EmgFitter1D.h

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//                   OpenMS -- Open-Source Mass Spectrometry
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// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2018.
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// $Maintainer: Timo Sachsenberg $
// $Authors: $
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#pragma once

#include <OpenMS/TRANSFORMATIONS/FEATUREFINDER/LevMarqFitter1D.h>

namespace OpenMS
{
  class OPENMS_DLLAPI EmgFitter1D :
    public LevMarqFitter1D
  {
public:

    EmgFitter1D();

    EmgFitter1D(const EmgFitter1D& source);

    ~EmgFitter1D() override;

    virtual EmgFitter1D& operator=(const EmgFitter1D& source);

    static Fitter1D* create()
    {
      return new EmgFitter1D();
    }

    static const String getProductName()
    {
      return "EmgFitter1D";
    }

    QualityType fit1d(const RawDataArrayType& range, InterpolationModel*& model) override;

protected:
    struct Data
    {
      typedef Peak1D PeakType;
      typedef std::vector<PeakType> RawDataArrayType;

      Size n;
      RawDataArrayType set;
    };

    class EgmFitterFunctor :
      public LevMarqFitter1D::GenericFunctor
    {
public:
      EgmFitterFunctor(int dimensions, const EmgFitter1D::Data* data) :
        LevMarqFitter1D::GenericFunctor(dimensions,
                                        static_cast<int>(data->n)),
        m_data(data)
      {}

      int operator()(const Eigen::VectorXd& x, Eigen::VectorXd& fvec) override;
      // compute Jacobian matrix for the different parameters
      int df(const Eigen::VectorXd& x, Eigen::MatrixXd& J) override;

protected:
      const EmgFitter1D::Data* m_data;
    };

    virtual void setInitialParameters_(const RawDataArrayType& set);

    CoordinateType height_;
    CoordinateType width_;
    CoordinateType symmetry_;
    CoordinateType retention_;

    void updateMembers_() override;
  };

}