| allow_base_pair_only_screen() const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | inline |
| allow_base_pair_only_screen_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_pair_axis_cutoff_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_pair_dist_max_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_pair_dist_min_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_pair_planarity_cutoff_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_pair_rho_max_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_pair_rho_min_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_pair_z_offset_cutoff_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_stack_axis_cutoff_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_stack_dist_cutoff_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_stack_planarity_cutoff_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_stack_z_offset_max_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_stack_z_offset_min_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| base_stub_list_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| block_stack_above_res_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| block_stack_below_res_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_pair(core::kinematics::Stub const &moving_residue_base_stub, core::kinematics::Stub const &other_base_stub, core::Real const base_axis_CUTOFF, core::Real const base_planarity_CUTOFF) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_pair(core::kinematics::Stub const &moving_residue_base_stub, core::Real const base_axis_CUTOFF, core::Real const base_planarity_CUTOFF) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_stack(core::kinematics::Stub const &moving_residue_base_stub, core::kinematics::Stub const &other_base_stub, core::Real const base_axis_CUTOFF, core::Real const base_planarity_CUTOFF, core::chemical::rna::BaseStackWhichSide &base_stack_side, bool const verbose=false) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_stack(core::kinematics::Stub const &moving_residue_base_stub, core::kinematics::Stub const &other_base_stub, core::Real const base_axis_CUTOFF, core::Real const base_planarity_CUTOFF, bool const verbose=false) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_stack(core::kinematics::Stub const &moving_residue_base_stub, core::kinematics::Stub const &other_base_stub, core::chemical::rna::BaseStackWhichSide &base_stack_side) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_stack(core::Size const &pos1, core::Size const &pos2, bool const verbose=false) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_stack(core::kinematics::Stub const &moving_res_base, core::Real const base_axis_CUTOFF, core::Real const base_planarity_CUTOFF) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_stack(core::kinematics::Stub const &moving_residue_base_stub, core::kinematics::Stub const &other_base_stub, bool const verbose=false) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_base_stack_in_partition(core::Size const &block_stack_res, utility::vector1< core::Size > const &other_res, core::chemical::rna::BaseStackWhichSide const &block_stack_side) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_block_stack_res(utility::vector1< core::Size > const &block_stack_res, core::chemical::rna::BaseStackWhichSide const &block_stack_side) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_centroid_interaction(core::kinematics::Stub const &moving_res_base_stub, StepWiseRNA_CountStruct &count_data) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | |
| check_centroid_interaction(StepWiseRNA_CountStruct &count_data) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_centroid_interaction_floating_base(core::kinematics::Stub const &moving_res_base_stub, StepWiseRNA_CountStruct &count_data) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| check_that_terminal_res_are_unstacked(bool const verbose=false) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | |
| fixed_residues_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| floating_base_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| found_centroid_interaction() const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | inline |
| found_centroid_interaction_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| Initialize_base_stub_list(core::pose::Pose const &pose, bool const verbose=false) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| Initialize_is_virtual_base(core::pose::Pose const &pose, bool const verbose=false) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| Initialize_terminal_res(core::pose::Pose const &pose) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| is_fixed_res_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| is_medium_base_stack_and_medium_base_pair(core::kinematics::Stub const &moving_res_base) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| is_moving_res_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| is_strong_base_stack(core::kinematics::Stub const &moving_res_base) const | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| is_terminal_res_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| is_virtual_base_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| moving_residues_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| RNA_BaseCentroidChecker(core::pose::Pose const &pose, working_parameters::StepWiseWorkingParametersCOP &working_parameters, bool const tether_jump=false) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | |
| rna_centroid_info_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| set_allow_base_pair_only_screen(bool const setting) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | inline |
| set_floating_base(bool const setting) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | inline |
| stacked_on_terminal_res_in_original_pose_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| terminal_res_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| tether_jump_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| update_base_stub_list(core::pose::Pose const &pose) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| update_base_stub_list_and_check_centroid_interaction(core::pose::Pose const &pose, StepWiseRNA_CountStruct &count_data) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | |
| update_base_stub_list_and_check_that_terminal_res_are_unstacked(core::pose::Pose const &pose, bool const reinitialize=false) | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | |
| working_parameters_ | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | private |
| ~RNA_BaseCentroidChecker() override | protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker | |
1.8.7