MascotXMLFile

class pyopenms.MascotXMLFile

Bases: object

Cython implementation of _MascotXMLFile

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1MascotXMLFile.html

– Inherits from [‘XMLFile’]

__init__()

  • Cython signature: void MascotXMLFile()

  • Cython signature: void MascotXMLFile(MascotXMLFile &)

Methods

__init__

  • Cython signature: void MascotXMLFile()

getVersion

Cython signature: String getVersion() Return the version of the schema

initializeLookup

Cython signature: void initializeLookup(SpectrumMetaDataLookup & lookup, MSExperiment & experiment, const String & scan_regex)

load

Cython signature: void load(const String & filename, ProteinIdentification & protein_identification, libcpp_vector[PeptideIdentification] & id_data, SpectrumMetaDataLookup & rt_mapping)
getVersion()

Cython signature: String getVersion() Return the version of the schema

initializeLookup()

Cython signature: void initializeLookup(SpectrumMetaDataLookup & lookup, MSExperiment & experiment, const String & scan_regex)

Parameters

  • lookup – Helper object to initialize

  • experiment – Experiment containing the spectra

  • scan_regex – Optional regular expression for extracting information from references to spectra

load()

Cython signature: void load(const String & filename, ProteinIdentification & protein_identification, libcpp_vector[PeptideIdentification] & id_data, SpectrumMetaDataLookup & rt_mapping)

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

  • lookup – Helper object for looking up spectrum meta data

Raises

Exception: FileNotFound is thrown if the file does not exists

Raises

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