35 #ifndef OPENMS_FORMAT_HANDLERS_MZQUANTMLHANDLER_H
36 #define OPENMS_FORMAT_HANDLERS_MZQUANTMLHANDLER_H
73 virtual void endElement(
const XMLCh *
const ,
const XMLCh *
const ,
const XMLCh *
const qname);
76 virtual void startElement(
const XMLCh *
const ,
const XMLCh *
const ,
const XMLCh *
const qname,
const xercesc::Attributes & attributes);
79 virtual void characters(
const XMLCh *
const chars,
const XMLSize_t length);
82 virtual void writeTo(std::ostream & os);
99 void handleCVParam_(
const String & parent_parent_tag,
const String & parent_tag,
const String & accession,
const String & name,
const String & value,
const xercesc::Attributes & attributes,
const String & cv_ref,
const String & unit_accession =
"");
102 void handleUserParam_(
const String & parent_parent_tag,
const String & parent_tag,
const String & name,
const String & type,
const String & value);
118 void writeFeature_(std::ostream & os,
const String & identifier_prefix,
UInt64 identifier,
UInt indentation_level);
142 std::map<String, ConsensusFeature::Ratio>
r_rtemp_;
144 std::map<String, ConsensusFeature::Ratio>
r_r_obj_;
String current_id_
Definition: MzQuantMLHandler.h:130
Representation of a CV term.
Definition: ControlledVocabulary.h:60
A more convenient string class.
Definition: String.h:56
std::set< DataProcessing::ProcessingAction > current_pas_
Definition: MzQuantMLHandler.h:150
const ProgressLogger & logger_
Progress logger.
Definition: MzQuantMLHandler.h:87
std::map< String, ConsensusFeature > cf_cf_obj_
Definition: MzQuantMLHandler.h:140
std::vector< CVTerm > cvp_stack_
Definition: MzQuantMLHandler.h:135
Definition: MSQuantifications.h:127
std::map< String, Software > current_sws_
Definition: MzQuantMLHandler.h:147
const MSQuantifications * cmsq_
Definition: MzQuantMLHandler.h:96
std::map< int, DataProcessing > current_orderedps_
Definition: MzQuantMLHandler.h:148
Base class for XML handlers.
Definition: XMLHandler.h:89
XML handler for MzQuantMLFile.
Definition: MzQuantMLHandler.h:55
std::map< String, String > numden_r_ids_
Definition: MzQuantMLHandler.h:143
Representation of a controlled vocabulary.
Definition: ControlledVocabulary.h:54
std::pair< int, DataProcessing > current_dp_
Definition: MzQuantMLHandler.h:149
std::vector< String > current_col_types_
Definition: MzQuantMLHandler.h:152
String current_cf_id_
Definition: MzQuantMLHandler.h:131
Definition: MSQuantifications.h:51
Size current_count_
Definition: MzQuantMLHandler.h:132
OPENMS_UINT64_TYPE UInt64
Unsigned integer type (64bit)
Definition: Types.h:75
std::map< String, FeatureHandle > f_f_obj_
Definition: MzQuantMLHandler.h:141
MSQuantifications::Assay current_assay_
Definition: MzQuantMLHandler.h:136
std::map< String, String > f_cf_ids_
Definition: MzQuantMLHandler.h:139
std::vector< MetaInfo > up_stack_
Definition: MzQuantMLHandler.h:134
std::map< String, ConsensusFeature::Ratio > r_rtemp_
Definition: MzQuantMLHandler.h:142
size_t Size
Size type e.g. used as variable which can hold result of size()
Definition: Types.h:144
Base class for all classes that want to report their progess.
Definition: ProgressLogger.h:56
std::multimap< String, String > cm_cf_ids_
Definition: MzQuantMLHandler.h:138
ControlledVocabulary cv_
Controlled vocabulary (hopefully the psi-pi from OpenMS/share/OpenMS/CV/psi-pi.obo) ...
Definition: MzQuantMLHandler.h:90
std::map< String, ConsensusFeature::Ratio > r_r_obj_
Definition: MzQuantMLHandler.h:144
std::vector< DoubleReal > current_dm_values_
Definition: MzQuantMLHandler.h:153
String tag_
Definition: MzQuantMLHandler.h:92
MSQuantifications * msq_
Definition: MzQuantMLHandler.h:94
Map class based on the STL map (containing serveral convenience functions)
Definition: Map.h:50
std::map< String, std::vector< ExperimentalSettings > > current_files_
Definition: MzQuantMLHandler.h:129
std::vector< DoubleReal > current_row_
Definition: MzQuantMLHandler.h:154