35 #ifndef OPENMS_FORMAT_CONSENSUSXMLFILE_H
36 #define OPENMS_FORMAT_CONSENSUSXMLFILE_H
98 virtual void endElement(
const XMLCh *
const ,
const XMLCh *
const ,
const XMLCh *
const qname);
101 virtual void startElement(
const XMLCh *
const ,
const XMLCh *
const ,
const XMLCh *
const qname,
const xercesc::Attributes & attributes);
104 virtual void characters(
const XMLCh *
const chars,
const XMLSize_t length);
148 #endif // OPENMS_FOMAT_CONSENSUSXMLFILE_H
Representation of a protein identification run.
Definition: ProteinIdentification.h:61
ConsensusMap * consensus_map_
Definition: ConsensusXMLFile.h:116
A more convenient string class.
Definition: String.h:56
Map< String, String > id_identifier_
Map from file xs:id to identification run identifier (for linking peptide identifications to the corr...
Definition: ConsensusXMLFile.h:139
PeakFileOptions options_
Options that can be set.
Definition: ConsensusXMLFile.h:112
ProteinIdentification::SearchParameters search_param_
Temporary search parameters file.
Definition: ConsensusXMLFile.h:141
ConsensusFeature act_cons_element_
Definition: ConsensusXMLFile.h:117
ProteinHit prot_hit_
Temporary protein hit.
Definition: ConsensusXMLFile.h:129
ProteinIdentification prot_id_
Temporary protein ProteinIdentification.
Definition: ConsensusXMLFile.h:125
A container for consensus elements.
Definition: ConsensusMap.h:60
Base class for XML handlers.
Definition: XMLHandler.h:89
PeptideHit pep_hit_
Temporary peptide hit.
Definition: ConsensusXMLFile.h:131
Search parameters of the DB search.
Definition: ProteinIdentification.h:115
PeptideIdentification pep_id_
Temporary peptide ProteinIdentification.
Definition: ConsensusXMLFile.h:127
Map< String, Size > accession_to_id_
Map from search identifier concatenated with protein accession to id.
Definition: ConsensusXMLFile.h:135
Map< String, String > identifier_id_
Map from identification run identifier to file xs:id (for linking peptide identifications to the corr...
Definition: ConsensusXMLFile.h:137
UInt progress_
Definition: ConsensusXMLFile.h:143
This class provides Input functionality for ConsensusMaps and Output functionality for alignments and...
Definition: ConsensusXMLFile.h:59
Representation of a peptide hit.
Definition: PeptideHit.h:54
Map< String, String > proteinid_to_accession_
Map from protein id to accession.
Definition: ConsensusXMLFile.h:133
Representation of a protein hit.
Definition: ProteinHit.h:54
DoubleReal it_
Definition: ConsensusXMLFile.h:119
Base class for all classes that want to report their progess.
Definition: ProgressLogger.h:56
Base class for loading/storing XML files that have a handler derived from XMLHandler.
Definition: XMLFile.h:51
MetaInfoInterface * last_meta_
Pointer to last read object as a MetaInfoInterface, or null.
Definition: ConsensusXMLFile.h:123
Options for loading files containing peak data.
Definition: PeakFileOptions.h:47
DPosition< 2 > pos_
Definition: ConsensusXMLFile.h:118
Map class based on the STL map (containing serveral convenience functions)
Definition: Map.h:50
A 2-dimensional consensus feature.
Definition: ConsensusFeature.h:59
Represents the peptide hits for a spectrum.
Definition: PeptideIdentification.h:63