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protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener Member List

This is the complete list of members for protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener, including all inherited members.

align_VDW_rep_screen_pose(core::pose::Pose &VDW_rep_screen_pose, core::pose::Pose const &working_pose, utility::vector1< core::Size > const &VDW_rep_screen_align_res, utility::vector1< core::Size > const &working_align_res, bool const verbose) const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
atom_bin_size_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
bin_max_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
bin_min_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
bin_offset_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
check_atom_bin_in_range(Atom_Bin const &atom_pos_bin)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
check_VDW_screen_bin_is_setup() const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
create_VDW_rep_screen_pose(VDW_RepScreeninfo &VDW_rep_screen_info, core::pose::Pose const &working_pose, std::map< core::Size, core::Size > &full_to_sub, bool const verbose) const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
create_VDW_screen_bin(core::pose::Pose const &pose, utility::vector1< core::Size > const &ignore_res_list, bool const Is_prepend, numeric::xyzVector< core::Real > const &reference_xyz, bool const verbose=false)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
create_VDW_screen_bin(utility::vector1< VDW_RepScreeninfo > const &VDW_rep_screen_info_list, numeric::xyzVector< core::Real > const &reference_xyz, bool const verbose)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
create_VDW_screen_bin(utility::vector1< core::pose::Pose > const &pose_list, utility::vector1< utility::vector1< core::Size > > const &list_of_ignore_res_list, utility::vector1< bool > const list_of_Is_prepend, numeric::xyzVector< core::Real > const &reference_xyz, bool const verbose)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
FARFAR_setup_using_user_input_VDW_pose(utility::vector1< std::string > const &VDW_rep_screen_pose_info, core::pose::Pose const &const_working_pose)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
get_atom_bin(numeric::xyzVector< core::Real > const &atom_pos) const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
get_atom_pos(Atom_Bin const &atom_bin) const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
get_matching_res_in_VDW_rep_screen_pose(core::pose::Pose const &VDW_rep_screen_pose, core::pose::Pose const &working_pose, utility::vector1< core::Size > const &VDW_rep_screen_align_res, utility::vector1< core::Size > const &working_align_res, std::map< core::Size, core::Size > &full_to_sub) const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
Is_atom_bin_in_range(Atom_Bin const &atom_pos_bin) const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
Is_reference_xyz_setup_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
Is_VDW_screen_bin_setup_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
max_distance_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
num_atom_pos_bin_out_of_range_message_outputted_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
num_clash_atom_cutoff_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
output_atom_bin(std::string const filename) const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
output_pdb_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
physical_pose_clash_dist_cutoff_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
reference_xyz_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
reference_xyz_consistency_check(numeric::xyzVector< core::Real > const &inputted_reference_xyz) const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
set_output_pdb(bool const setting)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerinline
set_physical_pose_clash_dist_cutoff(core::Real const &setting)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerinline
set_reference_xyz(numeric::xyzVector< core::Real > const &reference_xyz)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
set_VDW_rep_alignment_RMSD_CUTOFF(core::Real const &setting)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerinline
set_VDW_rep_delete_matching_res(utility::vector1< std::string > const &setting)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerinline
setup_using_user_input_VDW_pose(utility::vector1< std::string > const &VDW_rep_screen_pose_info, core::pose::Pose const &const_working_pose, StepWiseRNA_JobParametersCOP const &job_parameters)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
setup_using_working_pose(core::pose::Pose const &const_working_pose, StepWiseRNA_JobParametersCOP const &job_parameters)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
StepWiseRNA_VDW_Bin_Screener()protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
tolerate_off_range_atom_bin_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
update_VDW_screen_bin(core::pose::Pose const &pose, utility::vector1< core::Size > const &ignore_res_list, bool const Is_prepend, std::ofstream &outfile_act)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
use_VDW_rep_pose_for_screening_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
user_inputted_VDW_screen_pose() const protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
user_inputted_VDW_screen_pose_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
VDW_rep_alignment_RMSD_CUTOFF_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
VDW_rep_ignore_matching_res_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
VDW_rep_screen(core::pose::Pose const &screening_pose, core::Size const &moving_res, core::conformation::Residue const &rsd_at_origin, core::kinematics::Stub const &moving_res_base_stub)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
VDW_rep_screen(core::pose::Pose const &screening_pose, core::Size const &moving_res)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
VDW_rep_screen_info_list_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
VDW_rep_screen_with_act_pose(core::pose::Pose const &screening_pose, utility::vector1< core::Size > const &moving_res_list, bool const local_verbose=true)protocols::swa::rna::StepWiseRNA_VDW_Bin_Screener
VDW_rep_screen_with_physical_pose_verbose_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
VDW_screen_bin_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
write_to_file_protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenerprivate
~StepWiseRNA_VDW_Bin_Screener()protocols::swa::rna::StepWiseRNA_VDW_Bin_Screenervirtual