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BaseSuperimposer.h (Maintainer: Eva Lange)

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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 // $Maintainer: Eva Lange$
00025 // --------------------------------------------------------------------------
00026 
00027 
00028 #ifndef OPENMS_ANALYSIS_MAPMATCHING_BASESUPERIMPOSER_H
00029 #define OPENMS_ANALYSIS_MAPMATCHING_BASESUPERIMPOSER_H
00030 
00031 #include <OpenMS/ANALYSIS/MAPMATCHING/LinearMapping.h>
00032 #include <OpenMS/KERNEL/FeatureMap.h>
00033 
00034 #include <utility>
00035 #include <fstream>
00036 
00037 namespace OpenMS
00038 {
00039 
00054   template <typename MapT = FeatureMap<> >
00055   class BaseSuperimposer 
00056     : public FactoryProduct
00057   {
00058   public:
00059     
00062     enum LCMS
00063     {
00064       RT = 0,
00065       MZ = 1
00066     };
00067 
00071     enum Maps
00072     {
00073       MODEL = 0,
00074       SCENE = 1
00075     };
00076 
00078     typedef MapT PointMapType;
00079 
00081     typedef typename PointMapType::value_type PointType;
00082 
00084     typedef DoubleReal QualityType;
00085 
00087     typedef DPosition < 2 > PositionType;
00088 
00090     typedef DoubleReal IntensityType;
00091 
00093     typedef LinearMapping TransformationType;
00094 
00096     BaseSuperimposer()
00097         : FactoryProduct("BaseSuperimposer"),
00098           final_transformation_()
00099     {
00100       element_map_[MODEL] = 0;
00101       element_map_[SCENE] = 0;
00102     }
00103 
00105     virtual ~BaseSuperimposer()
00106     {
00107     }
00108 
00110     void setElementMap(UInt const index, const PointMapType& element_map)
00111     {
00112       element_map_[index] = &element_map;
00113     }
00114 
00116     const PointMapType& getElementMap(UInt index)
00117     {
00118       return *element_map_[index];
00119     }
00120 
00122     const PointMapType& getElementMap(UInt index) const
00123     {
00124       return *element_map_[index];
00125     }
00126 
00128     void setTransformation(UInt dim, const TransformationType& trafo)
00129     {
00130       final_transformation_[dim] = trafo;
00131     }
00132 
00134     const TransformationType& getTransformation(UInt dim) const
00135     {
00136       return final_transformation_[dim];
00137     }
00138 
00140     virtual void run() = 0;
00141 
00142 
00144     static void registerChildren();
00145 
00146   protected:
00148     PointMapType const * element_map_[2];
00149 
00151     TransformationType final_transformation_[2];
00152   }
00153   ; // BaseSuperimposer
00154 
00155 } // namespace OpenMS
00156 
00157 #endif  // OPENMS_ANALYSIS_MAPMATCHING_BASESUPERIMPOSER_H

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