MzTabMFile.h

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// Copyright (c) 2002-2023, The OpenMS Team -- EKU Tuebingen, ETH Zurich, and FU Berlin
// SPDX-License-Identifier: BSD-3-Clause
//
// --------------------------------------------------------------------------
// $Maintainer: Oliver Alka $
// $Authors: Oliver Alka  $
// --------------------------------------------------------------------------
 
#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