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
|
/*
* ADIOS is freely available under the terms of the BSD license described
* in the COPYING file in the top level directory of this source distribution.
*
* Copyright (c) 2008 - 2009. UT-BATTELLE, LLC. All rights reserved.
*/
/* ADIOS C Example: write variables along with an unstructured mesh.
*/
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#ifndef __APPLE__
#include <malloc.h>
#endif
#include <unistd.h>
#include <fcntl.h>
#include <errno.h>
#include "mpi.h"
#include "adios.h"
//will work with 12 cores, which are arranged by npx=4, npy=3 (4x3)
char npx_str[256]; // # of procs in x dim (string value)
char npy_str[256]; // # of procs in y dim (string value)
int npx; // # of procs in x direction
int npy; // # of procs in y direction
int nproc; // # of total procs
void printUsage(char *prgname)
{
printf("Usage: mpirun -np <N> %s <nx> <ny>\n"
" <nx> <ny> 2D decomposition values in each dimension of an 2D array\n"
" The product of these number must be equal the number of processes\n"
" e.g. for N=12 you may use 4 3\n"
,prgname);
}
int processArgs(int argc, char ** argv)
{
if (argc < 3) {
printUsage (argv[0]);
return 1;
}
strncpy(npx_str, argv[1], sizeof(npx_str));
strncpy(npy_str, argv[2], sizeof(npy_str));
npx = atoi(npx_str);
npy = atoi(npy_str);
if (npx*npy != nproc) {
printf ("ERROR: Product of decomposition numbers in X and Y dimension %d != number of processes %d\n", npx*npy, nproc);
printUsage(argv[0]);
return 1;
}
return 0;
}
int main (int argc, char ** argv )
{
MPI_Comm comm = MPI_COMM_WORLD;
int rank;
int ndx, ndy; // size of array per processor
double *data;
double *X; //X coordinate
double *Y; //Y coordinate
// Offsets and sizes
int offs_x, offs_y; //offset in x and y direction
int nx_local, ny_local; //local address
int nx_global, ny_global; //global address
int posx, posy; // position index in the array
int i,j;
/* ADIOS variables declarations for matching gwrite_temperature.ch */
uint64_t adios_groupsize, adios_totalsize;
int64_t adios_handle;
MPI_Init (&argc, &argv);
MPI_Comm_rank (comm, &rank);
MPI_Comm_size (comm, &nproc);
if (processArgs(argc, argv)) {
return 1;
}
//will work with each core writing ndx = 65, ndy = 129, (65*3,129*4) global
ndx = 65;
ndy = 129;
//2D array with block,block decomposition
posx = rank%npx; // 1st dim
posy = rank/npx; // 2nd dim
offs_x = posx * ndx;
offs_y = posy * ndy;
nx_local = ndx;
ny_local = ndy;
nx_global = npx * ndx;
ny_global = npy * ndy;
data = malloc (ndx * ndy * sizeof(double));
for( i = 0; i < ndx; i++ )
for( j = 0; j < ndy; j++)
data[i*ndy + j] = 1.0*rank;
X = malloc (ndx * ndy * sizeof(double));
for( i = 0; i < ndx; i++ )
for( j = 0; j < ndy; j++)
X[i*ndy + j] = offs_x + posy*ndx + i*ndx/ndx + (double)ndx*j/ndy;
Y = malloc (ndx * ndy * sizeof(double));
Y[0] = offs_y;
for( i = 0; i < ndx; i++ )
for( j = 0; j < ndy; j++)
Y[i*ndy + j] = offs_y + ndy*j/ndy;
adios_init ("structured2d.xml", comm);
adios_open (&adios_handle, "structured2d", "structured2d.bp", "w", comm);
adios_groupsize = 7*sizeof(int) \
+ 3 * sizeof(double) * (nx_local*ny_local);
adios_group_size (adios_handle, adios_groupsize, &adios_totalsize);
adios_write (adios_handle, "nproc", &nproc);
adios_write (adios_handle, "nx_global", &nx_global);
adios_write (adios_handle, "ny_global", &ny_global);
adios_write (adios_handle, "offs_x", &offs_x);
adios_write (adios_handle, "offs_y", &offs_y);
adios_write (adios_handle, "nx_local", &nx_local);
adios_write (adios_handle, "ny_local", &ny_local);
adios_write (adios_handle, "X", X);
adios_write (adios_handle, "Y", Y);
adios_write (adios_handle, "data", data);
adios_close (adios_handle);
MPI_Barrier (comm);
free (data);
free (X);
free (Y);
adios_finalize (rank);
MPI_Finalize ();
return 0;
}
|
