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https://github.com/Unidata/netcdf-c.git
synced 2024-12-09 08:11:38 +08:00
added new metadata writing function
This commit is contained in:
Edward Hartnett
parent
a9b5c33ba7
commit
8faa7ed946
@ -22,6 +22,7 @@
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#define FILE_NAME "tst_gfs_data_1.nc"
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#define NUM_META_VARS 7
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#define NUM_META_TRIES 2
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#define NDIM2 2
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#define NDIM4 4
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#define NDIM5 5
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@ -227,6 +228,170 @@ write_meta(int ncid, int *data_varid, int s, int f, int deflate, int *dim_len, s
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return 0;
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}
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/* Write all the metadata, including coordinate variable data. */
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int
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write_meta2(int ncid, int *data_varid, int s, int f, int deflate, int *dim_len, size_t phalf_loc_size, size_t phalf_start,
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float *value_phalf_loc, size_t *data_start, size_t *data_count, float *value_pfull_loc,
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size_t grid_xt_start, size_t grid_xt_loc_size, double *value_grid_xt_loc, size_t grid_yt_start,
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size_t grid_yt_loc_size, double *value_grid_yt_loc, size_t *latlon_start, size_t *latlon_count,
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double *value_lat_loc, double *value_lon_loc, int my_rank)
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{
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char dim_name[NDIM5][NC_MAX_NAME + 1] = {"grid_xt", "grid_yt", "pfull",
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"phalf", "time"};
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int dimid[NDIM5];
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int dimid_data[NDIM4];
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char var_name[NUM_META_VARS][NC_MAX_NAME + 1] = {"grid_xt", "lon", "grid_yt",
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"lat", "pfull", "phalf", "time"};
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int var_type[NUM_META_VARS] = {NC_DOUBLE, NC_DOUBLE, NC_DOUBLE, NC_DOUBLE,
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NC_FLOAT, NC_FLOAT, NC_DOUBLE};
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int varid[NUM_META_VARS];
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double value_time = 2.0;
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int dv;
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int res;
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/* Turn off fill mode. */
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if (nc_set_fill(ncid, NC_NOFILL, NULL)) ERR;
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/* Define dimension grid_xt. */
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if (nc_def_dim(ncid, dim_name[0], dim_len[0], &dimid[0])) ERR;
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/* Define dimension grid_yt. */
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if (nc_def_dim(ncid, dim_name[1], dim_len[1], &dimid[1])) ERR;
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/* Define variable grid_xt. */
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if (nc_def_var(ncid, var_name[0], var_type[0], 1, &dimid[0], &varid[0])) ERR;
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if (nc_var_par_access(ncid, varid[0], NC_INDEPENDENT)) ERR;
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/* Define variable lon. */
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if (nc_def_var(ncid, var_name[1], var_type[1], 2, dimid, &varid[1])) ERR;
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if (nc_var_par_access(ncid, varid[1], NC_INDEPENDENT));
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if (nc_put_att_text(ncid, varid[1], "long_name", strlen("T-cell longitude"), "T-cell longitude")) ERR;
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if (nc_put_att_text(ncid, varid[1], "units", strlen("degrees_E"), "degrees_E")) ERR;
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if (nc_put_att_text(ncid, varid[0], "cartesian_axis", strlen("X"), "X")) ERR;
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/* Define variable grid_yt. */
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if (nc_def_var(ncid, var_name[2], var_type[2], 1, &dimid[1], &varid[2])) ERR;
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if (nc_var_par_access(ncid, varid[2], NC_INDEPENDENT)) ERR;
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/* Define variable lat. */
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if (nc_def_var(ncid, var_name[3], var_type[3], 2, dimid, &varid[3])) ERR;
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if (nc_var_par_access(ncid, varid[3], NC_INDEPENDENT)) ERR;
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if (nc_put_att_text(ncid, varid[3], "long_name", strlen("T-cell latitude"), "T-cell latitude")) ERR;
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if (nc_put_att_text(ncid, varid[3], "units", strlen("degrees_N"), "degrees_N")) ERR;
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if (nc_put_att_text(ncid, varid[2], "cartesian_axis", strlen("Y"), "Y")) ERR;
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/* Define dimension pfull. */
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if (nc_def_dim(ncid, dim_name[2], dim_len[2], &dimid[2])) ERR;
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/* Define variable pfull and write data. */
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if (nc_def_var(ncid, var_name[4], var_type[4], 1, &dimid[2], &varid[4])) ERR;
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if (nc_var_par_access(ncid, varid[4], NC_INDEPENDENT)) ERR;
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if (nc_enddef(ncid)) ERR;
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if (nc_put_vara_float(ncid, varid[4], &data_start[1], &data_count[1], value_pfull_loc)) ERR;
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if (nc_redef(ncid)) ERR;
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/* Define dimension phalf. This dim is only used by the phalf coord var. */
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if (nc_def_dim(ncid, dim_name[3], dim_len[3], &dimid[3])) ERR;
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/* Define coord variable phalf and write data. */
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if (nc_def_var(ncid, var_name[5], var_type[5], 1, &dimid[3], &varid[5])) ERR;
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if (nc_var_par_access(ncid, varid[5], NC_INDEPENDENT)) ERR;
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if (nc_enddef(ncid)) ERR;
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if (nc_put_vara_float(ncid, varid[5], &phalf_start, &phalf_loc_size, value_phalf_loc)) ERR;
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if (nc_redef(ncid)) ERR;
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/* Define dimension time, the unlimited dimension. */
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/* if (nc_def_dim(ncid, dim_name[4], NC_UNLIMITED, &dimid[4])) ERR; */
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if (nc_def_dim(ncid, dim_name[4], 1, &dimid[4])) ERR;
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/* Define variable time and write data. */
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if (nc_def_var(ncid, var_name[6], var_type[6], 1, &dimid[4], &varid[6])) ERR;
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if (nc_var_par_access(ncid, varid[6], NC_INDEPENDENT)) ERR;
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if (nc_enddef(ncid)) ERR;
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/* In NOAA code, do all processors write the single time value? */
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if (my_rank == 0)
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if (nc_put_var_double(ncid, varid[6], &value_time)) ERR;;
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if (nc_redef(ncid)) ERR;
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/* Write variable grid_xt data. */
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if (nc_enddef(ncid)) ERR;
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if (nc_put_vara_double(ncid, varid[0], &grid_xt_start, &grid_xt_loc_size, value_grid_xt_loc)) ERR;
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if (nc_redef(ncid)) ERR;
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/* Write lon data. */
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if (nc_enddef(ncid)) ERR;
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if (nc_put_vara_double(ncid, varid[1], latlon_start, latlon_count, value_lon_loc)) ERR;
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if (nc_redef(ncid)) ERR;
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/* Write grid_yt data. */
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if (nc_enddef(ncid)) ERR;
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if (nc_put_vara_double(ncid, varid[2], &grid_yt_start, &grid_yt_loc_size, value_grid_yt_loc)) ERR;
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if (nc_redef(ncid)) ERR;
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/* Write lat data. */
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if (nc_enddef(ncid)) ERR;
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if (nc_put_vara_double(ncid, varid[3], latlon_start, latlon_count, value_lat_loc)) ERR;
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/* Specify dimensions for our data vars. */
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dimid_data[0] = dimid[4];
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dimid_data[1] = dimid[2];
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dimid_data[2] = dimid[1];
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dimid_data[3] = dimid[0];
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/* Define data variables. */
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for (dv = 0; dv < NUM_DATA_VARS; dv++)
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{
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char data_var_name[NC_MAX_NAME + 1];
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sprintf(data_var_name, "var_%d", dv);
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if (nc_redef(ncid)) ERR;
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if (nc_def_var(ncid, data_var_name, NC_FLOAT, NDIM4, dimid_data, &data_varid[dv])) ERR;
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/* Setting any filter only will work for HDF5-1.10.3 and later */
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/* versions. */
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if (!f)
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res = nc_def_var_deflate(ncid, data_varid[dv], s, 1, deflate);
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else
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{
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res = nc_def_var_deflate(ncid, data_varid[dv], s, 0, 0);
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if (!res)
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res = nc_def_var_szip(ncid, data_varid[dv], 32, 32);
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}
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#ifdef HDF5_SUPPORTS_PAR_FILTERS
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if (res) ERR;
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#else
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if (res != NC_EINVAL) ERR;
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#endif
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if (nc_var_par_access(ncid, data_varid[dv], NC_COLLECTIVE)) ERR;
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if (nc_enddef(ncid)) ERR;
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}
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if (nc_redef(ncid)) ERR;
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if (nc_put_att_text(ncid, varid[0], "long_name", strlen("T-cell longitude"), "T-cell longitude")) ERR;
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if (nc_put_att_text(ncid, varid[0], "units", strlen("degrees_E"), "degrees_E")) ERR;
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if (nc_put_att_text(ncid, varid[2], "long_name", strlen("T-cell latiitude"), "T-cell latiitude")) ERR;
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if (nc_put_att_text(ncid, varid[2], "units", strlen("degrees_N"), "degrees_N")) ERR;
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if (nc_enddef(ncid)) ERR;
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if (nc_redef(ncid)) ERR;
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for (dv = 0; dv < NUM_DATA_VARS; dv++)
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{
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float compress_err = 42.22;
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int nbits = 5;
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if (nc_put_att_float(ncid, data_varid[dv], "max_abs_compression_error", NC_FLOAT, 1, &compress_err)) ERR;
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if (nc_put_att_int(ncid, data_varid[dv], "nbits", NC_INT, 1, &nbits)) ERR;
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}
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if (nc_enddef(ncid)) ERR;
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return 0;
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}
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/* Based on the MPI rank and number of tasks, calculate the
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* decomposition of the 2D lat/lon coordinate variables. */
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int
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@ -436,7 +601,7 @@ main(int argc, char **argv)
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/* int deflate_level[NUM_DEFLATE_LEVELS] = {1, 4, 9}; */
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int deflate_level[NUM_DEFLATE_LEVELS] = {1};
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int f;
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int f, s, meta;
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int i, j, k, dv, dl;
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/* Initialize MPI. */
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@ -456,12 +621,14 @@ main(int argc, char **argv)
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&grid_yt_start, &grid_yt_size, &grid_xt, &grid_yt)) ERR;
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/* Decompose phalf and pfull. */
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if (decomp_p(my_rank, mpi_size, data_count, dim_len, &phalf_start, &phalf_size, &phalf,
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&pfull)) ERR;
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if (decomp_p(my_rank, mpi_size, data_count, dim_len, &phalf_start,
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&phalf_size, &phalf, &pfull)) ERR;
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/* Allocate space to hold the data. */
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if (!(value_data = malloc(data_count[3] * data_count[2] * data_count[1] * sizeof(float)))) ERR;
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if (!(value_data = malloc(data_count[3] * data_count[2] * data_count[1] *
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sizeof(float)))) ERR;
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/* Create some data. */
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for (k = 0; k < data_count[1]; k++)
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for (j = 0; j < data_count[2]; j++)
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for(i = 0; i < data_count[3]; i++)
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@ -470,11 +637,11 @@ main(int argc, char **argv)
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if (my_rank == 0)
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{
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printf("Benchmarking creation of UFS file.\n");
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printf("comp, level, shuffle, meta wr time (s), data wr time (s), "
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printf("meta, comp, level, shuffle, meta wr time (s), data wr time (s), "
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"file size\n");
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}
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for (meta = 0; meta < NUM_META_TRIES; meta++)
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{
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int s;
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for (f = 0; f < NUM_COMPRESSION_FILTERS; f++)
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{
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for (s = 0; s < NUM_SHUFFLE_SETTINGS; s++)
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@ -492,12 +659,24 @@ main(int argc, char **argv)
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if (nc_create_par(FILE_NAME, NC_NETCDF4, comm, info,
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&ncid)) ERR;
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if (write_meta(ncid, data_varid, s, f, deflate_level[dl],
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dim_len, phalf_size, phalf_start, phalf,
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data_start, data_count, pfull, grid_xt_start,
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grid_xt_size, grid_xt, grid_yt_start,
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grid_yt_size, grid_yt, latlon_start,
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latlon_count, lat, lon, my_rank)) ERR;
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if (meta)
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{
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if (write_meta2(ncid, data_varid, s, f, deflate_level[dl],
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dim_len, phalf_size, phalf_start, phalf,
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data_start, data_count, pfull, grid_xt_start,
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grid_xt_size, grid_xt, grid_yt_start,
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grid_yt_size, grid_yt, latlon_start,
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latlon_count, lat, lon, my_rank)) ERR;
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}
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else
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{
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if (write_meta(ncid, data_varid, s, f, deflate_level[dl],
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dim_len, phalf_size, phalf_start, phalf,
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data_start, data_count, pfull, grid_xt_start,
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grid_xt_size, grid_xt, grid_yt_start,
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grid_yt_size, grid_yt, latlon_start,
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latlon_count, lat, lon, my_rank)) ERR;
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}
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/* Stop the timer for metadata writes. */
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MPI_Barrier(MPI_COMM_WORLD);
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@ -507,18 +686,9 @@ main(int argc, char **argv)
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/* Write one record each of the data variables. */
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for (dv = 0; dv < NUM_DATA_VARS; dv++)
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{
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int r;
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if ((r = nc_put_vara_float(ncid, data_varid[dv],
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data_start, data_count, value_data)))
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{
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printf("%d: r %d f %d s %d dl %d\n", my_rank, r, f, s, dl);
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printf("%d: data_start %ld %ld %ld %ld data_count %ld %ld %ld %ld\n",
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my_rank, data_start[0], data_start[1],
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data_start[2], data_start[3], data_count[0],
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data_count[1], data_count[2], data_count[3]);
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ERR;
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}
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if (nc_redef(ncid)) ERR;
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if (nc_put_vara_float(ncid, data_varid[dv], data_start,
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data_count, value_data)) ERR;
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if (nc_redef(ncid)) ERR;
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}
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/* Close the file. */
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@ -533,28 +703,28 @@ main(int argc, char **argv)
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/* Print out results. */
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if (my_rank == 0)
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printf("%s, %d, %d, %g, %g, %ld\n", (f ? "szip" : "zlib"),
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printf("%d, %s, %d, %d, %g, %g, %ld\n", meta, (f ? "szip" : "zlib"),
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deflate_level[dl], s, meta_stop_time - meta_start_time,
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data_stop_time - data_start_time, file_size);
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} /* next deflate level */
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} /* next shuffle filter test */
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} /* next compression filter (zlib and szip) */
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} /* next ed */
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/* Free resources. */
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if (grid_xt)
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free(grid_xt);
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if (grid_yt)
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free(grid_yt);
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if (pfull)
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free(pfull);
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if (phalf)
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free(phalf);
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if (lon)
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free(lon);
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if (lat)
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free(lat);
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free(value_data);
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}
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/* Free resources. */
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if (grid_xt)
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free(grid_xt);
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if (grid_yt)
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free(grid_yt);
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if (pfull)
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free(pfull);
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if (phalf)
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free(phalf);
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if (lon)
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free(lon);
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if (lat)
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free(lat);
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free(value_data);
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if (!my_rank)
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SUMMARIZE_ERR;
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