| BayesianProteinInferenceAlgorithm(unsigned int debug_lvl=0) | BayesianProteinInferenceAlgorithm | explicit |
| check_defaults_ | DefaultParamHandler | protected |
| checkConvertAndFilterPepHits_ | BayesianProteinInferenceAlgorithm | private |
| CMD enum value | ProgressLogger | |
| current_logger_ | ProgressLogger | mutableprotected |
| debug_lvl_ | BayesianProteinInferenceAlgorithm | private |
| DefaultParamHandler(const String &name) | DefaultParamHandler | |
| DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler | |
| DefaultParamHandler() | DefaultParamHandler | private |
| defaults_ | DefaultParamHandler | protected |
| defaultsToParam_() | DefaultParamHandler | protected |
| 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 | |
| inferPosteriorProbabilities(std::vector< ProteinIdentification > &proteinIDs, std::vector< PeptideIdentification > &peptideIDs, boost::optional< const ExperimentalDesign > exp_des=boost::optional< const ExperimentalDesign >()) | BayesianProteinInferenceAlgorithm | |
| inferPosteriorProbabilities(ConsensusMap &cmap, bool greedy_group_resolution, boost::optional< const ExperimentalDesign > exp_des=boost::optional< const ExperimentalDesign >()) | BayesianProteinInferenceAlgorithm | |
| inferPosteriorProbabilities_(Internal::IDBoostGraph &ibg) | BayesianProteinInferenceAlgorithm | private |
| initGridSearchFromParams_(std::vector< double > &alpha_search, std::vector< double > &beta_search, std::vector< double > &gamma_search) | BayesianProteinInferenceAlgorithm | private |
| last_invoke_ | ProgressLogger | mutableprotected |
| LogType enum name | ProgressLogger | |
| logTypeToFactoryName_(LogType type) | ProgressLogger | protectedstatic |
| nextProgress() const | ProgressLogger | |
| NONE enum value | ProgressLogger | |
| OpenMS::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual |
| OpenMS::ProgressLogger::operator=(const ProgressLogger &other) | ProgressLogger | |
| operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual |
| param_ | DefaultParamHandler | protected |
| ProgressLogger() | ProgressLogger | |
| ProgressLogger(const ProgressLogger &other) | ProgressLogger | |
| recursion_depth_ | ProgressLogger | protectedstatic |
| resetProteinScores_(ProteinIdentification &protein_id, bool keep_old_as_prior) | BayesianProteinInferenceAlgorithm | private |
| setLogType(LogType type) const | ProgressLogger | |
| setName(const String &name) | DefaultParamHandler | |
| setParameters(const Param ¶m) | DefaultParamHandler | |
| setProgress(SignedSize value) const | ProgressLogger | |
| setScoreTypeAndSettings_(ProteinIdentification &proteinIDs) | BayesianProteinInferenceAlgorithm | private |
| startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger | |
| subsections_ | DefaultParamHandler | protected |
| type_ | ProgressLogger | mutableprotected |
| updateMembers_() override | BayesianProteinInferenceAlgorithm | virtual |
| warn_empty_defaults_ | DefaultParamHandler | protected |
| writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &prefix="") | DefaultParamHandler | static |
| ~BayesianProteinInferenceAlgorithm() override=default | BayesianProteinInferenceAlgorithm | |
| ~DefaultParamHandler() | DefaultParamHandler | virtual |
| ~ProgressLogger() | ProgressLogger | virtual |
1.9.1