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
|
/* mkbioseq.h
*
* ===========================================================================
*
* PUBLIC DOMAIN NOTICE
* National Center for Biotechnology Information (NCBI)
*
* This software/database is a "United States Government Work" under the
* terms of the United States Copyright Act. It was written as part of
* the author's official duties as a United States Government employee and
* thus cannot be copyrighted. This software/database is freely available
* to the public for use. The National Library of Medicine and the U.S.
* Government do not place any restriction on its use or reproduction.
* We would, however, appreciate having the NCBI and the author cited in
* any work or product based on this material
*
* Although all reasonable efforts have been taken to ensure the accuracy
* and reliability of the software and data, the NLM and the U.S.
* Government do not and cannot warrant the performance or results that
* may be obtained by using this software or data. The NLM and the U.S.
* Government disclaim all warranties, express or implied, including
* warranties of performance, merchantability or fitness for any particular
* purpose.
*
* ===========================================================================
*
* File Name: mkbioseq.h
*
* Author: Ken Addess
*
* $Log: mkbioseq.h,v $
* Revision 6.1 1998/07/17 18:56:01 madej
* Created by Ken Addess.
*
*/
/*****************************************************************************
*
* mkbioseq.h
*
*****************************************************************************/
#ifndef _MKBIOSEQ_
#define _MKBIOSEQ_
#include <ncbi.h>
#include <asn.h>
#include <mmdbapi.h>
#include "strimprt.h"
#define MAXNUM 50
SeqEntryPtr LIBCALL CreateSeqEntry PROTO
((BiostrucSourcePtr bssp, BiostrucGraphPtr bsgp, BiostrucModelPtr bsmp, ValNodePtr descr, Int4 nchn));
SeqIdPtr LIBCALL MakePDBId PROTO((BiostrucSourcePtr bssp, MoleculeGraphPtr mgp, DbtagPtr dtp));
SeqIdPtr LIBCALL MakeLocalID PROTO((Int4 mid, MoleculeGraphPtr mgp, DbtagPtr dtp));
SeqIdPtr LIBCALL MakeGId PROTO((Int4 gi));
BiostrucPtr LIBCALL readBiostruc PROTO((CharPtr filename, Int2 mode, Int4 mdlLvl));
ValNodePtr LIBCALL MakeBioseqDescr PROTO((MoleculeGraphPtr mgp, ValNodePtr bioseq_descr));
Uint1 LIBCALL MakeBioseqMol PROTO((MoleculeGraphPtr mgp));
Int4 LIBCALL CountNumOfResidues PROTO((MoleculeGraphPtr mgp));
Boolean LIBCALL isBiopoly PROTO((Int4 molecule_id, MoleculeGraphPtr currentbp));
Boolean LIBCALL isHet PROTO((Int4 molecule_id, MoleculeGraphPtr currenthet));
Int4 LIBCALL getHetIdx PROTO((Int4 molecule_id, MoleculeGraphPtr currenthet));
ByteStorePtr LIBCALL AddSeqData PROTO((MoleculeGraphPtr mgp, Uint1 mol, Int4 length, BiostrucGraphPtr bsgp, BiostrucResidueGraphSetPtr stdDictionary));
CharPtr LIBCALL getStdOlcode PROTO
((Int4 standard_graphs_id, Int4 residue_graph_id, BiostrucResidueGraphSetPtr std));
CharPtr LIBCALL getNstdOlcode PROTO((ResidueGraphPtr nrg));
ResidueGraphPtr LIBCALL getNstdResGraph PROTO((Int4 rgid, BiostrucGraphPtr bsgp));
CharPtr LIBCALL rmvSpace PROTO((CharPtr str));
SeqAnnotPtr LIBCALL AddNstdSeqAnnot PROTO((MoleculeGraphPtr mgp, SeqIdPtr id, BiostrucGraphPtr bsgp));
Boolean LIBCALL isNstd PROTO((ResidueGraphPtr rgp));
SeqAnnotPtr LIBCALL AddSecDomToSeqAnnot PROTO((BiostrucFeaturePtr bsfp, CharPtr name, SeqAnnotPtr seq_annot, SeqIdPtr id, Int4 num));
Int4 LIBCALL findChnidx PROTO((Int4 mol_id, Int4 nbp, MoleculeGraphPtr bp));
ValNodePtr LIBCALL MakeHetValNode PROTO((MoleculeGraphPtr nhet, BiostrucResidueGraphSetPtr stdDictionary, ResidueGraphPtr rg));
CharPtr LIBCALL getResNam PROTO((ResidueGraphPntrPtr rgpp, BiostrucResidueGraphSetPtr stdDictionary, ResidueGraphPtr rg));
CharPtr LIBCALL getResComm PROTO((ResidueGraphPntrPtr rgpp, BiostrucResidueGraphSetPtr stdDictionary, ResidueGraphPtr rg));
SeqAnnotPtr LIBCALL AddHetToSeqAnnot
PROTO((SeqAnnotPtr seq_annot, SeqIdPtr id, ValNodePtr hetval, ValNodePtr pvnThePoints, Int4 rescount));
SeqAnnotPtr LIBCALL AddDisulToSeqAnnot PROTO((SeqAnnotPtr seq_annot, Int4 residx1, Int4 residx2, SeqIdPtr id1, SeqIdPtr id2));
Int4 LIBCALL
getAtomElementIdx PROTO ((Int4 molecule_id, Int4 residue_id, Int4 atom_id, BiostrucGraphPtr bsgp, BiostrucResidueGraphSetPtr stdDictionary));
ResidueGraphPtr LIBCALL getResGraph PROTO((ResidueGraphPntrPtr rgpp, BiostrucGraphPtr bsgp, BiostrucResidueGraphSetPtr stdDictionary));
#endif
|
