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SuffixArrayTrypticSeqan.h (Maintainer: Chris Bauer)

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00001 // -*- Mode: C++; tab-width: 2; -*-
00002 // vi: set ts=2:
00003 //
00004 // --------------------------------------------------------------------------
00005 //                   OpenMS Mass Spectrometry Framework
00006 // --------------------------------------------------------------------------
00007 //  Copyright (C) 2003-2008 -- Oliver Kohlbacher, Knut Reinert
00008 //
00009 //  This library is free software; you can redistribute it and/or
00010 //  modify it under the terms of the GNU Lesser General Public
00011 //  License as published by the Free Software Foundation; either
00012 //  version 2.1 of the License, or (at your option) any later version.
00013 //
00014 //  This library is distributed in the hope that it will be useful,
00015 //  but WITHOUT ANY WARRANTY; without even the implied warranty of
00016 //  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
00017 //  Lesser General Public License for more details.
00018 //
00019 //  You should have received a copy of the GNU Lesser General Public
00020 //  License along with this library; if not, write to the Free Software
00021 //  Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
00022 //
00023 // --------------------------------------------------------------------------
00024 // $Maintainer: Chris Bauer$
00025 // --------------------------------------------------------------------------
00026 
00027 
00028 
00029 #ifndef OPENMS_DATASTRUCTURES_SUFFIXARRAYTRYPTICSEQAN_H
00030 #define OPENMS_DATASTRUCTURES_SUFFIXARRAYTRYPTICSEQAN_H
00031 
00032 #include <OpenMS/DATASTRUCTURES/SuffixArraySeqan.h>
00033 
00034 namespace OpenMS {
00035 
00043 class SuffixArrayTrypticSeqan : public SuffixArraySeqan  {
00044   
00045 public:
00046 
00047   SuffixArrayTrypticSeqan(const String & st,const String & sa_file_name) throw (Exception::InvalidValue,Exception::FileNotFound);
00048   
00055   bool isDigestingEnd(const char aa1, const char aa2) const;
00056 
00057   
00058 };
00059 }
00060 
00061 #endif //OPENMS_DATASTRUCTURES_SUFFIXARRAYTRYPTICSEQAN_H

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