1 /** @source assemblyget
2 **
3 ** Get assembly of sequence reads
4 **
5 ** @author Copyright (C) 2011 Peter Rice / EMBOSS
6 ** @version $Revision: 1.4 $
7 ** @modified $Date: 2012/03/13 13:27:40 $ by $Author: rice $
8 ** @@
9 **
10 ** This program is free software; you can redistribute it and/or
11 ** modify it under the terms of the GNU General Public License
12 ** as published by the Free Software Foundation; either version 2
13 ** of the License, or (at your option) any later version.
14 **
15 ** This program is distributed in the hope that it will be useful,
16 ** but WITHOUT ANY WARRANTY; without even the implied warranty of
17 ** MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
18 ** GNU General Public License for more details.
19 **
20 ** You should have received a copy of the GNU General Public License
21 ** along with this program; if not, write to the Free Software
22 ** Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA.
23 ********************************************************************/
24
25
26 /* ==================================================================== */
27 /* ========================== include files =========================== */
28 /* ==================================================================== */
29
30 #include "emboss.h"
31
32 /* Inclusion of system and local header files goes here */
33
34
35
36 /* ==================================================================== */
37 /* ============================ constants ============================= */
38 /* ==================================================================== */
39
40 /* #define and enum statements go here */
41
42
43
44 /* ==================================================================== */
45 /* ======================== global variables ========================== */
46 /* ==================================================================== */
47
48 /* Global variables definitions go here */
49
50
51
52 /* ==================================================================== */
53 /* ============================== data ================================ */
54 /* ==================================================================== */
55
56 /* Definition of datatypes go here */
57
58
59
60 /* ==================================================================== */
61 /* ==================== function prototypes =========================== */
62 /* ==================================================================== */
63
64 /* Function prototypes for public (external) functions go here */
65
66
67
68
69 /* @prog assemblyget **********************************************************
70 **
71 ** Get assembly of sequence reads
72 **
73 ******************************************************************************/
74
main(int argc,char ** argv)75 int main(int argc, char **argv)
76 {
77 /* Variable declarations */
78 AjPOutfile outfile = NULL;
79 AjPAssemload assemload = NULL;
80 AjPAssem assembly = NULL;
81
82 /* ACD processing */
83 embInit("assemblyget", argc, argv);
84
85 assemload = ajAcdGetAssembly("assembly");
86 outfile = ajAcdGetOutassembly("outassembly");
87
88
89 while(ajAssemloadMore(assemload, &assembly))
90 {
91 ajAssemoutWriteNext(outfile, assembly);
92 }
93
94 ajOutfileReset(outfile);
95
96 /* Memory clean-up and exit */
97
98 ajAssemDel(&assembly);
99 ajAssemloadDel(&assemload);
100
101 ajOutfileClose(&outfile);
102
103 embExit();
104
105 return 0;
106 }
107
108
109 /* ==================================================================== */
110 /* ============================ functions ============================= */
111 /* ==================================================================== */
112
113