NCBI C++ ToolKit
sequtil.hpp
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1 #ifndef UTIL_SEQUTIL___SEQUTIL__HPP
2 #define UTIL_SEQUTIL___SEQUTIL__HPP
3 
4 /* $Id: sequtil.hpp 33815 2007-05-04 17:18:18Z kazimird $
5  * ===========================================================================
6  *
7  * PUBLIC DOMAIN NOTICE
8  * National Center for Biotechnology Information
9  *
10  * This software/database is a "United States Government Work" under the
11  * terms of the United States Copyright Act. It was written as part of
12  * the author's official duties as a United States Government employee and
13  * thus cannot be copyrighted. This software/database is freely available
14  * to the public for use. The National Library of Medicine and the U.S.
15  * Government have not placed any restriction on its use or reproduction.
16  *
17  * Although all reasonable efforts have been taken to ensure the accuracy
18  * and reliability of the software and data, the NLM and the U.S.
19  * Government do not and cannot warrant the performance or results that
20  * may be obtained by using this software or data. The NLM and the U.S.
21  * Government disclaim all warranties, express or implied, including
22  * warranties of performance, merchantability or fitness for any particular
23  * purpose.
24  *
25  * Please cite the author in any work or product based on this material.
26  *
27  * ===========================================================================
28  *
29  * Author: Mati Shomrat
30  *
31  * File Description:
32  *
33  */
34 #include <corelib/ncbistd.hpp>
35 
36 
38 
39 
41 {
42 public:
43  enum ECoding {
44  e_not_set = 0,
45 
46  // NA coding
49  e_Ncbi2na_expand, // 2 bits per char
51  e_Ncbi4na_expand, // 4 bits per char (same as 8na)
53 
54  // AA coding
58  e_Ncbistdaa
59  };
60  static const size_t kNumCodings;
61 
62  enum ECodingType {
64  e_CodingType_Aa
65  };
66 
67  // types
68  typedef ECoding TCoding;
70 
71  static ECodingType GetCodingType(TCoding coding);
72 };
73 
74 
75 
77 
78 
79 #endif /* UTIL_SEQUTIL___SEQUTIL__HPP */
@ e_Ncbi4na_expand
Definition: sequtil.hpp:51
@ e_Ncbi8na
Definition: sequtil.hpp:52
@ e_Iupacna
Definition: sequtil.hpp:47
@ e_Ncbieaa
Definition: sequtil.hpp:57
@ e_Ncbi8aa
Definition: sequtil.hpp:56
@ e_Ncbi4na
Definition: sequtil.hpp:50
@ e_Ncbi2na_expand
Definition: sequtil.hpp:49
@ e_Ncbi2na
Definition: sequtil.hpp:48
@ e_Iupacaa
Definition: sequtil.hpp:55
static const size_t kNumCodings
Definition: sequtil.hpp:60
ECoding TCoding
Definition: sequtil.hpp:68
ECodingType TCodingType
Definition: sequtil.hpp:69
@ e_CodingType_Na
Definition: sequtil.hpp:63
Include a standard set of the NCBI C++ Toolkit most basic headers.
#define END_NCBI_SCOPE
End previously defined NCBI scope.
Definition: ncbistl.hpp:103
#define BEGIN_NCBI_SCOPE
Define ncbi namespace.
Definition: ncbistl.hpp:100
@ e_not_set
NCBI_XUTIL_EXPORT
Parameter to control printing diagnostic message about conversion of static array data from a differe...
Definition: static_set.hpp:72
Modified on Thu May 23 12:27:44 2024 by modify_doxy.py rev. 669887