/usr/include/ncbi/urkepi.h is in libncbi6-dev 6.1.20110713-3ubuntu2.
This file is owned by root:root, with mode 0o644.
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* ===========================================================================
*
* 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: urkepi.h
*
* Author(s): John Kuzio
*
* Version Creation Date: 98-01-01
*
* $Revision: 6.8 $
*
* File Description: epi header
*
* Modifications:
* --------------------------------------------------------------------------
* Date Name Description of modification
* --------------------------------------------------------------------------
* $Log: urkepi.h,v $
* Revision 6.8 1998/11/16 14:29:51 kuzio
* flagBoundaryCondition
*
* Revision 6.7 1998/09/16 17:46:45 kuzio
* cvs logging
*
*
* ==========================================================================
*/
#ifndef _URKEPI__
#define _URKEPI__
#include <ncbi.h>
#include <seqport.h>
#ifdef __cplusplus
extern "C" {
#endif
typedef struct LowComplexityData
{
Int4 method, linker;
Int4 mwindow, window;
FloatHi mpercentcut, percentcut;
Int4 nucleotuple;
Uint1Ptr sequence;
Int4Ptr epiarray;
FloatHiPtr score;
} EpiDat, PNTR EpiDatPtr;
/*
caller responsibiliity
epip = EpiDatNew ();
probability_scores = PredictEpi...
MemFree (probability_scores);
EpiDatFree (epip);
*/
extern EpiDatPtr EpiDatNew (void);
extern EpiDatPtr EpiDatFree (EpiDatPtr epip);
extern FloatHiPtr PredictEpi (CharPtr seq, Int4 start, Int4 end,
EpiDatPtr epip, Boolean flagIsAA);
extern FloatHiPtr PredictEpiSeqPort (SeqPortPtr spp,
Int4 start, Int4 end,
EpiDatPtr epip, Boolean flagIsAA);
extern FloatHiPtr PredictEpiBioseq (BioseqPtr bsp,
Int4 start, Int4 end,
EpiDatPtr epip);
extern FloatHiPtr PredictEpiSeqLoc (SeqLocPtr slp,
EpiDatPtr epip);
extern SeqLocPtr FilterEpi (EpiDatPtr pepi, CharPtr aa, Int4 length,
SeqIdPtr sip, Boolean flagHighPass,
Boolean flagIsAA,
Boolean flagBoundaryCondition);
extern SeqLocPtr FilterEpiBioseq (EpiDatPtr pepi, BioseqPtr bsp,
Boolean flagHighPass,
Boolean flagBoundaryCondition);
#ifdef __cplusplus
}
#endif
#endif
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