1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
|
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
* Copyright by the Board of Trustees of the University of Illinois. *
* All rights reserved. *
* *
* This file is part of HDF5. The full HDF5 copyright notice, including *
* terms governing use, modification, and redistribution, is contained in *
* the files COPYING and Copyright.html. COPYING can be found at the root *
* of the source code distribution tree; Copyright.html can be found at the *
* root level of an installed copy of the electronic HDF5 document set and *
* is linked from the top-level documents page. It can also be found at *
* http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html. If you do not have *
* access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
/*
* Programmer: Raymond Lu <slu@ncsa.uiuc.edu>
* April 14, 2000
*
* Purpose: Test HDF-SRB if it is configured and compiled. Read a chunk of
* dataset of an HDF5 file with an integer array on SRB server,
* using hyperslab.
* Usage: The HDF5 is built on the top of SRB. So you just need to
* activate a connection to SRB server by calling function
* H5Pset_fapl_srb()(after creating file property list by calling
* H5Pcreate()). All server information is passed in through its
* parameter SRB_Info(a structure). Its fields are
* char *srbHost: SRB host address of server. If the input is
* NULL, it will use the environment varible "srbHost" if
* it is defined. If it is not defined, the
* ~/.srb/.MdasEnd file will be checked next. If not, it
* will use the hostname of the client machine.
* char *srbPort: SRB host port number of server. If the
* input value is NULL, it will use the env variable
* "srbPort" if it is defined. If not, it defaults to
* 5558.
* char *srbAuth: SRB Authentication-password. It is used to
* define password for MDAS or SEA authentication.
* For SEA authentication, this is the password used by
* the SEA library to decrypt the encrypted private key
* stored in the file ~/.SEAuuuuu@ddddd(where uuuuu is
* the user ID and ddddd is the user domain name). This
* input is not needed if an unencrypted private key is
* available in the /tmp directory(generated using the
* 'seaauth auto' command). To provide additional
* flexibility, a client may also use the environment
* variable "srbAuth" to specify the password. A client
* may also supply the password in the ~/.srb/.MdasAuth
* file. If a client uses more than one method to specfy
* the password, the value given in this function call
* will take precedent, then the environment variable
* "srbAuth", and lastly, the ~/.srb/.MdasAuth file.
* int storSysType: Storage system type on SRB server.
* 0=Unix, 1=UniTree, 2=HPSS, 3=FTP, 4=HTTP
* int mode: File access mode, same definition with Unix.
* int size: File Size, only valid for HPSS, -1 is default
*
* Then you can open an HDF5 file by calling H5Fopen(). When
* you pass in the file name, it has to be file name with an
* absolute path. It you use SDSC server(ghidorah.sdsc.edu), your
* home directory is possibly in /projects/mdas/srb/SRBVault/.
*/
#include "h5test.h"
#ifndef H5_HAVE_SRB
int main(void)
{
printf("Test skipped because SRB driver not available\n");
return 0;
}
#else
#define fileName "/projects/mdas/srb/SRBVault/slu.ncsa/a.h5"
#define DATASETNAME "IntArray"
#define NX_SUB 3 /* hyperslab dimensions */
#define NY_SUB 4
#define NX 7 /* output buffer dimensions */
#define NY 7
#define NZ 3
#define RANK 2
#define RANK_OUT 3
int main(void)
{
hid_t fapl=-1, fid = -1, dataset;
hid_t datatype, dataspace;
hid_t memspace;
H5T_class_t class; /* data type class */
H5T_order_t order; /* data order */
size_t size; /*
* size of the data element
* stored in file
*/
hsize_t dimsm[3]; /* memory space dimensions */
hsize_t dims_out[2]; /* dataset dimensions */
herr_t status;
int data_out[NX][NY][NZ ]; /* output buffer */
hsize_t count[2]; /* size of the hyperslab in the file */
hssize_t offset[2]; /* hyperslab offset in the file */
hsize_t count_out[3]; /* size of the hyperslab in memory */
hssize_t offset_out[3]; /* hyperslab offset in memory */
int i, j, k, status_n, rank;
SRB_Info srb_info={ NULL, /* Use host name in ~/.srb/.MdasEnv */
NULL, /* Use environment variable "srbPort" */
NULL, /* Use password in ~/.srb/.MdasEnv */
0, /* Use Unix storage system. */
0600, /* File was created for read and write for
* owner */
-1 /* default */
};
for (j = 0; j < NX; j++) {
for (i = 0; i < NY; i++) {
for (k = 0; k < NZ ; k++)
data_out[j][i][k] = 0;
}
}
fapl = H5Pcreate(H5P_FILE_ACCESS);
if (fapl < 0) {
printf (" H5Pcreate failed. \n");
return -1;
}
status = H5Pset_fapl_srb(fapl, srb_info);
if (status < 0) {
printf ("H5Pset_fapl_srb failed. \n");
return -1;
}
fid = H5Fopen(fileName, H5F_ACC_RDONLY, fapl);
if (fid < 0) {
printf ("H5Fopen failed. \n");
return -1;
}
dataset = H5Dopen(fid, DATASETNAME);
if(dataset<0) {
printf ("H5Dopen failed. \n");
return -1;
}
/*
* Get datatype and dataspace handles and then query
* dataset class, order, size, rank and dimensions.
*/
datatype = H5Dget_type(dataset); /* datatype handle */
class = H5Tget_class(datatype);
if (class == H5T_INTEGER) printf("Data set has INTEGER type \n");
order = H5Tget_order(datatype);
if (order == H5T_ORDER_LE) printf("Little endian order \n");
size = H5Tget_size(datatype);
printf(" Data size is %d \n", size);
dataspace = H5Dget_space(dataset); /* dataspace handle */
rank = H5Sget_simple_extent_ndims(dataspace);
status_n = H5Sget_simple_extent_dims(dataspace, dims_out, NULL);
printf("rank %d, dimensions %lu x %lu \n", rank,
(unsigned long)(dims_out[0]), (unsigned long)(dims_out[1]));
/*
* Define hyperslab in the dataset.
*/
offset[0] = 1;
offset[1] = 2;
count[0] = NX_SUB;
count[1] = NY_SUB;
status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, offset, NULL,
count, NULL);
/*
* Define the memory dataspace.
*/
dimsm[0] = NX;
dimsm[1] = NY;
dimsm[2] = NZ ;
memspace = H5Screate_simple(RANK_OUT,dimsm,NULL);
/*
* Define memory hyperslab.
*/
offset_out[0] = 3;
offset_out[1] = 0;
offset_out[2] = 0;
count_out[0] = NX_SUB;
count_out[1] = NY_SUB;
count_out[2] = 1;
status = H5Sselect_hyperslab(memspace, H5S_SELECT_SET, offset_out, NULL,
count_out, NULL);
/*
* Read data from hyperslab in the file into the hyperslab in
* memory and display.
*/
status = H5Dread(dataset, H5T_NATIVE_INT, memspace, dataspace,
H5P_DEFAULT, data_out);
for (j = 0; j < NX; j++) {
for (i = 0; i < NY; i++) printf("%d ", data_out[j][i][0]);
printf("\n");
}
/*
* 0 0 0 0 0 0 0
* 0 0 0 0 0 0 0
* 0 0 0 0 0 0 0
* 3 4 5 6 0 0 0
* 4 5 6 7 0 0 0
* 5 6 7 8 0 0 0
* 0 0 0 0 0 0 0
*/
/*
* Close/release resources.
*/
H5Tclose(datatype);
H5Dclose(dataset);
H5Sclose(dataspace);
H5Sclose(memspace);
H5Fclose(fid);
H5Pclose(fapl);
printf("Test finished!\n");
return 0;
}
#endif
|
