Used to load MascotXML files. More...

Inheritance diagram for MascotXMLFile:

Public Types
typedef Internal::MascotXMLHandler::RTMapping	RTMapping
Public Member Functions
	MascotXMLFile ()
	Constructor.
void	load (const String &filename, ProteinIdentification &protein_identification, std::vector< PeptideIdentification > &id_data, const RTMapping &rt_mapping=RTMapping())
	loads data from a MascotXML file
void	load (const String &filename, ProteinIdentification &protein_identification, std::vector< PeptideIdentification > &id_data, std::map< String, std::vector< AASequence > > &peptides, const RTMapping &rt_mapping=RTMapping())
	loads data from a MascotXML file

Detailed Description

Used to load MascotXML files.

This class is used to load documents that implement the schema of MascotXML files.

Member Typedef Documentation

MascotXMLFile ( )

Constructor.

void load	(	const String &	filename,
		ProteinIdentification &	protein_identification,
		std::vector< PeptideIdentification > &	id_data,
		const RTMapping &	rt_mapping = `RTMapping()`
	)

loads data from a MascotXML file

Parameters:

	filename	the file to be loaded
	protein_identification	protein identifications belonging to the whole experiment
	id_data	the identifications with m/z and RT
	An	optional mapping of scan indices to RT, in case that the MascotXML file only has scan=XY values present

Exceptions:

	Exception::FileNotFound	is thrown if the file does not exists.
	Exception::ParseError	is thrown if the file does not suit to the standard.

This method serves to read in a MascotXML file. The information can be retrieved via the load function.

void load	(	const String &	filename,
		ProteinIdentification &	protein_identification,
		std::vector< PeptideIdentification > &	id_data,
		std::map< String, std::vector< AASequence > > &	peptides,
		const RTMapping &	rt_mapping = `RTMapping()`
	)

loads data from a MascotXML file

Parameters:

	filename	the file to be loaded
	protein_identification	protein identifications belonging to the whole experiment
	id_data	the identifications with m/z and RT
	peptides	a map of modified peptides identified by the String title
	An	optional mapping of scan indices to RT, in case that the MascotXML file only has scan=XY values present

Exceptions:

	Exception::FileNotFound	is thrown if the file does not exists.
	Exception::ParseError	is thrown if the file does not suit to the standard.

This method serves to read in a MascotXML file. The information can be retrieved via the load function.

OpenMS / TOPP release 1.10.0

Documentation generated on Thu Mar 7 2013 09:42:54 using doxygen 1.7.1