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tst_parallel_compress.c
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tst_parallel_compress.c
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/*
Copyright 2019, UCAR/Unidata See COPYRIGHT file for copying and
redistribution conditions.
This program tests netcdf-4 parallel I/O using zlib, shuffle, and
fletcher32 fliters while writing with parallel I/O. This works for
HDF5-1.10.3 and later. In this case HDF5_SUPPORTS_PAR_FILTERS will
be defined during configure.
If szip was built into HDF5, this test will also test parallel szip
writes. If szip is present, then HAVE_H5Z_SZIP will be defined in
config.h.
Ed Hartnett, 12/19/2019
*/
#include <nc_tests.h>
#include "err_macros.h"
#include <mpi.h>
#define FILE_NAME "tst_parallel_compress.nc"
#define NDIMS 3
#define DIMSIZE 24
#define QTR_DATA (DIMSIZE * DIMSIZE / 4)
#define NUM_PROC 4
#define NUM_SLABS 10
#define NUM_SHUFFLE_SETTINGS 2
#ifdef HAVE_H5Z_SZIP
#define NUM_COMPRESSION_FILTERS 2
#else
#define NUM_COMPRESSION_FILTERS 1
#endif
int
main(int argc, char **argv)
{
/* MPI stuff. */
int mpi_size, mpi_rank;
MPI_Comm comm = MPI_COMM_WORLD;
MPI_Info info = MPI_INFO_NULL;
/* Netcdf-4 stuff. */
int ncid, v1id, dimids[NDIMS];
size_t start[NDIMS], count[NDIMS];
int f, i, s, res;
int *slab_data; /* one slab */
/* Initialize MPI. */
MPI_Init(&argc, &argv);
MPI_Comm_size(MPI_COMM_WORLD, &mpi_size);
MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
/* Allocate data. */
if (!(slab_data = malloc(sizeof(int) * DIMSIZE * DIMSIZE / mpi_size))) ERR;
/* Create phony data. We're going to write a 24x24 array of ints,
in 4 sets of 144. */
for (i = 0; i < DIMSIZE * DIMSIZE / mpi_size; i++)
slab_data[i] = mpi_rank;
if (!mpi_rank)
printf("\n*** Testing parallel writes with compression filters.\n");
{
for (f = 0; f < NUM_COMPRESSION_FILTERS; f++)
{
for (s = 0; s < NUM_SHUFFLE_SETTINGS; s++)
{
if (!mpi_rank)
{
printf("*** testing simple write with %s shuffle %d...",
(f ? "szip" : "zlib"), s);
}
/* nc_set_log_level(3); */
/* Create a parallel netcdf-4 file. */
if (nc_create_par(FILE_NAME, NC_NETCDF4, comm, info, &ncid)) ERR;
/* Create three dimensions. */
if (nc_def_dim(ncid, "d1", DIMSIZE, dimids)) ERR;
if (nc_def_dim(ncid, "d2", DIMSIZE, &dimids[1])) ERR;
if (nc_def_dim(ncid, "d3", NUM_SLABS, &dimids[2])) ERR;
/* Create one var. Turn on deflation. */
if ((res = nc_def_var(ncid, "v1", NC_INT, NDIMS, dimids, &v1id))) ERR;
/* Setting any filter only will work for HDF5-1.10.3 and later
* versions. */
if (!f)
res = nc_def_var_deflate(ncid, 0, s, 1, 1);
else
{
res = nc_def_var_deflate(ncid, 0, s, 0, 0);
if (!res)
res = nc_def_var_szip(ncid, 0, 32, 32);
}
#ifdef HDF5_SUPPORTS_PAR_FILTERS
if (res) ERR;
#else
if (res != NC_EINVAL) ERR;
#endif
/* Setting fletcher32 only will work for HDF5-1.10.3 and later
* versions. */
res = nc_def_var_fletcher32(ncid, 0, 1);
#ifdef HDF5_SUPPORTS_PAR_FILTERS
if (res) ERR;
#else
if (res != NC_EINVAL) ERR;
#endif
/* Write metadata to file. */
if (nc_enddef(ncid)) ERR;
/* Set up slab for this process. */
start[0] = mpi_rank * DIMSIZE/mpi_size;
start[1] = 0;
count[0] = DIMSIZE/mpi_size;
count[1] = DIMSIZE;
count[2] = 1;
/*printf("mpi_rank=%d start[0]=%d start[1]=%d count[0]=%d count[1]=%d\n",
mpi_rank, start[0], start[1], count[0], count[1]);*/
/* Should not be allowed to change access to independent,
* because filters are in use. */
if (nc_var_par_access(ncid, v1id, NC_INDEPENDENT) != NC_EINVAL) ERR;
/* Write slabs of data. */
for (start[2] = 0; start[2] < NUM_SLABS; start[2]++)
if (nc_put_vara_int(ncid, v1id, start, count, slab_data)) ERR;
/* Close the netcdf file. */
if (nc_close(ncid)) ERR;
/* Check file. */
{
int shuffle_in, deflate_in, deflate_level_in;
int options_mask_in, pixels_per_block_in;
int *slab_data_in;
/* Allocate data. */
if (!(slab_data_in = malloc(sizeof(int) * DIMSIZE * DIMSIZE / mpi_size))) ERR;
/* Reopen the file for parallel access. */
if (nc_open_par(FILE_NAME, NC_NOWRITE, comm, info, &ncid)) ERR;
/* Check state of compression. */
if (!f)
{
if (nc_inq_var_deflate(ncid, 0, &shuffle_in, &deflate_in, &deflate_level_in)) ERR;
if ((s && !shuffle_in) || (!s && shuffle_in)) ERR;
if (!deflate_in || deflate_level_in != 1) ERR;
}
else
{
if (nc_inq_var_deflate(ncid, 0, &shuffle_in, NULL, NULL)) ERR;
if ((s && !shuffle_in) || (!s && shuffle_in)) ERR;
if (nc_inq_var_szip(ncid, 0, &options_mask_in, &pixels_per_block_in)) ERR;
}
/* Use parallel I/O to read the data. */
for (start[2] = 0; start[2] < NUM_SLABS; start[2]++)
{
if (nc_get_vara_int(ncid, 0, start, count, slab_data_in)) ERR;
for (i = 0; i < DIMSIZE * DIMSIZE / mpi_size; i++)
if (slab_data_in[i] != mpi_rank) ERR;
}
/* Close the netcdf file. */
if (nc_close(ncid)) ERR;
free(slab_data_in);
}
if (!mpi_rank)
SUMMARIZE_ERR;
} /* next shuffle filter test */
} /* next compression filter (zlib and szip) */
/* Now run tests with unlimited dim. */
/* for (f = 0; f < NUM_COMPRESSION_FILTERS; f++) */
for (f = 1; f < NUM_COMPRESSION_FILTERS; f++)
{
for (s = 0; s < NUM_SHUFFLE_SETTINGS; s++)
{
if (!mpi_rank)
{
printf("*** testing write along unlim dim with %s shuffle %d...",
(f ? "szip" : "zlib"), s);
}
/* nc_set_log_level(3); */
/* Create a parallel netcdf-4 file. */
if (nc_create_par(FILE_NAME, NC_NETCDF4, comm, info, &ncid)) ERR;
/* Create three dimensions. */
if (nc_def_dim(ncid, "d1", DIMSIZE, &dimids[1])) ERR;
if (nc_def_dim(ncid, "d2", DIMSIZE, &dimids[2])) ERR;
if (nc_def_dim(ncid, "d3", NC_UNLIMITED, &dimids[0])) ERR;
/* Create one var. Turn on deflation. */
if ((res = nc_def_var(ncid, "v1", NC_INT, NDIMS, dimids, &v1id))) ERR;
/* Setting any filter only will work for HDF5-1.10.3 and later
* versions. */
if (!f)
res = nc_def_var_deflate(ncid, 0, s, 1, 1);
else
{
res = nc_def_var_deflate(ncid, 0, s, 0, 0);
if (!res)
res = nc_def_var_szip(ncid, 0, 32, 32);
}
#ifdef HDF5_SUPPORTS_PAR_FILTERS
if (res) ERR;
#else
if (res != NC_EINVAL) ERR;
#endif
/* Setting fletcher32 only will work for HDF5-1.10.3 and later
* versions. */
res = nc_def_var_fletcher32(ncid, 0, 1);
#ifdef HDF5_SUPPORTS_PAR_FILTERS
if (res) ERR;
#else
if (res != NC_EINVAL) ERR;
#endif
/* Write metadata to file. */
if (nc_enddef(ncid)) ERR;
/* Set up slab for this process. */
start[1] = mpi_rank * DIMSIZE/mpi_size;
start[2] = 0;
count[1] = DIMSIZE/mpi_size;
count[2] = DIMSIZE;
count[0] = 1;
/*printf("mpi_rank=%d start[0]=%d start[1]=%d count[0]=%d count[1]=%d\n",
mpi_rank, start[0], start[1], count[0], count[1]);*/
/* Should not be allowed to change access to independent,
* because filters are in use. */
if (nc_var_par_access(ncid, v1id, NC_INDEPENDENT) != NC_EINVAL) ERR;
/* Write slabs of data. */
for (start[0] = 0; start[0] < NUM_SLABS; start[0]++)
if (nc_put_vara_int(ncid, v1id, start, count, slab_data)) ERR;
/* Close the netcdf file. */
if (nc_close(ncid)) ERR;
/* Check file. */
{
int shuffle_in, deflate_in, deflate_level_in;
int options_mask_in, pixels_per_block_in;
int *slab_data_in;
/* Allocate data. */
if (!(slab_data_in = malloc(sizeof(int) * DIMSIZE * DIMSIZE / mpi_size))) ERR;
/* Reopen the file for parallel access. */
if (nc_open_par(FILE_NAME, NC_NOWRITE, comm, info, &ncid)) ERR;
/* Check state of compression. */
if (!f)
{
if (nc_inq_var_deflate(ncid, 0, &shuffle_in, &deflate_in, &deflate_level_in)) ERR;
if ((s && !shuffle_in) || (!s && shuffle_in)) ERR;
if (!deflate_in || deflate_level_in != 1) ERR;
}
else
{
if (nc_inq_var_deflate(ncid, 0, &shuffle_in, NULL, NULL)) ERR;
if ((s && !shuffle_in) || (!s && shuffle_in)) ERR;
if (nc_inq_var_szip(ncid, 0, &options_mask_in, &pixels_per_block_in)) ERR;
}
/* Use parallel I/O to read the data. */
for (start[0] = 0; start[0] < NUM_SLABS; start[0]++)
{
if (nc_get_vara_int(ncid, 0, start, count, slab_data_in)) ERR;
for (i = 0; i < DIMSIZE * DIMSIZE / mpi_size; i++)
if (slab_data_in[i] != mpi_rank) ERR;
}
/* Close the netcdf file. */
if (nc_close(ncid)) ERR;
free(slab_data_in);
}
if (!mpi_rank)
SUMMARIZE_ERR;
} /* next shuffle filter test */
} /* next compression filter (zlib and szip) */
free(slab_data);
}
/* Shut down MPI. */
MPI_Finalize();
if (!mpi_rank)
FINAL_RESULTS;
return 0;
}