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FASTAFile.h (Maintainer: Nico Pfeifer)

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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: Nico Pfeifer $
00025 // --------------------------------------------------------------------------
00026 
00027 #ifndef OPENMS_FORMAT_FASTAFILE_H
00028 #define OPENMS_FORMAT_FASTAFILE_H
00029 
00030 #include <OpenMS/CONCEPT/Exception.h>
00031 #include <OpenMS/DATASTRUCTURES/String.h>
00032 
00033 #include <vector>
00034 
00035 namespace OpenMS
00036 {
00041   class FASTAFile
00042   {
00043    public:
00044 
00053     typedef std::pair<String, String> FASTAEntry;
00054 
00056     typedef std::vector< FASTAEntry > FASTAType;
00057 
00059     FASTAFile();
00060 
00062     virtual ~FASTAFile();
00063 
00067     void load(const String& filename, FASTAType& data) throw (Exception::FileNotFound,Exception::ParseError);
00068 
00072     void store(const String& filename, const FASTAType& data) const throw (Exception::UnableToCreateFile);
00073 
00074   };
00075 
00076 } // namespace OpenMS
00077 
00078 #endif // OPENMS_FORMAT_FASTAFILE_H

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