/usr/lib/emboss/include/ensgvallele.h is in emboss-lib 6.6.0+dfsg-6.
This file is owned by root:root, with mode 0o644.
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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 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 | /* @include ensgvallele *******************************************************
**
** Ensembl Genetic Variation Allele functions
**
** @author Copyright (C) 1999 Ensembl Developers
** @author Copyright (C) 2006 Michael K. Schuster
** @version $Revision: 1.11 $
** @modified 2009 by Alan Bleasby for incorporation into EMBOSS core
** @modified $Date: 2012/02/20 22:09:19 $ by $Author: mks $
** @@
**
** 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 ENSGVALLELE_H
#define ENSGVALLELE_H
/* ========================================================================= */
/* ============================= include files ============================= */
/* ========================================================================= */
#include "ensgvdata.h"
AJ_BEGIN_DECLS
/* ========================================================================= */
/* =============================== constants =============================== */
/* ========================================================================= */
/* ========================================================================= */
/* ============================== public data ============================== */
/* ========================================================================= */
/* ========================================================================= */
/* =========================== public functions ============================ */
/* ========================================================================= */
/*
** Prototype definitions
*/
/* Ensembl Genetic Variation Allele */
EnsPGvallele ensGvalleleNewCpy(const EnsPGvallele gva);
EnsPGvallele ensGvalleleNewIni(EnsPGvalleleadaptor gvaa,
ajuint identifier,
EnsPGvpopulation gvp,
AjPStr allele,
float frequency,
ajuint subidentifier,
ajuint counter,
ajuint gvvid);
EnsPGvallele ensGvalleleNewRef(EnsPGvallele gva);
void ensGvalleleDel(EnsPGvallele *Pgva);
EnsPGvalleleadaptor ensGvalleleGetAdaptor(const EnsPGvallele gva);
AjPStr ensGvalleleGetAllele(const EnsPGvallele gva);
ajuint ensGvalleleGetCounter(const EnsPGvallele gva);
EnsPGvpopulation ensGvalleleGetGvpopulation(const EnsPGvallele gva);
ajuint ensGvalleleGetGvvariationidentifier(const EnsPGvallele gva);
ajuint ensGvalleleGetIdentifier(const EnsPGvallele gva);
float ensGvalleleGetFrequency(const EnsPGvallele gva);
ajuint ensGvalleleGetSubidentifier(const EnsPGvallele gva);
const AjPList ensGvalleleLoadAllFaileddescriptions(EnsPGvallele gva);
AjPStr ensGvalleleLoadSubhandle(EnsPGvallele gva);
AjBool ensGvalleleSetAdaptor(EnsPGvallele gva, EnsPGvalleleadaptor gvaa);
AjBool ensGvalleleSetCounter(EnsPGvallele gva, ajuint counter);
AjBool ensGvalleleSetIdentifier(EnsPGvallele gva, ajuint identifier);
AjBool ensGvalleleSetGvpopulation(EnsPGvallele gva, EnsPGvpopulation gvp);
AjBool ensGvalleleSetGvvariationidentifier(EnsPGvallele gva, ajuint gvvid);
AjBool ensGvalleleSetAllele(EnsPGvallele gva, AjPStr allelestr);
AjBool ensGvalleleSetFrequency(EnsPGvallele gva, float frequency);
AjBool ensGvalleleSetSubhandle(EnsPGvallele gva, AjPStr subhandle);
AjBool ensGvalleleSetSubidentifier(EnsPGvallele gva, ajuint subidentifier);
AjBool ensGvalleleTrace(const EnsPGvallele gva, ajuint level);
size_t ensGvalleleCalculateMemsize(const EnsPGvallele gva);
AjBool ensGvalleleIsFailed(EnsPGvallele gva, AjBool *Presult);
/* Ensembl Genetic Variation Allele Adaptor */
EnsPGvalleleadaptor ensRegistryGetGvalleleadaptor(
EnsPDatabaseadaptor dba);
EnsPGvalleleadaptor ensGvalleleadaptorNew(
EnsPDatabaseadaptor dba);
void ensGvalleleadaptorDel(EnsPGvalleleadaptor *Pgvaa);
EnsPDatabaseadaptor ensGvalleleadaptorGetDatabaseadaptor(
const EnsPGvalleleadaptor gvaa);
EnsPGvdatabaseadaptor ensGvalleleadaptorGetGvdatabaseadaptor(
const EnsPGvalleleadaptor gvaa);
AjBool ensGvalleleadaptorFetchAllbyGvvariation(
EnsPGvalleleadaptor gvaa,
const EnsPGvvariation gvv,
const EnsPGvpopulation gvp,
AjPList gvas);
AjBool ensGvalleleadaptorFetchAllbySubidentifier(
EnsPGvalleleadaptor gvaa,
ajuint subidentifier,
AjPList gvas);
AjBool ensGvalleleadaptorRetrieveAllFaileddescriptions(
EnsPGvalleleadaptor gvaa,
const EnsPGvallele gva,
AjPList descriptions);
AjBool ensGvalleleadaptorRetrieveSubhandle(
EnsPGvalleleadaptor gvaa,
const EnsPGvallele gva,
AjPStr *Psubhandle);
/*
** End of prototype definitions
*/
AJ_END_DECLS
#endif /* !ENSGVALLELE_H */
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