AccurateMassSearchEngine() | AccurateMassSearchEngine | |
annotate_(const std::vector< AccurateMassSearchResult > &, BaseFeature &) const | AccurateMassSearchEngine | private |
check_defaults_ | DefaultParamHandler | protected |
CMD enum value | ProgressLogger | |
computeCosineSim_(const std::vector< double > &x, const std::vector< double > &y) const | AccurateMassSearchEngine | private |
computeIsotopePatternSimilarity_(const Feature &feat, const EmpiricalFormula &form) const | AccurateMassSearchEngine | private |
current_logger_ | ProgressLogger | mutableprotected |
database_name_ | AccurateMassSearchEngine | private |
database_version_ | AccurateMassSearchEngine | private |
db_mapping_file_ | AccurateMassSearchEngine | private |
db_struct_file_ | AccurateMassSearchEngine | 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 |
exportMzTab_(const QueryResultsTable &overall_results, const Size number_of_maps, MzTab &mztab_out) const | AccurateMassSearchEngine | private |
getDefaults() const | DefaultParamHandler | |
getLogType() const | ProgressLogger | |
getName() const | DefaultParamHandler | |
getParameters() const | DefaultParamHandler | |
getSubsections() const | DefaultParamHandler | |
GUI enum value | ProgressLogger | |
hmdb_properties_mapping_ | AccurateMassSearchEngine | private |
HMDBPropsMapping typedef | AccurateMassSearchEngine | private |
init() | AccurateMassSearchEngine | |
ion_mode_ | AccurateMassSearchEngine | private |
is_initialized_ | AccurateMassSearchEngine | private |
iso_similarity_ | AccurateMassSearchEngine | private |
keep_unidentified_masses_ | AccurateMassSearchEngine | private |
last_invoke_ | ProgressLogger | mutableprotected |
LogType enum name | ProgressLogger | |
logTypeToFactoryName_(LogType type) | ProgressLogger | protectedstatic |
mass_error_unit_ | AccurateMassSearchEngine | private |
mass_error_value_ | AccurateMassSearchEngine | private |
mass_mappings_ | AccurateMassSearchEngine | private |
MassIDMapping typedef | AccurateMassSearchEngine | private |
neg_adducts_ | AccurateMassSearchEngine | private |
neg_adducts_fname_ | AccurateMassSearchEngine | private |
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 |
parseAdductsFile_(const String &filename, std::vector< AdductInfo > &result) | AccurateMassSearchEngine | private |
parseMappingFile_(const StringList &) | AccurateMassSearchEngine | private |
parseStructMappingFile_(const StringList &) | AccurateMassSearchEngine | private |
pos_adducts_ | AccurateMassSearchEngine | private |
pos_adducts_fname_ | AccurateMassSearchEngine | private |
ProgressLogger() | ProgressLogger | |
ProgressLogger(const ProgressLogger &other) | ProgressLogger | |
queryByConsensusFeature(const ConsensusFeature &cfeat, const Size &cf_index, const Size &number_of_maps, const String &ion_mode, std::vector< AccurateMassSearchResult > &results) const | AccurateMassSearchEngine | |
queryByFeature(const Feature &feature, const Size &feature_index, const String &ion_mode, std::vector< AccurateMassSearchResult > &results) const | AccurateMassSearchEngine | |
queryByMZ(const double &observed_mz, const Int &observed_charge, const String &ion_mode, std::vector< AccurateMassSearchResult > &results, const EmpiricalFormula &observed_adduct=EmpiricalFormula()) const | AccurateMassSearchEngine | |
QueryResultsTable typedef | AccurateMassSearchEngine | private |
recursion_depth_ | ProgressLogger | protectedstatic |
resolveAutoMode_(const MAPTYPE &map) const | AccurateMassSearchEngine | inlineprivate |
run(FeatureMap &, MzTab &) const | AccurateMassSearchEngine | |
run(ConsensusMap &, MzTab &) const | AccurateMassSearchEngine | |
searchMass_(double neutral_query_mass, double diff_mass, std::pair< Size, Size > &hit_indices) const | AccurateMassSearchEngine | private |
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 | |
subsections_ | DefaultParamHandler | protected |
type_ | ProgressLogger | mutableprotected |
updateMembers_() override | AccurateMassSearchEngine | protectedvirtual |
warn_empty_defaults_ | DefaultParamHandler | protected |
~AccurateMassSearchEngine() override | AccurateMassSearchEngine | |
~DefaultParamHandler() | DefaultParamHandler | virtual |
~ProgressLogger() | ProgressLogger | |