protocols::antibody::design::AntibodyGraftDesigner Member List

This is the complete list of members for protocols::antibody::design::AntibodyGraftDesigner, including all inherited members.

ab_info_	protocols::antibody::design::AntibodyGraftDesigner	private
AntibodyGraftDesigner(AntibodyInfoOP ab_info)	protocols::antibody::design::AntibodyGraftDesigner
AntibodyGraftDesigner(AntibodyInfoOP &ab_info, std::string instruction_path)	protocols::antibody::design::AntibodyGraftDesigner
apply(pose::Pose &pose)	protocols::antibody::design::AntibodyGraftDesigner	virtual
protocols::moves::Mover::apply(core::io::serialization::PipeMap &pmap)	protocols::moves::Mover	virtual
benchmark_	protocols::antibody::design::AntibodyGraftDesigner	private
cdr_cluster_map_	protocols::antibody::design::AntibodyGraftDesigner	private
cdr_instructions_	protocols::antibody::design::AntibodyGraftDesigner	private
cdr_set_	protocols::antibody::design::AntibodyGraftDesigner	private
check_for_top_designs(pose::Pose &pose)	protocols::antibody::design::AntibodyGraftDesigner	private
clear_info()	protocols::moves::Mover	inlinevirtual
clone() const	protocols::moves::Mover	virtual
constraint_map_	protocols::antibody::design::AntibodyGraftDesigner	private
create()	protocols::moves::Mover	virtual
dock_post_graft_	protocols::antibody::design::AntibodyGraftDesigner	private
dock_rounds_	protocols::antibody::design::AntibodyGraftDesigner	private
extend_native_cdrs(pose::Pose &pose, vector1< CDRNameEnum > &cdrs_to_design)	protocols::antibody::design::AntibodyGraftDesigner	private
extend_native_cdrs_	protocols::antibody::design::AntibodyGraftDesigner	private
Filters_map typedef	protocols::moves::Mover
fix_pdb_info(pose::Pose &pose, CDRNameEnum cdr, CDRClusterEnum cluster, core::Size original_start, core::Size original_pdb_end)	protocols::antibody::design::AntibodyGraftDesigner	private
fresh_instance() const	protocols::moves::Mover	virtual
get_additional_output()	protocols::moves::Mover	virtual
get_cdr_set_index_list()	protocols::antibody::design::AntibodyGraftDesigner	private
get_current_job() const	protocols::moves::Mover
get_current_tag() const	protocols::moves::Mover	inline
get_input_pose() const	protocols::moves::Mover
get_last_move_status() const	protocols::moves::Mover
get_name() const	protocols::antibody::design::AntibodyGraftDesigner	virtual
get_native_pose() const	protocols::moves::Mover
get_top_designs()	protocols::antibody::design::AntibodyGraftDesigner	inline
get_type() const	protocols::moves::Mover	inline
graft_cdr(pose::Pose &pose, CDRNameEnum cdr, core::Size index)	protocols::antibody::design::AntibodyGraftDesigner	private
graft_mover_	protocols::antibody::design::AntibodyGraftDesigner	private
graft_rounds_	protocols::antibody::design::AntibodyGraftDesigner	private
info()	protocols::moves::Mover	inlinevirtual
info() const	protocols::moves::Mover	inlinevirtual
initial_perturb_	protocols::antibody::design::AntibodyGraftDesigner	private
initialize_cdr_set()	protocols::antibody::design::AntibodyGraftDesigner	private
instruction_path_	protocols::antibody::design::AntibodyGraftDesigner	private
last_proposal_density_ratio()	protocols::moves::Mover	inlinevirtual
max_linear_chainbreak_	protocols::antibody::design::AntibodyGraftDesigner	private
mc_	protocols::antibody::design::AntibodyGraftDesigner	private
modeler_	protocols::antibody::design::AntibodyGraftDesigner	private
Mover()	protocols::moves::Mover
Mover(std::string const &type_name)	protocols::moves::Mover
Mover(Mover const &other)	protocols::moves::Mover
name()	protocols::moves::Mover	inlinestatic
native_clusters_	protocols::antibody::design::AntibodyGraftDesigner	private
num_top_designs_	protocols::antibody::design::AntibodyGraftDesigner	private
operator=(Mover const &other)	protocols::moves::Mover
overhang_	protocols::antibody::design::AntibodyGraftDesigner	private
pack_post_graft_	protocols::antibody::design::AntibodyGraftDesigner	private
parse_def(utility::lua::LuaObject const &def, utility::lua::LuaObject const &score_fxns, utility::lua::LuaObject const &tasks, MoverCacheSP cache)	protocols::moves::Mover	virtual
parse_my_tag(TagCOP tag, basic::datacache::DataMap &data, Filters_map const &filters, Movers_map const &movers, Pose const &pose)	protocols::moves::Mover	virtual
parse_state(SerializableState const &state)	protocols::moves::Mover	virtual
pdbmap_	protocols::antibody::design::AntibodyGraftDesigner	private
Pose typedef	protocols::moves::Mover
PoseCOP typedef	protocols::moves::Mover
rb_min_post_graft_	protocols::antibody::design::AntibodyGraftDesigner	private
read_command_line_options()	protocols::antibody::design::AntibodyGraftDesigner	private
read_instructions(std::string instruction_path)	protocols::antibody::design::AntibodyGraftDesigner	private
register_options()	protocols::moves::Mover	inlinestatic
reinitialize_for_each_job() const	protocols::moves::Mover	virtual
reinitialize_for_new_input() const	protocols::moves::Mover	virtual
reset_status()	protocols::moves::Mover
run_basic_mc_algorithm(pose::Pose &pose, vector1< CDRNameEnum > &cdrs_to_design)	protocols::antibody::design::AntibodyGraftDesigner	private
run_deterministic_graft_algorithm(pose::Pose &pose, vector1< CDRNameEnum > &cdrs_to_design)	protocols::antibody::design::AntibodyGraftDesigner	private
sampling_instructions_	protocols::antibody::design::AntibodyGraftDesigner	private
save_state(SerializableState &state)	protocols::moves::Mover	virtual
scorefxn_	protocols::antibody::design::AntibodyGraftDesigner	private
set_cdr(CDRNameEnum const cdr, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_cluster_centers_only(CDRNameEnum const cdr, bool setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_cluster_centers_only_range(CDRNameEnum const cdr_start, CDRNameEnum const cdr_end, bool setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_max_length(CDRNameEnum const cdr, core::Size length)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_max_length_range(CDRNameEnum const cdr_start, CDRNameEnum const cdr_end, core::Size length)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_min_length(CDRNameEnum const cdr, core::Size length)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_min_length_range(CDRNameEnum const cdr_start, CDRNameEnum const cdr_end, core::Size length)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_range(CDRNameEnum const cdr_start, CDRNameEnum cdr_end, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_range_stay_in_native_cluster(CDRNameEnum const cdr_start, CDRNameEnum const cdr_end, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_range_stay_in_type(CDRNameEnum const cdr_start, CDRNameEnum const cdr_end, core::Size const type, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_set(CDRSet &cdr_set, CDRClusterMap &cdr_cluster_map, core::Size overhang)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_stay_in_native_cluster(CDRNameEnum const cdr, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cdr_stay_in_type(CDRNameEnum const cdr, core::Size const type, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cluster(CDRNameEnum const cdr, CDRClusterEnum const cluster, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_cluster_range(CDRNameEnum const cdr, CDRClusterEnum const cluster_start, CDRClusterEnum const cluster_end, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_current_job(protocols::jobdist::BasicJobCOP job)	protocols::moves::Mover
set_current_tag(std::string const &new_tag)	protocols::moves::Mover	inline
set_default_graft_settings()	protocols::antibody::design::AntibodyGraftDesigner	private
set_defaults()	protocols::antibody::design::AntibodyGraftDesigner
set_dock_post_graft(bool dock_post_graft)	protocols::antibody::design::AntibodyGraftDesigner
set_dock_rounds(core::Size dock_rounds)	protocols::antibody::design::AntibodyGraftDesigner
set_graft_rounds(core::Size graft_rounds)	protocols::antibody::design::AntibodyGraftDesigner
set_input_pose(PoseCOP pose)	protocols::moves::Mover	virtual
set_keep_top_designs(core::Size top_designs)	protocols::antibody::design::AntibodyGraftDesigner
set_last_move_status(MoverStatus status)	protocols::moves::Mover	protected
set_min_neighbor_sc(CDRNameEnum const cdr_name, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_min_neighbor_sc_range(CDRNameEnum const cdr_start, CDRNameEnum const cdr_end, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_min_rb(CDRNameEnum const cdr_name, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_min_rb_range(CDRNameEnum const cdr_start, CDRNameEnum const cdr_end, bool const setting)	protocols::antibody::design::AntibodyGraftDesigner
set_mintype(CDRNameEnum const cdr_name, MinTypeEnum mintype)	protocols::antibody::design::AntibodyGraftDesigner
set_mintype_range(CDRNameEnum const cdr_start, CDRNameEnum const cdr_end, MinTypeEnum mintype)	protocols::antibody::design::AntibodyGraftDesigner
set_native_pose(PoseCOP pose)	protocols::moves::Mover	virtual
set_pack_post_graft(bool pack_post_graft)	protocols::antibody::design::AntibodyGraftDesigner
set_rb_min_post_graft(bool rb_min_post_graft)	protocols::antibody::design::AntibodyGraftDesigner
set_scorefunction(ScoreFunctionOP scorefxn)	protocols::antibody::design::AntibodyGraftDesigner
setup_native_clusters(pose::Pose &pose)	protocols::antibody::design::AntibodyGraftDesigner	private
show(std::ostream &output=std::cout) const	protocols::moves::Mover	virtual
Strings typedef	protocols::moves::Mover
TagCOP typedef	protocols::moves::Mover
test_move(Pose &pose)	protocols::moves::Mover	inlinevirtual
top_designs_	protocols::antibody::design::AntibodyGraftDesigner	private
top_scores_	protocols::antibody::design::AntibodyGraftDesigner	private
total_permutations_	protocols::antibody::design::AntibodyGraftDesigner	private
type() const	protocols::moves::Mover	inline
type(const std::string &type_in)	protocols::moves::Mover	inline
use_deterministic_algorithm_	protocols::antibody::design::AntibodyGraftDesigner	private
~AntibodyGraftDesigner()	protocols::antibody::design::AntibodyGraftDesigner	virtual
~Mover()	protocols::moves::Mover	virtual