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/*****************************************************************************
This test generates attributes, groups, and datasets of many types. It
creates a large number of attributes, groups, and datasets by specifying
-a, -g, -d options respectively. Using "-h" option to see details.
Programmer: Peter Cao <xcao@hdfgroup.org>, Jan. 2013
****************************************************************************/
#include "hdf5.h"
#include <stdio.h>
#include <stdlib.h>
#define FNAME "test_perf.h5"
#define NGROUPS 20
#define NDSETS 20
#define NATTRS 20
#define NROWS 40
#define NTYPES 9
#define MAXVLEN 10
#define FIXED_LEN 8
typedef enum { SOLID=0, LIQUID, GAS, PLASMA } phase_t;
typedef struct {
int i;
unsigned long long l;
float f;
double d;
char s[FIXED_LEN];
phase_t e;
float f_array[FIXED_LEN];
hvl_t i_vlen;
char *s_vlen;
} test_comp_t;
typedef struct {
int zipcode;
char *city;
} zipcode_t;
void add_attrs(hid_t oid, int idx);
void add_attr(hid_t oid, const char *name, hid_t tid, hid_t sid, void *buf) ;
int main (int argc, char *argv[])
{
char fname[32];
int i, ngrps=NGROUPS, ndsets=NDSETS, nattrs=NATTRS, nrows=NROWS,
chunk=NROWS/10+1, vlen=MAXVLEN, l=0, z=0;
memset(fname, 0, 32);
for (i=1; i<argc; i++) {
if (strcmp(argv[i], "-f")==0)
strcpy(fname, argv[i+1]);
else if (strcmp(argv[i], "-g")==0)
ngrps = atoi(argv[i+1]);
else if (strcmp(argv[i], "-d")==0)
ndsets = atoi(argv[i+1]);
else if (strcmp(argv[i], "-a")==0)
nattrs = atoi(argv[i+1]);
else if (strcmp(argv[i], "-r")==0)
nrows = atoi(argv[i+1]);
else if (strcmp(argv[i], "-c")==0)
chunk = atoi(argv[i+1]);
else if (strcmp(argv[i], "-v")==0)
vlen = atoi(argv[i+1]);
else if (strcmp(argv[i], "-l")==0)
l = 1;
else if (strcmp(argv[i], "-z")==0)
z = 1;
else if (strcmp(argv[i], "-h")==0) {
printf("\nOPTONS:\n");
printf("\t-f F:\tname of the test file (default: %s).\n", FNAME);
printf("\t-g N:\tnumber of top level groups (default: %d).\n", NGROUPS);
printf("\t-d N:\tnumber of datasets (default: %d).\n", NDSETS);
printf("\t-a N:\tnumber of attributes (default: %d).\n", NATTRS);
printf("\t-r N:\tnumber of rows in a dataset (default: %d).\n", NROWS);
printf("\t-c N:\tchunk size (default: %d).\n", (NROWS/10+1));
printf("\t-v N:\tmax vlen size (default: %d).\n", MAXVLEN);
printf("\t-l:\tuse latest format (default: no).\n");
printf("\t-z:\tuse gzip comnpression (default: no).\n");
printf("\t-h:\tthis help information.\n");
printf("Example:\n");
printf("\t./a.out -f test.h5 -g 10000 -d 5000 -a 500 -r 400 -c 20 -v 40 -l -z\n\n");
exit(0);
}
}
if (ngrps<NGROUPS) ngrps=NGROUPS;
if (ndsets<NDSETS) ndsets=NDSETS;
if (nattrs<NATTRS) nattrs=NATTRS;
if (nrows<NROWS) nrows=NROWS;
if (chunk>nrows) chunk=nrows/4;
if (chunk<1) chunk = 1;
if (vlen<1) vlen = MAXVLEN;
if (strlen(fname)<=0)
sprintf(fname, FNAME);
create_perf_test_file(fname, ngrps, ndsets, nattrs, nrows, (hsize_t)chunk, vlen, z, l);
return 0;
}
/*****************************************************************************
This function generates attributes, groups, and datasets of many types.
Parameters:
fname: file_name.
ngrps: number of top level groups.
ndsets: number of datasets.
attrs: number of attributes.
nrow: number of rows in a dataset.
chunk: chunk size (single number).
vlen: max vlen size.
comp: use latest format.
latest: use gzip comnpression.
Return: Non-negative on success/Negative on failure
Programmer: Peter Cao <xcao@hdfgroup.org>, Jan. 2013
****************************************************************************/
herr_t create_perf_test_file(const char *fname, int ngrps, int ndsets, int nattrs,
int nrows, hsize_t chunk, int vlen, int compressed, int latest)
{
int i, j, k;
hid_t fid, sid_null, sid_1d, sid_2d, did, aid, sid_2, fapl=H5P_DEFAULT, dcpl=H5P_DEFAULT,
gid1, gid2, cmp_tid, tid_str, tid_enum, tid_array_f, tid_vlen_i,
tid_vlen_s;
char name[32];
hsize_t dims[1]={nrows}, dims2d[2]={nrows, (nrows/4+1)}, dims_array[1]={FIXED_LEN},
dim1[1]={2};
char *enum_names[4] = {"SOLID", "LIQUID", "GAS", "PLASMA"};
test_comp_t *buf_comp=NULL;
int *buf_int=NULL;
float (*buf_float_a)[FIXED_LEN]=NULL;
double **buf_double2d=NULL;
hvl_t *buf_vlen_i=NULL;
char (*buf_str)[FIXED_LEN];
char **buf_vlen_s=NULL;
hobj_ref_t buf_ref[2];
hdset_reg_ref_t buf_reg_ref[2];
size_t offset;
herr_t status;
char *names[NTYPES] = { "int", "ulong", "float", "double", "fixed string",
"enum", "fixed float array", "vlen int array", "vlen strings"};
hid_t types[NTYPES] = { H5T_NATIVE_INT, H5T_NATIVE_UINT64, H5T_NATIVE_FLOAT,
H5T_NATIVE_DOUBLE, tid_str, tid_enum, tid_array_f, tid_vlen_i, tid_vlen_s};
hsize_t coords[4][2] = { {0, 1}, {3, 5}, {1, 0}, {2, 4}}, start=0, stride=1, count=1;
/* create fixed string datatype */
types[4] = tid_str = H5Tcopy (H5T_C_S1);
H5Tset_size (tid_str, FIXED_LEN);
/* create enum datatype */
types[5] = tid_enum = H5Tenum_create(H5T_NATIVE_INT);
for (i = (int) SOLID; i <= (int) PLASMA; i++) {
phase_t val = (phase_t) i;
status = H5Tenum_insert (tid_enum, enum_names[i], &val);
}
/* create float array datatype */
types[6] = tid_array_f = H5Tarray_create (H5T_NATIVE_FLOAT, 1, dims_array);
/* create variable length integer datatypes */
types[7] = tid_vlen_i = H5Tvlen_create (H5T_NATIVE_INT);
/* create variable length string datatype */
types[8] = tid_vlen_s = H5Tcopy (H5T_C_S1);
H5Tset_size (tid_vlen_s, H5T_VARIABLE);
/* create compound datatypes */
cmp_tid = H5Tcreate (H5T_COMPOUND, sizeof (test_comp_t));
offset = 0;
for (i=0; i<NTYPES-2; i++) {
H5Tinsert(cmp_tid, names[i], offset, types[i]);
offset += H5Tget_size(types[i]);
}
H5Tinsert(cmp_tid, names[7], offset, types[7]);
offset += sizeof (hvl_t);
H5Tinsert(cmp_tid, names[8], offset, types[8]);
/* create dataspace */
sid_1d = H5Screate_simple (1, dims, NULL);
sid_2d = H5Screate_simple (2, dims2d, NULL);
sid_2 = H5Screate_simple (1, dim1, NULL);
sid_null = H5Screate (H5S_NULL);
/* create fid access property */
fapl = H5Pcreate (H5P_FILE_ACCESS);
H5Pset_libver_bounds (fapl, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST);
/* create dataset creation property */
dcpl = H5Pcreate (H5P_DATASET_CREATE);
/* set dataset chunk */
if (chunk>0) {
H5Pset_chunk (dcpl, 1, &chunk);
}
/* set dataset compression */
if (compressed) {
if (chunk<=0) {
chunk = nrows/10+1;;
H5Pset_chunk (dcpl, 1, &chunk);
}
H5Pset_shuffle (dcpl);
H5Pset_deflate (dcpl, 6);
}
/* allocate buffers */
buf_comp = (test_comp_t *)calloc(nrows, sizeof(test_comp_t));
buf_int = (int *)calloc(nrows, sizeof(int));
buf_float_a = malloc(nrows*sizeof(*buf_float_a));
buf_vlen_i = (hvl_t *)calloc(nrows, sizeof (hvl_t));
buf_vlen_s = (char **)calloc(nrows, sizeof(char *));
buf_str = malloc(nrows*sizeof (*buf_str));
/* allocate array of doulbe pointers */
buf_double2d = (double **)calloc(dims2d[0],sizeof(double *));
/* allocate a contigous chunk of memory for the data */
buf_double2d[0] = (double *)calloc( dims2d[0]*dims2d[1],sizeof(double) );
/* assign memory city to pointer array */
for (i=1; i <dims2d[0]; i++) buf_double2d[i] = buf_double2d[0]+i*dims2d[1];
/* fill buffer values */
for (i=0; i<dims[0]; i++) {
buf_comp[i].i = buf_int[i] = i-2147483648;
buf_comp[i].l = 0xffffffffffffffff-i;
buf_comp[i].f = 1.0/(i+1.0);
buf_comp[i].d = 987654321.0*i+1.0/(i+1.0);
buf_comp[i].e = (phase_t) (i % (int) (PLASMA + 1));
for (j=0; j<FIXED_LEN; j++) {
buf_comp[i].f_array[j] = buf_float_a[i][j] = i*100+j;
buf_str[i][j] = 'a' + (i%26);
}
buf_str[i][FIXED_LEN-1] = 0;
strcpy(buf_comp[i].s, buf_str[i]);
buf_vlen_i[i].len = i%vlen+1;
buf_vlen_i[i].p = (int *)calloc(buf_vlen_i[i].len, sizeof(int));
for (j=0; j<buf_vlen_i[i].len; j++)
((int*)(buf_vlen_i[i].p))[j] = i*100+j;
buf_comp[i].i_vlen = buf_vlen_i[i];
buf_vlen_s[i] = (char *)calloc(i+2, sizeof(char));
for (j=0; j<i+1; j++)
buf_vlen_s[i][j] = j%26+'A';
buf_comp[i].s_vlen = buf_vlen_s[i];
for (j=0; j<dims2d[1]; j++)
buf_double2d[i][j] = i+j/10000.0;
}
/* create file */
if (latest)
fid = H5Fcreate (fname, H5F_ACC_TRUNC, H5P_DEFAULT, fapl);
else
fid = H5Fcreate (fname, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT);
add_attrs(fid, 0);
/* add attributes*/
gid1 = H5Gcreate (fid, "attributes", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
nattrs = nattrs/6;
if (nattrs<1) nattrs = 1;
for (i=0; i<nattrs; i++)
add_attrs(gid1, i);
H5Gclose(gid1);
/* add many sub groups to a group*/
gid1 = H5Gcreate (fid, "groups", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
add_attrs(gid1, 0);
for (i=0; i<ngrps; i++) {
/* create sub groups */
sprintf(name, "g%02d", i);
gid2 = H5Gcreate (gid1, name, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
if (!i) add_attrs(gid2, 0);
H5Gclose(gid2);
}
H5Gclose(gid1);
/* add many datasets to a group */
gid1 = H5Gcreate (fid, "datasets", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
add_attrs(gid1, 0);
ndsets = ndsets/10;
if (ndsets<1) ndsets = 1;
for (j=0; j<ndsets; j++) {
/* 1 add a null dataset */
sprintf(name, "%05d null dataset", j);
did = H5Dcreate (gid1, name, H5T_STD_I32LE, sid_null, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
if (!j) add_attrs(did, j);
H5Dclose(did);
/* 2 add fixed-length float array */
sprintf(name, "%05d fixed-length float array", j);
did = H5Dcreate (gid1, name, tid_array_f, sid_1d, H5P_DEFAULT, dcpl, H5P_DEFAULT);
H5Dwrite (did, tid_array_f, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_float_a);
if (!j) add_attrs(did, j);
H5Dclose(did);
/* 3 add fixed-length strings */
sprintf(name, "%05d fixed-length strings", j);
did = H5Dcreate (gid1, name, tid_str, sid_1d, H5P_DEFAULT, dcpl, H5P_DEFAULT);
H5Dwrite (did, tid_str, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_str);
if (!j) add_attrs(did, j);
H5Dclose(did);
/* 4 add compound data */
sprintf(name, "%05d compund data", j);
did = H5Dcreate (gid1, name, cmp_tid, sid_1d, H5P_DEFAULT, dcpl, H5P_DEFAULT);
H5Dwrite (did, cmp_tid, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_comp);
if (!j) add_attrs(did, j);
H5Dclose(did);
/* 5 add 2D double */
sprintf(name, "%05d 2D double", j);
did = H5Dcreate (gid1, name, H5T_NATIVE_DOUBLE, sid_2d, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
H5Dwrite (did, H5T_NATIVE_DOUBLE, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_double2d[0]);
if (!j) add_attrs(did, j);
H5Dclose(did);
/* 6 add 1D int array */
sprintf(name, "%05d 1D int array", j);
did = H5Dcreate (gid1, name, H5T_NATIVE_INT, sid_1d, H5P_DEFAULT, dcpl, H5P_DEFAULT);
H5Dwrite (did, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_int);
if (!j) add_attrs(did, j);
H5Dclose(did);
/* 7 add vlen int array */
sprintf(name, "%05d vlen int array", j);
did = H5Dcreate (gid1, name, tid_vlen_i, sid_1d, H5P_DEFAULT, dcpl, H5P_DEFAULT);
H5Dwrite (did, tid_vlen_i, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_vlen_i);
H5Dclose(did);
/* 8 add vlen strings */
sprintf(name, "%05d vlen strings", j);
did = H5Dcreate (gid1, name, tid_vlen_s, sid_1d, H5P_DEFAULT, dcpl, H5P_DEFAULT);
H5Dwrite (did, tid_vlen_s, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_vlen_s);
if (!j) add_attrs(did, j);
H5Dclose(did);
/* 9 add object refs */
H5Rcreate(&buf_ref[0],gid1, ".", H5R_OBJECT, -1);
H5Rcreate(&buf_ref[1],gid1, name, H5R_OBJECT, -1);
sprintf(name, "%05d obj refs", j);
did = H5Dcreate (gid1, name, H5T_STD_REF_OBJ, sid_2, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
H5Dwrite (did, H5T_STD_REF_OBJ, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_ref);
if (!j) add_attrs(did, j);
H5Dclose(did);
/* 10 add region refs */
sprintf(name, "%05d 2D double", j);
H5Sselect_elements (sid_2d, H5S_SELECT_SET, 4, coords[0]);
H5Rcreate(&buf_reg_ref[0],gid1, name, H5R_DATASET_REGION, sid_2d);
H5Sselect_none(sid_2d);
sprintf(name, "%05d vlen int array", j);
count = dims[0]/2+1;
H5Sselect_hyperslab (sid_1d, H5S_SELECT_SET, &start, &stride, &count,NULL);
H5Rcreate(&buf_reg_ref[1],gid1, name, H5R_DATASET_REGION, sid_1d);
H5Sselect_none(sid_1d);
sprintf(name, "%05d region refs", j);
did = H5Dcreate (gid1, name, H5T_STD_REF_DSETREG, sid_2, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
H5Dwrite (did, H5T_STD_REF_DSETREG, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf_reg_ref);
if (!j) add_attrs(did, j);
H5Dclose(did);
}
H5Gclose(gid1);
H5Tclose (tid_array_f);
H5Tclose (tid_vlen_i);
H5Tclose (tid_vlen_s);
H5Tclose (tid_enum);
H5Tclose (tid_str);
H5Tclose (cmp_tid);
H5Pclose (dcpl);
H5Pclose (fapl);
H5Sclose (sid_1d);
H5Sclose (sid_2d);
H5Sclose (sid_2);
H5Sclose (sid_null);
H5Fclose (fid);
for (i=0; i<dims[0]; i++) {
free(buf_vlen_i[i].p);
free(buf_vlen_s[i]);
}
free (buf_comp);
free (buf_int);
free (buf_float_a);
free (buf_double2d[0]);
free (buf_double2d);
free (buf_str);
free(buf_vlen_i);
free(buf_vlen_s);
return 0;
}
/* add a single attribute */
void add_attr(hid_t oid, const char *name, hid_t tid, hid_t sid, void *buf)
{
hid_t aid;
aid = H5Acreate (oid, name, tid, sid, H5P_DEFAULT, H5P_DEFAULT);
H5Awrite(aid, tid, buf);
H5Aclose(aid);
}
/* add different types of attributes */
void add_attrs(hid_t oid, int idx)
{
char name[32];
int i0, i1, i2, j;
hid_t aid, tid, tid1, sid;
hvl_t i_vlen[4];
hobj_ref_t ref;
zipcode_t cmp_data[4];
unsigned int i = 0xffffffff;
long long l = -2147483647;
float f = 123456789.987654321;
double d = 987654321.123456789;
char *s[7] = {"Parting", "is such", "sweeter", "sorrow."};
float f_array[4] = {1.0, 2.22, 3.333, 4.444};
char *s_vlen[4] = {"Parting", "is such", "sweet", "sorrow."};
hsize_t dims1[1]={1}, dims2[1]={4}, dims3[2]={3,5};
int int3d[4][3][5];
size_t offset = 0;
for (i0=0; i0<4; i0++) {
i_vlen[i0].len = (i0+1);
i_vlen[i0].p = (int *)calloc(i_vlen[i0].len, sizeof(int));
for (j=0; j<i_vlen[i0].len; j++)
((int *)i_vlen[i0].p)[j] = i0*100+j;
for (i1=0; i1<3; i1++) {
for (i2=0; i2<5; i2++)
int3d[i0][i1][i2] = i0*i1-i1*i2+i0*i2;
}
}
cmp_data[0].zipcode = 01001;
cmp_data[0].city = "Agawam, Massachusetts";
cmp_data[1].zipcode = 99950;
cmp_data[1].city = "Ketchikan, Alaska";
cmp_data[2].zipcode = 00501;
cmp_data[2].city = "Holtsville, New York";
cmp_data[3].zipcode = 61820;
cmp_data[3].city = "Champaign, Illinois";
/* 1 scalar point */
sid = H5Screate (H5S_SCALAR);
tid = H5Tcopy (H5T_C_S1);
H5Tset_size (tid, strlen(s[0])+1);
sprintf(name, "%05d scalar int", idx);
add_attr(oid, name, H5T_NATIVE_UINT, sid, &i);
sprintf(name, "%05d scalar ulong", idx);
add_attr(oid, name, H5T_NATIVE_INT64, sid, &l);
sprintf(name, "%05d scalar str", idx);
add_attr(oid, name, tid, sid, s[0]);
H5Tclose(tid);
H5Sclose(sid);
/* 2 single point */
sid = H5Screate_simple (1, dims1, NULL);
H5Rcreate(&ref, oid, ".", H5R_OBJECT, -1);
sprintf(name, "%05d single float", idx);
add_attr(oid, name, H5T_NATIVE_FLOAT, sid, &f);
sprintf(name, "%05d single double", idx);
add_attr(oid, name, H5T_NATIVE_DOUBLE, sid, &d);
sprintf(name, "%05d single obj_ref", idx);
add_attr(oid, name, H5T_STD_REF_OBJ, sid, &ref);
H5Sclose(sid);
/* 3 fixed length 1D array */
sid = H5Screate_simple (1, dims1, NULL);
tid = H5Tarray_create (H5T_NATIVE_FLOAT, 1, dims2);
sprintf(name, "%05d array float", idx);
add_attr(oid, name, tid, sid, &f_array[0]);
H5Tclose(tid);
tid = H5Tcopy (H5T_C_S1);
H5Tset_size (tid, strlen(s[0])+1);
tid1 = H5Tarray_create (tid, 1, dims2);
sprintf(name, "%05d array str", idx);
add_attr(oid, name, tid1, sid, s);
H5Tclose(tid1);
H5Tclose(tid);
H5Sclose(sid);
/* 4 fixed length 2D int arrays */
sid = H5Screate_simple (1, dims2, NULL);
tid = H5Tarray_create (H5T_NATIVE_INT, 2, dims3);
sprintf(name, "%05d array int 2D", idx);
add_attr(oid, name, tid, sid, int3d[0][0]);
H5Tclose(tid);
H5Sclose(sid);
/* 5 variable length arrays */
sid = H5Screate_simple (1, dims2, NULL);
tid = H5Tcopy (H5T_C_S1);
H5Tset_size (tid, H5T_VARIABLE);
sprintf(name, "%05d vlen strings", idx);
add_attr(oid, name, tid, sid, s_vlen);
H5Tclose(tid);
tid = H5Tvlen_create (H5T_NATIVE_INT);;
sprintf(name, "%05d vlen int array", idx);
add_attr(oid, name, tid, sid, i_vlen);
H5Tclose(tid);
H5Sclose(sid);
/* 6 compound data */
sid = H5Screate_simple (1, dims2, NULL);
tid = H5Tcreate (H5T_COMPOUND, sizeof (zipcode_t));
tid1 = H5Tcopy (H5T_C_S1);
H5Tset_size (tid1, H5T_VARIABLE);
H5Tinsert (tid, "zip code", 0, H5T_NATIVE_INT); offset += sizeof(H5T_NATIVE_INT);
H5Tinsert (tid, "City", offset, tid1); offset += sizeof(char *);
sprintf(name, "%05d compound data", idx);
add_attr(oid, name, tid, sid, cmp_data);
H5Tclose(tid1);
H5Tclose(tid);
H5Sclose(sid);
for (i0=0; i0<4; i0++)
free(i_vlen[i0].p);
}
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