/usr/lib/emboss/include/enskaryotype.h is in emboss-lib 6.6.0+dfsg-6build1.
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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 | /* @include enskaryotype ******************************************************
**
** Ensembl Karyotype Band functions
**
** @author Copyright (C) 1999 Ensembl Developers
** @author Copyright (C) 2006 Michael K. Schuster
** @version $Revision: 1.21 $
** @modified 2009 by Alan Bleasby for incorporation into EMBOSS core
** @modified $Date: 2012/08/05 11:06:37 $ 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 ENSKARYOTYPE_H
#define ENSKARYOTYPE_H
/* ========================================================================= */
/* ============================= include files ============================= */
/* ========================================================================= */
#include "ensfeature.h"
AJ_BEGIN_DECLS
/* ========================================================================= */
/* =============================== constants =============================== */
/* ========================================================================= */
/* @const EnsPKaryotypebandadaptor ********************************************
**
** Ensembl Karyotype Band Adaptor
** Defined as an alias in EnsPFeatureadaptor
**
** #alias EnsPFeatureadaptor
**
** #cc Bio::EnsEMBL::DBSQL::KaryotypeBandAdaptor
** ##
******************************************************************************/
#define EnsPKaryotypebandadaptor EnsPFeatureadaptor
/* ========================================================================= */
/* ============================== public data ============================== */
/* ========================================================================= */
/* @data EnsPKaryotypeband ****************************************************
**
** Ensembl Karyotype Band
**
** @alias EnsSKaryotypeband
** @alias EnsOKaryotypeband
**
** @attr Use [ajuint] Use counter
** @cc Bio::EnsEMBL::Storable
** @attr Identifier [ajuint] Internal SQL database identifier (primary key)
** @attr Adaptor [EnsPKaryotypebandadaptor] Ensembl Karyotype Band Adaptor
** @cc Bio::EnsEMBL::Karyotypeband
** @attr Feature [EnsPFeature] Ensembl Feature
** @attr Name [AjPStr] Name
** @attr Stain [AjPStr] Stain
** @@
******************************************************************************/
typedef struct EnsSKaryotypeband
{
ajuint Use;
ajuint Identifier;
EnsPKaryotypebandadaptor Adaptor;
EnsPFeature Feature;
AjPStr Name;
AjPStr Stain;
} EnsOKaryotypeband;
#define EnsPKaryotypeband EnsOKaryotypeband*
/* ========================================================================= */
/* =========================== public functions ============================ */
/* ========================================================================= */
/*
** Prototype definitions
*/
/* Ensembl Karyotype Band */
EnsPKaryotypeband ensKaryotypebandNewCpy(const EnsPKaryotypeband kb);
EnsPKaryotypeband ensKaryotypebandNewIni(EnsPKaryotypebandadaptor kba,
ajuint identifier,
EnsPFeature feature,
AjPStr name,
AjPStr stain);
EnsPKaryotypeband ensKaryotypebandNewRef(EnsPKaryotypeband kb);
void ensKaryotypebandDel(EnsPKaryotypeband *Pkb);
EnsPKaryotypebandadaptor ensKaryotypebandGetAdaptor(
const EnsPKaryotypeband kb);
EnsPFeature ensKaryotypebandGetFeature(
const EnsPKaryotypeband kb);
ajuint ensKaryotypebandGetIdentifier(
const EnsPKaryotypeband kb);
AjPStr ensKaryotypebandGetName(
const EnsPKaryotypeband kb);
AjPStr ensKaryotypebandGetStain(
const EnsPKaryotypeband kb);
AjBool ensKaryotypebandSetAdaptor(EnsPKaryotypeband kb,
EnsPKaryotypebandadaptor kba);
AjBool ensKaryotypebandSetFeature(EnsPKaryotypeband kb,
EnsPFeature feature);
AjBool ensKaryotypebandSetIdentifier(EnsPKaryotypeband kb,
ajuint identifier);
AjBool ensKaryotypebandSetName(EnsPKaryotypeband kb,
AjPStr name);
AjBool ensKaryotypebandSetStain(EnsPKaryotypeband kb,
AjPStr stain);
AjBool ensKaryotypebandTrace(const EnsPKaryotypeband kb,
ajuint level);
size_t ensKaryotypebandCalculateMemsize(const EnsPKaryotypeband kb);
/* AJAX List of Ensembl Karyotype Band objects */
AjBool ensListKaryotypebandSortEndAscending(AjPList kbs);
AjBool ensListKaryotypebandSortEndDescending(AjPList kbs);
AjBool ensListKaryotypebandSortIdentifierAscending(AjPList kbs);
AjBool ensListKaryotypebandSortStartAscending(AjPList kbs);
AjBool ensListKaryotypebandSortStartDescending(AjPList kbs);
/* Ensembl Karyoptype Band Adaptor */
EnsPKaryotypebandadaptor ensRegistryGetKaryotypebandadaptor(
EnsPDatabaseadaptor dba);
EnsPKaryotypebandadaptor ensKaryotypebandadaptorNew(
EnsPDatabaseadaptor dba);
void ensKaryotypebandadaptorDel(EnsPKaryotypebandadaptor *Padaptor);
EnsPBaseadaptor ensKaryotypebandadaptorGetBaseadaptor(
EnsPKaryotypebandadaptor kba);
EnsPDatabaseadaptor ensKaryotypebandadaptorGetDatabaseadaptor(
EnsPKaryotypebandadaptor kba);
EnsPFeatureadaptor ensKaryotypebandadaptorGetFeatureadaptor(
EnsPKaryotypebandadaptor kba);
AjBool ensKaryotypebandadaptorFetchAllbyChromosomeband(
EnsPKaryotypebandadaptor adaptor,
const AjPStr name,
const AjPStr band,
AjPList kblist);
AjBool ensKaryotypebandadaptorFetchAllbyChromosomename(
EnsPKaryotypebandadaptor adaptor,
const AjPStr name,
AjPList kblist);
/*
** End of prototype definitions
*/
AJ_END_DECLS
#endif /* !ENSKARYOTYPE_H */
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