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OpenMS
2.4.0
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OpenMS
2.4.0
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This is the complete list of members for OpenSwathWorkflow, including all inherited members.
| CMD enum value | ProgressLogger | |
| copyBatchTransitions_(const std::vector< OpenSwath::LightCompound > &used_compounds, const std::vector< OpenSwath::LightTransition > &all_transitions, std::vector< OpenSwath::LightTransition > &output) | OpenSwathWorkflow | protected |
| current_logger_ | ProgressLogger | mutableprotected |
| endProgress() const | ProgressLogger | |
| getLogType() const | ProgressLogger | |
| GUI enum value | ProgressLogger | |
| last_invoke_ | ProgressLogger | mutableprotected |
| LogType enum name | ProgressLogger | |
| logTypeToFactoryName_(LogType type) | ProgressLogger | protectedstatic |
| MRMTransitionGroupType typedef | OpenSwathWorkflow | private |
| ms1_map_ | OpenSwathWorkflowBase | protected |
| MS1Extraction_(const std::vector< OpenSwath::SwathMap > &swath_maps, std::map< std::string, OpenSwath::ChromatogramPtr > &ms1_chromatograms, Interfaces::IMSDataConsumer *chromConsumer, const ChromExtractParams &cp, const OpenSwath::LightTargetedExperiment &transition_exp, const TransformationDescription &trafo_inverse, bool load_into_memory, bool ms1only=false) | OpenSwathWorkflowBase | protected |
| nextProgress() const | ProgressLogger | |
| NONE enum value | ProgressLogger | |
| OpenSwathWorkflow(bool use_ms1_traces) | OpenSwathWorkflow | inlineexplicit |
| OpenSwathWorkflowBase(bool use_ms1_traces) | OpenSwathWorkflowBase | inlineexplicitprotected |
| operator=(const ProgressLogger &other) | ProgressLogger | |
| performExtraction(const std::vector< OpenSwath::SwathMap > &swath_maps, const TransformationDescription trafo, const ChromExtractParams &cp, const Param &feature_finder_param, const OpenSwath::LightTargetedExperiment &transition_exp, FeatureMap &out_featureFile, bool store_features, OpenSwathTSVWriter &tsv_writer, OpenSwathOSWWriter &osw_writer, Interfaces::IMSDataConsumer *chromConsumer, int batchSize, bool load_into_memory) | OpenSwathWorkflow | |
| prepareExtractionCoordinates_(std::vector< OpenSwath::ChromatogramPtr > &chrom_list, std::vector< ChromatogramExtractorAlgorithm::ExtractionCoordinates > &coordinates, const OpenSwath::LightTargetedExperiment &transition_exp_used, const bool ms1, const TransformationDescription trafo_inverse, const ChromExtractParams &cp) const | OpenSwathWorkflowBase | protected |
| ProgressLogger() | ProgressLogger | |
| ProgressLogger(const ProgressLogger &other) | ProgressLogger | |
| recursion_depth_ | ProgressLogger | protectedstatic |
| scoreAllChromatograms(const OpenSwath::SpectrumAccessPtr input, const std::map< std::string, OpenSwath::ChromatogramPtr > &ms1_chromatograms, const std::vector< OpenSwath::SwathMap > &swath_maps, OpenSwath::LightTargetedExperiment &transition_exp, const Param &feature_finder_param, TransformationDescription trafo, const double rt_extraction_window, FeatureMap &output, OpenSwathTSVWriter &tsv_writer, OpenSwathOSWWriter &osw_writer, bool ms1only=false) | OpenSwathWorkflow | protected |
| selectCompoundsForBatch_(const OpenSwath::LightTargetedExperiment &transition_exp_used_all, OpenSwath::LightTargetedExperiment &transition_exp_used, int batch_size, size_t j) | OpenSwathWorkflow | protected |
| setLogType(LogType type) const | ProgressLogger | |
| setProgress(SignedSize value) const | ProgressLogger | |
| startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger | |
| TransitionType typedef | OpenSwathWorkflow | private |
| type_ | ProgressLogger | mutableprotected |
| use_ms1_traces_ | OpenSwathWorkflowBase | protected |
| writeOutFeaturesAndChroms_(std::vector< OpenMS::MSChromatogram > &chromatograms, const FeatureMap &featureFile, FeatureMap &out_featureFile, bool store_features, Interfaces::IMSDataConsumer *chromConsumer) | OpenSwathWorkflow | protected |
| ~ProgressLogger() | ProgressLogger |
1.8.14