check_defaults_ | DefaultParamHandler | [protected] |
curr_region_ | TwoDOptimization | [protected] |
DefaultParamHandler(const String &name) | DefaultParamHandler | |
DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler | |
defaults_ | DefaultParamHandler | [protected] |
defaultsToParam_() | DefaultParamHandler | [protected] |
eps_abs_ | TwoDOptimization | [protected] |
eps_rel_ | TwoDOptimization | [protected] |
error_name_ | DefaultParamHandler | [protected] |
findMatchingPeaks_(std::multimap< double, IsotopeCluster >::iterator &it, MSExperiment< PickedPeak1D > &ms_exp) | TwoDOptimization | [protected] |
getDefaults() const | DefaultParamHandler | |
getMaxAbsError() const | TwoDOptimization | [inline] |
getMaxIterations() const | TwoDOptimization | [inline] |
getMaxPeakDistance() const | TwoDOptimization | [inline] |
getMaxRelError() const | TwoDOptimization | [inline] |
getMZTolerance() const | TwoDOptimization | [inline] |
getName() const | DefaultParamHandler | |
getParameters() const | DefaultParamHandler | |
getPenalties() const | TwoDOptimization | [inline] |
getRegionEndpoints_(MSExperiment< OutputPeakType > &exp, InputSpectrumIterator &first, InputSpectrumIterator &last, unsigned int iso_map_idx, double noise_level) | TwoDOptimization | [inline, protected] |
getSubsections() const | DefaultParamHandler | |
iso_map_ | TwoDOptimization | [protected] |
matching_peaks_ | TwoDOptimization | [protected] |
max_iteration_ | TwoDOptimization | [protected] |
max_peak_distance_ | TwoDOptimization | [protected] |
operator=(const TwoDOptimization &opt) | TwoDOptimization | |
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | [virtual] |
operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | [virtual] |
optimize(InputSpectrumIterator &first, InputSpectrumIterator &last, MSExperiment< OutputPeakType > &ms_exp, bool real2D=true) | TwoDOptimization | [inline] |
optimizeRegions_(InputSpectrumIterator &first, InputSpectrumIterator &last, MSExperiment< OutputPeakType > &ms_exp) | TwoDOptimization | [inline, protected] |
optimizeRegions_(MSExperiment< RawDataPoint1D >::const_iterator &first, MSExperiment< RawDataPoint1D >::const_iterator &last, MSExperiment< PickedPeak1D > &ms_exp) | TwoDOptimization | [inline, protected] |
optimizeRegionsScanwise_(InputSpectrumIterator &first, InputSpectrumIterator &last, MSExperiment< OutputPeakType > &ms_exp) | TwoDOptimization | [inline, protected] |
optimizeRegionsScanwise_(MSExperiment< RawDataPoint1D >::const_iterator &first, MSExperiment< RawDataPoint1D >::const_iterator &last, MSExperiment< PickedPeak1D > &ms_exp) | TwoDOptimization | [inline, protected] |
param_ | DefaultParamHandler | [protected] |
penalties_ | TwoDOptimization | [protected] |
real_2D_ | TwoDOptimization | [protected] |
searchInScan_(std::vector< double >::iterator scan_begin, std::vector< double >::iterator scan_end, double current_mz) | TwoDOptimization | [protected] |
setMaxAbsError(double eps_abs) | TwoDOptimization | [inline] |
setMaxIterations(int max_iteration) | TwoDOptimization | [inline] |
setMaxPeakDistance(double max_peak_distance) | TwoDOptimization | [inline] |
setMaxRelError(double eps_rel) | TwoDOptimization | [inline] |
setMZTolerance(double tolerance_mz) | TwoDOptimization | [inline] |
setName(const String &name) | DefaultParamHandler | |
setParameters(const Param ¶m) | DefaultParamHandler | |
setPenalties(OptimizationFunctions::PenaltyFactorsIntensity &penalties) | TwoDOptimization | [inline] |
subsections_ | DefaultParamHandler | [protected] |
tolerance_mz_ | TwoDOptimization | [protected] |
TwoDOptimization() | TwoDOptimization | |
TwoDOptimization(const TwoDOptimization &opt) | TwoDOptimization | |
updateMembers_() | TwoDOptimization | [protected, virtual] |
~DefaultParamHandler() | DefaultParamHandler | [virtual] |
~TwoDOptimization() | TwoDOptimization | [inline, virtual] |