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protocols::ub_e2c::ubi_e2c_modeler Member List

This is the complete list of members for protocols::ub_e2c::ubi_e2c_modeler, including all inherited members.

all_dof_map_protocols::ub_e2c::ubi_e2c_modelerprivate
applied_fullatom_pert_protocols::ub_e2c::ubi_e2c_modelerprivate
apply(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelervirtual
protocols::moves::Mover::apply(core::io::serialization::PipeMap &pmap)protocols::moves::Movervirtual
assign_CSPs(const core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
assign_non_CSPs(const core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
CAprotocols::ub_e2c::ubi_e2c_modelerprivate
calc_interaction_energy(const core::pose::Pose &pose_in, bool dimer=true)protocols::ub_e2c::ubi_e2c_modeler
calc_Lrmsd(const core::pose::Pose &pose_in, const core::pose::Pose &native_pose, core::Size ubiquitin)protocols::ub_e2c::ubi_e2c_modeler
cen_constraint_protocols::ub_e2c::ubi_e2c_modelerprivate
cen_vdw_protocols::ub_e2c::ubi_e2c_modelerprivate
centroid_allowed_CSP_fraction_protocols::ub_e2c::ubi_e2c_modelerprivate
centroid_CSP_weight_protocols::ub_e2c::ubi_e2c_modelerprivate
centroid_filter(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
centroid_mode_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
centroid_non_CSP_weight_protocols::ub_e2c::ubi_e2c_modelerprivate
clear_info()protocols::moves::Moverinlinevirtual
clone() const protocols::ub_e2c::ubi_e2c_modelervirtual
compute_swap_trim_CSPs()protocols::ub_e2c::ubi_e2c_modelerprivate
compute_trim_CSPs()protocols::ub_e2c::ubi_e2c_modelerprivate
cov_bond_only_flag_protocols::ub_e2c::ubi_e2c_modelerprivate
create()protocols::moves::Movervirtual
CSP_protocols::ub_e2c::ubi_e2c_modelerprivate
CSP_fraction(const core::pose::Pose &pose_in, bool non_CSP=false, bool trim=false, bool swap=false)protocols::ub_e2c::ubi_e2c_modeler
CSP_swap_trim_protocols::ub_e2c::ubi_e2c_modelerprivate
CSP_trim_protocols::ub_e2c::ubi_e2c_modelerprivate
d77_48_lys_protocols::ub_e2c::ubi_e2c_modelerprivate
d77_75g_mtsl_protocols::ub_e2c::ubi_e2c_modelerprivate
d77_ctr_of_mass_protocols::ub_e2c::ubi_e2c_modelerprivate
d77_docking_map_protocols::ub_e2c::ubi_e2c_modelerprivate
d77_end_protocols::ub_e2c::ubi_e2c_modelerprivate
d77_trim_ctr_mass_protocols::ub_e2c::ubi_e2c_modelerprivate
d77_trim_end_protocols::ub_e2c::ubi_e2c_modelerprivate
dock_lowres_cst_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
dock_lowres_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
dockfa_cst_min_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
dockfa_cst_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
dockfa_min_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
dockfa_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
docking_map_protocols::ub_e2c::ubi_e2c_modelerprivate
e2_ctr_of_mass_protocols::ub_e2c::ubi_e2c_modelerprivate
e2_d77_jump_protocols::ub_e2c::ubi_e2c_modelerprivate
e2_end_protocols::ub_e2c::ubi_e2c_modelerprivate
e2_k48r_jump_protocols::ub_e2c::ubi_e2c_modelerprivate
evaluate_native(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
Filters_map typedefprotocols::moves::Mover
flex_cter_protocols::ub_e2c::ubi_e2c_modelerprivate
flex_cter_map_protocols::ub_e2c::ubi_e2c_modelerprivate
fresh_instance() const protocols::moves::Movervirtual
full_constraint_protocols::ub_e2c::ubi_e2c_modelerprivate
full_vdw_protocols::ub_e2c::ubi_e2c_modelerprivate
fullatom_allowed_CSP_fraction_protocols::ub_e2c::ubi_e2c_modelerprivate
fullatom_constraint_cutoff_protocols::ub_e2c::ubi_e2c_modelerprivate
fullatom_CSP_weight_protocols::ub_e2c::ubi_e2c_modelerprivate
fullatom_filter(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
fullatom_mode_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
fullatom_non_CSP_weight_protocols::ub_e2c::ubi_e2c_modelerprivate
get_additional_output()protocols::moves::Movervirtual
get_current_job() const protocols::moves::Mover
get_current_tag() const protocols::moves::Moverinline
get_input_pose() const protocols::moves::Mover
get_last_move_status() const protocols::moves::Mover
get_name() const protocols::ub_e2c::ubi_e2c_modelervirtual
get_native_pose() const protocols::moves::Mover
get_type() const protocols::moves::Moverinline
higher_d77_pert_mode_protocols::ub_e2c::ubi_e2c_modelerprivate
info()protocols::moves::Moverinlinevirtual
info() const protocols::moves::Moverinlinevirtual
init_all_dof_map_protocols::ub_e2c::ubi_e2c_modelerprivate
init_d77_docking_map_protocols::ub_e2c::ubi_e2c_modelerprivate
init_d77_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
init_docking_map_protocols::ub_e2c::ubi_e2c_modelerprivate
init_flex_cter_map_protocols::ub_e2c::ubi_e2c_modelerprivate
init_k48r_docking_map_protocols::ub_e2c::ubi_e2c_modelerprivate
init_k48r_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
init_monoub_all_dof_map_protocols::ub_e2c::ubi_e2c_modelerprivate
init_monoub_docking_map_protocols::ub_e2c::ubi_e2c_modelerprivate
init_monoub_flex_cter_map_protocols::ub_e2c::ubi_e2c_modelerprivate
init_task_factory_protocols::ub_e2c::ubi_e2c_modelerprivate
initial_cter_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
initial_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
initial_repack(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
k48r_48_lys_protocols::ub_e2c::ubi_e2c_modelerprivate
k48r_48k_mtsl_protocols::ub_e2c::ubi_e2c_modelerprivate
k48r_ctr_of_mass_protocols::ub_e2c::ubi_e2c_modelerprivate
k48r_docking_map_protocols::ub_e2c::ubi_e2c_modelerprivate
k48r_end_protocols::ub_e2c::ubi_e2c_modelerprivate
k48r_swap_protocols::ub_e2c::ubi_e2c_modelerprivate
k48r_trim_end_protocols::ub_e2c::ubi_e2c_modelerprivate
last_proposal_density_ratio()protocols::moves::Moverinlinevirtual
lowres_cst_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
lowres_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
max_k48_cter_dist_protocols::ub_e2c::ubi_e2c_modelerprivate
max_repeats_protocols::ub_e2c::ubi_e2c_modelerprivate
min_tolerance_protocols::ub_e2c::ubi_e2c_modelerprivate
min_type_protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_all_dof_map_protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_apply(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_assign_CSPs(const core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_calc_interaction_energy(const core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_calc_Lrmsd(const core::pose::Pose &pose_in, const core::pose::Pose &native_pose)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_centroid_filter(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_centroid_mode_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_CSP_fraction(const core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_ctr_of_mass_protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_docking_map_protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_end_protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_first_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_flex_cter_map_protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_fold_tree(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_fullatom_filter(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_fullatom_mode_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_initial_cter_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_initial_perturbation(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_mode_protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_setup_key_residues(const core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modelerprivate
monoub_setup_move_maps()protocols::ub_e2c::ubi_e2c_modelerprivate
Mover()protocols::moves::Mover
Mover(std::string const &type_name)protocols::moves::Mover
Mover(Mover const &other)protocols::moves::Mover
name()protocols::moves::Moverinlinestatic
nb_list_protocols::ub_e2c::ubi_e2c_modelerprivate
non_CSP_protocols::ub_e2c::ubi_e2c_modelerprivate
non_CSP_swap_trim_protocols::ub_e2c::ubi_e2c_modelerprivate
non_CSP_trim_protocols::ub_e2c::ubi_e2c_modelerprivate
operator=(Mover const &other)protocols::moves::Mover
optimize_cov_bond(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
output_cen_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
output_full_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
pack_cst_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
pack_scorefxn_protocols::ub_e2c::ubi_e2c_modelerprivate
parse_def(utility::lua::LuaObject const &def, utility::lua::LuaObject const &score_fxns, utility::lua::LuaObject const &tasks, MoverCacheSP cache)protocols::moves::Movervirtual
parse_my_tag(TagPtr const tag, DataMap &data, Filters_map const &filters, Movers_map const &movers, Pose const &pose)protocols::moves::Movervirtual
parse_state(SerializableState const &state)protocols::moves::Movervirtual
passed_centroid_filter_protocols::ub_e2c::ubi_e2c_modelerprivate
passed_fullatom_filter_protocols::ub_e2c::ubi_e2c_modelerprivate
Pose typedefprotocols::moves::Mover
PoseCOP typedefprotocols::moves::Mover
refinement_mode_protocols::ub_e2c::ubi_e2c_modelerprivate
register_options()protocols::moves::Moverinlinestatic
reinitialize_for_each_job() const protocols::moves::Movervirtual
reinitialize_for_new_input() const protocols::moves::Movervirtual
reset_status()protocols::moves::Mover
restore_cter(core::pose::Pose &pose_in, core::pose::Pose without_cter)protocols::ub_e2c::ubi_e2c_modeler
restrict_to_interfacial_loop_packing(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
save_state(SerializableState &state)protocols::moves::Movervirtual
score_map_protocols::ub_e2c::ubi_e2c_modelerprivate
set_current_job(protocols::jobdist::BasicJobCOP job)protocols::moves::Mover
set_current_tag(std::string const &new_tag)protocols::moves::Moverinline
set_default()protocols::ub_e2c::ubi_e2c_modeler
set_e2g2_diubi_fold_tree(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
set_input_pose(PoseCOP pose)protocols::moves::Movervirtual
set_last_move_status(MoverStatus status)protocols::moves::Moverprotected
set_native_pose(PoseCOP pose)protocols::moves::Movervirtual
setup_complex_fold_tree(core::pose::Pose &pose_in, bool trim=false)protocols::ub_e2c::ubi_e2c_modeler
setup_key_residues(const core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
setup_move_maps()protocols::ub_e2c::ubi_e2c_modeler
setup_packer_task(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
setup_simple_fold_tree(core::Size jumppoint1, core::Size cutpoint, core::Size jumppoint2, core::Size nres, core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
Strings typedefprotocols::moves::Mover
TagPtr typedefprotocols::moves::Mover
temperature_protocols::ub_e2c::ubi_e2c_modelerprivate
test_move(Pose &pose)protocols::moves::Moverinlinevirtual
tf_protocols::ub_e2c::ubi_e2c_modelerprivate
trim_cter(core::pose::Pose &pose_in)protocols::ub_e2c::ubi_e2c_modeler
type() const protocols::moves::Moverinline
type(const std::string &type_in)protocols::moves::Moverinline
ubi_e2c_modeler()protocols::ub_e2c::ubi_e2c_modeler
~Mover()protocols::moves::Movervirtual
~ubi_e2c_modeler()protocols::ub_e2c::ubi_e2c_modeler