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FeatureFinderAlgorithm.h (Maintainer: Clemens Groepl)

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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: Clemens Groepl $
00025 // --------------------------------------------------------------------------
00026 
00027 #ifndef OPENMS_TRANSFORMATIONS_FEATUREFINDER_FEATUREFINDERALGORITHM_H
00028 #define OPENMS_TRANSFORMATIONS_FEATUREFINDER_FEATUREFINDERALGORITHM_H
00029 
00030 #include <OpenMS/CONCEPT/FactoryProduct.h>
00031 #include <OpenMS/TRANSFORMATIONS/FEATUREFINDER/FeatureFinder.h>
00032 
00033 namespace OpenMS
00034 {
00035 
00036   // forward declaration
00037   class FeatureFinder;
00038   
00044   template<class PeakType, class FeatureType> class FeatureFinderAlgorithm : 
00045     public FactoryProduct
00046   {
00047     public:
00049       typedef MSExperiment<PeakType> MapType;
00051       typedef typename MapType::CoordinateType CoordinateType;
00053       typedef typename MapType::IntensityType IntensityType;
00055       typedef FeatureMap<FeatureType> FeatureMapType;
00056 
00058       FeatureFinderAlgorithm() :
00059         FactoryProduct("FeatureFinderAlgorithm"),
00060         map_(0),
00061         features_(0),
00062         ff_(0)
00063       {
00064       }
00065 
00067       virtual ~FeatureFinderAlgorithm()
00068       {
00069       }
00070 
00072       static void registerChildren();
00073 
00075       virtual void run()=0;
00076 
00082       virtual Param getDefaultParameters() const
00083       {
00084         return this->defaults_;
00085       }
00086 
00088       void setData(const MapType& map, FeatureMapType& features, FeatureFinder& ff)
00089       {
00090         map_ = &map;
00091         features_ = &features;
00092         ff_ = &ff;
00093       }
00094 
00095     protected:
00096 
00098       const MapType* map_;
00099 
00101       FeatureMapType* features_;
00102 
00104       FeatureFinder* ff_;
00105 
00106     private:
00107 
00109       FeatureFinderAlgorithm& operator=(const FeatureFinderAlgorithm&);
00110 
00112       FeatureFinderAlgorithm(const FeatureFinderAlgorithm&);
00113 
00114   };
00115 }
00116 
00117 #endif // OPENMS_TRANSFORMATIONS_FEATUREFINDER_FEATUREFINDERALGORITHM_H

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