OpenMS
MascotXMLFile.h
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31 // $Maintainer: Timo Sachsenberg $
32 // $Authors: Nico Pfeifer $
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34 
35 #pragma once
36 
38 #include <OpenMS/FORMAT/XMLFile.h>
43 
44 
45 namespace OpenMS
46 {
47  class ProteinIdentification;
48 
57  class OPENMS_DLLAPI MascotXMLFile :
58  public Internal::XMLFile
59  {
60 public:
61 
64 
76  void load(const String& filename,
77  ProteinIdentification& protein_identification,
78  std::vector<PeptideIdentification>& id_data,
79  const SpectrumMetaDataLookup& lookup);
80 
93  void load(const String& filename,
94  ProteinIdentification& protein_identification,
95  std::vector<PeptideIdentification>& id_data,
96  std::map<String, std::vector<AASequence> >& peptides,
97  const SpectrumMetaDataLookup& lookup);
98 
106  static void initializeLookup(SpectrumMetaDataLookup& lookup, const PeakMap& experiment, const String& scan_regex = "");
107 
108  };
109 
110 } // namespace OpenMS
111 
Base class for loading/storing XML files that have a handler derived from XMLHandler.
Definition: XMLFile.h:49
In-Memory representation of a mass spectrometry run.
Definition: MSExperiment.h:72
Used to load Mascot XML files.
Definition: MascotXMLFile.h:59
void load(const String &filename, ProteinIdentification &protein_identification, std::vector< PeptideIdentification > &id_data, std::map< String, std::vector< AASequence > > &peptides, const SpectrumMetaDataLookup &lookup)
Loads data from a Mascot XML file.
void load(const String &filename, ProteinIdentification &protein_identification, std::vector< PeptideIdentification > &id_data, const SpectrumMetaDataLookup &lookup)
Loads data from a Mascot XML file.
MascotXMLFile()
Constructor.
static void initializeLookup(SpectrumMetaDataLookup &lookup, const PeakMap &experiment, const String &scan_regex="")
Initializes a helper object for looking up spectrum meta data (RT, m/z)
Representation of a protein identification run.
Definition: ProteinIdentification.h:76
Helper class for looking up spectrum meta data.
Definition: SpectrumMetaDataLookup.h:143
A more convenient string class.
Definition: String.h:60
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:48