MRMFeature.h

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// Copyright (c) 2002-present, OpenMS Inc. -- EKU Tuebingen, ETH Zurich, and FU Berlin
// SPDX-License-Identifier: BSD-3-Clause
//
// --------------------------------------------------------------------------
// $Maintainer: Hannes Roest $
// $Authors: Hannes Roest $
// --------------------------------------------------------------------------
 
#pragma once
 
#include <OpenMS/KERNEL/Feature.h>
#include <OpenMS/ANALYSIS/OPENSWATH/OpenSwathScores.h>
 
namespace OpenMS
{
  class OPENMS_DLLAPI MRMFeature :
    public Feature
  {
public:
 
 
 
    typedef std::vector<Feature> FeatureListType;
 
 
 
    MRMFeature();
 
    MRMFeature(const MRMFeature &rhs);
 
    MRMFeature(MRMFeature &&rhs) = default;
 
    MRMFeature & operator=(const MRMFeature & rhs);
 
    MRMFeature& operator=(MRMFeature&&) & = default;
 
    ~MRMFeature() override;
 
 
 
    const OpenSwath_Scores & getScores() const;
 
    OpenSwath_Scores & getScores();
 
    Feature & getFeature(const std::string& key);
 
    const Feature & getFeature(const std::string& key) const;
 
    void setScores(const OpenSwath_Scores & scores);
 
    void addScore(const std::string & score_name, double score);
 
    void addFeature(const Feature & feature, const std::string& key);
 
    void addFeature(Feature && feature, const std::string& key);
 
    const std::vector<Feature> & getFeatures() const;
 
    void getFeatureIDs(std::vector<std::string> & result) const;
 
    void addPrecursorFeature(const Feature & feature, const std::string& key);
 
    void addPrecursorFeature(Feature && feature, const std::string& key);
 
    void getPrecursorFeatureIDs(std::vector<std::string> & result) const;
 
    Feature & getPrecursorFeature(const std::string& key);
 
    const Feature & getPrecursorFeature(const std::string& key) const;
 
    void IDScoresAsMetaValue(bool decoy, const OpenSwath_Ind_Scores& idscores);
 
protected:
 
    FeatureListType features_;
 
    FeatureListType precursor_features_;
 
    OpenSwath_Scores pg_scores_;
 
    std::map<std::string, int> feature_map_;
 
    std::map<std::string, int> precursor_feature_map_;
 
  };
}