| applyTransformation_(const FeatureMap<> &feature_map, FeatureMap<> &calibrated_feature_map) | InternalCalibration | protected | 
  | begin_ | ProgressLogger | mutableprotected | 
  | calibrateMapGlobally(const MSExperiment< InputPeakType > &exp, MSExperiment< InputPeakType > &calibrated_exp, std::vector< DoubleReal > &ref_masses, String trafo_file_name="") | InternalCalibration |  | 
  | calibrateMapGlobally(const MSExperiment< InputPeakType > &exp, MSExperiment< InputPeakType > &calibrated_exp, std::vector< PeptideIdentification > &ref_ids, String trafo_file_name="") | InternalCalibration |  | 
  | calibrateMapGlobally(const FeatureMap<> &feature_map, FeatureMap<> &calibrated_feature_map, String trafo_file_name="") | InternalCalibration |  | 
  | calibrateMapGlobally(const FeatureMap<> &feature_map, FeatureMap<> &calibrated_feature_map, std::vector< PeptideIdentification > &ref_ids, String trafo_file_name="") | InternalCalibration |  | 
  | calibrateMapList(std::vector< MSExperiment< InputPeakType > > &exp_list, std::vector< MSExperiment< InputPeakType > > &calibrated_exp_list, std::vector< DoubleReal > &ref_masses, std::vector< DoubleReal > &detected_background_masses) | InternalCalibration |  | 
  | calibrateMapSpectrumwise(const MSExperiment< InputPeakType > &exp, MSExperiment< InputPeakType > &calibrated_exp, std::vector< DoubleReal > &ref_masses) | InternalCalibration |  | 
  | check_defaults_ | DefaultParamHandler | protected | 
  | checkReferenceIds_(std::vector< PeptideIdentification > &pep_ids) | InternalCalibration | protected | 
  | checkReferenceIds_(const FeatureMap<> &feature_map) | InternalCalibration | protected | 
  | CMD enum value | ProgressLogger |  | 
  | 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 | 
  | getDefaults() const | DefaultParamHandler |  | 
  | getLogType() const | ProgressLogger |  | 
  | getName() const | DefaultParamHandler |  | 
  | getParameters() const | DefaultParamHandler |  | 
  | getSubsections() const | DefaultParamHandler |  | 
  | GUI enum value | ProgressLogger |  | 
  | InternalCalibration() | InternalCalibration |  | 
  | last_invoke_ | ProgressLogger | mutableprotected | 
  | LogType enum name | ProgressLogger |  | 
  | makeLinearRegression_(std::vector< DoubleReal > &observed_masses, std::vector< DoubleReal > &theoretical_masses) | InternalCalibration | protected | 
  | NONE enum value | ProgressLogger |  | 
  | operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual | 
  | operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual | 
  | param_ | DefaultParamHandler | protected | 
  | ProgressLogger() | ProgressLogger |  | 
  | recursion_depth_ | ProgressLogger | protectedstatic | 
  | 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 | 
  | trafo_ | InternalCalibration | protected | 
  | type_ | ProgressLogger | mutableprotected | 
  | updateMembers_() | DefaultParamHandler | protectedvirtual | 
  | value_ | ProgressLogger | mutableprotected | 
  | warn_empty_defaults_ | DefaultParamHandler | protected | 
  | ~DefaultParamHandler() | DefaultParamHandler | virtual | 
  | ~InternalCalibration() | InternalCalibration | inline | 
  | ~ProgressLogger() | ProgressLogger |  |