35 #ifndef OPENMS_FORMAT_HANDLERS_TRAMLHANDLER_H 36 #define OPENMS_FORMAT_HANDLERS_TRAMLHANDLER_H 76 virtual void endElement(
const XMLCh *
const ,
const XMLCh *
const ,
const XMLCh *
const qname);
79 virtual void startElement(
const XMLCh *
const ,
const XMLCh *
const ,
const XMLCh *
const qname,
const xercesc::Attributes & attributes);
82 virtual void characters(
const XMLCh *
const chars,
const XMLSize_t length);
85 virtual void writeTo(std::ostream & os);
136 void handleCVParam_(
const String & parent_parent_tag,
const String & parent_tag,
const CVTerm & cv_term);
139 void handleUserParam_(
const String & parent_parent_tag,
const String & parent_tag,
const String & name,
const String & type,
const String & value);
144 void writeUserParams_(std::ostream & os,
const std::vector<MetaInfoInterface> & meta,
UInt indent)
const;
146 void writeCVParams_(std::ostream & os,
const CVTermList & cv_terms,
UInt indent)
const;
149 void writeTarget_(std::ostream & os,
const std::vector<IncludeExcludeTarget>::const_iterator & it)
const;
151 void writeProduct_(std::ostream & os,
const std::vector<ReactionMonitoringTransition::Product>::const_iterator & prod_it)
const;
153 void writeConfiguration_(std::ostream & os,
const std::vector<ReactionMonitoringTransition::Configuration>::const_iterator & cit)
const;
170 #endif // OPENMS_FORMAT_HANDLERS_TRAMLHANDLER_H TargetedExperiment::Prediction actual_prediction_
Definition: TraMLHandler.h:107
TargetedExperiment::Peptide actual_peptide_
Definition: TraMLHandler.h:115
Representation of a CV term.
Definition: ControlledVocabulary.h:60
A more convenient string class.
Definition: String.h:57
TargetedExperiment::Protein actual_protein_
Definition: TraMLHandler.h:111
String tag_
Definition: TraMLHandler.h:95
Representation of controlled vocabulary term list.
Definition: CVTermList.h:54
Software actual_software_
Definition: TraMLHandler.h:109
std::vector< ReactionMonitoringTransition::Configuration > ConfigurationListType
Definition: TraMLHandler.h:60
Definition: TargetedExperimentHelper.h:360
CVTermList actual_interpretation_
Definition: TraMLHandler.h:125
TargetedExperiment::RetentionTime actual_rt_
Definition: TraMLHandler.h:113
XML handler for TraMLFile.
Definition: TraMLHandler.h:54
Base class for XML handlers.
Definition: XMLHandler.h:99
Description of a file location, used to store the origin of (meta) data.
Definition: SourceFile.h:47
Description of the software used for processing.
Definition: Software.h:49
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:47
TargetedExperiment::Instrument actual_instrument_
Definition: TraMLHandler.h:105
Representation of a controlled vocabulary.
Definition: ControlledVocabulary.h:54
ReactionMonitoringTransition::Product actual_product_
Definition: TraMLHandler.h:129
Definition: TargetedExperimentHelper.h:55
Definition: TargetedExperimentHelper.h:447
TargetedExperiment::Compound actual_compound_
Definition: TraMLHandler.h:117
IncludeExcludeTarget actual_target_
Definition: TraMLHandler.h:121
Representation of controlled vocabulary term.
Definition: CVTerm.h:51
const ProgressLogger & logger_
Progress logger.
Definition: TraMLHandler.h:90
TargetedExperiment::Contact actual_contact_
Definition: TraMLHandler.h:103
Definition: TargetedExperimentHelper.h:172
ControlledVocabulary cv_
Controlled vocabulary (psi-ms from OpenMS/share/OpenMS/CV/psi-ms.obo)
Definition: TraMLHandler.h:93
ReactionMonitoringTransition::Configuration actual_configuration_
Definition: TraMLHandler.h:131
This class stores a SRM/MRM transition.
Definition: IncludeExcludeTarget.h:53
Base class for all classes that want to report their progress.
Definition: ProgressLogger.h:55
This class stores an prediction of an SRM/MRM transition.
Definition: TargetedExperiment.h:53
Definition: TargetedExperimentHelper.h:388
Definition: TargetedExperimentHelper.h:133
Definition: TargetedExperimentHelper.h:416
ReactionMonitoringTransition actual_transition_
Definition: TraMLHandler.h:119
Definition: TargetedExperimentHelper.h:102
TargetedExperiment::Publication actual_publication_
Definition: TraMLHandler.h:101
TargetedExperiment * exp_
Definition: TraMLHandler.h:97
std::vector< ReactionMonitoringTransition::Product > ProductListType
Definition: TraMLHandler.h:59
std::vector< ReactionMonitoringTransition::Product > actual_intermediate_products_
Definition: TraMLHandler.h:127
Definition: TargetedExperimentHelper.h:211
SourceFile actual_sourcefile_
Definition: TraMLHandler.h:133
CVTermList actual_validation_
Definition: TraMLHandler.h:123
This class stores a SRM/MRM transition.
Definition: ReactionMonitoringTransition.h:55
const TargetedExperiment * cexp_
Definition: TraMLHandler.h:99