// --------------------------------------------------------------------------
//                   OpenMS -- Open-Source Mass Spectrometry
// --------------------------------------------------------------------------
// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2018.
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// This software is released under a three-clause BSD license:
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//  * Redistributions in binary form must reproduce the above copyright
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// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
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// --------------------------------------------------------------------------
// $Maintainer: Timo Sachsenberg $
// $Authors: $
// --------------------------------------------------------------------------
//
#pragma once

#include <OpenMS/COMPARISON/SPECTRA/PeakSpectrumCompareFunctor.h>

namespace OpenMS
{

  /**
      @brief Similarity score of Zhang

        The details of the score can be found in:
        Z. Zhang, Prediction of Low-Energy Collision-Induced Dissociation Spectra of Peptides,
        Anal. Chem., 76 (14), 3908 - 3922, 2004

        @htmlinclude OpenMS_ZhangSimilarityScore.parameters

        @ingroup SpectraComparison
  */

  class OPENMS_DLLAPI ZhangSimilarityScore :
    public PeakSpectrumCompareFunctor
  {
public:

    // @name Constructors and Destructors
    // @{
    /// default constructor
    ZhangSimilarityScore();

    /// copy constructor
    ZhangSimilarityScore(const ZhangSimilarityScore & source);

    /// destructor
    ~ZhangSimilarityScore() override;
    // @}

    // @name Operators
    // @{
    /// assignment operator
    ZhangSimilarityScore & operator=(const ZhangSimilarityScore & source);

    ///
    double operator()(const PeakSpectrum & spec1, const PeakSpectrum & spec2) const override;

    double operator()(const PeakSpectrum & spec) const override;
    // @}

    // @name Accessors
    // @{
    ///
    static PeakSpectrumCompareFunctor * create() { return new ZhangSimilarityScore(); }

    ///
    static const String getProductName()
    {
      return "ZhangSimilarityScore";
    }

    // @}

protected:

    /// returns the factor associated with the m/z tolerance and m/z difference of the peaks
    double getFactor_(double mz_tolerance, double mz_difference, bool is_gaussian = false) const;


  };

}
