MzTabMFile.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: Oliver Alka $
// $Authors: Oliver Alka  $
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#pragma once

#include <OpenMS/FORMAT/MzTabM.h>

namespace OpenMS
{
  class String;
  class SVOutStream;

  class OPENMS_DLLAPI MzTabMFile
  {
  public:
    MzTabMFile();

    ~MzTabMFile();

    void store(const String& filename, const MzTabM& mztab_m) const;

  protected:

    void generateMzTabMMetaDataSection_(const MzTabMMetaData& map, StringList& sl) const;

    String generateMzTabMSmallMoleculeHeader_(const MzTabMMetaData& meta, const std::vector<String>& optional_columns, size_t& n_columns) const;

    String generateMzTabMSmallMoleculeSectionRow_(const MzTabMSmallMoleculeSectionRow& row, const std::vector<String>& optional_columns, size_t& n_columns) const;

    String generateMzTabMSmallMoleculeFeatureHeader_(const MzTabMMetaData& meta, const std::vector<String>& optional_columns, size_t& n_columns) const;

    String generateMzTabMSmallMoleculeFeatureSectionRow_(const MzTabMSmallMoleculeFeatureSectionRow& row, const std::vector<String>& optional_columns, size_t& n_columns) const;

    String generateMzTabMSmallMoleculeEvidenceHeader_(const MzTabMMetaData& meta, const std::vector<String>& optional_columns, size_t& n_columns) const;

    String generateMzTabMSmallMoleculeEvidenceSectionRow_(const MzTabMSmallMoleculeEvidenceSectionRow& row, const std::vector<String>& optional_columns, size_t& n_columns) const;
  };

} // namespace OpenMS