/usr/include/ncbi/urkdust.h is in libncbi6-dev 6.1.20120620-10.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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 | /*
* ===========================================================================
*
* 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.
*
* ===========================================================================
*
* File Name: urkdust.h
*
* Author(s): John Kuzio
*
* Version Creation Date: 98-01-01
*
* $Revision: 6.8 $
*
* File Description: urkdust header
*
* Modifications:
* --------------------------------------------------------------------------
* Date Name Description of modification
* --------------------------------------------------------------------------
* $Log: urkdust.h,v $
* Revision 6.8 1998/09/16 17:46:44 kuzio
* cvs logging
*
*
* ==========================================================================
*/
#ifndef _URKDUST__
#define _URKDUST__
#include <ncbi.h>
#include <seqport.h>
#include <sequtil.h>
#ifdef __cplusplus
extern "C" {
#endif
typedef struct dustdata
{
FloatHi percent;
Int4 level, windowsize, minwin, linker, method;
Boolean flagGraph, flagBrute;
} DustData, PNTR DustDataPtr;
typedef struct dustregion
{
FloatHi percent;
Int4 from, to;
struct dustregion PNTR next;
} DustRegion, PNTR DustRegionPtr;
typedef struct dustcurrentvalues
{
Int4 curlevel, curstart, curend;
} DustCurVal, PNTR DustCurValPtr;
#define MAXSEQCHUNK 262144
/*
caller responsibility
ddp = DustDataNew ();
drp = Dust... (..., ddp);
slp = DustFilter (drp, ddp->percent, ...);
DustRegionFree (drp);
DustDataFree (ddp);
*/
/*
DustDataNew set ddp to original default values
for original dust percentcut is forced to level
*/
extern DustDataPtr DustDataNew (void);
extern DustDataPtr DustDataFree (DustDataPtr ddp);
extern DustRegionPtr DustRegionNew (DustRegionPtr drp);
extern DustRegionPtr DustRegionFree (DustRegionPtr drp);
extern DustRegionPtr DustSeq (CharPtr seq, Int4 start, Int4 stop,
DustDataPtr ddp);
extern DustRegionPtr DustSeqPort (SeqPortPtr spp,
Int4 start, Int4 stop,
DustDataPtr ddp);
extern DustRegionPtr DustBioseq (BioseqPtr bsp,
Int4 start, Int4 stop,
DustDataPtr ddp);
extern DustRegionPtr DustSeqLoc (SeqLocPtr slp,
DustDataPtr ddp);
extern SeqLocPtr DustFilter (DustRegionPtr drp, FloatHi percentcut,
SeqIdPtr sip);
extern FloatHiPtr DustForGraph (DustRegionPtr drp, Int4 length,
Int4 start, Int4 stop);
/* wrapper for original function */
extern SeqLocPtr BioseqDustWrap (BioseqPtr bsp, Int4 start, Int4 end,
Int2 level, Int2 window, Int2 minwin,
Int2 linker);
#ifdef __cplusplus
}
#endif
#endif
|