/usr/include/ncbi/biosrc.h is in libvibrant6-dev 6.1.20170106-2.
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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 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 | /* biosrc.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: biosrc.h
*
* Author: Jonathan Kans
*
* Version Creation Date: 1/22/95
*
* $Revision: 6.14 $
*
* File Description:
*
* Modifications:
* --------------------------------------------------------------------------
* Date Name Description of modification
* ------- ---------- -----------------------------------------------------
*
*
* ==========================================================================
*/
#ifndef _BIOSRC_
#define _BIOSRC_
#include <dlogutil.h>
#ifdef __cplusplus
extern "C" {
#endif
#define NUM_GENETIC_CODES 40
extern Int2 numGeneticCodes;
extern Int2 gcIdToIndex [NUM_GENETIC_CODES];
extern Uint1 gcIndexToId [NUM_GENETIC_CODES];
extern CharPtr gcNames [NUM_GENETIC_CODES];
extern Boolean LoadOrganismTable (void);
extern void FreeOrganismTable (void);
extern void SetupGeneticCodes (void);
extern void FreeGeneticCodes (void);
extern ValNodePtr GetGeneticCodeValNodeList (void);
/*
* The BioSourceEditProcsPtr may be registered with a call to SetAppProperty
* e.g., SetAppProperty ("BioSourcEditForm", &biosrcprocs), where biosrcprocs
* is a persistent structure filled with parameters and callback function
* pointers specific for a given application.
*/
typedef Boolean (*LookupTaxonomyProc) PROTO((Uint2 entityID));
typedef struct biosrceditprocs {
LookupTaxonomyProc lookupTaxonomy;
} BioSourceEditProcs, PNTR BioSourceEditProcsPtr;
#define REGISTER_BIOSOURCE_DESC_EDIT ObjMgrProcLoad(OMPROC_EDIT,"Edit BioSource Desc","Biological Source",OBJ_SEQDESC,Seq_descr_source,OBJ_SEQDESC,Seq_descr_source,NULL,BioSourceGenFunc,PROC_PRIORITY_DEFAULT)
#define REGISTER_BIOSOURCE_FEAT_EDIT ObjMgrProcLoad(OMPROC_EDIT,"Edit BioSource Feat","Biological Source",OBJ_SEQFEAT,FEATDEF_BIOSRC,OBJ_SEQFEAT,FEATDEF_BIOSRC,NULL,BioSourceGenFunc,PROC_PRIORITY_DEFAULT)
extern DialoG CreateSimpleBioSourceDialog (GrouP h, CharPtr title);
extern ForM CreateBioSourceDescForm (Int2 left, Int2 top, Int2 width,
Int2 height, CharPtr title, ValNodePtr sdp,
SeqEntryPtr sep, FormActnFunc actproc,
BioSourceEditProcsPtr bepp);
extern ForM CreateBioSourceFeatForm (Int2 left, Int2 top, Int2 width,
Int2 height, CharPtr title, SeqFeatPtr sfp,
SeqEntryPtr sep, FormActnFunc actproc,
BioSourceEditProcsPtr bepp);
extern DialoG BioSourceDialog (GrouP parent);
extern Int2 LIBCALLBACK BioSourceGenFunc (Pointer data);
extern Boolean BioSourceDialogToGenBankDivision (DialoG d, CharPtr div, size_t maxsize);
extern Boolean SetBioSourceDialogTaxName (DialoG d, CharPtr taxname);
/* This structure should be passed in as userdata for
* RemoveTextFromTextFreeSubSourceModifiers, with the
* members all initialized to FALSE.
*/
typedef struct modtextfix
{
Boolean remove_this;
Boolean move_this;
Boolean remove_all_germline;
Boolean remove_all_transgenic;
Boolean remove_all_environmental;
Boolean remove_all_rearranged;
Boolean remove_all_metagenomic;
Boolean move_all_germline;
Boolean move_all_transgenic;
Boolean move_all_environmental;
Boolean move_all_rearranged;
Boolean move_all_metagenomic;
} ModTextFixData, PNTR ModTextFixPtr;
extern ModTextFixPtr ModTextFixNew (void);
extern void RemoveTextFromTextFreeSubSourceModifiers (BioSourcePtr biop, Pointer userdata);
extern EnumFieldAssocPtr GetSubSourceAndOrgModEnum (Boolean get_discouraged, Boolean get_discontinued);
extern EnumFieldAssocPtr GetModifiersEnum (Boolean get_subsource, Boolean get_orgmod, Boolean get_discouraged, Boolean get_discontinued);
NLM_EXTERN ValNodePtr GetLocListForBioSource (BioSourcePtr biop);
NLM_EXTERN void PopulateGeneticCodePopup (PopuP gc);
NLM_EXTERN void DisableStrainForwarding(BioSourcePtr biop, Boolean val);
#ifdef __cplusplus
}
#endif
#endif /* ndef _BIOSRC_ */
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