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#ifndef _TOPORG_
#define _TOPORG_
/* $Id: toporg.h,v 6.4 2005/12/30 19:37:17 kans Exp $
* ===========================================================================
*
* PUBLIC DOMAIN NOTICE
* National Center for Biotechnology Information
*
* 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 have not placed any restriction on its use or reproduction.
*
* 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.
*
* Please cite the author in any work or product based on this material.
*
* ===========================================================================
*
* Author:
*
* File Description:
*
*
* ===========================================================================
*/
#include <ncbi.h>
#include <seqport.h>
#ifdef __cplusplus
extern "C" {
#endif
#define Seq_descr_GIBB_mod_dna 0
#define Seq_descr_GIBB_mod_rna 1
#define Seq_descr_GIBB_mod_partial 10
#define Seq_descr_GIBB_mod_complete 11
#define Seq_descr_GIBB_mod_est 20
#define Seq_descr_GIBB_mod_sts 21
#define Seq_descr_GIBB_mod_gss 22
void toporg(SeqEntryPtr sep);
void ChkSegset(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void ChkNucProt(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
ValNodePtr GetDescr(ValNodePtr PNTR descr);
Boolean check_GIBB(ValNodePtr descr);
ValNodePtr SrchSegChoice(SeqEntryPtr sep, Uint1 choice);
void SrchSegSeqMol(SeqEntryPtr sep);
Boolean CheckSegDescrChoice(SeqEntryPtr sep, Uint1 choice);
void CleanUpSeqDescrChoice(SeqEntryPtr sep, Uint1 choice);
void StripProtXref(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void CheckMaps(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void StripMaps(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void MapsToGenref(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void FindNewLineage(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void FindOldLineage(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void NewLineage(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void OldLineage(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void OldPubs(SeqEntryPtr sep);
void NewPubs(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void MoveSetPubs(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void DeletePubs(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void ChangeCitSub(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void CheckCitSubNew(ValNodePtr vnp);
void CmpPub(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void MoveSegmPubs(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void MoveNPPubs(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void MovePopPhyMutPubs (SeqEntryPtr sep);
ValNodePtr AddToList(ValNodePtr list, ValNodePtr check, PubdescPtr pdp);
BioSourcePtr BioSourceMerge(BioSourcePtr host, BioSourcePtr guest);
BioSourcePtr BioSourceCommon(BioSourcePtr host, BioSourcePtr guest);
void StripBSfromTop(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
void StripBSfromParts(SeqEntryPtr sep, Pointer data, Int4 index, Int2 indent);
Boolean CmpOrgById(BioSourcePtr b1, BioSourcePtr b2);
extern void NormalizeSegSeqMolInfo(SeqEntryPtr sep);
extern void MoveFeatsFromPartsSet (SeqEntryPtr sep);
#ifdef __cplusplus
}
#endif
#endif
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