| AccurateMassSearchEngine() | AccurateMassSearchEngine | |
| begin_ | ProgressLogger | mutableprotected |
| check_defaults_ | DefaultParamHandler | protected |
| CMD enum value | ProgressLogger | |
| computeCosineSim_(const std::vector< DoubleReal > &x, const std::vector< DoubleReal > &y) | AccurateMassSearchEngine | private |
| computeEuclideanDist_(const std::vector< DoubleReal > &x, const std::vector< DoubleReal > &y) | AccurateMassSearchEngine | private |
| computeIsotopePatternSimilarity_(const Feature &, const EmpiricalFormula &) | AccurateMassSearchEngine | private |
| computeNeutralMassFromAdduct_(const DoubleReal &, const String &, DoubleReal &, DoubleReal &) | AccurateMassSearchEngine | private |
| DefaultParamHandler(const String &name) | DefaultParamHandler | |
| DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler | |
| defaults_ | DefaultParamHandler | protected |
| defaultsToParam_() | DefaultParamHandler | protected |
| dlg_ | ProgressLogger | mutableprotected |
| end_ | ProgressLogger | mutableprotected |
| endProgress() const | ProgressLogger | |
| error_name_ | DefaultParamHandler | protected |
| exportMzTab_(const QueryResultsTable &, MzTab &) | AccurateMassSearchEngine | private |
| getDefaults() const | DefaultParamHandler | |
| getLogType() const | ProgressLogger | |
| getName() const | DefaultParamHandler | |
| getParameters() const | DefaultParamHandler | |
| getSubsections() const | DefaultParamHandler | |
| GUI enum value | ProgressLogger | |
| hmdb_properties_mapping_ | AccurateMassSearchEngine | private |
| HMDBPropsMapping typedef | AccurateMassSearchEngine | private |
| ion_mode_ | AccurateMassSearchEngine | private |
| iso_similarity_ | AccurateMassSearchEngine | private |
| last_invoke_ | ProgressLogger | mutableprotected |
| LogType enum name | ProgressLogger | |
| mass_error_unit_ | AccurateMassSearchEngine | private |
| mass_error_value_ | AccurateMassSearchEngine | private |
| mass_formula_mapping_ | AccurateMassSearchEngine | private |
| mass_id_mapping_ | AccurateMassSearchEngine | private |
| MassIDMapping typedef | AccurateMassSearchEngine | private |
| masskey_table_ | AccurateMassSearchEngine | private |
| neg_adducts_ | AccurateMassSearchEngine | private |
| neg_adducts_fname_ | AccurateMassSearchEngine | private |
| NONE enum value | ProgressLogger | |
| operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual |
| operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual |
| param_ | DefaultParamHandler | protected |
| parseAdductsFile_(const String &) | AccurateMassSearchEngine | private |
| parseAdductString_(const String &, std::vector< String > &) | AccurateMassSearchEngine | private |
| parseMappingFile_(const String &) | AccurateMassSearchEngine | private |
| parseStructMappingFile_(const String &) | AccurateMassSearchEngine | private |
| pos_adducts_ | AccurateMassSearchEngine | private |
| pos_adducts_fname_ | AccurateMassSearchEngine | private |
| ProgressLogger() | ProgressLogger | |
| queryByConsensusFeature(const ConsensusFeature &, const Size &, const Size &, std::vector< AccurateMassSearchResult > &) | AccurateMassSearchEngine | |
| queryByFeature(const Feature &, const Size &, std::vector< AccurateMassSearchResult > &) | AccurateMassSearchEngine | |
| queryByMass(const DoubleReal &, const DoubleReal &, std::vector< AccurateMassSearchResult > &) | AccurateMassSearchEngine | |
| QueryResultsTable typedef | AccurateMassSearchEngine | private |
| recursion_depth_ | ProgressLogger | protectedstatic |
| run(const FeatureMap<> &, MzTab &) | AccurateMassSearchEngine | |
| run(const ConsensusMap &, MzTab &) | AccurateMassSearchEngine | |
| searchMass_(const DoubleReal &, std::vector< Size > &hit_indices) | AccurateMassSearchEngine | private |
| setLogType(LogType type) const | ProgressLogger | |
| setName(const String &name) | DefaultParamHandler | |
| setParameters(const Param ¶m) | DefaultParamHandler | |
| setProgress(SignedSize value) const | ProgressLogger | |
| startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger | |
| stop_watch_ | ProgressLogger | mutableprotected |
| subsections_ | DefaultParamHandler | protected |
| type_ | ProgressLogger | mutableprotected |
| updateMembers_() | AccurateMassSearchEngine | protectedvirtual |
| value_ | ProgressLogger | mutableprotected |
| warn_empty_defaults_ | DefaultParamHandler | protected |
| ~AccurateMassSearchEngine() | AccurateMassSearchEngine | virtual |
| ~DefaultParamHandler() | DefaultParamHandler | virtual |
| ~ProgressLogger() | ProgressLogger | |