/usr/lib/emboss/include/ensprotein.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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 | /* @include ensprotein ********************************************************
**
** Ensembl Protein Feature functions
**
** @author Copyright (C) 1999 Ensembl Developers
** @author Copyright (C) 2006 Michael K. Schuster
** @version $Revision: 1.7 $
** @modified 2009 by Alan Bleasby for incorporation into EMBOSS core
** @modified $Date: 2012/08/05 11:22:27 $ 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 ENSPROTEIN_H
#define ENSPROTEIN_H
/* ========================================================================= */
/* ============================= include files ============================= */
/* ========================================================================= */
#include "ensfeature.h"
AJ_BEGIN_DECLS
/* ========================================================================= */
/* =============================== constants =============================== */
/* ========================================================================= */
/* @const EnsPProteinfeatureadaptor *******************************************
**
** Ensembl Protein Feature Adaptor.
** Defined as an alias in EnsPBaseadaptor.
**
** #alias EnsPBaseadaptor
**
** #cc Bio::EnsEMBL::DBSQL::ProteinFeatureAdaptor
** ##
******************************************************************************/
#define EnsPProteinfeatureadaptor EnsPBaseadaptor
/* ========================================================================= */
/* ============================== public data ============================== */
/* ========================================================================= */
/* @data EnsPProteinfeature ***************************************************
**
** Ensembl Protein Feature.
**
** @alias EnsSProteinfeature
** @alias EnsOProteinfeature
**
** @attr Use [ajuint] Use counter
** @cc Bio::EnsEMBL::Storable
** @attr Identifier [ajuint] SQL database-internal identifier
** @attr Adaptor [EnsPProteinfeatureadaptor] Ensembl Protein Feature Adaptor
** @cc Bio::EnsEMBL::Featurepair
** @attr Featurepair [EnsPFeaturepair] Ensembl Feature Pair
** @cc Bio::EnsEMBL::Proteinfeature
** @attr Accession [AjPStr] (InterPro) Accession
** @attr Description [AjPStr] (InterPro) Description
** @@
******************************************************************************/
typedef struct EnsSProteinfeature
{
ajuint Use;
ajuint Identifier;
EnsPProteinfeatureadaptor Adaptor;
EnsPFeaturepair Featurepair;
AjPStr Accession;
AjPStr Description;
} EnsOProteinfeature;
#define EnsPProteinfeature EnsOProteinfeature*
/* ========================================================================= */
/* =========================== public functions ============================ */
/* ========================================================================= */
/*
** Prototype definitions
*/
/* Ensembl Protein Feature */
EnsPProteinfeature ensProteinfeatureNewCpy(const EnsPProteinfeature object);
EnsPProteinfeature ensProteinfeatureNewIni(
EnsPProteinfeatureadaptor pfa,
ajuint identifier,
EnsPFeaturepair fp,
AjPStr accession,
AjPStr description);
EnsPProteinfeature ensProteinfeatureNewRef(EnsPProteinfeature pf);
void ensProteinfeatureDel(EnsPProteinfeature *Ppf);
AjPStr ensProteinfeatureGetAccession(
const EnsPProteinfeature pf);
EnsPProteinfeatureadaptor ensProteinfeatureGetAdaptor(
const EnsPProteinfeature pf);
AjPStr ensProteinfeatureGetDescription(
const EnsPProteinfeature pf);
EnsPFeaturepair ensProteinfeatureGetFeaturepair(
const EnsPProteinfeature pf);
ajuint ensProteinfeatureGetIdentifier(
const EnsPProteinfeature pf);
AjBool ensProteinfeatureSetAccession(EnsPProteinfeature pf,
AjPStr accession);
AjBool ensProteinfeatureSetAdaptor(EnsPProteinfeature pf,
EnsPProteinfeatureadaptor pfa);
AjBool ensProteinfeatureSetDescription(EnsPProteinfeature pf,
AjPStr description);
AjBool ensProteinfeatureSetFeaturepair(EnsPProteinfeature pf,
EnsPFeaturepair fp);
AjBool ensProteinfeatureSetIdentifier(EnsPProteinfeature pf,
ajuint identifier);
AjBool ensProteinfeatureTrace(const EnsPProteinfeature pf, ajuint level);
size_t ensProteinfeatureCalculateMemsize(const EnsPProteinfeature pf);
/* Ensembl Protein Feature Adaptor */
EnsPProteinfeatureadaptor ensRegistryGetProteinfeatureadaptor(
EnsPDatabaseadaptor dba);
EnsPProteinfeatureadaptor ensProteinfeatureadaptorNew(
EnsPDatabaseadaptor dba);
void ensProteinfeatureadaptorDel(EnsPProteinfeatureadaptor *Ppfa);
EnsPBaseadaptor ensProteinfeatureadaptorGetBaseadaptor(
EnsPProteinfeatureadaptor pfa);
EnsPDatabaseadaptor ensProteinfeatureadaptorGetDatabaseadaptor(
EnsPProteinfeatureadaptor pfa);
AjBool ensProteinfeatureadaptorFetchAllbyTranslationidentifier(
EnsPProteinfeatureadaptor pfa,
ajuint tlid,
AjPList pfs);
AjBool ensProteinfeatureadaptorFetchByIdentifier(
EnsPProteinfeatureadaptor pfa,
ajuint identifier,
EnsPProteinfeature *Ppf);
/*
** End of prototype definitions
*/
AJ_END_DECLS
#endif /* !ENSPROTEIN_H */
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