TransitionPQPFile.h

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// $Maintainer: George Rosenberger $
// $Authors: George Rosenberger, Hannes Roest $
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#pragma once
 
#include <OpenMS/ANALYSIS/OPENSWATH/TransitionTSVFile.h>
 
#include <boost/range/algorithm.hpp>
#include <boost/range/algorithm_ext/erase.hpp>
#include <iostream>
 
namespace OpenMS
{
 
  class OPENMS_DLLAPI TransitionPQPFile :
    public TransitionTSVFile
  {
 
private:
 
    void readPQPInput_(const char* filename, std::vector<TSVTransition>& transition_list, bool legacy_traml_id = false);
 
    void writePQPOutput_(const char* filename, OpenMS::TargetedExperiment& targeted_exp);
 
public:
 
    TransitionPQPFile();
 
    ~TransitionPQPFile() override;
 
    void convertTargetedExperimentToPQP(const char* filename, OpenMS::TargetedExperiment& targeted_exp);
 
    void convertPQPToTargetedExperiment(const char* filename, OpenMS::TargetedExperiment& targeted_exp, bool legacy_traml_id = false);
 
    void convertPQPToTargetedExperiment(const char* filename, OpenSwath::LightTargetedExperiment& targeted_exp, bool legacy_traml_id = false);
 
  };
}