SimplePairFinder.h

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// $Maintainer: Clemens Groepl $
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#ifndef OPENMS_ANALYSIS_MAPMATCHING_SIMPLEPAIRFINDER_H
#define OPENMS_ANALYSIS_MAPMATCHING_SIMPLEPAIRFINDER_H

#include <OpenMS/ANALYSIS/MAPMATCHING/BaseGroupFinder.h>

#define V_SimplePairFinder(bla) // std::cout << bla << std::endl;

namespace OpenMS
{

  class OPENMS_DLLAPI SimplePairFinder :
    public BaseGroupFinder
  {
public:
    typedef BaseGroupFinder Base;

    SimplePairFinder();
    virtual ~SimplePairFinder()
    {
    }

    static BaseGroupFinder * create()
    {
      return new SimplePairFinder();
    }

    static const String getProductName()
    {
      return "simple";
    }

    virtual void run(const std::vector<ConsensusMap> & input_maps, ConsensusMap & result_map);

protected:

    //docu in base class
    virtual void updateMembers_();

    DoubleReal diff_exponent_[2];

    DoubleReal diff_intercept_[2];

    DoubleReal pair_min_quality_;

    DoubleReal similarity_(ConsensusFeature const & left, ConsensusFeature const & right) const;

  }; // SimplePairFinder

} // namespace OpenMS

#endif  // OPENMS_ANALYSIS_MAPMATCHING_SimplePairFinder_H

/*

gnuplot history - how the plot was created - please do not delete this receipt

f(x,intercept,exponent)=1/(1+(abs(x)*intercept)**exponent)
set terminal postscript enhanced color
set output "choosingsimplepairfinderparams.ps"
set size ratio .3
plot [-3:3] [0:1] f(x,1,1), f(x,2,1), f(x,1,2), f(x,2,2)

*/