| OpenMS 2.5.0

OpenSwathCalibrationWorkflow Member List

This is the complete list of members for OpenSwathCalibrationWorkflow, including all inherited members.

addChromatograms(MSChromatogram &base_chrom, const MSChromatogram &newchrom) | OpenSwathCalibrationWorkflow | static
CMD enum value | ProgressLogger |
current_logger_ | ProgressLogger | mutable protected
doDataNormalization_(const OpenSwath::LightTargetedExperiment &transition_exp_, const std::vector< OpenMS::MSChromatogram > &chromatograms, TransformationDescription &im_trafo, std::vector< OpenSwath::SwathMap > &swath_maps, double min_rsq, double min_coverage, const Param &default_ffparam, const Param &irt_detection_param, const Param &calibration_param) | OpenSwathCalibrationWorkflow |
endProgress() const | ProgressLogger |
getLogType() const | ProgressLogger |
GUI enum value | ProgressLogger |
last_invoke_ | ProgressLogger | mutable protected
LogType enum name | ProgressLogger |
logTypeToFactoryName_(LogType type) | ProgressLogger | protected static
ms1_map_ | OpenSwathWorkflowBase | protected
MS1Extraction_(const OpenSwath::SpectrumAccessPtr ms1_map, const std::vector< OpenSwath::SwathMap > &swath_maps, std::vector< MSChromatogram > &ms1_chromatograms, Interfaces::IMSDataConsumer *chromConsumer, const ChromExtractParams &cp, const OpenSwath::LightTargetedExperiment &transition_exp, const TransformationDescription &trafo_inverse, bool ms1only=false, int ms1_isotopes=0) | OpenSwathWorkflowBase | protected
nextProgress() const | ProgressLogger |
NONE enum value | ProgressLogger |
OpenSwathCalibrationWorkflow() | OpenSwathCalibrationWorkflow | inline
OpenSwathCalibrationWorkflow(bool use_ms1_traces) | OpenSwathCalibrationWorkflow | inline explicit
OpenSwathWorkflowBase() | OpenSwathWorkflowBase | inline protected
OpenSwathWorkflowBase(bool use_ms1_traces, bool use_ms1_ion_mobility, bool prm, int threads_outer_loop) | OpenSwathWorkflowBase | inline protected
operator=(const ProgressLogger &other) | ProgressLogger |
performRTNormalization(const OpenSwath::LightTargetedExperiment &irt_transitions, std::vector< OpenSwath::SwathMap > &swath_maps, TransformationDescription &im_trafo, double min_rsq, double min_coverage, const Param &feature_finder_param, const ChromExtractParams &cp_irt, const Param &irt_detection_param, const Param &calibration_param, const String &irt_mzml_out, Size debug_level, bool sonar=false, bool load_into_memory=false) | OpenSwathCalibrationWorkflow |
prepareExtractionCoordinates_(std::vector< OpenSwath::ChromatogramPtr > &chrom_list, std::vector< ChromatogramExtractorAlgorithm::ExtractionCoordinates > &coordinates, const OpenSwath::LightTargetedExperiment &transition_exp_used, const TransformationDescription trafo_inverse, const ChromExtractParams &cp, const bool ms1=false, const int ms1_isotopes=-1) const | OpenSwathWorkflowBase | protected
prm_ | OpenSwathWorkflowBase | protected
ProgressLogger() | ProgressLogger |
ProgressLogger(const ProgressLogger &other) | ProgressLogger |
recursion_depth_ | ProgressLogger | protected static
setLogType(LogType type) const | ProgressLogger |
setProgress(SignedSize value) const | ProgressLogger |
simpleExtractChromatograms_(const std::vector< OpenSwath::SwathMap > &swath_maps, const OpenSwath::LightTargetedExperiment &irt_transitions, std::vector< OpenMS::MSChromatogram > &chromatograms, const TransformationDescription &trafo, const ChromExtractParams &cp, bool sonar, bool load_into_memory) | OpenSwathCalibrationWorkflow |
startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger |
threads_outer_loop_ | OpenSwathWorkflowBase | protected
type_ | ProgressLogger | mutable protected
use_ms1_ion_mobility_ | OpenSwathWorkflowBase | protected
use_ms1_traces_ | OpenSwathWorkflowBase | protected
~ProgressLogger() | ProgressLogger |