00001 /* -*- Mode: C -*- 00002 * sequence.h 00003 * Copyright © 2002-03 Laboratoire de Biologie Informatique et Théorique 00004 * Université de Montréal. 00005 * Author : Patrick Charbonneau 00006 * Created On : Wed Sep 12 16:48:15 2003 00007 * $Revision: 1.7 $ 00008 * $Id: sequence.h,v 1.7 2003/10/18 00:19:38 larosem Exp $ 00009 * 00010 * This file is part of xmlcpg. 00011 * 00012 * xmlcpg is free software; you can redistribute it and/or modify it under 00013 * the terms of the GNU Lesser General Public License as published by the Free 00014 * Software Foundation; either version 2 of the License, or (at your option) 00015 * any later version. 00016 * 00017 * xmlcpg is distributed in the hope that it will be useful, but WITHOUT ANY 00018 * WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS 00019 * FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License for 00020 * more details. 00021 * 00022 * You should have received a copy of the GNU Lesser General Public License 00023 * along with xmlcpg; if not, write to the Free Software Foundation, Inc., 00024 * 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA 00025 */ 00026 00027 00028 #ifndef _rnaml_sequence_h_ 00029 #define _rnaml_sequence_h_ 00030 00031 #include "numberingsystem.h" 00032 #include "seqdata.h" 00033 #include "seqannotation.h" 00034 #include "object.h" 00035 #include "xmlcpg.h" 00036 00037 00038 00042 typedef struct rnamlSEQUENCE rnamlSequence; 00043 00048 rnamlSequence* rnamlnewSequence (); 00049 00055 rnamlSequence* rnamlcloneSequence (const rnamlSequence *sequence); 00056 00061 void rnamldeleteSequence (rnamlSequence *sequence); 00062 00068 int rnamlisSequence (const rnamlObject *obj); 00069 00076 int rnamlequalsSequence (const rnamlSequence *left, const rnamlSequence *right); 00077 00084 const char* rnamlgetSequenceStrand (const rnamlSequence *sequence); 00085 00092 void rnamlsetSequenceStrand (rnamlSequence *sequence, const char *strand); 00093 00099 int rnamlgetSequenceLength (const rnamlSequence *sequence); 00100 00106 void rnamlsetSequenceLength (rnamlSequence *sequence, int length); 00107 00114 int rnamlgetSequenceCircular (const rnamlSequence *sequence); 00115 00121 void rnamlsetSequenceCircular (rnamlSequence *sequence, int circular); 00122 00128 void rnamladdSequenceNumberingSystem (rnamlSequence *sequence, rnamlNumberingSystem *numberingSystem); 00129 00135 xmlcpgList* rnamlgetSequenceNumberingSystems (rnamlSequence *sequence); 00136 00143 rnamlSeqData* rnamlgetSequenceSeqData (rnamlSequence *sequence); 00144 00150 void rnamlsetSequenceSeqData (rnamlSequence *sequence, rnamlSeqData *seqData); 00151 00158 rnamlSeqAnnotation* rnamlgetSequenceSeqAnnotation (rnamlSequence *sequence); 00159 00165 void rnamlsetSequenceSeqAnnotation (rnamlSequence *sequence, rnamlSeqAnnotation *seqAnnotation); 00166 00173 xmlcpgObject* rnamltoXMLSequence (const rnamlSequence *sequence); 00174 00175 #endif 00176