Tagger.h

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// --------------------------------------------------------------------------
//                   OpenMS -- Open-Source Mass Spectrometry
// --------------------------------------------------------------------------
// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2020.
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// This software is released under a three-clause BSD license:
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// $Maintainer: Eugen Netz $
// $Authors: Timo Sachsenberg, Eugen Netz $
// --------------------------------------------------------------------------
 
#pragma once
 
#include <OpenMS/DATASTRUCTURES/ListUtils.h>
#include <map>
 
namespace OpenMS
{
  class MSSpectrum;
 
  class OPENMS_DLLAPI Tagger
  {
    public:
      Tagger(size_t min_tag_length, double ppm, size_t max_tag_length = 65535, size_t min_charge = 1, size_t max_charge = 1, const StringList& fixed_mods = StringList(), const StringList& var_mods = StringList());
 
      void getTag(const std::vector<double>& mzs, std::vector<std::string>& tags) const;
 
      void getTag(const MSSpectrum& spec, std::vector<std::string>& tags) const;
 
      void setMaxCharge(size_t max_charge);
 
    private:
      double min_gap_; 
      double max_gap_; 
      double ppm_; 
      size_t min_tag_length_; 
      size_t max_tag_length_; 
      size_t min_charge_; 
      size_t max_charge_; 
      std::map<double, char> mass2aa_; 
 
      char getAAByMass_(double m) const;
      void getTag_(std::string& tag, const std::vector<double>& mzs, const size_t i, std::vector<std::string>& tags, const size_t charge) const;
  };
}