61 std::vector<PeptideIdentification>& identifications,
63 std::map<
String, std::vector<AASequence> >& peptides,
70 void endElement(
const XMLCh*
const ,
const XMLCh*
const ,
const XMLCh*
const qname)
override;
73 void startElement(
const XMLCh*
const ,
const XMLCh*
const ,
const XMLCh*
const qname,
const xercesc::Attributes& attributes)
override;
76 void characters(
const XMLCh*
const chars,
const XMLSize_t )
override;
79 static std::vector<String> splitModificationBySpecifiedAA(
String mod);
Representation of a protein identification run.
Definition: ProteinIdentification.h:61
A more convenient string class.
Definition: String.h:57
String date_time_string_
Definition: MascotXMLHandler.h:91
unsigned int UInt
Unsigned integer type.
Definition: Types.h:94
StringList tags_open_
tracking the current XML tree
Definition: MascotXMLHandler.h:98
String minor_version_
Definition: MascotXMLHandler.h:101
String actual_title_
Definition: MascotXMLHandler.h:95
Base class for XML handlers.
Definition: XMLHandler.h:148
ProteinIdentification & protein_identification_
the protein identifications
Definition: MascotXMLHandler.h:83
ProteinHit actual_protein_hit_
Definition: MascotXMLHandler.h:85
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:46
Handler that is used for parsing MascotXML data.
Definition: MascotXMLHandler.h:55
Search parameters of the DB search.
Definition: ProteinIdentification.h:103
bool no_rt_error_
Error for missing RT information already reported?
Definition: MascotXMLHandler.h:111
String tag_
Definition: MascotXMLHandler.h:89
String major_version_
Definition: MascotXMLHandler.h:100
DateTime date_
Definition: MascotXMLHandler.h:90
PeptideEvidence actual_peptide_evidence_
Definition: MascotXMLHandler.h:87
Representation of a peptide hit.
Definition: PeptideHit.h:54
Representation of a peptide evidence.
Definition: PeptideEvidence.h:50
UInt actual_query_
Definition: MascotXMLHandler.h:92
std::vector< PeptideIdentification > & id_data_
the identifications (storing the peptide hits)
Definition: MascotXMLHandler.h:84
std::vector< String > StringList
Vector of String.
Definition: ListUtils.h:73
Representation of a protein hit.
Definition: ProteinHit.h:53
UInt peptide_identification_index_
Definition: MascotXMLHandler.h:88
DateTime Class.
Definition: DateTime.h:54
const SpectrumMetaDataLookup & lookup_
Helper object for looking up RT information.
Definition: MascotXMLHandler.h:108
String identifier_
Definition: MascotXMLHandler.h:94
PeptideHit actual_peptide_hit_
Definition: MascotXMLHandler.h:86
ProteinIdentification::SearchParameters search_parameters_
Definition: MascotXMLHandler.h:93
String character_buffer_
filled by MascotXMLHandler::characters
Definition: MascotXMLHandler.h:99
std::vector< String > remove_fixed_mods_
Definition: MascotXMLHandler.h:105
std::map< String, std::vector< AASequence > > & modified_peptides_
Definition: MascotXMLHandler.h:96