protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler Member List

This is the complete list of members for protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler, including all inherited members.

add_residue_alternative_set(rotamer_sampler::copy_dofs::ResidueAlternativeSet const &residue_alternative_set)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler
apply(pose::Pose &pose_to_visualize)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	virtual
protocols::moves::MoverForPoseList::apply(utility::vector1< core::pose::PoseOP > &pose_list)	protocols::moves::MoverForPoseList	virtual
protocols::moves::MoverForPoseList::apply(utility::vector1< core::pose::PoseOP > &pose_list, core::pose::Pose &viewer_pose)	protocols::moves::MoverForPoseList	virtual
protocols::moves::Mover::apply(core::io::serialization::PipeMap &pmap)	protocols::moves::Mover	virtual
atr_rep_checker_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
base_bin_map_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
base_centroid_checker_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
build_pose_from_scratch_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
chain_break_gap_sizes_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
chain_closable_geometry_checkers_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
chain_closure_checkers_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
check_job_parameters(pose::Pose const &pose)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
clear_info()	protocols::moves::Mover	inlinevirtual
clone() const	protocols::moves::Mover	virtual
count_data_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
create()	protocols::moves::Mover	virtual
cutpoints_closed_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
extra_tag_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
figure_out_reference_res(pose::Pose const &pose)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
figure_out_reference_res_with_rigid_body_rotamer(pose::Pose const &pose)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
Filters_map typedef	protocols::moves::Mover
five_prime_chain_breaks_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
fresh_instance() const	protocols::moves::Mover	virtual
get_additional_output()	protocols::moves::Mover	virtual
get_current_job() const	protocols::moves::Mover
get_current_tag() const	protocols::moves::Mover	inline
get_full_bond_sampler()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
get_input_pose() const	protocols::moves::Mover
get_last_move_status() const	protocols::moves::Mover
get_max_ntries()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
get_moving_rsd_list() const	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
get_name() const	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	virtual
get_native_pose() const	protocols::moves::Mover
get_num_pose_kept()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
get_pose_list()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler
get_rsd_alternatives_rotamer()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
get_type() const	protocols::moves::Mover	inline
info()	protocols::moves::Mover	inlinevirtual
info() const	protocols::moves::Mover	inlinevirtual
initialize_euler_angle_grid_parameters()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_full_rigid_body_sampler()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_moving_residue_pose_list(pose::Pose const &pose)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_pose_level_screeners(pose::Pose &pose)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_poses_and_checkers(pose::Pose &pose)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_residue_level_screeners(pose::Pose &pose)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_rigid_body_rotamer()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_sampler()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_screeners(pose::Pose &pose)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
initialize_xyz_grid_parameters()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
job_parameters_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
kic_sampling_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
last_proposal_density_ratio()	protocols::moves::Mover	inlinevirtual
max_distance_squared_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
Mover()	protocols::moves::Mover
Mover(std::string const &type_name)	protocols::moves::Mover
Mover(Mover const &other)	protocols::moves::Mover
MoverForPoseList()	protocols::moves::MoverForPoseList
moving_partition_res_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
moving_res_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
moving_res_base_stub_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
name()	protocols::moves::Mover	inlinestatic
o2prime_instantiation_distance_cutoff_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
o2prime_packer_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
operator=(Mover const &other)	protocols::moves::Mover
options_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	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
phosphate_sampler_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
Pose typedef	protocols::moves::Mover
pose_list_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
pose_selection_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
PoseCOP typedef	protocols::moves::Mover
rebuild_bulge_mode_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
reference_res_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	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
reinstantiate_backbone_and_add_constraint_at_moving_res(pose::Pose &pose, Size const &five_prime_chain_break_res)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
reset_status()	protocols::moves::Mover
residue_alternative_sets_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
rigid_body_rotamer_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
rigid_body_sampling_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
sampler_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
save_state(SerializableState &state)	protocols::moves::Mover	virtual
scorefxn_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
screeners_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
screening_pose_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
set_base_centroid_checker(checker::RNA_BaseCentroidCheckerOP &checker)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler
set_current_job(protocols::jobdist::BasicJobCOP job)	protocols::moves::Mover
set_current_tag(std::string const &new_tag)	protocols::moves::Mover	inline
set_input_pose(PoseCOP pose)	protocols::moves::Mover	virtual
set_last_move_status(MoverStatus status)	protocols::moves::Mover	protected
set_native_pose(PoseCOP pose)	protocols::moves::Mover	virtual
set_options(StepWiseRNA_ModelerOptionsCOP options)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler
set_pose_list(utility::vector1< pose::PoseOP > &pose_list)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler
set_scorefxn(scoring::ScoreFunctionOP const &scorefxn)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler
set_silent_file(std::string const &setting)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	inline
set_user_input_VDW_bin_checker(checker::RNA_VDW_BinCheckerOP const &user_input_VDW_bin_checker)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler
show(std::ostream &output=std::cout) const	protocols::moves::Mover	virtual
silent_file_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
StepWiseRNA_ConnectionSampler()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
StepWiseRNA_ConnectionSampler(StepWiseRNA_JobParametersCOP &job_parameters_)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler
Strings typedef	protocols::moves::Mover
tag_definition_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
TagCOP typedef	protocols::moves::Mover
test_move(Pose &pose)	protocols::moves::Mover	inlinevirtual
three_prime_chain_breaks_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
truly_floating_base()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
try_sugar_instantiation_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
type() const	protocols::moves::Mover	inline
type(const std::string &type_in)	protocols::moves::Mover	inline
update_base_bin_map(rigid_body::BaseBin const &base_bin)	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
user_input_VDW_bin_checker_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
VDW_bin_checker_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
virt_sugar_atr_rep_checker_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
virt_sugar_atr_rep_screen_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
virt_sugar_screening_pose_	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
which_residue_alternative_set_is_moving_residue() const	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler	private
~Mover()	protocols::moves::Mover	virtual
~MoverForPoseList()	protocols::moves::MoverForPoseList
~StepWiseRNA_ConnectionSampler()	protocols::stepwise::sampling::rna::connection::StepWiseRNA_ConnectionSampler