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Scaler.h (Maintainer: Andreas Bertsch)

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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: Andreas Bertsch $
00025 // --------------------------------------------------------------------------
00026 //
00027 #ifndef OPENMS_FILTERING_TRANSFORMERS_SCALER_H
00028 #define OPENMS_FILTERING_TRANSFORMERS_SCALER_H
00029 
00030 #include <OpenMS/FILTERING/TRANSFORMERS/PreprocessingFunctor.h>
00031 #include <map>
00032 
00033 namespace OpenMS
00034 {
00040   class Scaler
00041     : public PreprocessingFunctor
00042   {
00043   public:
00044 
00045     // @name Constructors and Destructors
00046     // @{
00048     Scaler();
00049 
00051     Scaler(const Scaler& source);
00052 
00054     virtual ~Scaler();
00055     // @}
00056 
00057     // @name Operators
00058     // @{
00060     Scaler& operator = (const Scaler& source);
00061     // @}
00062 
00063     // @name Accessors
00064     // @{
00066     static PreprocessingFunctor* create() { return new Scaler(); }
00067 
00069     static const String getProductName()
00070     {
00071       return "Scaler";
00072     }
00073 
00074     template <typename SpectrumType> void filterSpectrum(SpectrumType& spectrum)
00075     { 
00076       if (spectrum.size()==0) return;
00077       
00078       spectrum.getContainer().sortByIntensity();
00079       typename SpectrumType::size_type count = spectrum.size();
00080       ++count;
00081       typename SpectrumType::PeakType::IntensityType last_int = 0.0; 
00082       typename SpectrumType::Iterator it = spectrum.end();
00083       do
00084       {
00085         --it;
00086         if (it->getIntensity()!=last_int)
00087         {
00088           --count;
00089         }
00090         last_int = it->getIntensity();
00091         it->setIntensity(count);
00092       }
00093       while (it!=spectrum.begin());
00094     }
00095 
00096     void filterPeakSpectrum(PeakSpectrum& spectrum);
00097 
00098     void filterPeakMap(PeakMap& exp);
00099     // @}
00100 
00101   };
00102 
00103 }
00104 #endif //OPENMS_FILTERING_TRANSFORMERS_SCALER_H

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