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SimpleSearchEngineAlgorithm Member List

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

check_defaults_DefaultParamHandlerprotected
CMD enum valueProgressLogger
current_logger_ProgressLoggermutableprotected
DefaultParamHandler(const String &name)DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)DefaultParamHandler
DefaultParamHandler()DefaultParamHandlerprivate
defaults_DefaultParamHandlerprotected
defaultsToParam_()DefaultParamHandlerprotected
endProgress() constProgressLogger
enzyme_SimpleSearchEngineAlgorithmprotected
error_name_DefaultParamHandlerprotected
ExitCodes enum nameSimpleSearchEngineAlgorithm
fragment_mass_tolerance_SimpleSearchEngineAlgorithmprotected
fragment_mass_tolerance_unit_SimpleSearchEngineAlgorithmprotected
getDefaults() constDefaultParamHandler
getLogType() constProgressLogger
getName() constDefaultParamHandler
getParameters() constDefaultParamHandler
getSubsections() constDefaultParamHandler
GUI enum valueProgressLogger
last_invoke_ProgressLoggermutableprotected
LogType enum nameProgressLogger
logTypeToFactoryName_(LogType type)ProgressLoggerprotectedstatic
modifications_fixed_SimpleSearchEngineAlgorithmprotected
modifications_max_variable_mods_per_peptide_SimpleSearchEngineAlgorithmprotected
modifications_variable_SimpleSearchEngineAlgorithmprotected
nextProgress() constProgressLogger
NONE enum valueProgressLogger
OpenMS::operator=(const DefaultParamHandler &rhs)DefaultParamHandlervirtual
OpenMS::ProgressLogger::operator=(const ProgressLogger &other)ProgressLogger
operator==(const DefaultParamHandler &rhs) constDefaultParamHandlervirtual
param_DefaultParamHandlerprotected
peptide_max_size_SimpleSearchEngineAlgorithmprotected
peptide_min_size_SimpleSearchEngineAlgorithmprotected
peptide_missed_cleavages_SimpleSearchEngineAlgorithmprotected
peptide_motif_SimpleSearchEngineAlgorithmprotected
postProcessHits_(const PeakMap &exp, std::vector< std::vector< SimpleSearchEngineAlgorithm::AnnotatedHit_ > > &annotated_hits, std::vector< ProteinIdentification > &protein_ids, std::vector< PeptideIdentification > &peptide_ids, Size top_hits, const ModifiedPeptideGenerator::MapToResidueType &fixed_modifications, const ModifiedPeptideGenerator::MapToResidueType &variable_modifications, Size max_variable_mods_per_peptide, const StringList &modifications_fixed, const StringList &modifications_variable, Int peptide_missed_cleavages, double precursor_mass_tolerance, double fragment_mass_tolerance, const String &precursor_mass_tolerance_unit_ppm, const String &fragment_mass_tolerance_unit_ppm, const Int precursor_min_charge, const Int precursor_max_charge, const String &enzyme, const String &database_name)SimpleSearchEngineAlgorithmprotectedstatic
precursor_isotopes_SimpleSearchEngineAlgorithmprotected
precursor_mass_tolerance_SimpleSearchEngineAlgorithmprotected
precursor_mass_tolerance_unit_SimpleSearchEngineAlgorithmprotected
precursor_max_charge_SimpleSearchEngineAlgorithmprotected
precursor_min_charge_SimpleSearchEngineAlgorithmprotected
preprocessSpectra_(PeakMap &exp, double fragment_mass_tolerance, bool fragment_mass_tolerance_unit_ppm)SimpleSearchEngineAlgorithmprotectedstatic
ProgressLogger()ProgressLogger
ProgressLogger(const ProgressLogger &other)ProgressLogger
recursion_depth_ProgressLoggerprotectedstatic
report_top_hits_SimpleSearchEngineAlgorithmprotected
search(const String &in_mzML, const String &in_db, std::vector< ProteinIdentification > &prot_ids, std::vector< PeptideIdentification > &pep_ids) constSimpleSearchEngineAlgorithm
setLogType(LogType type) constProgressLogger
setName(const String &name)DefaultParamHandler
setParameters(const Param &param)DefaultParamHandler
setProgress(SignedSize value) constProgressLogger
SimpleSearchEngineAlgorithm()SimpleSearchEngineAlgorithm
startProgress(SignedSize begin, SignedSize end, const String &label) constProgressLogger
subsections_DefaultParamHandlerprotected
type_ProgressLoggermutableprotected
updateMembers_() overrideSimpleSearchEngineAlgorithmprotectedvirtual
warn_empty_defaults_DefaultParamHandlerprotected
~DefaultParamHandler()DefaultParamHandlervirtual
~ProgressLogger()ProgressLogger
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