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319 lines
9.7 KiB
C
319 lines
9.7 KiB
C
/*
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Copyright 2009, UCAR/Unidata
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See COPYRIGHT file for copying and redistribution conditions.
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This program tests netcdf-4 parallel I/O. These tests are based on the
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needs of the NASA GMAO model, and are based on some test code from
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Dennis Nadeau.
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$Id: tst_nc4perf.c,v 1.4 2009/08/19 15:58:57 ed Exp $
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*/
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#include "nc_tests.h"
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#define FILENAME "tst_nc4perf.nc"
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#define NDIMS1 2
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#define NDIMS2 4
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#define DIMSIZE1 40
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#define DIMSIZE2 61
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#define DIMSIZE3 3
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/*#define DIMSIZE1 540
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#define DIMSIZE2 361
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#define DIMSIZE3 72*/
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#define TIMELEN 4
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#define NUMVARS 10
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#define NUM_TRIES 2
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#define MEGABYTE 1048576
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/* This function creates a file with 10 2D variables, no unlimited
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* dimension. */
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int test_pio_2d(size_t cache_size, int facc_type, int access_flag, MPI_Comm comm,
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MPI_Info info, int mpi_size, int mpi_rank,
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size_t *chunk_size)
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{
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double starttime, endtime, write_time = 0, bandwidth = 0;
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int ncid;
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int dimids[NDIMS1];
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size_t start[NDIMS1], count[NDIMS1];
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float *data;
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char file_name[NC_MAX_NAME + 1];
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char var_name1[NUMVARS][NC_MAX_NAME + 1] = {"GWa", "JAd", "TJe", "JMa", "JMo",
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"JQA", "AJa", "MVB", "WHH", "JTy"};
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int varid1[NUMVARS];
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size_t nelems_in;
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float preemption_in;
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int j, i, t;
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/* Create some data. */
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if (!(data = malloc(sizeof(float) * DIMSIZE2 * DIMSIZE1 / mpi_size)))
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return -2;
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for (j = 0; j < DIMSIZE2; j++)
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for (i = 0; i < DIMSIZE1 / mpi_size; i++)
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data[j * DIMSIZE1 / mpi_size + i] = (float)mpi_rank * (j + 1);
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/* Get the file name. */
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sprintf(file_name, "%s/%s", TEMP_LARGE, FILENAME);
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/* Set the cache size. */
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if (nc_get_chunk_cache(NULL, &nelems_in, &preemption_in)) ERR;
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if (nc_set_chunk_cache(cache_size, nelems_in, preemption_in)) ERR;
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for (t = 0; t < NUM_TRIES; t++)
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{
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/* Create a netcdf-4 file, opened for parallel I/O. */
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if (nc_create_par(file_name, facc_type|NC_NETCDF4, comm,
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info, &ncid)) ERR;
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/* Create two dimensions. */
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if (nc_def_dim(ncid, "d1", DIMSIZE2, &dimids[0])) ERR;
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if (nc_def_dim(ncid, "d2", DIMSIZE1, &dimids[1])) ERR;
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/* Create our variables. */
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for (i = 0; i < NUMVARS; i++)
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{
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if (nc_def_var(ncid, var_name1[i], NC_INT, NDIMS1,
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dimids, &varid1[i])) ERR;
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if (chunk_size[0])
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if (nc_def_var_chunking(ncid, varid1[i], 0, chunk_size)) ERR;
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}
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if (nc_enddef(ncid)) ERR;
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/* Set up slab for this process. */
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start[0] = 0;
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start[1] = mpi_rank * DIMSIZE1/mpi_size;
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count[0] = DIMSIZE2;
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count[1] = DIMSIZE1 / mpi_size;
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/* start parallel netcdf4 */
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for (i = 0; i < NUMVARS; i++)
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if (nc_var_par_access(ncid, varid1[i], access_flag)) ERR;
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starttime = MPI_Wtime();
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/* Write two dimensional float data */
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for (i = 0; i < NUMVARS; i++)
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if (nc_put_vara_float(ncid, varid1[i], start, count, data)) ERR;
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/* Close the netcdf file. */
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if (nc_close(ncid)) ERR;
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endtime = MPI_Wtime();
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if (!mpi_rank)
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{
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bandwidth += ((sizeof(float) * DIMSIZE1 * DIMSIZE2 * NUMVARS) /
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((endtime - starttime) * 1024 * 1024)) / NUM_TRIES;
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write_time += (endtime - starttime) / NUM_TRIES;
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}
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}
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free(data);
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if (!mpi_rank)
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{
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char chunk_string[NC_MAX_NAME + 1] = "";
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/* What was our chunking? */
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if (chunk_size[0])
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sprintf(chunk_string, "%dx%d ", (int)chunk_size[0], (int)chunk_size[1]);
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else
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strcat(chunk_string, "contiguous");
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/* Print the results. */
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printf("%d\t\t%s\t%s\t%d\t\t%dx%d\t\t%s\t%f\t\t%f\t\t\t%d\n", mpi_size,
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(facc_type == NC_MPIIO ? "MPI-IO " : "MPI-POSIX"),
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(access_flag == NC_INDEPENDENT ? "independent" : "collective"),
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(int)cache_size/MEGABYTE, DIMSIZE1, DIMSIZE2, chunk_string,
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write_time, bandwidth, NUM_TRIES);
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}
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/* Delete this file. */
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remove(file_name);
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return 0;
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}
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/* Both read and write will be tested */
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/* Case 2: create four dimensional integer data,
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one dimension is unlimited. */
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int test_pio_4d(size_t cache_size, int facc_type, int access_flag, MPI_Comm comm,
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MPI_Info info, int mpi_size, int mpi_rank, size_t *chunk_size)
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{
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int ncid, dimuids[NDIMS2], varid2[NUMVARS];
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size_t ustart[NDIMS2], ucount[NDIMS2];
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float *udata, *tempudata;
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char file_name[NC_MAX_NAME + 1];
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char var_name2[NUMVARS][NC_MAX_NAME + 1] = {"JKP", "ZTa", "MFi", "FPi", "JBu",
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"ALi", "AJo", "USG", "RBH", "JAG"};
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double starttime, endtime, write_time = 0, bandwidth = 0;
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size_t nelems_in;
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float preemption_in;
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int k, j, i, t;
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udata = malloc(DIMSIZE3 * DIMSIZE2 * DIMSIZE1 / mpi_size * sizeof(int));
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/* Create phony data. */
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tempudata = udata;
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for(k = 0; k < DIMSIZE3; k++)
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for(j = 0; j < DIMSIZE2; j++)
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for(i = 0; i < DIMSIZE1 / mpi_size; i++)
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{
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*tempudata = (float)(1 + mpi_rank) * 2 * (j + 1) * (k + 1);
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tempudata++;
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}
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/* Get the file name. */
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sprintf(file_name, "%s/%s", TEMP_LARGE, FILENAME);
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/* Set the cache size. */
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if (nc_get_chunk_cache(NULL, &nelems_in, &preemption_in)) ERR;
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if (nc_set_chunk_cache(cache_size, nelems_in, preemption_in)) ERR;
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for (t = 0; t < NUM_TRIES; t++)
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{
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/* Create a netcdf-4 file. */
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if (nc_create_par(file_name, facc_type|NC_NETCDF4, comm, info,
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&ncid)) ERR;
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/* Create four dimensions. */
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if (nc_def_dim(ncid, "ud1", TIMELEN, dimuids)) ERR;
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if (nc_def_dim(ncid, "ud2", DIMSIZE3, &dimuids[1])) ERR;
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if (nc_def_dim(ncid, "ud3", DIMSIZE2, &dimuids[2])) ERR;
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if (nc_def_dim(ncid, "ud4", DIMSIZE1, &dimuids[3])) ERR;
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/* Create 10 variables. */
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for (i = 0; i < NUMVARS; i++)
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if (nc_def_var(ncid, var_name2[i], NC_INT, NDIMS2,
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dimuids, &varid2[i])) ERR;
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if (nc_enddef(ncid)) ERR;
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/* Set up selection parameters */
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ustart[0] = 0;
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ustart[1] = 0;
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ustart[2] = 0;
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ustart[3] = DIMSIZE1 * mpi_rank / mpi_size;
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ucount[0] = 1;
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ucount[1] = DIMSIZE3;
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ucount[2] = DIMSIZE2;
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ucount[3] = DIMSIZE1 / mpi_size;
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/* Access parallel */
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for (i = 0; i < NUMVARS; i++)
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if (nc_var_par_access(ncid, varid2[i], access_flag)) ERR;
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starttime = MPI_Wtime();
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/* Write slabs of phony data. */
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for(ustart[0] = 0; ustart[0] < TIMELEN; ustart[0]++)
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for (i = 0; i < NUMVARS; i++)
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if (nc_put_vara_float(ncid, varid2[i], ustart, ucount, udata)) ERR;
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/* Close the netcdf file. */
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if (nc_close(ncid)) ERR;
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endtime = MPI_Wtime();
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if (!mpi_rank)
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{
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write_time += (endtime - starttime) / NUM_TRIES;
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bandwidth += (sizeof(float) * TIMELEN * DIMSIZE1 * DIMSIZE2 * DIMSIZE3 * NUMVARS) /
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((endtime - starttime) * 1024 * 1024 * NUM_TRIES);
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}
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}
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free(udata);
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if (!mpi_rank)
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{
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char chunk_string[NC_MAX_NAME + 1] = "";
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/* What was our chunking? */
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if (chunk_size[0])
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sprintf(chunk_string, "%dx%dx%dx%d", (int)chunk_size[0], (int)chunk_size[1],
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(int)chunk_size[2], (int)chunk_size[3]);
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else
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strcat(chunk_string, "contiguous");
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/* Print our results. */
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printf("%d\t\t%s\t%s\t%d\t\t%dx%dx%dx%d\t%s\t%f\t\t%f\t\t\t%d\n", mpi_size,
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(facc_type == NC_MPIIO ? "MPI-IO " : "MPI-POSIX"),
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(access_flag == NC_INDEPENDENT ? "independent" : "collective"),
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(int)cache_size / MEGABYTE, TIMELEN, DIMSIZE3, DIMSIZE2, DIMSIZE1, chunk_string, write_time,
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bandwidth, NUM_TRIES);
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}
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/* Delete this file. */
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remove(file_name);
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return 0;
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}
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/* Note: When the MPI-POSIX VFD is not compiled in to HDF5, the NC_MPIPOSIX
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* flag will be aliased to the NC_MPIIO flag within the library, and
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* therefore this test will exercise the aliasing, with the MPI-IO VFD,
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* under that configuration. -QAK
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*/
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#define NUM_MODES 2
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#define NUM_FACC 2
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#define NUM_CHUNK_COMBOS_2D 3
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#define NUM_CHUNK_COMBOS_4D 4
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#define NUM_CACHE_SIZES 3
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int main(int argc, char **argv)
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{
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MPI_Comm comm = MPI_COMM_WORLD;
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MPI_Info info = MPI_INFO_NULL;
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int mpi_size, mpi_rank;
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int mpi_mode[NUM_MODES] = {NC_MPIIO, NC_MPIPOSIX};
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int facc_type[NUM_FACC] = {NC_INDEPENDENT, NC_COLLECTIVE};
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size_t chunk_size_2d[NUM_CHUNK_COMBOS_2D][NDIMS1] = {{0, 0},
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{DIMSIZE2, DIMSIZE1},
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{DIMSIZE2/2 + 1, DIMSIZE1 / 2}};
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size_t chunk_size_4d[NUM_CHUNK_COMBOS_4D][NDIMS2] = {{0, 0, 0, 0},
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{1, DIMSIZE3, DIMSIZE2, DIMSIZE1},
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{TIMELEN / 2, DIMSIZE3 / 2 + 1, DIMSIZE2 / 2 + 1, DIMSIZE1 / 2},
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{TIMELEN, DIMSIZE3, DIMSIZE2, DIMSIZE1}};
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size_t cache_size[NUM_CACHE_SIZES] = {MEGABYTE, 32 * MEGABYTE, 64 * MEGABYTE};
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int m, f, c, i;
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/* Initialize MPI. */
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MPI_Init(&argc, &argv);
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MPI_Comm_size(MPI_COMM_WORLD, &mpi_size);
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MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
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/* Check for invalid number of processors. */
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if ((float)DIMSIZE1 / mpi_size != (int)(DIMSIZE1 / mpi_size))
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{
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printf("%d divided by number of processors must be a whole number!\n",
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DIMSIZE1);
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return -1;
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}
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if (!mpi_rank)
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{
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printf("*** Testing parallel IO for NASA...\n");
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printf("num_proc\tMPI mode\taccess\t\tcache (MB)\tgrid size\tchunks\tavg. write time(s)\t"
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"avg. write bandwidth(MB/s)\tnum_tries\n");
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}
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for (i = 0; i < NUM_CACHE_SIZES; i++)
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for (m = 0; m < NUM_MODES; m++)
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for (f = 0; f < NUM_FACC; f++)
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for (c = 0; c < NUM_CHUNK_COMBOS_2D; c++)
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if (test_pio_2d(cache_size[i], mpi_mode[m], facc_type[f], comm,
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info, mpi_size, mpi_rank, chunk_size_2d[c])) ERR;
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for (i = 0; i < NUM_CACHE_SIZES; i++)
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for (m = 0; m < NUM_MODES; m++)
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for (f = 0; f < NUM_FACC; f++)
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for (c = 0; c < NUM_CHUNK_COMBOS_4D; c++)
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if (test_pio_4d(cache_size[i], mpi_mode[m], facc_type[f], comm,
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info, mpi_size, mpi_rank, chunk_size_4d[c])) ERR;
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if (!mpi_rank)
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SUMMARIZE_ERR;
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MPI_Finalize();
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if (!mpi_rank)
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FINAL_RESULTS;
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return 0;
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}
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