Index _ | A | B | C | D | E | F | G | H | I | L | M | O | P | Q | R | S | T | U | V | W | X | Y | Z _ __init() (adsorpy.rsa_config.RsaConfig method) __init__() (adsorpy.gui.AdsorpyGUI method) (adsorpy.gui.BackgroundTask method) (adsorpy.gui.FilePickerWidget method) (adsorpy.gui.GeneralSettings method) (adsorpy.gui.MoleculeGeneration method) (adsorpy.gui.ReorderableListWidget method) (adsorpy.gui.SurfaceGeneration method) (adsorpy.gui.ZoomableSvgWidget method) (adsorpy.molecule_lib.MoleculeViewer method) (adsorpy.randomsequentialadsorption.BoundaryParameters method) (adsorpy.randomsequentialadsorption.CandidateMolecule method) (adsorpy.randomsequentialadsorption.Config method) (adsorpy.randomsequentialadsorption.MoleculeData method) (adsorpy.randomsequentialadsorption.MoleculeGroup method) (adsorpy.randomsequentialadsorption.Simulator method) (adsorpy.randomsequentialadsorption.Surface method) (adsorpy.rsa_config.RsaConfig method) __max_rotation (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) __return_key_value() (adsorpy.rsa_config.RsaConfig method) __unclaimed (adsorpy.randomsequentialadsorption.Simulator attribute) _add_slider_panel() (adsorpy.molecule_lib.MoleculeViewer method) _assemble_layout() (adsorpy.gui.GeneralSettings method) (adsorpy.gui.MoleculeGeneration method) _build_action_buttons() (adsorpy.gui.MoleculeGeneration method) _build_center_panel() (adsorpy.gui.MoleculeGeneration method) _build_left_panel() (adsorpy.gui.MoleculeGeneration method) (adsorpy.gui.SurfaceGeneration method) _build_right_panel() (adsorpy.gui.MoleculeGeneration method) _build_symmetry_controls() (adsorpy.gui.MoleculeGeneration method) _calculate_radii() (adsorpy.randomsequentialadsorption.Simulator method) _change_bulk_run_value() (adsorpy.gui.GeneralSettings method) _circles() (adsorpy.molecule_lib.MoleculeViewer method) _column_datatypes (adsorpy.randomsequentialadsorption.MoleculeData attribute) _config_loader() (in module adsorpy.randomsequentialadsorption) _connect_z_filter() (adsorpy.molecule_lib.MoleculeViewer method) _create_empty_coords() (in module adsorpy.randomsequentialadsorption) _create_filter_panel() (adsorpy.molecule_lib.MoleculeViewer method) _create_param_widget() (adsorpy.gui.MoleculeGeneration static method) _create_plot_panel() (adsorpy.molecule_lib.MoleculeViewer method) _create_rtree_index() (in module adsorpy.randomsequentialadsorption) _current_svg_bytes (adsorpy.gui.ZoomableSvgWidget attribute) _delete_previous_layout() (adsorpy.gui.MoleculeGeneration method) _discover_molecule_generators() (adsorpy.gui.MoleculeGeneration static method) _error_checker() (in module adsorpy.run_simulation) _estimate_site_count() (adsorpy.randomsequentialadsorption.Surface method) _fetch_setting() (adsorpy.gui.AdsorpyGUI method) (adsorpy.gui.FilePickerWidget method) (adsorpy.gui.GeneralSettings method) (adsorpy.gui.MoleculeGeneration method) (adsorpy.molecule_lib.MoleculeViewer method) _fill_vals (adsorpy.randomsequentialadsorption.MoleculeData attribute) _get_real_surface_site_count() (adsorpy.gui.SurfaceGeneration method) _header_names (adsorpy.randomsequentialadsorption.MoleculeData attribute) _heads_dtypes (adsorpy.randomsequentialadsorption.MoleculeData attribute) _init_controls() (adsorpy.gui.GeneralSettings method) _init_data() (adsorpy.molecule_lib.MoleculeViewer method) _init_data_storage() (adsorpy.gui.MoleculeGeneration method) _init_feedback_textboxes() (adsorpy.gui.GeneralSettings method) _init_menu_bar() (adsorpy.gui.AdsorpyGUI method) _init_svg_view() (adsorpy.gui.GeneralSettings method) (adsorpy.gui.SurfaceGeneration method) _init_tabs() (adsorpy.gui.AdsorpyGUI method) _init_validators() (adsorpy.gui.GeneralSettings method) (adsorpy.gui.SurfaceGeneration method) _initialise_reader() (in module adsorpy.molecule_lib) _initialise_run_parameters() (in module adsorpy.run_simulation) _load_radii_from_json() (in module adsorpy.molecule_lib) _load_settings_json() (adsorpy.gui.AdsorpyGUI method) _make_horizontal_line() (in module adsorpy.gui) _mirr_datatypes (adsorpy.randomsequentialadsorption.MoleculeData attribute) _mirr_fill_vals (adsorpy.randomsequentialadsorption.MoleculeData attribute) _mirr_heads_dtypes (adsorpy.randomsequentialadsorption.MoleculeData attribute) _mirr_names (adsorpy.randomsequentialadsorption.MoleculeData attribute) _on_batch_simulation_complete() (adsorpy.gui.GeneralSettings method) _on_molecules_changed() (adsorpy.gui.GeneralSettings method) _on_simulation_complete() (adsorpy.gui.GeneralSettings method) _on_simulation_error() (adsorpy.gui.GeneralSettings method) _on_surface_changed() (adsorpy.gui.GeneralSettings method) _otomir_fill_vals (adsorpy.randomsequentialadsorption.MoleculeData attribute) _otomir_heads_dtypes (adsorpy.randomsequentialadsorption.MoleculeData attribute) _otomir_names (adsorpy.randomsequentialadsorption.MoleculeData attribute) _otomir_types (adsorpy.randomsequentialadsorption.MoleculeData attribute) _postprocessing() (in module adsorpy.run_simulation) _prepare_simulation_inputs() (adsorpy.gui.GeneralSettings method) _repeater() (in module adsorpy.run_simulation) _rotation_matrix() (in module adsorpy.molecule_lib) _run_cascade() (in module adsorpy.run_simulation) _run_codosing() (in module adsorpy.run_simulation) _run_flux() (in module adsorpy.run_simulation) _run_flux_fixedrotation() (in module adsorpy.run_simulation) _run_sequential() (in module adsorpy.run_simulation) _save_settings_json() (adsorpy.gui.AdsorpyGUI method) _select_and_run() (in module adsorpy.run_simulation) _set_xy_max() (adsorpy.randomsequentialadsorption.Surface method) _settings (adsorpy.gui.AdsorpyGUI attribute) (adsorpy.gui.FilePickerWidget attribute) (adsorpy.gui.GeneralSettings attribute) (adsorpy.gui.MoleculeGeneration attribute) _turn_into_list() (in module adsorpy.run_simulation) _update_func_dropdown() (adsorpy.gui.MoleculeGeneration method) _update_symmetry_tooltip() (adsorpy.gui.MoleculeGeneration method) _xyz_verifier() (in module adsorpy.molecule_lib) A add_entry() (adsorpy.randomsequentialadsorption.MoleculeData method) add_mirror() (adsorpy.randomsequentialadsorption.MoleculeData method) add_molecule() (adsorpy.gui.MoleculeGeneration method) adsorpy module adsorpy.gui module adsorpy.molecule_lib module adsorpy.randomsequentialadsorption module adsorpy.rsa_calculator module adsorpy.rsa_config module adsorpy.run_simulation module adsorpy.types module AdsorpyGUI (class in adsorpy.gui) all_site_count (adsorpy.randomsequentialadsorption.Surface attribute) allowed_bools (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) allowed_idx (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) allowed_rotations (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) analyse_gap_size() (adsorpy.randomsequentialadsorption.Simulator method) apply_atom_filters() (adsorpy.molecule_lib.MoleculeViewer method) AppState (class in adsorpy.gui) area (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) (adsorpy.randomsequentialadsorption.Surface attribute) atom_toggles (adsorpy.molecule_lib.MoleculeViewer attribute) AtomKey (in module adsorpy.molecule_lib) attempt_cascading_placement() (adsorpy.randomsequentialadsorption.Simulator method) attempt_place_molecule() (adsorpy.randomsequentialadsorption.Simulator method) attempt_random_placement() (adsorpy.randomsequentialadsorption.Simulator method) AutoStateMeta (class in adsorpy.gui) B BackgroundTask (class in adsorpy.gui) BackgroundTaskSignals (class in adsorpy.gui) BatchSimulationInput (class in adsorpy.gui) bg_signals (adsorpy.gui.GeneralSettings attribute) biggest_diameter (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) BoolArray (in module adsorpy.types) Bools2D (in module adsorpy.types) boundary_condition (adsorpy.gui.RunSimulationInput attribute) boundary_type (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) (adsorpy.randomsequentialadsorption.Config attribute) BoundaryParameters (class in adsorpy.randomsequentialadsorption) bounding_x_coord (adsorpy.gui.RunSimulationInput attribute) bounding_y_coord (adsorpy.gui.RunSimulationInput attribute) bp (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) (adsorpy.randomsequentialadsorption.Simulator attribute) (adsorpy.randomsequentialadsorption.Surface attribute) browse_button (adsorpy.gui.FilePickerWidget attribute) BufferArray (in module adsorpy.types) build_param_inputs() (adsorpy.gui.MoleculeGeneration method) C calculate_gap_size (adsorpy.gui.RunSimulationInput attribute) calculate_square_distance() (in module adsorpy.rsa_calculator) CandidateMolecule (class in adsorpy.randomsequentialadsorption) check_hard_border() (in module adsorpy.rsa_calculator) check_hard_molecule() (in module adsorpy.rsa_calculator) check_if_overlap() (adsorpy.randomsequentialadsorption.Simulator method) check_outer_radius() (in module adsorpy.rsa_calculator) check_shape_overlap() (in module adsorpy.rsa_calculator) circulium() (in module adsorpy.molecule_lib) close_to_border (adsorpy.randomsequentialadsorption.CandidateMolecule attribute) close_to_edge (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) config (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) (adsorpy.randomsequentialadsorption.Simulator attribute) (adsorpy.randomsequentialadsorption.Surface attribute) Config (class in adsorpy.randomsequentialadsorption) coordinates (adsorpy.gui.SimplePolygonDict attribute) (adsorpy.randomsequentialadsorption.CandidateMolecule attribute) CoordPair (in module adsorpy.types) coords (adsorpy.randomsequentialadsorption.MoleculeData attribute) CoordsArray (in module adsorpy.types) CoordsArray3D (in module adsorpy.types) coverage (adsorpy.randomsequentialadsorption.Simulator property) coverages (adsorpy.gui.AppState property) coveragesChanged (adsorpy.gui.AppState attribute) create_and_write_svg() (adsorpy.randomsequentialadsorption.Surface static method) create_dark_css_style() (adsorpy.randomsequentialadsorption.Surface static method) create_periodic_images() (in module adsorpy.rsa_calculator) current_mirror_num (adsorpy.randomsequentialadsorption.MoleculeData attribute) current_mol_id (adsorpy.randomsequentialadsorption.MoleculeData attribute) current_svg_path (adsorpy.gui.ZoomableSvgWidget attribute) D delete_molecule() (adsorpy.gui.MoleculeGeneration method) disabled_molecules (adsorpy.molecule_lib.MoleculeViewer property) discorectangle() (in module adsorpy.molecule_lib) distance (adsorpy.gui.ParamWidgets attribute) DistArray (in module adsorpy.types) dogbonium() (in module adsorpy.molecule_lib) dosing_distribution (adsorpy.gui.RunSimulationInput attribute) draw() (adsorpy.molecule_lib.MoleculeViewer method) dropEvent() (adsorpy.gui.ReorderableListWidget method) E edge_flag (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) error (adsorpy.gui.BackgroundTaskSignals attribute) error() (adsorpy.gui.GeneralSettings method) (adsorpy.gui.MoleculeGeneration method) (adsorpy.gui.SurfaceGeneration method) exists (adsorpy.randomsequentialadsorption.CandidateMolecule attribute) export_graphics() (adsorpy.gui.ZoomableSvgWidget method) export_results() (adsorpy.gui.GeneralSettings method) extended_grid (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) extended_idx (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) extended_occupied_by (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) extended_vacant (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) extract_param_docs() (in module adsorpy.gui) F fields (adsorpy.gui.AutoStateMeta attribute) file_name (adsorpy.gui.ParamWidgets attribute) FilePickerWidget (class in adsorpy.gui) finished (adsorpy.gui.BackgroundTaskSignals attribute) first_time_loader() (in module adsorpy.molecule_lib) FloatArray (in module adsorpy.types) flux_flag (adsorpy.randomsequentialadsorption.Simulator attribute) fraction_of_covered_area (adsorpy.gui.AppState property) (adsorpy.randomsequentialadsorption.Simulator property) fraction_of_covered_areaChanged (adsorpy.gui.AppState attribute) from_geojson_str_to_polygon() (in module adsorpy.gui) func (adsorpy.gui.BackgroundTask attribute) function_name (adsorpy.gui.MoleculeParameters attribute) G gap_dists (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) gap_size_distribution (adsorpy.gui.AppState property) gap_size_distributionChanged (adsorpy.gui.AppState attribute) GeneralSettings (class in adsorpy.gui) generate_boundary_conditions() (adsorpy.randomsequentialadsorption.BoundaryParameters method) generate_custom_surface() (adsorpy.randomsequentialadsorption.Surface method) generate_grid() (adsorpy.randomsequentialadsorption.Surface method) generate_rotated_molecules() (adsorpy.randomsequentialadsorption.MoleculeGroup method) generate_surface() (adsorpy.gui.SurfaceGeneration method) GeoArray (in module adsorpy.types) get_canddata() (adsorpy.randomsequentialadsorption.CandidateMolecule method) get_item() (adsorpy.rsa_config.RsaConfig method) get_param_values() (adsorpy.gui.MoleculeGeneration method) get_run_sim_default() (adsorpy.gui.GeneralSettings static method) get_value() (adsorpy.rsa_config.RsaConfig method) graphics_changed (adsorpy.gui.ZoomableSvgWidget attribute) grid_coordinates (adsorpy.randomsequentialadsorption.Surface attribute) grid_index (adsorpy.randomsequentialadsorption.CandidateMolecule attribute) (adsorpy.randomsequentialadsorption.Surface attribute) group_id (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) H hard_flag (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) hard_inner (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) I IdxArray (in module adsorpy.types) ignore_atoms (adsorpy.gui.ParamWidgets attribute) include_rejected_flux (adsorpy.gui.RunSimulationInput attribute) index (adsorpy.gui.MoleculeParameters attribute) InDict (in module adsorpy.types) input_metadata (adsorpy.gui.GeneralSettings attribute) is_valid_param() (in module adsorpy.gui) itemsMoved (adsorpy.gui.ReorderableListWidget attribute) L label (adsorpy.gui.MoleculeParameters attribute) last_accessed_idx (adsorpy.randomsequentialadsorption.MoleculeData attribute) lattice (adsorpy.molecule_lib.MoleculeViewer attribute) lattice_a (adsorpy.gui.RunSimulationInput attribute) (adsorpy.gui.SurfaceParameters attribute) (adsorpy.randomsequentialadsorption.Config attribute) (adsorpy.randomsequentialadsorption.Surface attribute) lattice_type (adsorpy.gui.RunSimulationInput attribute) (adsorpy.gui.SurfaceParameters attribute) (adsorpy.randomsequentialadsorption.Surface attribute) launch_first_time_loader() (adsorpy.gui.MoleculeGeneration method) line_edit (adsorpy.gui.FilePickerWidget attribute) load() (adsorpy.gui.ZoomableSvgWidget method) load_svg() (adsorpy.gui.ZoomableSvgWidget method) M main() (in module adsorpy.gui) (in module adsorpy.run_simulation) main_splitter (adsorpy.gui.SurfaceGeneration attribute) make_rectangular_filter() (in module adsorpy.rsa_calculator) make_rtree_filter() (in module adsorpy.rsa_calculator) make_struct_array() (adsorpy.randomsequentialadsorption.MoleculeData static method) make_surface_svg_elements() (adsorpy.randomsequentialadsorption.Surface method) max_array_length (adsorpy.randomsequentialadsorption.MoleculeData attribute) max_molecule_count (adsorpy.randomsequentialadsorption.Config attribute) max_radius (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) min_radius (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) minmax_gaps (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) minmax_rads (adsorpy.randomsequentialadsorption.Simulator attribute) mirr_counter (adsorpy.randomsequentialadsorption.MoleculeData attribute) mirr_tree (adsorpy.randomsequentialadsorption.MoleculeData attribute) mirror_coords (adsorpy.randomsequentialadsorption.MoleculeData attribute) mirror_counter (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) mirrors (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) misc_params (adsorpy.gui.AppState property) misc_paramsChanged (adsorpy.gui.AppState attribute) MiscParameters (class in adsorpy.gui) module adsorpy adsorpy.gui adsorpy.molecule_lib adsorpy.randomsequentialadsorption adsorpy.rsa_calculator adsorpy.rsa_config adsorpy.run_simulation adsorpy.types mol_counter (adsorpy.randomsequentialadsorption.MoleculeData attribute) mol_data (adsorpy.randomsequentialadsorption.Simulator attribute) mol_tree (adsorpy.randomsequentialadsorption.MoleculeData attribute) molecule (adsorpy.randomsequentialadsorption.CandidateMolecule attribute) (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) molecule_counter (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) molecule_group_idx (adsorpy.randomsequentialadsorption.CandidateMolecule attribute) molecule_number (adsorpy.randomsequentialadsorption.CandidateMolecule attribute) molecule_param_list (adsorpy.gui.AppState property) molecule_param_listChanged (adsorpy.gui.AppState attribute) MoleculeData (class in adsorpy.randomsequentialadsorption) MoleculeGeneration (class in adsorpy.gui) MoleculeGroup (class in adsorpy.randomsequentialadsorption) MoleculeParameters (class in adsorpy.gui) molecules_bounding_coords (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) molecules_flag (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) molecules_list (adsorpy.gui.RunSimulationInput attribute) MoleculeViewer (class in adsorpy.molecule_lib) molgrcount (adsorpy.randomsequentialadsorption.Simulator attribute) molgroups (adsorpy.randomsequentialadsorption.Simulator attribute) O occupied_by (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) open_file_dialog() (adsorpy.gui.FilePickerWidget method) opt_checkboxes (adsorpy.gui.MoleculeGeneration attribute) orig_to_mirrors (adsorpy.randomsequentialadsorption.MoleculeData attribute) outer_rads (adsorpy.randomsequentialadsorption.Simulator attribute) P param_widgets (adsorpy.gui.MoleculeGeneration attribute) ParamWidgets (class in adsorpy.gui) periodic_flag (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) pitch (adsorpy.gui.ParamWidgets attribute) plot_covered_grid() (adsorpy.randomsequentialadsorption.Simulator method) plot_molecule() (adsorpy.gui.MoleculeGeneration method) plot_output_flag (adsorpy.gui.RunSimulationInput attribute) plot_surface_sites() (adsorpy.randomsequentialadsorption.Surface method) polygon (adsorpy.gui.MoleculeParameters attribute) polygonium() (in module adsorpy.molecule_lib) PrepGeoArray (in module adsorpy.types) prlongoutput_flag (adsorpy.gui.RunSimulationInput attribute) progress (adsorpy.gui.BackgroundTaskSignals attribute) PydanticPolygon (class in adsorpy.gui) Q quad_segs (adsorpy.gui.ParamWidgets attribute) R RADII (in module adsorpy.molecule_lib) radius (adsorpy.gui.ParamWidgets attribute) real_surface_count (adsorpy.gui.SurfaceGeneration attribute) reference_lattice_spacing (adsorpy.gui.ParamWidgets attribute) refl_sym (adsorpy.gui.MoleculeParameters attribute) (adsorpy.gui.SymmetryWidgets attribute) reflection_symmetries (adsorpy.gui.RunSimulationInput attribute) reflection_symmetry (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) ReorderableListWidget (class in adsorpy.gui) repeats (adsorpy.gui.BatchSimulationInput attribute) resizeEvent() (adsorpy.gui.AdsorpyGUI method) (adsorpy.gui.ZoomableSvgWidget method) rng (adsorpy.randomsequentialadsorption.Simulator attribute) roll (adsorpy.gui.ParamWidgets attribute) rot_cnt (adsorpy.gui.MoleculeParameters attribute) (adsorpy.gui.SymmetryWidgets attribute) rot_idx (adsorpy.randomsequentialadsorption.CandidateMolecule attribute) rot_refl_count (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) rot_sym (adsorpy.gui.MoleculeParameters attribute) (adsorpy.gui.SymmetryWidgets attribute) rotated_buffer_molecules (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) rotated_molecules (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) rotation_count (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) rotation_counts (adsorpy.gui.RunSimulationInput attribute) rotation_symmetries (adsorpy.gui.RunSimulationInput attribute) rotation_symmetry (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) RotMatrix (in module adsorpy.types) roundedness (adsorpy.gui.ParamWidgets attribute) rsa_config (adsorpy.gui.RunSimulationInput attribute) RsaConfig (class in adsorpy.rsa_config) run() (adsorpy.gui.BackgroundTask method) run_batch_simulation() (adsorpy.gui.GeneralSettings method) run_simulation() (adsorpy.gui.GeneralSettings method) (in module adsorpy.run_simulation) RunSimulationInput (class in adsorpy.gui) S save_molecule_svg() (in module adsorpy.molecule_lib) scale (adsorpy.gui.ParamWidgets attribute) seed (adsorpy.gui.MiscParameters attribute) (adsorpy.gui.RunSimulationInput attribute) (adsorpy.gui.SurfaceParameters attribute) seed_input (adsorpy.gui.AppState property) seed_inputChanged (adsorpy.gui.AppState attribute) set_boundary_flags() (adsorpy.randomsequentialadsorption.BoundaryParameters static method) set_content() (in module adsorpy.gui) setText() (adsorpy.gui.FilePickerWidget method) settings (adsorpy.gui.MoleculeParameters attribute) setup_bond_controls() (adsorpy.molecule_lib.MoleculeViewer method) setup_lattice_controls() (adsorpy.molecule_lib.MoleculeViewer method) show_bonds (adsorpy.molecule_lib.MoleculeViewer attribute) show_molecule_settings() (adsorpy.gui.MoleculeGeneration method) show_surface() (in module adsorpy.run_simulation) simple_shape_flag (adsorpy.randomsequentialadsorption.Surface attribute) SimplePolygonDict (class in adsorpy.gui) simulation_type (adsorpy.gui.RunSimulationInput attribute) Simulator (class in adsorpy.randomsequentialadsorption) site_count (adsorpy.gui.RunSimulationInput attribute) (adsorpy.gui.SurfaceParameters attribute) site_x_coords (adsorpy.gui.RunSimulationInput attribute) site_y_coords (adsorpy.gui.RunSimulationInput attribute) sites (adsorpy.randomsequentialadsorption.Config attribute) (adsorpy.randomsequentialadsorption.Surface attribute) soft_flag (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) state (adsorpy.gui.AdsorpyGUI attribute) (adsorpy.gui.GeneralSettings attribute) (adsorpy.gui.MoleculeGeneration attribute) (adsorpy.gui.SurfaceGeneration attribute) staticMetaObject (adsorpy.gui.AdsorpyGUI attribute) (adsorpy.gui.AppState attribute) (adsorpy.gui.BackgroundTaskSignals attribute) (adsorpy.gui.FilePickerWidget attribute) (adsorpy.gui.GeneralSettings attribute) (adsorpy.gui.MoleculeGeneration attribute) (adsorpy.gui.ReorderableListWidget attribute) (adsorpy.gui.SurfaceGeneration attribute) (adsorpy.gui.ZoomableSvgWidget attribute) (adsorpy.molecule_lib.MoleculeViewer attribute) step_limit (adsorpy.gui.AppState property) step_limitChanged (adsorpy.gui.AppState attribute) sticking_probability (adsorpy.gui.RunSimulationInput attribute) (adsorpy.randomsequentialadsorption.Config attribute) (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) (adsorpy.randomsequentialadsorption.Surface attribute) stored_data (adsorpy.randomsequentialadsorption.MoleculeData attribute) stored_mirr_data (adsorpy.randomsequentialadsorption.MoleculeData attribute) stored_params (adsorpy.gui.SurfaceGeneration attribute) StrArray (in module adsorpy.types) submit_values() (adsorpy.molecule_lib.MoleculeViewer method) surf (adsorpy.randomsequentialadsorption.Simulator attribute) Surface (class in adsorpy.randomsequentialadsorption) surface_count (adsorpy.gui.SurfaceGeneration attribute) surface_params (adsorpy.gui.AppState property) surface_paramsChanged (adsorpy.gui.AppState attribute) SurfaceGeneration (class in adsorpy.gui) SurfaceParameters (class in adsorpy.gui) svgplot_covered_grid() (adsorpy.randomsequentialadsorption.Simulator method) svgplot_surface_sites() (adsorpy.randomsequentialadsorption.Surface method) SymmetryWidgets (class in adsorpy.gui) sync_list_order() (adsorpy.gui.MoleculeGeneration method) T text() (adsorpy.gui.FilePickerWidget method) timestep_limit (adsorpy.gui.MiscParameters attribute) (adsorpy.gui.RunSimulationInput attribute) to_dict() (adsorpy.rsa_config.RsaConfig method) toggle_bonds() (adsorpy.molecule_lib.MoleculeViewer method) toggle_svg_background() (adsorpy.molecule_lib.MoleculeViewer method) total_molecule_counter (adsorpy.randomsequentialadsorption.Simulator attribute) transform() (adsorpy.molecule_lib.MoleculeViewer method) tree (adsorpy.randomsequentialadsorption.BoundaryParameters attribute) (adsorpy.randomsequentialadsorption.Surface attribute) trim_buffer() (adsorpy.randomsequentialadsorption.Simulator method) type (adsorpy.gui.SimplePolygonDict attribute) U update_lattice_value() (adsorpy.molecule_lib.MoleculeViewer method) update_placement() (adsorpy.randomsequentialadsorption.Simulator method) update_values() (adsorpy.molecule_lib.MoleculeViewer method) update_z_cutoff() (adsorpy.molecule_lib.MoleculeViewer method) V vacancy_count (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) vacant (adsorpy.randomsequentialadsorption.MoleculeGroup attribute) validate_polygon() (in module adsorpy.gui) verts (adsorpy.gui.ParamWidgets attribute) W wheelEvent() (adsorpy.gui.ZoomableSvgWidget method) window_resized (adsorpy.gui.AdsorpyGUI attribute) X x_max (adsorpy.randomsequentialadsorption.Surface attribute) x_offset (adsorpy.gui.ParamWidgets attribute) xsize (adsorpy.randomsequentialadsorption.Config attribute) (adsorpy.randomsequentialadsorption.Surface attribute) xyz_reader() (in module adsorpy.molecule_lib) Y y_max (adsorpy.randomsequentialadsorption.Surface attribute) y_offset (adsorpy.gui.ParamWidgets attribute) yaw (adsorpy.gui.ParamWidgets attribute) ysize (adsorpy.randomsequentialadsorption.Config attribute) (adsorpy.randomsequentialadsorption.Surface attribute) Z z_trim (adsorpy.gui.ParamWidgets attribute) ZoomableSvgWidget (class in adsorpy.gui) zsize (adsorpy.randomsequentialadsorption.Config attribute) (adsorpy.randomsequentialadsorption.Surface attribute)