME Y_NAME
#define XDIM_LEN 2
#define YDIM_LEN 5
#define ZDIM_LEN 8193
#define CLAIR "Clair"
#define JAMIE "Jamie"
int
main(int argc, char **argv)
{
printf("\n*** Testing netcdf-4 variable functions, even more.\n");
printf("**** testing Jeff's dimension problem...");
{
int varid, ncid, dims[NDIM2], dims_in[NDIM2];
int ndims, nvars, ngatts, unlimdimid, natts;
char name_in[NC_MAX_NAME + 1];
nc_type type_in;
size_t len_in;
nc_set_log_level(-1);
if (nc_create(FILE_NAME, NC_NETCDF4 | NC_CLOBBER, &ncid)) ERR;
if (nc_def_dim(ncid, X_NAME, XDIM_LEN, &dims[0])) ERR;
if (nc_def_dim(ncid, Y_NAME, YDIM_LEN, &dims[1])) ERR;
if (nc_def_var(ncid, VAR_NAME, NC_FLOAT, 2, dims, &varid)) ERR;
if (nc_inq(ncid, &ndims, &nvars, &ngatts, &unlimdimid)) ERR;
if (nvars != NUM_VARS || ndims != NDIM2 || ngatts != 0 || unlimdimid != -1) ERR;
if (nc_inq_var(ncid, 0, name_in, &type_in, &ndims, dims_in, &natts)) ERR;
if (strcmp(name_in, VAR_NAME) || type_in != NC_FLOAT || ndims != NDIM2 ||
dims_in[0] != dims[0] || dims_in[1] != dims[1] || natts != 0) ERR;
if (nc_inq_dim(ncid, 0, name_in, &len_in)) ERR;
if (strcmp(name_in, X_NAME) || len_in != XDIM_LEN) ERR;
if (nc_inq_dim(ncid, 1, name_in, &len_in)) ERR;
if (strcmp(name_in, Y_NAME)) ERR;
if (len_in != YDIM_LEN) ERR;
if (nc_close(ncid)) ERR;
nc_set_log_level(-1);
/* Open the file and check. */
if (nc_open(FILE_NAME, NC_WRITE, &ncid)) ERR;
if (nc_inq(ncid, &ndims, &nvars, &ngatts, &unlimdimid)) ERR;
if (nvars != NUM_VARS || ndims != NDIM2 || ngatts != 0 || unlimdimid != -1) ERR;
if (nc_inq_var(ncid, 0, name_in, &type_in, &ndims, dims_in, &natts)) ERR;
if (strcmp(name_in, VAR_NAME) || type_in != NC_FLOAT || ndims != NDIM2 ||
dims_in[0] != dims[0] || dims_in[1] != dims[1] || natts != 0) ERR;
if (nc_inq_dim(ncid, 0, name_in, &len_in)) ERR;
if (strcmp(name_in, X_NAME) || len_in != XDIM_LEN) ERR;
if (nc_inq_dim(ncid, 1, name_in, &len_in)) ERR;
if (strcmp(name_in, Y_NAME)) ERR;
if (len_in != YDIM_LEN) ERR;
if (nc_close(ncid)) ERR;
}
SUMMARIZE_ERR;
printf("**** testing chunking turned on by fletcher...");
{
int varid, ncid, dims[NDIM2];
int storage_in;
size_t chunksizes_in[NDIM2];
if (nc_create(FILE_NAME, NC_NETCDF4 | NC_CLOBBER, &ncid)) ERR;
if (nc_def_dim(ncid, X_NAME, XDIM_LEN, &dims[0])) ERR;
if (nc_def_dim(ncid, Y_NAME, YDIM_LEN, &dims[1])) ERR;
if (nc_def_var(ncid, VAR_NAME, NC_FLOAT, 2, dims, &varid)) ERR;
if (nc_def_var_fletcher32(ncid, varid, NC_FLETCHER32)) ERR;
if (nc_inq_var_chunking(ncid, varid, &storage_in, chunksizes_in)) ERR;
if (chunksizes_in[0] != XDIM_LEN || chunksizes_in[1] != YDIM_LEN) ERR;
if (nc_close(ncid)) ERR;
/* Open the file and check. */
if (nc_open(FILE_NAME, NC_WRITE, &ncid)) ERR;
if (nc_inq_var_chunking(ncid, varid, &storage_in, chunksizes_in)) ERR;
if (chunksizes_in[0] != XDIM_LEN || chunksizes_in[1] != YDIM_LEN) ERR;
if (nc_close(ncid)) ERR;
}
SUMMARIZE_ERR;
printf("**** testing chunking turned on by shuffle...");
{
int varid, ncid, dims[NDIM2];
int storage_in;
size_t chunksizes_in[NDIM2];
if (nc_create(FILE_NAME, NC_NETCDF4 | NC_CLOBBER, &ncid)) ERR;
if (nc_def_dim(ncid, X_NAME, XDIM_LEN, &dims[0])) ERR;
if (nc_def_dim(ncid, Y_NAME, YDIM_LEN, &dims[1])) ERR;
if (nc_def_var(ncid, VAR_NAME, NC_FLOAT, 2, dims, &varid)) ERR;
if (nc_def_var_deflate(ncid, varid, NC_SHUFFLE, 0, 0)) ERR;
if (nc_inq_var_chunking(ncid, varid, &storage_in, chunksizes_in)) ERR;
if (chunksizes_in[0] != XDIM_LEN || chunksizes_in[1] != YDIM_LEN) ERR;
if (nc_close(ncid)) ERR;
/* Open the file and check. */
if (nc_open(FILE_NAME, NC_WRITE, &ncid)) ERR;
if (nc_inq_var_chunking(ncid, varid, &storage_in, chunksizes_in)) ERR;
if (chunksizes_in[0] != XDIM_LEN || chunksizes_in[1] != YDIM_LEN) ERR;
if (nc_close(ncid)) ERR;
}
SUMMARIZE_ERR;
#define DIM_NAME "Distance_from_Mayo"
#define VAR_NAME_2 "Rocky_Road_to_Dublin"
#define NDIMS1 1
#define NUM_RECORDS 3
printf("**** testing extending var along unlimited dim with no coord var...");
{
int varid, ncid, dimid;
int ndims, nvars, natts, unlimdimid;
size_t dim_len_in, index;
int data = TEST_VAL_42;
/* Create the test file with one var, one unlimited dim. */
if (nc_create(FILE_NAME, NC_NETCDF4 | NC_CLOBBER, &ncid)) ERR;
if (nc_def_dim(ncid, DIM_NAME, NC_UNLIMITED, &dimid)) ERR;
if (nc_def_var(ncid, VAR_NAME_2, NC_INT, NDIMS1, &dimid, &varid)) ERR;
/* Write some records. */
for (index = 0; index < NUM_RECORDS; index++)
if (nc_put_var1_int(ncid, varid, &index, &data)) ERR;
if (nc_close(ncid)) ERR;
/* Open the file and check. */
if (nc_open(FILE_NAME, NC_WRITE, &ncid)) ERR;
if (nc_inq(ncid, &ndims, &nvars, &natts, &unlimdimid)) ERR;
if (ndims != 1 || nvars != 1 || natts != 0 || unlimdimid != 0) ERR;
if (nc_inq_dim(ncid, dimid, NULL, &dim_len_in)) ERR;
if (dim_len_in != NUM_RECORDS) ERR;
/* Now add more records. */
for (index = 3; index < NUM_RECORDS * 2; index++)
if (nc_put_var1_int(ncid, varid, &index, &data)) ERR;
if (nc_inq_dim(ncid, dimid, NULL, &dim_len_in)) ERR;
if (dim_len_in != NUM_RECORDS * 2) ERR;
/* Close the file. */
if (nc_close(ncid)) ERR;
}
SUMMARIZE_ERR;
printf("**** testing type creation and destruction for atomic types...");
{
int varid1, varid2, ncid;
int ndims, nvars, natts, unlimdimid;
/* Create the test file with two scalar vars. */
if (nc_create(FILE_NAME, NC_NETCDF4 | NC_CLOBBER, &ncid)) ERR;
if (nc_def_var(ncid, CLAIR, NC_INT, 0, NULL, &varid1)) ERR;
if (nc_def_var(ncid, JAMIE, NC_INT, 0, NULL, &varid2)) ERR;
if (nc_close(ncid)) ERR;
/* Open the file and check. */
if (nc_open(FILE_NAME, NC_WRITE, &ncid)) ERR;
if (nc_inq(ncid, &ndims, &nvars, &natts, &unlimdimid)) ERR;
if (ndims != 0 || nvars != 2 || natts != 0 || unlimdimid != -1) ERR;
if (nc_close(ncid)) ERR;
}
SUMMARIZE_ERR;
printf("**** testing scalar big endian vars...");
{
int varid1, varid2, ncid;
int ndims, nvars, natts, unlimdimid;
int test_val = TEST_VAL_42;
int test_val2 = TEST_VAL_42 * 2;
int data_in;
/* Create the test file with two scalar vars. */
if (nc_create(FILE_NAME, NC_NETCDF4 | NC_CLOBBER, &ncid)) ERR;
if (nc_def_var(ncid, CLAIR, NC_INT, 0, NULL, &varid1)) ERR;
if (nc_def_var_endian(ncid, varid1, NC_ENDIAN_BIG)) ERR;
if (nc_def_var(ncid, JAMIE, NC_INT, 0, NULL, &varid2)) ERR;
if (nc_def_var_endian(ncid, varid2, NC_ENDIAN_BIG)) ERR;
if (nc_enddef(ncid)) ERR;
if (nc_put_var(ncid, varid1, &test_val)) ERR;
if (nc_put_var(ncid, varid2, &test_val2)) ERR;
if (nc_close(ncid)) ERR;
/* Open the file and check. */
if (nc_open(FILE_NAME, NC_WRITE, &ncid)) ERR;
if (nc_inq(ncid, &ndims, &nvars, &natts, &unlimdimid)) ERR;
if (ndims != 0 || nvars != 2 || natts != 0 || unlimdimid != -1) ERR;
if (nc_get_var(ncid, varid1, &data_in)) ERR;
if (data_in != TEST_VAL_42) ERR;
if (nc_get_var(ncid, varid2, &data_in)) ERR;
if (data_in != TEST_VAL_42 * 2) ERR;
if (nc_close(ncid)) ERR;
}
SUMMARIZE_ERR;
printf("**** testing scalar big endian vars...");
{
int ncid, enumid;
int bigid, littleid;
int endian_in;
/* Note: if no zero valued enum, then causes ncdump error */
int econst0 = 0;
int econst1 = 1;
if (nc_create(FILE_NAME, NC_NETCDF4|NC_CLOBBER, &ncid)) ERR;
if (nc_def_enum(ncid, NC_INT, "enum_t", &enumid)) ERR;
if (nc_insert_enum(ncid, enumid, "econst0", &econst0)) ERR;
if (nc_insert_enum(ncid, enumid, "econst1", &econst1)) ERR;
if (nc_def_var(ncid, "little", enumid, 0, NULL, &littleid)) ERR;
if (nc_def_var(ncid, "big", enumid, 0, NULL, &bigid)) ERR;
if (nc_def_var_endian(ncid, littleid, NC_ENDIAN_LITTLE) != NC_EINVAL) ERR;
if (nc_def_var_endian(ncid, bigid, NC_ENDIAN_BIG) != NC_EINVAL) ERR;
/* Note that it is important to set endian ness before testing it */
if (nc_inq_var_endian(ncid, littleid, &endian_in)) ERR;
if (endian_in) ERR;
if (nc_inq_var_endian(ncid, bigid, &endian_in)) ERR;
if (endian_in) ERR;
if (nc_close(ncid)) ERR;
}
SUMMARIZE_ERR;
printf("**** testing compact storage with one scalar var...");
{
int ncid, varid;
int storage_in;
int data = TEST_VAL_42;
/* Create a file with one var which is compact scalar. */
if (nc_create(FILE_NAME, NC_NETCDF4|NC_CLOBBER, &ncid)) ERR;
/* Define a scalar. Scalars can also be compact. */
if (nc_def_var(ncid, JAMIE, NC_INT, 0, NULL, &varid)) ERR;
if (nc_def_var_chunking(ncid, varid, NC_COMPACT, NULL)) ERR;
/* Write data. */
if (nc_put_var_int(ncid, varid, &data)) ERR;
/* Close file. */
if (nc_close(ncid)) ERR;
/* Open the file and check it. */
{
int ndims, nvars;
if (nc_open(FILE_NAME, NC_NOWRITE, &ncid)) ERR;
if (nc_inq(ncid, &ndims, &nvars, NULL, NULL)) ERR;
if (ndims != 0 || nvars != 1) ERR;
if (nc_inq_var_chunking(ncid, 0, &storage_in, NULL)) ERR;
if (storage_in != NC_COMPACT) ERR;
if (nc_close(ncid)) ERR;
}
}
SUMMARIZE_ERR;
printf("**** testing compact storage...");
{
int ncid, dimid[NDIM2], varid, varid2, varid3;
int data[XDIM_LEN];
int storage_in;
int x;
/* Create some data. */
for (x = 0; x < XDIM_LEN; x++)
data[x] = x;
/* Create a file with one var with compact storage. */
if (nc_create(FILE_NAME, NC_NETCDF4|NC_CLOBBER, &ncid)) ERR;
/* Define dims. */
if (nc_def_dim(ncid, X_NAME, XDIM_LEN, &dimid[0])) ERR;
if (nc_def_dim(ncid, Z_NAME, ZDIM_LEN, &dimid[1])) ERR;
/* Define vars1 to be compact. */
if (nc_def_var(ncid, Y_NAME, NC_INT, 1, dimid, &varid)) ERR;
if (nc_def_var_chunking(ncid, varid, NC_COMPACT, NULL)) ERR;
if (nc_inq_var_chunking(ncid, varid, &storage_in, NULL)) ERR;
if (storage_in != NC_COMPACT) ERR;
/* Define var2 - it's too big for compact. */
if (nc_def_var(ncid, CLAIR, NC_INT, NDIM2, dimid, &varid2)) ERR;
/* This won't work, the var is too big for compact! */
if (nc_def_var_chunking(ncid, varid2, NC_COMPACT, NULL) != NC_EVARSIZE) ERR;
/* Define var3, a scalar. Scalars can also be compact. */
if (nc_def_var(ncid, JAMIE, NC_INT, 0, NULL, &varid3)) ERR;
if (nc_def_var_chunking(ncid, varid3, NC_COMPACT, NULL)) ERR;
/* Write data. */
if (nc_put_var_int(ncid, varid3, data)) ERR;
/* Close file. */
if (nc_close(ncid)) ERR;
/* Open the file and check it. */
{
int ndims, nvars;
int storage_in;
if (nc_open(FILE_NAME, NC_NOWRITE, &ncid)) ERR;
if (nc_inq(ncid, &ndims, &nvars, NULL, NULL)) ERR;
if (ndims != 2 || nvars != 3) ERR;
if (nc_inq_var_chunking(ncid, varid, &storage_in, NULL)) ERR;
if (storage_in != NC_COMPACT) ERR;
if (nc_inq_var_chunking(ncid, varid2, &storage_in, NULL)) ERR;
if (storage_in != NC_CONTIGUOUS) ERR;
if (nc_inq_var_chunking(ncid, varid3, &storage_in, NULL)) ERR;
if (storage_in != NC_COMPACT) ERR;
if (nc_close(ncid)) ERR;
}
}
SUMMARIZE_ERR;
FINAL_RESULTS;
}
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