| OpenMS 2.5.0

AccurateMassSearchEngine Member List

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

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 | mutable protected
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 |
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 | mutable protected
LogType enum name | ProgressLogger |
logTypeToFactoryName_(LogType type) | ProgressLogger | protected static
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 | protected static
resolveAutoMode_(const MAPTYPE &map) const | AccurateMassSearchEngine | inline private
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 &param) | DefaultParamHandler |
setProgress(SignedSize value) const | ProgressLogger |
startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger |
subsections_ | DefaultParamHandler | protected
type_ | ProgressLogger | mutable protected
updateMembers_() override | AccurateMassSearchEngine | protected virtual
warn_empty_defaults_ | DefaultParamHandler | protected
~AccurateMassSearchEngine() override | AccurateMassSearchEngine |
~DefaultParamHandler() | DefaultParamHandler | virtual
~ProgressLogger() | ProgressLogger |