1 /*===========================================================================
2 *
3 *                            PUBLIC DOMAIN NOTICE
4 *               National Center for Biotechnology Information
5 *
6 *  This software/database is a "United States Government Work" under the
7 *  terms of the United States Copyright Act.  It was written as part of
8 *  the author's official duties as a United States Government employee and
9 *  thus cannot be copyrighted.  This software/database is freely available
10 *  to the public for use. The National Library of Medicine and the U.S.
11 *  Government have not placed any restriction on its use or reproduction.
12 *
13 *  Although all reasonable efforts have been taken to ensure the accuracy
14 *  and reliability of the software and data, the NLM and the U.S.
15 *  Government do not and cannot warrant the performance or results that
16 *  may be obtained by using this software or data. The NLM and the U.S.
17 *  Government disclaim all warranties, express or implied, including
18 *  warranties of performance, merchantability or fitness for any particular
19 *  purpose.
20 *
21 *  Please cite the author in any work or product based on this material.
22 *
23 * ===========================================================================
24 *
25 */
26 
27 #ifndef _h_csra1_readcollection_
28 #define _h_csra1_readcollection_
29 
30 #ifndef _h_kfc_defs_
31 #include <kfc/defs.h>
32 #endif
33 
34 #ifdef __cplusplus
35 extern "C" {
36 #endif
37 
38 /*--------------------------------------------------------------------------
39  * forwards
40  */
41 struct NGS_Cursor;
42 struct CSRA1_ReadCollection;
43 
44 struct CSRA1_ReadCollection * CSRA1_ReadCollectionDuplicate ( struct CSRA1_ReadCollection * self, ctx_t ctx );
45 void CSRA1_ReadCollectionRelease ( struct CSRA1_ReadCollection * self, ctx_t ctx );
46 struct NGS_ReadCollection * CSRA1_ReadCollectionToNGS_ReadCollection ( struct CSRA1_ReadCollection * self, ctx_t ctx );
47 
48 const struct NGS_Cursor* CSRA1_ReadCollectionMakeAlignmentCursor ( struct CSRA1_ReadCollection * self,
49                                                                    ctx_t ctx,
50                                                                    bool primary,
51                                                                    bool exclusive );
52 
53 
54 #ifdef __cplusplus
55 }
56 #endif
57 
58 #endif /* _h_csra1_readcollection_ */
59