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PepIterator.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 #ifndef OPENMS_CHEMISTRY_PEPITERATOR_H
00028 #define OPENMS_CHEMISTRY_PEPITERATOR_H
00029 
00030 #include <vector>
00031 #include <OpenMS/CONCEPT/FactoryProduct.h>
00032 #include <OpenMS/CONCEPT/Exception.h>
00033  
00034 namespace OpenMS{
00035  
00041 class PepIterator : FactoryProduct
00042   {
00043   
00044   public:
00045     
00046   typedef std::pair <String, String> FASTAEntry;
00047   
00051   PepIterator();
00052   
00056   virtual ~PepIterator();
00057   
00061   PepIterator(const PepIterator & source);
00062 
00068   virtual FASTAEntry operator*() throw (Exception::InvalidIterator)=0;
00069   
00075   virtual PepIterator & operator++() throw (Exception::InvalidIterator)=0;
00076   
00082   virtual PepIterator * operator++(int) throw (Exception::InvalidIterator)=0;
00083 
00090   virtual void setFastaFile (const String & f) throw (Exception::FileNotFound, Exception::ParseError)=0;
00091   
00096   virtual String getFastaFile()=0;  
00097   
00103   virtual void setSpectrum (const std::vector<float> & s) throw (Exception::InvalidValue, Exception::NotImplemented)=0;
00104  
00109   virtual const std::vector<float> & getSpectrum ()=0;
00110 
00116   virtual void setTolerance (float t) throw (Exception::InvalidValue, Exception::NotImplemented)=0;
00117   
00122   virtual float getTolerance()=0;
00123   
00127   virtual bool begin()=0;
00128   
00132   virtual bool isAtEnd()=0;
00133   
00138   static void registerChildren();
00139   
00140   };
00141 }
00142 #endif // OPENMS_CHEMISTRY_PEPITERATOR_H

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