/usr/include/ncbi/salfiles.h is in libvibrant6-dev 6.1.20120620-7.
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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 | /* salfiles.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: salfiles.h
*
* Author: Colombe Chappey
*
* Version Creation Date: 1/27/96
*
* $Revision: 6.16 $
*
* File Description:
*
* Modifications:
* --------------------------------------------------------------------------
* Date Name Description of modification
* ------- ---------- -----------------------------------------------------
*
*
* ==========================================================================
*/
#ifndef _SALFILES_
#define _SALFILES_
#include <saledit.h>
#include <salsa.h>
#include <vibrant.h>
#include <txalign.h>
#ifdef __cplusplus
extern "C" {
#endif
#define REGISTER_IDTOUID ObjMgrProcLoad(OMPROC_FILTER,"IDtoUID","IDtoUID",0,0,0,0,NULL,SeqIdToUid,PROC_PRIORITY_DEFAULT)
#define REGISTER_DataToSeqAlign ObjMgrProcLoad(OMPROC_FILTER,"DataToSeqAlign","DataToSeqAlign",0,0,0,0,NULL,DataToSeqAlign,PROC_PRIORITY_DEFAULT)
/****************
*** Format Sequence
******************/
extern SeqEntryPtr FastaRead (CharPtr path, Uint2 mol_type);
extern SeqEntryPtr ReadInterleaveAlign (CharPtr path, Uint1 mol_type);
extern SeqEntryPtr ReadContiguouseAlign (CharPtr path, Uint1 mol_type);
extern SeqEntryPtr ReadAnyAlignment (Boolean is_prot, CharPtr path);
extern SeqEntryPtr ReadLocalAlignment (Uint1 format, CharPtr path);
extern SeqAlignPtr ImportFromFile (EditAlignDataPtr adp);
extern void CCFetchFromNet (EditAlignDataPtr adp, WindoW editor_window);
extern void EditBioseqToFasta (BioseqPtr bsp, FILE *fout, Int4 from, Int4 to);
extern Int2 seqannot_write (SeqAnnotPtr sap, CharPtr path);
extern void seqalign_write (SeqAlignPtr salp, CharPtr path);
extern Boolean sesp_to_pept (SelEdStructPtr cds, SeqAlignPtr salp, ValNodePtr sqlocs, Boolean partial);
extern void CdRgnToProtProc (PaneL pnl, EditAlignDataPtr adp);
extern void UntranslateFunc (PaneL pnl, EditAlignDataPtr adp);
extern Boolean ShowFeatureFunc (EditAlignDataPtr adp);
extern Boolean HideFeatureFunc (EditAlignDataPtr adp);
extern Boolean ResetFeatureFunc (EditAlignDataPtr adp);
extern ValNodePtr update_featpept (EditAlignDataPtr adp, ValNodePtr feathead, RecT *rp, SelStructPtr ssp, Int4 changevalue, Uint2 itemsubtype);
extern void ShowFeatureProc (PaneL pnl, Boolean invalidate);
extern void SaveFeatProc (PaneL pnl);
extern void SaveAllFeatProc (PaneL pnl);
extern void MakeFeatProc (PaneL pnl, Uint2 itemsubtype, Uint1 strand);
extern void TranslateAllBioseq (PaneL pnl, EditAlignDataPtr adp);
extern ValNodePtr CCReadAnythingLoop (CharPtr filename, SelEdStructPtr seq_info);
extern SeqEntryPtr AsnReadForSalsa (CharPtr path);
extern SeqEntryPtr seqentry_read (CharPtr path);
#ifdef __cplusplus
}
#endif
#endif
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