/usr/lib/emboss/include/enssequence.h is in emboss-lib 6.6.0-1.
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 | /* @include enssequence *******************************************************
**
** Ensembl Sequence functions
**
** @author Copyright (C) 1999 Ensembl Developers
** @author Copyright (C) 2006 Michael K. Schuster
** @version $Revision: 1.15 $
** @modified 2009 by Alan Bleasby for incorporation into EMBOSS core
** @modified $Date: 2012/08/05 11:28:48 $ 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 ENSSEQUENCE_H
#define ENSSEQUENCE_H
/* ========================================================================= */
/* ============================= include files ============================= */
/* ========================================================================= */
#include "ensslice.h"
AJ_BEGIN_DECLS
/* ========================================================================= */
/* =============================== constants =============================== */
/* ========================================================================= */
/* ========================================================================= */
/* ============================== public data ============================== */
/* ========================================================================= */
/* @data EnsPSequenceadaptor **************************************************
**
** Ensembl Sequence Adaptor.
**
** @alias EnsSSequenceadaptor
** @alias EnsOSequenceadaptor
**
** @attr Adaptor [EnsPDatabaseadaptor] Ensembl Database Adaptor.
** @attr Cache [EnsPCache] Ensembl LRU Cache.
** @@
******************************************************************************/
typedef struct EnsSSequenceadaptor
{
EnsPDatabaseadaptor Adaptor;
EnsPCache Cache;
} EnsOSequenceadaptor;
#define EnsPSequenceadaptor EnsOSequenceadaptor*
/* ========================================================================= */
/* =========================== public functions ============================ */
/* ========================================================================= */
/*
** Prototype definitions
*/
/* Ensembl Sequence Adaptor */
EnsPSequenceadaptor ensRegistryGetSequenceadaptor(
EnsPDatabaseadaptor dba);
EnsPSequenceadaptor ensSequenceadaptorNew(
EnsPDatabaseadaptor dba);
void ensSequenceadaptorDel(EnsPSequenceadaptor *Psqa);
AjBool ensSequenceadaptorCacheClear(EnsPSequenceadaptor sqa);
EnsPDatabaseadaptor ensSequenceadaptorGetDatabaseadaptor(
EnsPSequenceadaptor sqa);
AjBool ensSequenceadaptorFetchSeqregionAllSeq(EnsPSequenceadaptor sqa,
const EnsPSeqregion sr,
AjPSeq *Psequence);
AjBool ensSequenceadaptorFetchSeqregionAllStr(EnsPSequenceadaptor sqa,
const EnsPSeqregion sr,
AjPStr *Psequence);
AjBool ensSequenceadaptorFetchSeqregionSubSeq(EnsPSequenceadaptor sqa,
const EnsPSeqregion sr,
ajuint start,
ajuint length,
AjPSeq *Psequence);
AjBool ensSequenceadaptorFetchSeqregionSubStr(EnsPSequenceadaptor sqa,
const EnsPSeqregion sr,
ajuint start,
ajuint length,
AjPStr *Psequence);
AjBool ensSequenceadaptorFetchSliceAllSeq(EnsPSequenceadaptor sqa,
EnsPSlice slice,
AjPSeq *Psequence);
AjBool ensSequenceadaptorFetchSliceAllStr(EnsPSequenceadaptor sqa,
EnsPSlice slice,
AjPStr *Psequence);
AjBool ensSequenceadaptorFetchSliceSubSeq(EnsPSequenceadaptor sqa,
EnsPSlice slice,
ajint start,
ajint end,
ajint strand,
AjPSeq *Psequence);
AjBool ensSequenceadaptorFetchSliceSubStr(EnsPSequenceadaptor sqa,
EnsPSlice slice,
ajint start,
ajint end,
ajint strand,
AjPStr *Psequence);
/*
** End of prototype definitions
*/
AJ_END_DECLS
#endif /* !ENSSEQUENCE_H */
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