OpenMS
OpenSwathCalibrationWorkflow Member List

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

addChromatograms(MSChromatogram &base_chrom, const MSChromatogram &newchrom)OpenSwathCalibrationWorkflowstatic
CMD enum valueProgressLogger
current_logger_ProgressLoggermutableprotected
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, const bool pasef)OpenSwathCalibrationWorkflow
endProgress() constProgressLogger
getLogType() constProgressLogger
GUI enum valueProgressLogger
last_invoke_ProgressLoggermutableprotected
LogType enum nameProgressLogger
logTypeToFactoryName_(LogType type)ProgressLoggerprotectedstatic
ms1_map_OpenSwathWorkflowBaseprotected
MS1Extraction_(const OpenSwath::SpectrumAccessPtr &ms1_map, const std::vector< OpenSwath::SwathMap > &swath_maps, std::vector< MSChromatogram > &ms1_chromatograms, const ChromExtractParams &cp, const OpenSwath::LightTargetedExperiment &transition_exp, const TransformationDescription &trafo_inverse, bool ms1only=false, int ms1_isotopes=0)OpenSwathWorkflowBaseprotected
nextProgress() constProgressLogger
NONE enum valueProgressLogger
OpenSwathCalibrationWorkflow()OpenSwathCalibrationWorkflowinline
OpenSwathCalibrationWorkflow(bool use_ms1_traces)OpenSwathCalibrationWorkflowinlineexplicit
OpenSwathWorkflowBase()OpenSwathWorkflowBaseinlineprotected
OpenSwathWorkflowBase(bool use_ms1_traces, bool use_ms1_ion_mobility, bool prm, bool pasef, int threads_outer_loop)OpenSwathWorkflowBaseinlineprotected
operator=(const ProgressLogger &other)ProgressLogger
pasef_OpenSwathWorkflowBaseprotected
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 pasef=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) constOpenSwathWorkflowBaseprotected
prm_OpenSwathWorkflowBaseprotected
ProgressLogger()ProgressLogger
ProgressLogger(const ProgressLogger &other)ProgressLogger
recursion_depth_ProgressLoggerprotectedstatic
setLogType(LogType type) constProgressLogger
setProgress(SignedSize value) constProgressLogger
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 pasef, bool load_into_memory)OpenSwathCalibrationWorkflow
startProgress(SignedSize begin, SignedSize end, const String &label) constProgressLogger
threads_outer_loop_OpenSwathWorkflowBaseprotected
type_ProgressLoggermutableprotected
use_ms1_ion_mobility_OpenSwathWorkflowBaseprotected
use_ms1_traces_OpenSwathWorkflowBaseprotected
~ProgressLogger()ProgressLoggervirtual