/usr/lib/emboss/include/ajdan.h is in emboss-lib 6.6.0+dfsg-6.
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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 | /* @include ajdan *************************************************************
**
** AJAX nucleic acid functions
**
** @author Copyright (C) 1999 Alan Bleasby
** @version $Revision: 1.14 $
** @modified Feb 25 ajb First version
** @modified $Date: 2011/10/18 14:23:40 $ by $Author: rice $
** @@
**
** This library is free software; you can redistribute it and/or
** modify it under the terms of the GNU Lesser General Public
** License as published by the Free Software Foundation; either
** version 2.1 of the License, or (at your option) any later version.
**
** This library is distributed in the hope that it will be useful,
** but WITHOUT ANY WARRANTY; without even the implied warranty of
** MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
** Lesser General Public License for more details.
**
** You should have received a copy of the GNU Lesser General Public
** License along with this library; if not, write to the Free Software
** Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
** MA 02110-1301, USA.
**
******************************************************************************/
#ifndef AJDAN_H
#define AJDAN_H
/* ========================================================================= */
/* ============================= include files ============================= */
/* ========================================================================= */
#include "ajdefine.h"
#include "ajstr.h"
AJ_BEGIN_DECLS
/* ========================================================================= */
/* =============================== constants =============================== */
/* ========================================================================= */
/* ========================================================================= */
/* ============================== public data ============================== */
/* ========================================================================= */
/* @data AjPMelt **************************************************************
**
** Melting values for di-nucleotides
**
** @alias AjSMelt
** @alias AjOMelt
**
** @attr pair [AjPStr] Di-nucleotide
** @attr enthalpy [float] Enthalpy
** @attr entropy [float] Entropy
** @attr energy [float] Free energy
** @attr Padding [char[4]] Padding
** @@
******************************************************************************/
typedef struct AjSMelt
{
AjPStr pair;
float enthalpy;
float entropy;
float energy;
char Padding[4];
} AjOMelt;
#define AjPMelt AjOMelt*
/* ========================================================================= */
/* =========================== public functions ============================ */
/* ========================================================================= */
/*
** Prototype definitions
*/
void ajMeltExit(void);
void ajMeltInit(AjBool isdna, ajint savesize);
float ajMeltEnergy(const AjPStr strand, ajint len,
ajint shift, AjBool isDNA,
AjBool maySave, float *enthalpy, float *entropy);
float ajMeltEnergy2(const char *strand, ajint pos, ajint len,
AjBool isDNA,
float *enthalpy, float *entropy,
float **saveentr, float **saveenth, float **saveener);
float ajMeltTemp(const AjPStr strand, ajint len, ajint shift, float saltconc,
float DNAconc, AjBool isDNA);
float ajMeltTempSave(const char *strand, ajint pos, ajint len, float saltconc,
float DNAconc, AjBool isDNA,
float **saveentr, float **saveenth, float **saveener);
float ajMeltGC(const AjPStr strand, ajint len);
float ajMeltTempProd(float gc, float saltconc, ajint len);
float ajAnneal(float tmprimer, float tmproduct);
/*
** End of prototype definitions
*/
#ifdef AJ_COMPILE_DEPRECATED_BOOK
#endif /* AJ_COMPILE_DEPRECATED_BOOK */
#ifdef AJ_COMPILE_DEPRECATED
__deprecated float ajTm(const AjPStr strand, ajint len,
ajint shift, float saltconc,
float DNAconc, AjBool isDNA);
__deprecated float ajTm2(const char *strand, ajint pos,
ajint len, float saltconc,
float DNAconc, AjBool isDNA,
float **saveentr, float **saveenth, float **saveener);
__deprecated float ajProdTm(float gc, float saltconc, ajint len);
#endif /* AJ_COMPILE_DEPRECATED */
AJ_END_DECLS
#endif /* !AJDAN_H */
|