MzTabMFile Class Reference

File adapter for MzTab-M files. More...

#include <OpenMS/FORMAT/MzTabMFile.h>

Public Member Functions
	MzTabMFile ()
	Default Constructor. More...
	~MzTabMFile ()
	Default Destructor. More...
void	store (const String &filename, const MzTabM &mztab_m) const
	Store MzTabM file. More...

Protected Member Functions
void	generateMzTabMMetaDataSection_ (const MzTabMMetaData &map, StringList &sl) const
	Generates the MzTabM MetaData Section. More...
String	generateMzTabMSmallMoleculeHeader_ (const MzTabMMetaData &meta, const std::vector< String > &optional_columns, size_t &n_columns) const
	Generates the MzTabM Small Molecule Header. More...
String	generateMzTabMSmallMoleculeSectionRow_ (const MzTabMSmallMoleculeSectionRow &row, const std::vector< String > &optional_columns, size_t &n_columns) const
	Generates the MzTabM Small Molecule Section. More...
String	generateMzTabMSmallMoleculeFeatureHeader_ (const MzTabMMetaData &meta, const std::vector< String > &optional_columns, size_t &n_columns) const
	Generates the MzTabM Small Molecule Header. More...
String	generateMzTabMSmallMoleculeFeatureSectionRow_ (const MzTabMSmallMoleculeFeatureSectionRow &row, const std::vector< String > &optional_columns, size_t &n_columns) const
	Generates the MzTabM Small Molecule Feature Section. More...
String	generateMzTabMSmallMoleculeEvidenceHeader_ (const MzTabMMetaData &meta, const std::vector< String > &optional_columns, size_t &n_columns) const
	Generates the MzTabM Small Molecule Header. More...
String	generateMzTabMSmallMoleculeEvidenceSectionRow_ (const MzTabMSmallMoleculeEvidenceSectionRow &row, const std::vector< String > &optional_columns, size_t &n_columns) const
	Generates the MzTabM Small Molecule Evidence Section. More...

Detailed Description

File adapter for MzTab-M files.

Constructor & Destructor Documentation

MzTabMFile()

MzTabMFile

(

)

Default Constructor.

~MzTabMFile()

~MzTabMFile

(

)

Default Destructor.

Member Function Documentation

generateMzTabMMetaDataSection_()

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

protected

Generates the MzTabM MetaData Section.

Parameters

map	MzTabMMetaData
sl	Fill Stringlist with MztabM MetaData entries

generateMzTabMSmallMoleculeEvidenceHeader_()

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

protected

Generates the MzTabM Small Molecule Header.

Parameters

meta	MzTabMMetaData
optional_columns	Add optional columns
n_columns	Stores the number of columns in the header

Returns

StringList with SEH entries

generateMzTabMSmallMoleculeEvidenceSectionRow_()

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

protected

Generates the MzTabM Small Molecule Evidence Section.

Parameters

row	MzTabMSmallMoleculeFeatureSectionRow
optional_columns	Add optional columns
n_columns	Stores the number of columns per row

Returns

StringList with SME entries

generateMzTabMSmallMoleculeFeatureHeader_()

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

protected

Generates the MzTabM Small Molecule Header.

Parameters

meta	MzTabMMetaData
optional_columns	Add optional columns
n_columns	Stores the number of columns in the header

Returns

StringList with SFH entries

generateMzTabMSmallMoleculeFeatureSectionRow_()

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

protected

Generates the MzTabM Small Molecule Feature Section.

Parameters

row	MzTabMSmallMoleculeFeatureSectionRow
optional_columns	Add optional columns
n_columns	Stores the number of columns per row

Returns

StringList with SMF entries

generateMzTabMSmallMoleculeHeader_()

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

protected

Generates the MzTabM Small Molecule Header.

Parameters

meta	MzTabMMetaData
optional_columns	Add optional columns
n_columns	Stores the number of columns in the header

Returns

StringList with SMH entries

generateMzTabMSmallMoleculeSectionRow_()

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

protected

Generates the MzTabM Small Molecule Section.

Parameters

row	MzTabMSmallMoleculeSectionRow
optional_columns	Add optional columns
n_columns	Stores the number of columns per row

Returns

StringList with SML entries

store()

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

Store MzTabM file.