OpenPepXLLFAlgorithm Member List

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

add_a_ions_	OpenPepXLLFAlgorithm	private
add_b_ions_	OpenPepXLLFAlgorithm	private
add_c_ions_	OpenPepXLLFAlgorithm	private
add_losses_	OpenPepXLLFAlgorithm	private
add_x_ions_	OpenPepXLLFAlgorithm	private
add_y_ions_	OpenPepXLLFAlgorithm	private
add_z_ions_	OpenPepXLLFAlgorithm	private
check_defaults_	DefaultParamHandler	protected
CMD enum value	ProgressLogger
cross_link_mass_	OpenPepXLLFAlgorithm	private
cross_link_mass_mono_link_	OpenPepXLLFAlgorithm	private
cross_link_name_	OpenPepXLLFAlgorithm	private
cross_link_residue1_	OpenPepXLLFAlgorithm	private
cross_link_residue2_	OpenPepXLLFAlgorithm	private
current_logger_	ProgressLogger	mutableprotected
decoy_prefix_	OpenPepXLLFAlgorithm	private
decoy_string_	OpenPepXLLFAlgorithm	private
DefaultParamHandler(const String &name)	DefaultParamHandler
DefaultParamHandler(const DefaultParamHandler &rhs)	DefaultParamHandler
DefaultParamHandler()	DefaultParamHandler	private
defaults_	DefaultParamHandler	protected
defaultsToParam_()	DefaultParamHandler	protected
deisotope_mode_	OpenPepXLLFAlgorithm	private
endProgress(UInt64 bytes_processed=0) const	ProgressLogger
enzyme_name_	OpenPepXLLFAlgorithm	private
error_name_	DefaultParamHandler	protected
EXECUTION_OK enum value	OpenPepXLLFAlgorithm
ExitCodes enum name	OpenPepXLLFAlgorithm
fixedModNames_	OpenPepXLLFAlgorithm	private
fragment_mass_tolerance_	OpenPepXLLFAlgorithm	private
fragment_mass_tolerance_unit_ppm_	OpenPepXLLFAlgorithm	private
fragment_mass_tolerance_xlinks_	OpenPepXLLFAlgorithm	private
getDefaults() const	DefaultParamHandler
getLogType() const	ProgressLogger
getName() const	DefaultParamHandler
getParameters() const	DefaultParamHandler
getSubsections() const	DefaultParamHandler
GUI enum value	ProgressLogger
ILLEGAL_PARAMETERS enum value	OpenPepXLLFAlgorithm
INCOMPATIBLE_INPUT_DATA enum value	OpenPepXLLFAlgorithm
last_invoke_	ProgressLogger	mutableprotected
LogType enum name	ProgressLogger
max_precursor_charge_	OpenPepXLLFAlgorithm	private
max_variable_mods_per_peptide_	OpenPepXLLFAlgorithm	private
min_precursor_charge_	OpenPepXLLFAlgorithm	private
missed_cleavages_	OpenPepXLLFAlgorithm	private
nextProgress() const	ProgressLogger
NONE enum value	ProgressLogger
number_top_hits_	OpenPepXLLFAlgorithm	private
OpenPepXLLFAlgorithm()	OpenPepXLLFAlgorithm
OpenMS::operator=(const DefaultParamHandler &rhs)	DefaultParamHandler
OpenMS::ProgressLogger::operator=(const ProgressLogger &other)	ProgressLogger
operator==(const DefaultParamHandler &rhs) const	DefaultParamHandler	virtual
param_	DefaultParamHandler	protected
peptide_min_size_	OpenPepXLLFAlgorithm	private
precursor_correction_steps_	OpenPepXLLFAlgorithm	private
precursor_mass_tolerance_	OpenPepXLLFAlgorithm	private
precursor_mass_tolerance_unit_ppm_	OpenPepXLLFAlgorithm	private
ProgressLogger()	ProgressLogger
ProgressLogger(const ProgressLogger &other)	ProgressLogger
recursion_depth_	ProgressLogger	protectedstatic
run(PeakMap &unprocessed_spectra, std::vector< FASTAFile::FASTAEntry > &fasta_db, std::vector< ProteinIdentification > &protein_ids, std::vector< PeptideIdentification > &peptide_ids, std::vector< std::vector< OPXLDataStructs::CrossLinkSpectrumMatch > > &all_top_csms, PeakMap &spectra)	OpenPepXLLFAlgorithm
sequence_tag_min_length_	OpenPepXLLFAlgorithm	private
setLogger(ProgressLoggerImpl *logger)	ProgressLogger
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	mutableprotected
UNEXPECTED_RESULT enum value	OpenPepXLLFAlgorithm
updateMembers_() override	OpenPepXLLFAlgorithm	privatevirtual
use_sequence_tags_	OpenPepXLLFAlgorithm	private
varModNames_	OpenPepXLLFAlgorithm	private
warn_empty_defaults_	DefaultParamHandler	protected
writeParametersToMetaValues(const Param &write_this, MetaInfoInterface &write_here, const String &key_prefix="")	DefaultParamHandler	static
~DefaultParamHandler()	DefaultParamHandler	virtual
~OpenPepXLLFAlgorithm() override	OpenPepXLLFAlgorithm
~ProgressLogger()	ProgressLogger	virtual