Bindings for protocols::farna::options namespace

Classes
		rosetta.basic.resource_manager.ResourceOptions(builtins.object) RNA_BasicOptions RNA_MinimizerOptions RNA_FragmentMonteCarloOptions RNA_DeNovoProtocolOptions   class RNA_BasicOptions(rosetta.basic.resource_manager.ResourceOptions)       Method resolution order: RNA_BasicOptions rosetta.basic.resource_manager.ResourceOptions builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.farna.options.RNA_BasicOptions) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.farna.options.RNA_BasicOptions,  : rosetta.protocols.farna.options.RNA_BasicOptions) -> rosetta.protocols.farna.options.RNA_BasicOptions clone(...) from builtins.PyCapsule clone(rosetta.protocols.farna.options.RNA_BasicOptions) -> rosetta.protocols.farna.options.RNA_BasicOptions dump_pdb(...) from builtins.PyCapsule dump_pdb(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool initialize_from_command_line(...) from builtins.PyCapsule initialize_from_command_line(rosetta.protocols.farna.options.RNA_BasicOptions) -> NoneType move_first_rigid_body(...) from builtins.PyCapsule move_first_rigid_body(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool parse_my_tag(...) from builtins.PyCapsule parse_my_tag(self : rosetta.protocols.farna.options.RNA_BasicOptions,  : rosetta.utility.tag.Tag) -> NoneType   Initialize from the recursive "tag" structure. set_dump_pdb(...) from builtins.PyCapsule set_dump_pdb(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType set_move_first_rigid_body(...) from builtins.PyCapsule set_move_first_rigid_body(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType set_verbose(...) from builtins.PyCapsule set_verbose(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType type(...) from builtins.PyCapsule type(rosetta.protocols.farna.options.RNA_BasicOptions) -> str   The class name (its type) for a particular ResourceOptions instance.  This function allows for better error message delivery. verbose(...) from builtins.PyCapsule verbose(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool Methods inherited from rosetta.basic.resource_manager.ResourceOptions: __str__(...) from builtins.PyCapsule __str__(rosetta.basic.resource_manager.ResourceOptions) -> str name(...) from builtins.PyCapsule name(*args, **kwargs) Overloaded function.   1. name(rosetta.basic.resource_manager.ResourceOptions) -> str   A name given to a particular ResourceOptions instance.  This function allows for better error message delivery.   2. name(self : rosetta.basic.resource_manager.ResourceOptions, setting : str) -> NoneType   Set the name for this %ResoureOptions instance.   class RNA_DeNovoProtocolOptions(RNA_FragmentMonteCarloOptions)       Method resolution order: RNA_DeNovoProtocolOptions RNA_FragmentMonteCarloOptions RNA_MinimizerOptions RNA_BasicOptions rosetta.basic.resource_manager.ResourceOptions builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions,  : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions binary_rna_output(...) from builtins.PyCapsule binary_rna_output(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> bool clone(...) from builtins.PyCapsule clone(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions cst_gap(...) from builtins.PyCapsule cst_gap(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> bool initialize_from_command_line(...) from builtins.PyCapsule initialize_from_command_line(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> NoneType lores_scorefxn(...) from builtins.PyCapsule lores_scorefxn(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> str nstruct(...) from builtins.PyCapsule nstruct(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> int output_filters(...) from builtins.PyCapsule output_filters(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> bool output_lores_silent_file(...) from builtins.PyCapsule output_lores_silent_file(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> bool parse_my_tag(...) from builtins.PyCapsule parse_my_tag(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions,  : rosetta.utility.tag.Tag) -> NoneType   Initialize from the recursive "tag" structure. save_times(...) from builtins.PyCapsule save_times(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> bool set_binary_rna_output(...) from builtins.PyCapsule set_binary_rna_output(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : bool) -> NoneType set_cst_gap(...) from builtins.PyCapsule set_cst_gap(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : bool) -> NoneType set_lores_scorefxn(...) from builtins.PyCapsule set_lores_scorefxn(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : str) -> NoneType set_nstruct(...) from builtins.PyCapsule set_nstruct(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : int) -> NoneType set_output_filters(...) from builtins.PyCapsule set_output_filters(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : bool) -> NoneType set_output_lores_silent_file(...) from builtins.PyCapsule set_output_lores_silent_file(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : bool) -> NoneType set_save_times(...) from builtins.PyCapsule set_save_times(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : bool) -> NoneType set_silent_file(...) from builtins.PyCapsule set_silent_file(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : str) -> NoneType set_use_legacy_setup(...) from builtins.PyCapsule set_use_legacy_setup(self : rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions, setting : bool) -> NoneType silent_file(...) from builtins.PyCapsule silent_file(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> str type(...) from builtins.PyCapsule type(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> str   The class name (its type) for a particular ResourceOptions instance.  This function allows for better error message delivery. use_legacy_setup(...) from builtins.PyCapsule use_legacy_setup(rosetta.protocols.farna.options.RNA_DeNovoProtocolOptions) -> bool Methods inherited from RNA_FragmentMonteCarloOptions: all_rna_fragments_file(...) from builtins.PyCapsule all_rna_fragments_file(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str allow_bulge(...) from builtins.PyCapsule allow_bulge(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool allow_consecutive_bulges(...) from builtins.PyCapsule allow_consecutive_bulges(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool allow_fragment_moves_in_bps(...) from builtins.PyCapsule allow_fragment_moves_in_bps(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool allowed_bulge_res(...) from builtins.PyCapsule allowed_bulge_res(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.utility.vector1_unsigned_long autofilter(...) from builtins.PyCapsule autofilter(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool autofilter_score_quantile(...) from builtins.PyCapsule autofilter_score_quantile(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float bps_moves(...) from builtins.PyCapsule bps_moves(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool chainbreak_weight(...) from builtins.PyCapsule chainbreak_weight(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float chunk_pdb_files(...) from builtins.PyCapsule chunk_pdb_files(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.utility.vector1_std_string chunk_silent_files(...) from builtins.PyCapsule chunk_silent_files(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.utility.vector1_std_string close_loops(...) from builtins.PyCapsule close_loops(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool close_loops_after_each_move(...) from builtins.PyCapsule close_loops_after_each_move(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool disallow_bps_at_extra_min_res(...) from builtins.PyCapsule disallow_bps_at_extra_min_res(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_chain_closure(...) from builtins.PyCapsule filter_chain_closure(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_chain_closure_distance(...) from builtins.PyCapsule filter_chain_closure_distance(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float filter_chain_closure_halfway(...) from builtins.PyCapsule filter_chain_closure_halfway(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_lores_base_pairs(...) from builtins.PyCapsule filter_lores_base_pairs(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_lores_base_pairs_early(...) from builtins.PyCapsule filter_lores_base_pairs_early(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_vdw(...) from builtins.PyCapsule filter_vdw(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool fixed_stems(...) from builtins.PyCapsule fixed_stems(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool gradual_constraints(...) from builtins.PyCapsule gradual_constraints(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool grid_vdw_weight(...) from builtins.PyCapsule grid_vdw_weight(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float ignore_secstruct(...) from builtins.PyCapsule ignore_secstruct(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool initialize_for_farna_optimizer(...) from builtins.PyCapsule initialize_for_farna_optimizer(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, cycles : int) -> NoneType input_res(...) from builtins.PyCapsule input_res(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.utility.vector1_unsigned_long jump_change_frequency(...) from builtins.PyCapsule jump_change_frequency(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float jump_library_file(...) from builtins.PyCapsule jump_library_file(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str linear_chainbreak_weight(...) from builtins.PyCapsule linear_chainbreak_weight(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float minimize_structure(...) from builtins.PyCapsule minimize_structure(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool monte_carlo_cycles(...) from builtins.PyCapsule monte_carlo_cycles(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> int refine_pose(...) from builtins.PyCapsule refine_pose(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool relax_structure(...) from builtins.PyCapsule relax_structure(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool rna_params_file(...) from builtins.PyCapsule rna_params_file(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str root_at_first_rigid_body(...) from builtins.PyCapsule root_at_first_rigid_body(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool rounds(...) from builtins.PyCapsule rounds(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> int set_all_rna_fragments_file(...) from builtins.PyCapsule set_all_rna_fragments_file(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : str) -> NoneType set_allow_bulge(...) from builtins.PyCapsule set_allow_bulge(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_allow_consecutive_bulges(...) from builtins.PyCapsule set_allow_consecutive_bulges(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_allow_fragment_moves_in_bps(...) from builtins.PyCapsule set_allow_fragment_moves_in_bps(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_allowed_bulge_res(...) from builtins.PyCapsule set_allowed_bulge_res(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : rosetta.utility.vector1_unsigned_long) -> NoneType set_autofilter(...) from builtins.PyCapsule set_autofilter(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_autofilter_score_quantile(...) from builtins.PyCapsule set_autofilter_score_quantile(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_bps_moves(...) from builtins.PyCapsule set_bps_moves(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_chainbreak_weight(...) from builtins.PyCapsule set_chainbreak_weight(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_chunk_pdb_files(...) from builtins.PyCapsule set_chunk_pdb_files(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, chunk_pdb_files : rosetta.utility.vector1_std_string) -> NoneType set_chunk_silent_files(...) from builtins.PyCapsule set_chunk_silent_files(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, chunk_silent_files : rosetta.utility.vector1_std_string) -> NoneType set_close_loops(...) from builtins.PyCapsule set_close_loops(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_close_loops_after_each_move(...) from builtins.PyCapsule set_close_loops_after_each_move(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_disallow_bps_at_extra_min_res(...) from builtins.PyCapsule set_disallow_bps_at_extra_min_res(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_chain_closure(...) from builtins.PyCapsule set_filter_chain_closure(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_chain_closure_distance(...) from builtins.PyCapsule set_filter_chain_closure_distance(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_filter_chain_closure_halfway(...) from builtins.PyCapsule set_filter_chain_closure_halfway(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_lores_base_pairs(...) from builtins.PyCapsule set_filter_lores_base_pairs(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_lores_base_pairs_early(...) from builtins.PyCapsule set_filter_lores_base_pairs_early(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_vdw(...) from builtins.PyCapsule set_filter_vdw(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_fixed_stems(...) from builtins.PyCapsule set_fixed_stems(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_gradual_constraints(...) from builtins.PyCapsule set_gradual_constraints(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_grid_vdw_weight(...) from builtins.PyCapsule set_grid_vdw_weight(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_ignore_secstruct(...) from builtins.PyCapsule set_ignore_secstruct(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_input_res(...) from builtins.PyCapsule set_input_res(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, input_res : rosetta.utility.vector1_unsigned_long) -> NoneType set_jump_change_frequency(...) from builtins.PyCapsule set_jump_change_frequency(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_jump_library_file(...) from builtins.PyCapsule set_jump_library_file(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : str) -> NoneType set_linear_chainbreak_weight(...) from builtins.PyCapsule set_linear_chainbreak_weight(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_minimize_structure(...) from builtins.PyCapsule set_minimize_structure(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_monte_carlo_cycles(...) from builtins.PyCapsule set_monte_carlo_cycles(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : int) -> NoneType set_refine_pose(...) from builtins.PyCapsule set_refine_pose(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_relax_structure(...) from builtins.PyCapsule set_relax_structure(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_rna_params_file(...) from builtins.PyCapsule set_rna_params_file(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : str) -> NoneType set_root_at_first_rigid_body(...) from builtins.PyCapsule set_root_at_first_rigid_body(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_rounds(...) from builtins.PyCapsule set_rounds(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : int) -> NoneType set_simple_rmsd_cutoff_relax(...) from builtins.PyCapsule set_simple_rmsd_cutoff_relax(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_staged_constraints(...) from builtins.PyCapsule set_staged_constraints(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_superimpose_over_all(...) from builtins.PyCapsule set_superimpose_over_all(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_suppress_bp_constraint(...) from builtins.PyCapsule set_suppress_bp_constraint(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_temperature(...) from builtins.PyCapsule set_temperature(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_titrate_stack_bonus(...) from builtins.PyCapsule set_titrate_stack_bonus(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_user_defined_cycles(...) from builtins.PyCapsule set_user_defined_cycles(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_vall_torsions_file(...) from builtins.PyCapsule set_vall_torsions_file(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : str) -> NoneType set_vdw_rep_screen_include_sidechains(...) from builtins.PyCapsule set_vdw_rep_screen_include_sidechains(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType simple_rmsd_cutoff_relax(...) from builtins.PyCapsule simple_rmsd_cutoff_relax(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool staged_constraints(...) from builtins.PyCapsule staged_constraints(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool superimpose_over_all(...) from builtins.PyCapsule superimpose_over_all(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool suppress_bp_constraint(...) from builtins.PyCapsule suppress_bp_constraint(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float temperature(...) from builtins.PyCapsule temperature(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float titrate_stack_bonus(...) from builtins.PyCapsule titrate_stack_bonus(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool use_chem_shift_data(...) from builtins.PyCapsule use_chem_shift_data(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool user_defined_cycles(...) from builtins.PyCapsule user_defined_cycles(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool vall_torsions_file(...) from builtins.PyCapsule vall_torsions_file(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str vdw_rep_screen_include_sidechains(...) from builtins.PyCapsule vdw_rep_screen_include_sidechains(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool Methods inherited from RNA_MinimizerOptions: deriv_check(...) from builtins.PyCapsule deriv_check(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool extra_minimize_chi_res(...) from builtins.PyCapsule extra_minimize_chi_res(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> rosetta.utility.vector1_unsigned_long extra_minimize_res(...) from builtins.PyCapsule extra_minimize_res(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> rosetta.utility.vector1_unsigned_long minimize_bps(...) from builtins.PyCapsule minimize_bps(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool minimize_rounds(...) from builtins.PyCapsule minimize_rounds(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> int minimizer_use_coordinate_constraints(...) from builtins.PyCapsule minimizer_use_coordinate_constraints(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool set_deriv_check(...) from builtins.PyCapsule set_deriv_check(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_extra_minimize_chi_res(...) from builtins.PyCapsule set_extra_minimize_chi_res(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, extra_minimize_chi_res : rosetta.utility.vector1_unsigned_long) -> NoneType set_extra_minimize_res(...) from builtins.PyCapsule set_extra_minimize_res(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, extra_minimize_res : rosetta.utility.vector1_unsigned_long) -> NoneType set_minimize_bps(...) from builtins.PyCapsule set_minimize_bps(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_minimize_rounds(...) from builtins.PyCapsule set_minimize_rounds(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : int) -> NoneType set_minimizer_use_coordinate_constraints(...) from builtins.PyCapsule set_minimizer_use_coordinate_constraints(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_skip_o2prime_trials(...) from builtins.PyCapsule set_skip_o2prime_trials(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_vary_bond_geometry(...) from builtins.PyCapsule set_vary_bond_geometry(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType skip_o2prime_trials(...) from builtins.PyCapsule skip_o2prime_trials(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool vary_bond_geometry(...) from builtins.PyCapsule vary_bond_geometry(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool Methods inherited from RNA_BasicOptions: dump_pdb(...) from builtins.PyCapsule dump_pdb(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool move_first_rigid_body(...) from builtins.PyCapsule move_first_rigid_body(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool set_dump_pdb(...) from builtins.PyCapsule set_dump_pdb(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType set_move_first_rigid_body(...) from builtins.PyCapsule set_move_first_rigid_body(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType set_verbose(...) from builtins.PyCapsule set_verbose(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType verbose(...) from builtins.PyCapsule verbose(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool Methods inherited from rosetta.basic.resource_manager.ResourceOptions: __str__(...) from builtins.PyCapsule __str__(rosetta.basic.resource_manager.ResourceOptions) -> str name(...) from builtins.PyCapsule name(*args, **kwargs) Overloaded function.   1. name(rosetta.basic.resource_manager.ResourceOptions) -> str   A name given to a particular ResourceOptions instance.  This function allows for better error message delivery.   2. name(self : rosetta.basic.resource_manager.ResourceOptions, setting : str) -> NoneType   Set the name for this %ResoureOptions instance.   class RNA_FragmentMonteCarloOptions(RNA_MinimizerOptions)       Method resolution order: RNA_FragmentMonteCarloOptions RNA_MinimizerOptions RNA_BasicOptions rosetta.basic.resource_manager.ResourceOptions builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. all_rna_fragments_file(...) from builtins.PyCapsule all_rna_fragments_file(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str allow_bulge(...) from builtins.PyCapsule allow_bulge(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool allow_consecutive_bulges(...) from builtins.PyCapsule allow_consecutive_bulges(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool allow_fragment_moves_in_bps(...) from builtins.PyCapsule allow_fragment_moves_in_bps(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool allowed_bulge_res(...) from builtins.PyCapsule allowed_bulge_res(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.utility.vector1_unsigned_long assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions,  : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions autofilter(...) from builtins.PyCapsule autofilter(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool autofilter_score_quantile(...) from builtins.PyCapsule autofilter_score_quantile(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float bps_moves(...) from builtins.PyCapsule bps_moves(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool chainbreak_weight(...) from builtins.PyCapsule chainbreak_weight(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float chunk_pdb_files(...) from builtins.PyCapsule chunk_pdb_files(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.utility.vector1_std_string chunk_silent_files(...) from builtins.PyCapsule chunk_silent_files(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.utility.vector1_std_string clone(...) from builtins.PyCapsule clone(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions close_loops(...) from builtins.PyCapsule close_loops(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool close_loops_after_each_move(...) from builtins.PyCapsule close_loops_after_each_move(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool disallow_bps_at_extra_min_res(...) from builtins.PyCapsule disallow_bps_at_extra_min_res(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_chain_closure(...) from builtins.PyCapsule filter_chain_closure(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_chain_closure_distance(...) from builtins.PyCapsule filter_chain_closure_distance(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float filter_chain_closure_halfway(...) from builtins.PyCapsule filter_chain_closure_halfway(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_lores_base_pairs(...) from builtins.PyCapsule filter_lores_base_pairs(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_lores_base_pairs_early(...) from builtins.PyCapsule filter_lores_base_pairs_early(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool filter_vdw(...) from builtins.PyCapsule filter_vdw(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool fixed_stems(...) from builtins.PyCapsule fixed_stems(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool gradual_constraints(...) from builtins.PyCapsule gradual_constraints(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool grid_vdw_weight(...) from builtins.PyCapsule grid_vdw_weight(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float ignore_secstruct(...) from builtins.PyCapsule ignore_secstruct(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool initialize_for_farna_optimizer(...) from builtins.PyCapsule initialize_for_farna_optimizer(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, cycles : int) -> NoneType initialize_from_command_line(...) from builtins.PyCapsule initialize_from_command_line(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> NoneType input_res(...) from builtins.PyCapsule input_res(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> rosetta.utility.vector1_unsigned_long jump_change_frequency(...) from builtins.PyCapsule jump_change_frequency(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float jump_library_file(...) from builtins.PyCapsule jump_library_file(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str linear_chainbreak_weight(...) from builtins.PyCapsule linear_chainbreak_weight(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float minimize_structure(...) from builtins.PyCapsule minimize_structure(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool monte_carlo_cycles(...) from builtins.PyCapsule monte_carlo_cycles(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> int parse_my_tag(...) from builtins.PyCapsule parse_my_tag(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions,  : rosetta.utility.tag.Tag) -> NoneType   Initialize from the recursive "tag" structure. refine_pose(...) from builtins.PyCapsule refine_pose(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool relax_structure(...) from builtins.PyCapsule relax_structure(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool rna_params_file(...) from builtins.PyCapsule rna_params_file(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str root_at_first_rigid_body(...) from builtins.PyCapsule root_at_first_rigid_body(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool rounds(...) from builtins.PyCapsule rounds(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> int set_all_rna_fragments_file(...) from builtins.PyCapsule set_all_rna_fragments_file(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : str) -> NoneType set_allow_bulge(...) from builtins.PyCapsule set_allow_bulge(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_allow_consecutive_bulges(...) from builtins.PyCapsule set_allow_consecutive_bulges(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_allow_fragment_moves_in_bps(...) from builtins.PyCapsule set_allow_fragment_moves_in_bps(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_allowed_bulge_res(...) from builtins.PyCapsule set_allowed_bulge_res(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : rosetta.utility.vector1_unsigned_long) -> NoneType set_autofilter(...) from builtins.PyCapsule set_autofilter(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_autofilter_score_quantile(...) from builtins.PyCapsule set_autofilter_score_quantile(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_bps_moves(...) from builtins.PyCapsule set_bps_moves(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_chainbreak_weight(...) from builtins.PyCapsule set_chainbreak_weight(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_chunk_pdb_files(...) from builtins.PyCapsule set_chunk_pdb_files(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, chunk_pdb_files : rosetta.utility.vector1_std_string) -> NoneType set_chunk_silent_files(...) from builtins.PyCapsule set_chunk_silent_files(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, chunk_silent_files : rosetta.utility.vector1_std_string) -> NoneType set_close_loops(...) from builtins.PyCapsule set_close_loops(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_close_loops_after_each_move(...) from builtins.PyCapsule set_close_loops_after_each_move(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_disallow_bps_at_extra_min_res(...) from builtins.PyCapsule set_disallow_bps_at_extra_min_res(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_chain_closure(...) from builtins.PyCapsule set_filter_chain_closure(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_chain_closure_distance(...) from builtins.PyCapsule set_filter_chain_closure_distance(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_filter_chain_closure_halfway(...) from builtins.PyCapsule set_filter_chain_closure_halfway(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_lores_base_pairs(...) from builtins.PyCapsule set_filter_lores_base_pairs(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_lores_base_pairs_early(...) from builtins.PyCapsule set_filter_lores_base_pairs_early(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_filter_vdw(...) from builtins.PyCapsule set_filter_vdw(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_fixed_stems(...) from builtins.PyCapsule set_fixed_stems(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_gradual_constraints(...) from builtins.PyCapsule set_gradual_constraints(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_grid_vdw_weight(...) from builtins.PyCapsule set_grid_vdw_weight(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_ignore_secstruct(...) from builtins.PyCapsule set_ignore_secstruct(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_input_res(...) from builtins.PyCapsule set_input_res(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, input_res : rosetta.utility.vector1_unsigned_long) -> NoneType set_jump_change_frequency(...) from builtins.PyCapsule set_jump_change_frequency(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_jump_library_file(...) from builtins.PyCapsule set_jump_library_file(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : str) -> NoneType set_linear_chainbreak_weight(...) from builtins.PyCapsule set_linear_chainbreak_weight(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_minimize_structure(...) from builtins.PyCapsule set_minimize_structure(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_monte_carlo_cycles(...) from builtins.PyCapsule set_monte_carlo_cycles(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : int) -> NoneType set_refine_pose(...) from builtins.PyCapsule set_refine_pose(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_relax_structure(...) from builtins.PyCapsule set_relax_structure(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_rna_params_file(...) from builtins.PyCapsule set_rna_params_file(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : str) -> NoneType set_root_at_first_rigid_body(...) from builtins.PyCapsule set_root_at_first_rigid_body(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_rounds(...) from builtins.PyCapsule set_rounds(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : int) -> NoneType set_simple_rmsd_cutoff_relax(...) from builtins.PyCapsule set_simple_rmsd_cutoff_relax(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_staged_constraints(...) from builtins.PyCapsule set_staged_constraints(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_superimpose_over_all(...) from builtins.PyCapsule set_superimpose_over_all(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_suppress_bp_constraint(...) from builtins.PyCapsule set_suppress_bp_constraint(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_temperature(...) from builtins.PyCapsule set_temperature(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : float) -> NoneType set_titrate_stack_bonus(...) from builtins.PyCapsule set_titrate_stack_bonus(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_user_defined_cycles(...) from builtins.PyCapsule set_user_defined_cycles(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType set_vall_torsions_file(...) from builtins.PyCapsule set_vall_torsions_file(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : str) -> NoneType set_vdw_rep_screen_include_sidechains(...) from builtins.PyCapsule set_vdw_rep_screen_include_sidechains(self : rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions, setting : bool) -> NoneType simple_rmsd_cutoff_relax(...) from builtins.PyCapsule simple_rmsd_cutoff_relax(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool staged_constraints(...) from builtins.PyCapsule staged_constraints(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool superimpose_over_all(...) from builtins.PyCapsule superimpose_over_all(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool suppress_bp_constraint(...) from builtins.PyCapsule suppress_bp_constraint(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float temperature(...) from builtins.PyCapsule temperature(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> float titrate_stack_bonus(...) from builtins.PyCapsule titrate_stack_bonus(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool type(...) from builtins.PyCapsule type(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str   The class name (its type) for a particular ResourceOptions instance.  This function allows for better error message delivery. use_chem_shift_data(...) from builtins.PyCapsule use_chem_shift_data(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool user_defined_cycles(...) from builtins.PyCapsule user_defined_cycles(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool vall_torsions_file(...) from builtins.PyCapsule vall_torsions_file(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> str vdw_rep_screen_include_sidechains(...) from builtins.PyCapsule vdw_rep_screen_include_sidechains(rosetta.protocols.farna.options.RNA_FragmentMonteCarloOptions) -> bool Methods inherited from RNA_MinimizerOptions: deriv_check(...) from builtins.PyCapsule deriv_check(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool extra_minimize_chi_res(...) from builtins.PyCapsule extra_minimize_chi_res(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> rosetta.utility.vector1_unsigned_long extra_minimize_res(...) from builtins.PyCapsule extra_minimize_res(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> rosetta.utility.vector1_unsigned_long minimize_bps(...) from builtins.PyCapsule minimize_bps(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool minimize_rounds(...) from builtins.PyCapsule minimize_rounds(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> int minimizer_use_coordinate_constraints(...) from builtins.PyCapsule minimizer_use_coordinate_constraints(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool set_deriv_check(...) from builtins.PyCapsule set_deriv_check(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_extra_minimize_chi_res(...) from builtins.PyCapsule set_extra_minimize_chi_res(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, extra_minimize_chi_res : rosetta.utility.vector1_unsigned_long) -> NoneType set_extra_minimize_res(...) from builtins.PyCapsule set_extra_minimize_res(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, extra_minimize_res : rosetta.utility.vector1_unsigned_long) -> NoneType set_minimize_bps(...) from builtins.PyCapsule set_minimize_bps(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_minimize_rounds(...) from builtins.PyCapsule set_minimize_rounds(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : int) -> NoneType set_minimizer_use_coordinate_constraints(...) from builtins.PyCapsule set_minimizer_use_coordinate_constraints(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_skip_o2prime_trials(...) from builtins.PyCapsule set_skip_o2prime_trials(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_vary_bond_geometry(...) from builtins.PyCapsule set_vary_bond_geometry(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType skip_o2prime_trials(...) from builtins.PyCapsule skip_o2prime_trials(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool vary_bond_geometry(...) from builtins.PyCapsule vary_bond_geometry(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool Methods inherited from RNA_BasicOptions: dump_pdb(...) from builtins.PyCapsule dump_pdb(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool move_first_rigid_body(...) from builtins.PyCapsule move_first_rigid_body(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool set_dump_pdb(...) from builtins.PyCapsule set_dump_pdb(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType set_move_first_rigid_body(...) from builtins.PyCapsule set_move_first_rigid_body(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType set_verbose(...) from builtins.PyCapsule set_verbose(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType verbose(...) from builtins.PyCapsule verbose(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool Methods inherited from rosetta.basic.resource_manager.ResourceOptions: __str__(...) from builtins.PyCapsule __str__(rosetta.basic.resource_manager.ResourceOptions) -> str name(...) from builtins.PyCapsule name(*args, **kwargs) Overloaded function.   1. name(rosetta.basic.resource_manager.ResourceOptions) -> str   A name given to a particular ResourceOptions instance.  This function allows for better error message delivery.   2. name(self : rosetta.basic.resource_manager.ResourceOptions, setting : str) -> NoneType   Set the name for this %ResoureOptions instance.   class RNA_MinimizerOptions(RNA_BasicOptions)       Method resolution order: RNA_MinimizerOptions RNA_BasicOptions rosetta.basic.resource_manager.ResourceOptions builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(*args, **kwargs) Overloaded function.   1. __init__(handle) -> NoneType   2. __init__(handle, rosetta.protocols.farna.options.RNA_MinimizerOptions) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.farna.options.RNA_MinimizerOptions,  : rosetta.protocols.farna.options.RNA_MinimizerOptions) -> rosetta.protocols.farna.options.RNA_MinimizerOptions clone(...) from builtins.PyCapsule clone(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> rosetta.protocols.farna.options.RNA_MinimizerOptions deriv_check(...) from builtins.PyCapsule deriv_check(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool extra_minimize_chi_res(...) from builtins.PyCapsule extra_minimize_chi_res(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> rosetta.utility.vector1_unsigned_long extra_minimize_res(...) from builtins.PyCapsule extra_minimize_res(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> rosetta.utility.vector1_unsigned_long initialize_from_command_line(...) from builtins.PyCapsule initialize_from_command_line(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> NoneType minimize_bps(...) from builtins.PyCapsule minimize_bps(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool minimize_rounds(...) from builtins.PyCapsule minimize_rounds(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> int minimizer_use_coordinate_constraints(...) from builtins.PyCapsule minimizer_use_coordinate_constraints(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool parse_my_tag(...) from builtins.PyCapsule parse_my_tag(self : rosetta.protocols.farna.options.RNA_MinimizerOptions,  : rosetta.utility.tag.Tag) -> NoneType   Initialize from the recursive "tag" structure. set_deriv_check(...) from builtins.PyCapsule set_deriv_check(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_extra_minimize_chi_res(...) from builtins.PyCapsule set_extra_minimize_chi_res(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, extra_minimize_chi_res : rosetta.utility.vector1_unsigned_long) -> NoneType set_extra_minimize_res(...) from builtins.PyCapsule set_extra_minimize_res(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, extra_minimize_res : rosetta.utility.vector1_unsigned_long) -> NoneType set_minimize_bps(...) from builtins.PyCapsule set_minimize_bps(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_minimize_rounds(...) from builtins.PyCapsule set_minimize_rounds(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : int) -> NoneType set_minimizer_use_coordinate_constraints(...) from builtins.PyCapsule set_minimizer_use_coordinate_constraints(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_skip_o2prime_trials(...) from builtins.PyCapsule set_skip_o2prime_trials(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType set_vary_bond_geometry(...) from builtins.PyCapsule set_vary_bond_geometry(self : rosetta.protocols.farna.options.RNA_MinimizerOptions, setting : bool) -> NoneType skip_o2prime_trials(...) from builtins.PyCapsule skip_o2prime_trials(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool type(...) from builtins.PyCapsule type(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> str   The class name (its type) for a particular ResourceOptions instance.  This function allows for better error message delivery. vary_bond_geometry(...) from builtins.PyCapsule vary_bond_geometry(rosetta.protocols.farna.options.RNA_MinimizerOptions) -> bool Methods inherited from RNA_BasicOptions: dump_pdb(...) from builtins.PyCapsule dump_pdb(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool move_first_rigid_body(...) from builtins.PyCapsule move_first_rigid_body(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool set_dump_pdb(...) from builtins.PyCapsule set_dump_pdb(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType set_move_first_rigid_body(...) from builtins.PyCapsule set_move_first_rigid_body(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType set_verbose(...) from builtins.PyCapsule set_verbose(self : rosetta.protocols.farna.options.RNA_BasicOptions, setting : bool) -> NoneType verbose(...) from builtins.PyCapsule verbose(rosetta.protocols.farna.options.RNA_BasicOptions) -> bool Methods inherited from rosetta.basic.resource_manager.ResourceOptions: __str__(...) from builtins.PyCapsule __str__(rosetta.basic.resource_manager.ResourceOptions) -> str name(...) from builtins.PyCapsule name(*args, **kwargs) Overloaded function.   1. name(rosetta.basic.resource_manager.ResourceOptions) -> str   A name given to a particular ResourceOptions instance.  This function allows for better error message delivery.   2. name(self : rosetta.basic.resource_manager.ResourceOptions, setting : str) -> NoneType   Set the name for this %ResoureOptions instance.