PeptideIndexing Member List

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

aaa_max_	PeptideIndexing	protected
allow_unmatched_	PeptideIndexing	protected
check_defaults_	DefaultParamHandler	protected
DATABASE_CONTAINS_MULTIPLES enum value	PeptideIndexing
DATABASE_EMPTY enum value	PeptideIndexing
debug_	PeptideIndexing	protected
decoy_string_	PeptideIndexing	protected
DefaultParamHandler(const String &name)	DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)	DefaultParamHandler
defaults_	DefaultParamHandler	protected
defaultsToParam_()	DefaultParamHandler	protected
enzyme_name_	PeptideIndexing	protected
enzyme_specificity_	PeptideIndexing	protected
error_name_	DefaultParamHandler	protected
EXECUTION_OK enum value	PeptideIndexing
ExitCodes enum name	PeptideIndexing
filter_aaa_proteins_	PeptideIndexing	protected
full_tolerant_search_	PeptideIndexing	protected
getDefaults() const	DefaultParamHandler
getName() const	DefaultParamHandler
getParameters() const	DefaultParamHandler
getSubsections() const	DefaultParamHandler
IL_equivalent_	PeptideIndexing	protected
ILLEGAL_PARAMETERS enum value	PeptideIndexing
keep_unreferenced_proteins_	PeptideIndexing	protected
log_	PeptideIndexing	mutableprotected
log_file_	PeptideIndexing	protected
mismatches_max_	PeptideIndexing	protected
missing_decoy_action_	PeptideIndexing	protected
operator=(const DefaultParamHandler &rhs)	DefaultParamHandler	virtual
operator==(const DefaultParamHandler &rhs) const	DefaultParamHandler	virtual
param_	DefaultParamHandler	protected
PEPTIDE_IDS_EMPTY enum value	PeptideIndexing
PeptideIndexing()	PeptideIndexing
prefix_	PeptideIndexing	protected
run(std::vector< FASTAFile::FASTAEntry > &proteins, std::vector< ProteinIdentification > &prot_ids, std::vector< PeptideIdentification > &pep_ids)	PeptideIndexing
setName(const String &name)	DefaultParamHandler
setParameters(const Param &param)	DefaultParamHandler
subsections_	DefaultParamHandler	protected
UNEXPECTED_RESULT enum value	PeptideIndexing
updateMembers_()	PeptideIndexing	protectedvirtual
warn_empty_defaults_	DefaultParamHandler	protected
write_protein_description_	PeptideIndexing	protected
write_protein_sequence_	PeptideIndexing	protected
writeDebug_(const String &text, const Size min_level) const	PeptideIndexing	protected
writeLog_(const String &text) const	PeptideIndexing	protected
~DefaultParamHandler()	DefaultParamHandler	virtual
~PeptideIndexing()	PeptideIndexing	virtual