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
|
/**************************************************************************
* *
* COPYRIGHT NOTICE *
* *
* This software/database is categorized as "United States Government *
* Work" under the terms of the United States Copyright Act. It was *
* produced as part of the author's official duties as a Government *
* employee and thus can not be copyrighted. This software/database is *
* freely available to the public for use without a copyright notice. *
* Restrictions can not be placed on its present or future use. *
* *
* Although all reasonable efforts have been taken to ensure the accuracy *
* and reliability of the software and data, the National Library of *
* Medicine (NLM) and the U.S. Government do not and can not warrant the *
* performance or results that may be obtained by using this software, *
* data, or derivative works thereof. The NLM and the U.S. Government *
* disclaim any and all warranties, expressed or implied, as to the *
* performance, merchantability or fitness for any particular purpose or *
* use. *
* *
* In any work or product derived from this material, proper attribution *
* of the author(s) as the source of the software or data would be *
* appreciated. *
* *
**************************************************************************/
/* $Revision 1.0$
*
* $Log: gil2bin.c,v $
* Revision 6.5 2011/12/19 18:40:17 gouriano
* Corrected printf formatting. NOJIRA
*
* Revision 6.4 2003/04/22 14:20:26 camacho
* Added missing include
*
* Revision 6.3 2003/03/20 16:22:16 camacho
* Added reverse mode
*
* Revision 6.2 2001/05/25 19:28:21 vakatov
* Nested comment typo fixed
*
* Revision 6.1 2000/02/09 19:44:30 madden
* Converts text gi list to binary gi list
*/
#include <ncbi.h>
#include <blast.h>
#include <blastdef.h>
#include <readdb.h>
static Args myargs [] = {
{ "Input gilist",
NULL, NULL, NULL, FALSE, 'i', ARG_FILE_IN, 0.0, 0, NULL},
{ "output (binary) gilist",
NULL, NULL, NULL, FALSE, 'o', ARG_FILE_IN, 0.0, 0, NULL},
{ "Reverse mode (binary to text)",
"F", NULL, NULL, TRUE, 'r', ARG_BOOLEAN, 0.0, 0, NULL}
};
static void MakeGiFileText(CharPtr input_file, CharPtr output_file)
{
FILE *outfp = NULL;
BlastDoubleInt4Ptr gilist = NULL;
Int4 i, ngis;
if (!(outfp = FileOpen(output_file, "w"))) {
ErrPostEx(SEV_ERROR, 0, 0, "Unable to open file %s", output_file);
return;
}
gilist = GetGisFromFile(input_file, &ngis);
for (i = 0; i < ngis; i++)
fprintf(outfp, "%d\n", gilist[i].gi);
MemFree(gilist);
return;
}
Int2 Main (void)
{
if (! GetArgs ("gil2bin", DIM(myargs), myargs))
return (1);
if (myargs[2].intvalue == 0)
readdb_MakeGiFileBinary(myargs[0].strvalue, myargs[1].strvalue);
else
MakeGiFileText(myargs[0].strvalue, myargs[1].strvalue);
return 0;
}
|
