FLASHDeconvFeatureFile.h

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//                   OpenMS -- Open-Source Mass Spectrometry
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// $Maintainer: Kyowon Jeong $
// $Authors: Kyowon Jeong $
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#pragma once

#include <OpenMS/config.h>
#include <OpenMS/ANALYSIS/TOPDOWN/FLASHDeconvHelperStructs.h>
#include <OpenMS/ANALYSIS/TOPDOWN/PeakGroup.h>

#include <iostream>
#include <iomanip>


namespace OpenMS
{
  class OPENMS_DLLAPI FLASHDeconvFeatureFile {
  public:
    static void writeHeader(std::fstream& fs);

    static void writePromexHeader(std::fstream& fs);

    static void writeTopFDFeatureHeader(std::vector<std::fstream>& fs);

    static void writeFeatures(const std::vector<FLASHDeconvHelperStructs::MassFeature>& mass_features, const String& file_name, std::fstream& fs);


    static void writeTopFDFeatures(const std::vector<FLASHDeconvHelperStructs::MassFeature>& mass_features,
                                   const std::map<int, PeakGroup>& precursor_peak_groups,
                                   const std::map<int, double>& scan_rt_map, const String& file_name, std::vector<std::fstream>& fs);

    static void writePromexFeatures(const std::vector<FLASHDeconvHelperStructs::MassFeature>& mass_features,
                                    const std::map<int, PeakGroup>& precursor_peak_groups,
                                    const std::map<int, double>& scan_rt_map,
                                    const FLASHDeconvHelperStructs::PrecalculatedAveragine& avg,
                                    std::fstream& fs);


  };
}