ConsensusIDAlgorithmSimilarity.h

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//                   OpenMS -- Open-Source Mass Spectrometry
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// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
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// $Maintainer: Hendrik Weisser $
// $Authors: Andreas Bertsch, Marc Sturm, Sven Nahnsen, Hendrik Weisser $
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#pragma once

#include <OpenMS/ANALYSIS/ID/ConsensusIDAlgorithm.h>

namespace OpenMS
{
  class OPENMS_DLLAPI ConsensusIDAlgorithmSimilarity :
    public ConsensusIDAlgorithm
  {
  protected:
    ConsensusIDAlgorithmSimilarity();

    typedef std::map<std::pair<AASequence, AASequence>, double> SimilarityCache;

    SimilarityCache similarities_;

    virtual double getSimilarity_(AASequence seq1, AASequence seq2) = 0;

  private:
    ConsensusIDAlgorithmSimilarity(const ConsensusIDAlgorithmSimilarity&);

    ConsensusIDAlgorithmSimilarity& operator=(const ConsensusIDAlgorithmSimilarity&);

    void apply_(std::vector<PeptideIdentification>& ids,
                        SequenceGrouping& results) override;
  };

} // namespace OpenMS