NCBI C Toolkit Cross Reference

   /*   asn2ff.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:  asn2ff.h
  *
  * Author:  Karl Sirotkin, Tom Madden, Tatiana Tatusov
  *
  * Version Creation Date:   7/15/95
  *
  * $Revision: 6.14 $
  *
  * File Description:  Header file for asn2gb files.
  *
  * Modifications:  
  * --------------------------------------------------------------------------
  * $Log: asn2ff.h,v $
  * Revision 6.14  2001/04/05 21:52:18  tatiana
  * format and strand added to SeqEntryToEntrez
  *
  * Revision 6.13  2001/03/15 21:42:00  tatiana
  * SeqEntryToEntrez added
  *
  * Revision 6.12  2000/03/24 17:56:11  tatiana
  * SeqEntryToStrArrayQEx added
  *
  * Revision 6.10  1999/04/09 21:22:10  bazhin
  * Added function "ByteStorePtr AjpToByteStore()".
  *
  * Revision 6.9  1999/04/02 16:31:46  tatiana
  * asn2ff_print_to_mem and SeqEntryToStrArray changed to NLM_EXTERN
  *
  * Revision 6.8  1999/03/05 16:41:40  tatiana
  * GRAPHIK_FMT changed to 14
  *
  * Revision 6.7  1999/03/04 23:39:53  tatiana
  * GRAPHIK_FMT added
  *
  * Revision 6.6  1998/11/05 16:12:17  bazhin
  * Added 4th parameter "Boolean show_gi" to SeqEntryToGBFlatNoSeq()
  * function. It will say do or does not print GI number into output
  * flatfile. Same for error messages related to missing GIs.
  *
  * Revision 6.5  1998/09/14 16:37:46  tatiana
  * SeqEntryToFlatAjp added
  *
  * Revision 6.4  1998/09/08 20:40:52  tatiana
  * Asn2ffJobCreate added
  *
  * Revision 6.3  1998/08/21 16:58:48  shavirin
  * Added definition of function SeqEntryToGBFlatNoSeq()
  *
  * Revision 6.2  1998/05/11 21:58:50  tatiana
  * some functions moved from asn2ff1.c to asn2ff6.c
  *
  * Revision 6.1  1998/05/08 21:58:36  tatiana
  * added PARTIAL_MODE and SeqEntryToPartRpt PROTO
  *
  * Revision 6.0  1997/08/25 18:04:33  madden
  * Revision changed to 6.0
  *
  * Revision 5.7  1997/07/28 19:03:50  vakatov
  * [WIN32,MSVC++]  Restored lost "NCBIOBJ.LIB" pro-DLL modifications
  *
  * Revision 5.6  1997/07/23 18:36:58  tatiana
  * SeqEntryToFlatEx() added
  *
  * Revision 5.5  1997/06/19 18:36:48  vakatov
  * [WIN32,MSVC++]  Adopted for the "NCBIOBJ.LIB" DLL'ization
  *
   * Revision 5.3  1996/09/09  13:36:02  kans
   * moved BioseqGetGBDivCode from toasn.[ch] to asn2ff.h/asn2ff6.c
   *
   * Revision 5.1  1996/07/12  19:46:09  tatiana
   * SeqSubmitToFlat PROTO added
   *
   * Revision 4.3  1996/03/19  15:58:14  tatiana
   * SeqGenomeToFlat prototype
  *
  * Revision 1.24  1995/07/17  19:33:20  kans
  * parameters combined into Asn2ffJobPtr structure
  *
  * Revision 1.23  1995/06/19  21:40:02  kans
  * Tatiana's first major reorganization, moving printing, adding HTML
  *
 * ==========================================================================
 */
 
 #ifndef _ASN2FF_
 #define _ASN2FF_
 
 #include <ncbi.h>
 #include <objsset.h>
 #include <prtutil.h>
 #include <seqport.h>
 #include <sequtil.h>
 #include <stdio.h>
 #include <asn2ffg.h>
 
 #undef NLM_EXTERN
 #ifdef NLM_IMPORT
 #define NLM_EXTERN NLM_IMPORT
 #else
 #define NLM_EXTERN extern
 #endif
 
 #ifdef __cplusplus
 extern "C" {
 #endif
 
 #define GENBANK_FMT ( (Uint1)0)
 #define EMBL_FMT ( (Uint1)1)
 #define GENPEPT_FMT ( (Uint1)2)
 #define PSEUDOEMBL_FMT ( (Uint1)3)
 #define SELECT_FMT ( (Uint1)4)
 #define EMBLPEPT_FMT ( (Uint1)5)
 #define RELEASE_MODE ( (Uint1)6)
 #define DUMP_MODE ( (Uint1)7)
 #define SEQUIN_MODE ( (Uint1)8)
 #define CHROMO_MODE ( (Uint1)9)
 #define DIRSUB_MODE ( (Uint1)10)
 #define REVISE_MODE ( (Uint1)11)
 #define DIRSUB_DEBUG_MODE ( (Uint1)12)
 #define PARTIAL_MODE ( (Uint1)13)
 #define GRAPHIK_FMT ( (Uint1)14)
 
 #define NUM_OF_ESTIMATES 20
 #define NUM_SEQ_LINES 10
 
 
 NLM_EXTERN Int4 asn2ff_setup PROTO ((Asn2ffJobPtr job, FFPrintArrayPtr PNTR papp));
 
 NLM_EXTERN void asn2ff_cleanup PROTO ((Asn2ffJobPtr job));
 
 NLM_EXTERN Boolean asn2ff_print PROTO ((Asn2ffJobPtr job));
 
 NLM_EXTERN LinkStrPtr asn2ff_print_to_mem PROTO ((Asn2ffJobPtr job, LinkStrPtr lsp));
 
 NLM_EXTERN Asn2ffJobPtr Asn2ffJobCreate PROTO ((SeqEntryPtr sep, SeqSubmitPtr ssp, SeqLocPtr slp, FILE *fp, Uint1 format, Uint1 mode, StdPrintOptionsPtr        Spop));
 
 NLM_EXTERN Boolean SeqEntryToEntrez PROTO ((SeqEntryPtr sep, FILE *fp, SeqIdPtr seqid, Uint1 format, Uint1 display, Int4 from, Int4 to, Uint1 strand));
 
 NLM_EXTERN CharPtr PNTR SeqEntryToStrArray PROTO ((SeqEntryPtr sep, Uint1 format, Uint1 mode));
 
 NLM_EXTERN LinkStrPtr SeqEntryToStrArrayQEx PROTO ((SeqEntryPtr sep, Uint1 format, Int4 gi, Boolean is_html));
 NLM_EXTERN LinkStrPtr SeqEntryToStrArrayEx PROTO ((SeqEntryPtr sep, Uint1 format, Int4 gi, Boolean is_html));
 NLM_EXTERN Boolean SeqEntryToFlatAjp PROTO ((Asn2ffJobPtr ajp, SeqEntryPtr sep, FILE *fp, Uint1 format, Uint1 mode));
 NLM_EXTERN Boolean SeqEntryToFlat PROTO ((SeqEntryPtr sep, FILE *fp, Uint1 format, Uint1 mode));
 NLM_EXTERN Boolean SeqEntryToFlatEx PROTO ((SeqEntryPtr sep, FILE *fp, Uint1 format, Uint1 mode, SeqIdPtr seqid, Uint1 type));
 NLM_EXTERN Boolean SeqEntryToGBFlatNoSeq PROTO ((SeqEntryPtr sep, FILE *fp, Uint1 mode, Boolean show_gi));
 NLM_EXTERN Boolean SeqSubmitToFlat  PROTO ((SeqSubmitPtr ssp, FILE *fp, Uint1 mode, Boolean show_gi, Uint1 format, Boolean show_gene));
 NLM_EXTERN Boolean SeqGenomeToFlat PROTO ((SeqEntryPtr sep, FILE *fp, Uint1 format, Uint1 mode));
 NLM_EXTERN Boolean SeqEntryToPartRpt PROTO ((SeqEntryPtr sep, FILE *fp));
 NLM_EXTERN Boolean SeqLocToFlat PROTO ((SeqLocPtr slp, FILE *fp, Uint1 format, Uint1 mode));
 NLM_EXTERN ByteStorePtr AjpToByteStore PROTO ((Asn2ffJobPtr ajp));
 
 NLM_EXTERN Int2 BioseqGetGBDivCode PROTO((BioseqPtr bsp, CharPtr buffer, Int2 buflen, Boolean err_post));
 /* moved from asn2ff1.c to asn2ff6.c */
 NLM_EXTERN void AddExtraAccessions PROTO((Asn2ffJobPtr ajp, GBEntryPtr gbp));
 NLM_EXTERN void GetLocusPartsAwp PROTO((Asn2ffJobPtr ajp));
 NLM_EXTERN Int4 GetPubsAwp PROTO((Asn2ffJobPtr ajp, GBEntryPtr gbp));
 NLM_EXTERN Boolean SeqToAwp PROTO((GatherContextPtr gcp));
 NLM_EXTERN void UseGIforLocus PROTO((Asn2ffJobPtr ajp));
 
 #ifdef __cplusplus
 }
 #endif
 
 #undef NLM_EXTERN
 #ifdef NLM_EXPORT
 #define NLM_EXTERN NLM_EXPORT
 #else
 #define NLM_EXTERN
 #endif
 
 #endif