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
|
/*
* Aggregate the collected influenza data into a single HDF5
* container.
*/
#include "error/check_h5_error.h"
#include "load/load_blast_scores.h"
#include "load/load_influenza_aa_dat.h"
#include "load/load_influenza_faa.h"
#include <stdio.h>
#define BLASTFILE "run20090807.del"
#define H5FILE "influenza.h5"
#define INFLUENZA_AA_DAT "/u/ac/dpellegr/Documents/exp004/genomes/INFLUENZA/influenza_aa.dat"
#define INFLUENZA_FAA "/u/ac/dpellegr/Documents/exp004/genomes/INFLUENZA/influenza.faa"
int
main ()
{
/*
* Create a new HDF5 file if it does not already exist. If an
* existing file is found then open it.
*/
hid_t file_id = 0;
FILE *f = fopen (H5FILE, "r+");
if (f == NULL)
{
file_id = H5Fcreate (H5FILE, H5F_ACC_EXCL, H5P_DEFAULT, H5P_DEFAULT);
if (file_id < 0)
check_h5_error (__FILE__, __LINE__);
}
else
{
fclose (f);
file_id = H5Fopen (H5FILE, H5F_ACC_RDWR, H5P_DEFAULT);
if (file_id < 0)
check_h5_error (__FILE__, __LINE__);
}
/*
* Load the supplementary protein data file.
*/
printf ("Loading \"influenza_aa.dat\" with contents of %s.\n",
INFLUENZA_AA_DAT);
load_influenza_aa_dat (file_id, INFLUENZA_AA_DAT);
/*
* Load the FASTA protein sequence data file.
*/
printf ("Loading \"influenza.faa\" with contents of %s.\n", INFLUENZA_FAA);
load_influenza_faa (file_id, INFLUENZA_FAA);
/*
* Load the BLAST scores.
*/
/*
printf ("Loading \"blast\" with contents of %s.\n",
BLASTFILE);
load_blast_scores (file_id, BLASTFILE);
*/
/*
* Close the HDF5 file.
*/
herr_t status = H5Fclose (file_id);
if (status < 0)
check_h5_error (__FILE__, __LINE__);
return 0;
}
|
