basic::options::OptionKeys::antibody Namespace Reference

Namespaces
	design

Variables
BooleanOptionKey const	antibody
StringOptionKey const	input_ab_scheme
StringOptionKey const	output_ab_scheme
StringOptionKey const	cdr_definition
StringOptionKey const	light_chain
BooleanOptionKey const	check_cdr_chainbreaks
BooleanOptionKey const	check_cdr_pep_bond_geom
BooleanOptionKey const	constrain_cter
BooleanOptionKey const	auto_generate_kink_constraint
BooleanOptionKey const	all_atom_mode_kink_constraint
StringOptionKey const	numbering_scheme
BooleanOptionKey const	graft_l1
StringOptionKey const	l1_template
BooleanOptionKey const	graft_l2
StringOptionKey const	l2_template
BooleanOptionKey const	graft_l3
StringOptionKey const	l3_template
BooleanOptionKey const	graft_h1
StringOptionKey const	h1_template
BooleanOptionKey const	graft_h2
StringOptionKey const	h2_template
BooleanOptionKey const	graft_h3
StringOptionKey const	h3_template
StringOptionKey const	light_heavy_template
StringOptionKey const	frl_template
StringOptionKey const	frh_template
BooleanOptionKey const	run_snugdock
BooleanOptionKey const	h3_no_stem_graft
BooleanOptionKey const	packonly_after_graft
BooleanOptionKey const	stem_optimize
IntegerOptionKey const	stem_optimize_size
StringOptionKey const	preprocessing_script_version
BooleanOptionKey const	model_h3
BooleanOptionKey const	snugfit
BooleanOptionKey const	refine_h3
BooleanOptionKey const	h3_filter
RealOptionKey const	h3_filter_tolerance
BooleanOptionKey const	sc_min
BooleanOptionKey const	rt_min
BooleanOptionKey const	extend_h3_before_modeling
StringOptionKey const	centroid_refine
BooleanOptionKey const	h3_loop_csts_lr
BooleanOptionKey const	h3_loop_csts_hr
BooleanOptionKey const	auto_generate_h3_kink_constraint
BooleanOptionKey const	constrain_vlvh_qq
BooleanOptionKey const	snug_loops
FileOptionKey const	input_fv
BooleanOptionKey const	camelid
BooleanOptionKey const	camelid_constraints
BooleanOptionKey const	use_mean_cluster_cst_data
BooleanOptionKey const	force_use_of_cluster_csts_with_outliers
IntegerOptionKey const	cluster_csts_stats_cutoff
RealOptionKey const	general_dihedral_cst_phi_sd
RealOptionKey const	general_dihedral_cst_psi_sd
BooleanOptionKey const	allow_omega_mismatches_for_north_clusters
StringOptionKey const	prefix
StringOptionKey const	grafting_database
StringOptionKey const	blastp
StringVectorOptionKey const	exclude_pdbs
BooleanOptionKey const	exclude_homologs
RealOptionKey const	exclude_homologs_cdr_cutoff
RealOptionKey const	exclude_homologs_fr_cutoff
RealOptionKey const	ocd_cutoff
RealOptionKey const	bfactor_cutoff
IntegerOptionKey const	n_multi_templates
StringOptionKey const	json_cdr

Variable Documentation

BooleanOptionKey const basic::options::OptionKeys::antibody::all_atom_mode_kink_constraint

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::allow_omega_mismatches_for_north_clusters

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::antibody

Referenced by add_rosetta_options_5(), PackingAngle::apply(), and main().

BooleanOptionKey const basic::options::OptionKeys::antibody::auto_generate_h3_kink_constraint

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::auto_generate_kink_constraint

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::antibody::bfactor_cutoff

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::blastp

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::camelid

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::camelid_constraints

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::cdr_definition

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::centroid_refine

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::check_cdr_chainbreaks

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::check_cdr_pep_bond_geom

Referenced by add_rosetta_options_5().

IntegerOptionKey const basic::options::OptionKeys::antibody::cluster_csts_stats_cutoff

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::constrain_cter

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::constrain_vlvh_qq

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::exclude_homologs

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::antibody::exclude_homologs_cdr_cutoff

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::antibody::exclude_homologs_fr_cutoff

Referenced by add_rosetta_options_5().

StringVectorOptionKey const basic::options::OptionKeys::antibody::exclude_pdbs

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::extend_h3_before_modeling

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::force_use_of_cluster_csts_with_outliers

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::frh_template

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::frl_template

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::antibody::general_dihedral_cst_phi_sd

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::antibody::general_dihedral_cst_psi_sd

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::graft_h1

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::graft_h2

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::graft_h3

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::graft_l1

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::graft_l2

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::graft_l3

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::grafting_database

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::h1_template

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::h2_template

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::h3_filter

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::antibody::h3_filter_tolerance

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::h3_loop_csts_hr

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::h3_loop_csts_lr

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::h3_no_stem_graft

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::h3_template

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::input_ab_scheme

Referenced by add_rosetta_options_5().

FileOptionKey const basic::options::OptionKeys::antibody::input_fv

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::json_cdr

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::l1_template

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::l2_template

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::l3_template

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::light_chain

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::light_heavy_template

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::model_h3

Referenced by add_rosetta_options_5().

IntegerOptionKey const basic::options::OptionKeys::antibody::n_multi_templates

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::numbering_scheme

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::antibody::ocd_cutoff

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::output_ab_scheme

Referenced by add_rosetta_options_5(), and IdentifyCDRClusters::apply().

BooleanOptionKey const basic::options::OptionKeys::antibody::packonly_after_graft

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::prefix

Referenced by add_rosetta_options_5().

StringOptionKey const basic::options::OptionKeys::antibody::preprocessing_script_version

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::refine_h3

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::rt_min

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::run_snugdock

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::sc_min

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::snug_loops

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::snugfit

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::stem_optimize

Referenced by add_rosetta_options_5().

IntegerOptionKey const basic::options::OptionKeys::antibody::stem_optimize_size

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::antibody::use_mean_cluster_cst_data

Referenced by add_rosetta_options_5().