https://wiki.pymol.org/api.php?action=feedcontributions&feedformat=atom&user=Dberner PyMOL Wiki - User contributions [en] 2026-05-30T11:46:06Z User contributions MediaWiki 1.35.1 https://wiki.pymol.org/index.php?title=Half_bonds&diff=6139 Half bonds 2006-06-30T19:42:16Z <p>Dberner: fixed syntax error</p> <hr /> <div>==Overview==<br /> The half_bonds setting determines whether a half bond will be drawn between visible and hidden atoms.<br /> <br /> {|<br /> |-<br /> | valign=&quot;top&quot;|<br /> [[Image:Half-yes.png|frame|thumb|Stick representation of a glycine showing half bond.]]<br /> | valign=&quot;top&quot;|<br /> [[Image:Halfbond-off.jpg|frame|thumb|Stick representation of a glycine without half bond (default).]]<br /> |-<br /> |}<br /> <br /> ==Syntax==<br /> set half_bonds, ''boolean''<br /> <br /> Where ''boolean'' may be one of:<br /> <br /> 0 0.0 off false<br /> <br /> or:<br /> <br /> 1 1.0 on true<br /> <br /> ==Example==<br /> To turn on half bonds:<br /> &lt;source lang=&quot;python&quot;&gt;set half_bonds, 1&lt;/source&gt;<br /> <br /> To turn off half bonds (default):<br /> &lt;source lang=&quot;python&quot;&gt;set half_bonds, off&lt;/source&gt;<br /> <br /> [[Category:Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Half_bonds&diff=6138 Half bonds 2006-06-29T15:17:27Z <p>Dberner: Added imaes</p> <hr /> <div>==Overview==<br /> The half_bonds setting determines whether a half bond will be drawn between visible and hidden atoms.<br /> <br /> {|<br /> |-<br /> | valign=&quot;top&quot;|<br /> [[Image:Half-yes.png|frame|thumb|Stick representation of a glycine showing half bond.]]<br /> | valign=&quot;top&quot;|<br /> [[Image:Halfbond-off.jpg|frame|thumb|Stick representation of a glycine without half bond (default).]]<br /> |-<br /> |}<br /> <br /> ==Syntax==<br /> set half_bonds ''boolean''<br /> <br /> Where ''boolean'' may be one of:<br /> <br /> 0 0.0 off false<br /> <br /> or:<br /> <br /> 1 1.0 on true<br /> <br /> ==Example==<br /> To turn on half bonds:<br /> &lt;source lang=&quot;python&quot;&gt;set half_bonds, 1&lt;/source&gt;<br /> <br /> To turn off half bonds (default):<br /> &lt;source lang=&quot;python&quot;&gt;set half_bonds, off&lt;/source&gt;<br /> <br /> [[Category:Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=File:Half-yes.png&diff=1839 File:Half-yes.png 2006-06-29T14:59:50Z <p>Dberner: rewrote caption</p> <hr /> <div>Glycine in stick representation with half_bonds set to on.</div> Dberner https://wiki.pymol.org/index.php?title=File:Half-yes.png&diff=1838 File:Half-yes.png 2006-06-29T14:58:40Z <p>Dberner: illustrating half_bonds on setting</p> <hr /> <div>illustrating half_bonds on setting</div> Dberner https://wiki.pymol.org/index.php?title=File:Halfbond-off.jpg&diff=2091 File:Halfbond-off.jpg 2006-06-29T14:57:56Z <p>Dberner: rewrote caption</p> <hr /> <div>Glycine in stick representation with half_bonds set to off.</div> Dberner https://wiki.pymol.org/index.php?title=File:Halfbond-off.jpg&diff=2090 File:Halfbond-off.jpg 2006-06-29T14:56:45Z <p>Dberner: illustrating half_bonds off setting</p> <hr /> <div>illustrating half_bonds off setting</div> Dberner https://wiki.pymol.org/index.php?title=Half_bonds&diff=6137 Half bonds 2006-06-29T14:43:06Z <p>Dberner: formatting</p> <hr /> <div>==Overview==<br /> The half_bonds setting determines whether a half bond will be drawn between visible and hidden atoms.<br /> <br /> ==Syntax==<br /> set half_bonds ''boolean''<br /> <br /> Where ''boolean'' may be one of:<br /> <br /> 0 0.0 off false<br /> <br /> or:<br /> <br /> 1 1.0 on true<br /> <br /> ==Example==<br /> To turn on half bonds:<br /> &lt;source lang=&quot;python&quot;&gt;set half_bonds, 1&lt;/source&gt;<br /> <br /> To turn off half bonds (default):<br /> &lt;source lang=&quot;python&quot;&gt;set half_bonds, off&lt;/source&gt;</div> Dberner https://wiki.pymol.org/index.php?title=Half_bonds&diff=6136 Half bonds 2006-06-29T14:41:09Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> The half_bonds setting determines whether a half bond will be drawn between visible and hidden atoms.<br /> <br /> ==Syntax==<br /> set half_bonds ''boolean''<br /> <br /> Where ''boolean'' may be one of:<br /> <br /> 0, 0.0, 1, 1.0, false, off, on, true<br /> <br /> ==Example==<br /> To turn on half bonds:<br /> &lt;source lang=&quot;python&quot;&gt;set half_bonds, 1&lt;/source&gt;<br /> <br /> To turn off half bonds (default):<br /> &lt;source lang=&quot;python&quot;&gt;set half_bonds, off&lt;/source&gt;</div> Dberner https://wiki.pymol.org/index.php?title=Settings&diff=10088 Settings 2006-06-29T14:34:24Z <p>Dberner: linked to half_bonds page</p> <hr /> <div>These are all the PyMol settings. If you feel like documenting them, and what they do, feel free. 6 done, 494 to go !<br /> <br /> active_selections ray_default_renderer <br /> all_states ray_direct_shade <br /> ambient ray_hint_camera <br /> angle_label_position ray_hint_shadow <br /> angle_size ray_improve_shadows <br /> animation ray_interior_color <br /> animation_duration ray_interior_mode <br /> antialias ray_interior_reflect <br /> async_builds ray_interior_shadows <br /> atom_name_wildcard ray_interior_texture <br /> auto_classify_atoms ray_legacy_lighting <br /> auto_color ray_max_passes <br /> auto_dss ray_opaque_background <br /> auto_hide_selections ray_orthoscopic <br /> auto_indicate_flags ray_oversample_cutoff <br /> auto_number_selections ray_pixel_scale <br /> auto_remove_hydrogens ray_shadow <br /> auto_sculpt ray_shadow_decay_factor <br /> auto_show_lines ray_shadow_decay_range <br /> auto_show_nonbonded ray_shadow_fudge <br /> auto_show_selections ray_shadows <br /> auto_show_spheres ray_texture <br /> auto_zoom ray_texture_settings <br /> backface_cull ray_trace_depth_factor <br /> batch_prefix ray_trace_disco_factor <br /> [[bg_rgb]] ray_trace_fog <br /> bonding_vdw_cutoff ray_trace_fog_start <br /> button_mode ray_trace_frames <br /> button_mode_name ray_trace_gain <br /> cache_display ray_trace_mode <br /> cache_frames ray_trace_slope_factor <br /> cache_memory ray_transparency_contrast <br /> [[cartoon_color]] ray_transparency_shadows <br /> [[Cartoon Helix Settings|cartoon_cylindrical_helices]] ray_transparency_spec_cut <br /> cartoon_debug ray_transparency_specular <br /> cartoon_discrete_colors ray_triangle_fudge <br /> cartoon_dumbbell_length reflect <br /> cartoon_dumbbell_radius reflect_power <br /> cartoon_dumbbell_width retain_order <br /> [[Cartoon Helix Settings|cartoon_fancy_helices]] ribbon_color <br /> [[cartoon_fancy_sheets]] ribbon_nucleic_acid_mode <br /> cartoon_flat_cycles ribbon_power <br /> cartoon_flat_sheets ribbon_power_b <br /> cartoon_helix_radius ribbon_radius <br /> cartoon_highlight_color ribbon_sampling <br /> cartoon_ladder_color ribbon_side_chain_helper <br /> cartoon_ladder_mode ribbon_smooth <br /> cartoon_ladder_radius ribbon_throw <br /> cartoon_loop_cap ribbon_trace_atoms <br /> cartoon_loop_quality ribbon_width <br /> cartoon_loop_radius robust_logs <br /> cartoon_nucleic_acid_color rock_delay <br /> cartoon_nucleic_acid_mode roving_byres <br /> cartoon_oval_length roving_cartoon <br /> cartoon_oval_quality roving_delay <br /> cartoon_oval_width roving_detail <br /> cartoon_power roving_isomesh <br /> cartoon_power_b roving_isosurface <br /> cartoon_putty_quality roving_labels <br /> cartoon_putty_radius roving_lines <br /> cartoon_putty_range roving_map1_level <br /> cartoon_putty_scale_max roving_map1_name <br /> cartoon_putty_scale_min roving_map2_level <br /> cartoon_putty_scale_power roving_map2_name <br /> cartoon_rect_length roving_map3_level <br /> cartoon_rect_width roving_map3_name <br /> cartoon_refine roving_nb_spheres <br /> cartoon_refine_normals roving_nonbonded <br /> cartoon_refine_tips roving_origin <br /> cartoon_ring_color roving_origin_z <br /> cartoon_ring_finder roving_origin_z_cushion <br /> cartoon_ring_mode roving_polar_contacts <br /> cartoon_ring_radius roving_polar_cutoff <br /> cartoon_ring_transparency roving_ribbon <br /> cartoon_ring_width roving_selection <br /> cartoon_round_helices roving_spheres <br /> cartoon_sampling roving_sticks <br /> cartoon_side_chain_helper scene_animation <br /> cartoon_smooth_cycles scene_animation_duration <br /> cartoon_smooth_first scene_current_name <br /> cartoon_smooth_last scene_loop <br /> [[cartoon_smooth_loops]] scene_restart_movie_delay <br /> cartoon_throw scenes_changed <br /> cartoon_trace_atoms sculpt_angl_weight <br /> cartoon_transparency sculpt_auto_center <br /> cartoon_tube_cap sculpt_avd_excl <br /> cartoon_tube_quality sculpt_avd_gap <br /> cartoon_tube_radius sculpt_avd_range <br /> cavity_cull sculpt_avd_weight <br /> cgo_dot_radius sculpt_bond_weight <br /> cgo_dot_width sculpt_field_mask <br /> cgo_line_radius sculpt_hb_overlap <br /> cgo_line_width sculpt_hb_overlap_base <br /> cgo_ray_width_scale sculpt_line_weight <br /> cgo_sphere_quality sculpt_max_max <br /> cgo_transparency sculpt_max_min <br /> clamp_colors sculpt_max_scale <br /> connect_bonded sculpt_max_weight <br /> connect_cutoff sculpt_memory <br /> connect_mode sculpt_min_max <br /> coulomb_cutoff sculpt_min_min <br /> coulomb_dielectric sculpt_min_scale <br /> coulomb_units_factor sculpt_min_weight <br /> cull_spheres sculpt_nb_interval <br /> dash_gap sculpt_plan_weight <br /> dash_length sculpt_pyra_weight <br /> dash_radius sculpt_tors_tolerance <br /> dash_round_ends sculpt_tors_weight <br /> dash_width sculpt_tri_max <br /> debug_pick sculpt_tri_min <br /> defer_builds_mode sculpt_tri_mode <br /> defer_updates sculpt_tri_scale <br /> depth_cue sculpt_tri_weight <br /> dihedral_label_position sculpt_vdw_scale <br /> dihedral_size sculpt_vdw_scale14 <br /> direct sculpt_vdw_vis_max <br /> dist_counter sculpt_vdw_vis_mid <br /> distance_exclusion sculpt_vdw_vis_min <br /> dot_color sculpt_vdw_vis_mode <br /> dot_density sculpt_vdw_weight <br /> dot_hydrogens sculpt_vdw_weight14 <br /> dot_lighting sculpting <br /> dot_mode sculpting_cycles <br /> dot_normals secondary_structure <br /> dot_radius security <br /> dot_solvent sel_counter <br /> [[dot_width]] selection_overlay <br /> draw_frames selection_round_points <br /> editor_auto_dihedral selection_visible_only <br /> editor_auto_origin selection_width <br /> editor_label_fragments selection_width_max <br /> fast_idle selection_width_scale <br /> fetch_path [[seq_view]] <br /> field_of_view seq_view_alignment <br /> fit_iterations seq_view_color <br /> fit_tolerance seq_view_discrete_by_state <br /> float_labels seq_view_fill_char <br /> fog seq_view_fill_color <br /> fog_start seq_view_format <br /> frame seq_view_label_color <br /> full_screen seq_view_label_mode <br /> gamma seq_view_label_spacing <br /> gaussian_b_adjust seq_view_label_start <br /> gaussian_b_floor [[seq_view_location]] <br /> gaussian_resolution seq_view_overlay <br /> gl_ambient seq_view_unaligned_color <br /> h_bond_cone seq_view_unaligned_mode <br /> h_bond_cutoff_center session_file <br /> h_bond_cutoff_edge session_migration <br /> h_bond_exclusion session_version_check <br /> h_bond_max_angle shininess <br /> h_bond_power_a show_alpha_checker <br /> h_bond_power_b show_progress <br /> [[half_bonds]] simplify_display_lists <br /> hash_max single_image <br /> hide_underscore_names slice_dynamic_grid <br /> idle_delay slice_dynamic_grid_resolution<br /> ignore_case slice_grid <br /> ignore_pdb_segi slice_height_map <br /> image_dots_per_inch slice_height_scale <br /> internal_feedback slice_track_camera <br /> [[Internal Gui|internal_gui]] slow_idle <br /> internal_gui_control_size smooth_color_triangle <br /> internal_gui_mode solvent_radius <br /> internal_gui_width spec_count <br /> [[internal_prompt]] spec_direct <br /> isomesh_auto_state spec_direct_power <br /> label_color spec_power <br /> label_font_id spec_reflect <br /> label_outline_color specular <br /> label_position specular_intensity <br /> label_shadow_mode [[sphere_color]] <br /> label_size sphere_mode <br /> legacy_mouse_zoom sphere_point_max_size <br /> legacy_vdw_radii sphere_point_size <br /> light sphere_quality <br /> light2 [[sphere_scale]] <br /> light3 sphere_solvent <br /> light4 sphere_transparency <br /> light5 spheroid_fill <br /> light6 spheroid_scale <br /> light7 spheroid_smooth <br /> light8 ss_helix_phi_exclude <br /> light9 ss_helix_phi_include <br /> light_count ss_helix_phi_target <br /> line_radius ss_helix_psi_exclude <br /> [[line_smooth]] ss_helix_psi_include <br /> line_stick_helper ss_helix_psi_target <br /> line_width ss_strand_phi_exclude <br /> log_box_selections ss_strand_phi_include <br /> log_conformations ss_strand_phi_target <br /> logging ss_strand_psi_exclude <br /> matrix_mode ss_strand_psi_include <br /> max_threads ss_strand_psi_target <br /> max_triangles state <br /> mesh_color static_singletons <br /> mesh_lighting stereo <br /> mesh_mode stereo_angle <br /> mesh_normals stereo_double_pump_mono <br /> mesh_quality stereo_mode <br /> mesh_radius stereo_shift <br /> mesh_solvent stick_ball <br /> mesh_type stick_ball_ratio <br /> mesh_width stick_color <br /> min_mesh_spacing stick_fixed_radius <br /> mouse_limit [[stick_nub]] <br /> mouse_restart_movie_delay stick_overlap <br /> mouse_scale stick_quality <br /> mouse_selection_mode stick_radius <br /> movie_delay stick_transparency <br /> movie_loop stick_valence_scale <br /> multiplex stop_on_exceptions <br /> no_idle surface_best <br /> nonbonded_size surface_carve_cutoff <br /> normal_workaround surface_carve_selection <br /> normalize_ccp4_maps surface_carve_state <br /> normalize_grd_maps surface_circumscribe <br /> normalize_o_maps surface_clear_cutoff <br /> nvidia_bugs surface_clear_selection <br /> opaque_background surface_clear_state <br /> orthoscopic surface_color <br /> overlay surface_debug <br /> overlay_lines surface_miserable <br /> pdb_conect_all surface_mode <br /> pdb_discrete_chains surface_normal <br /> pdb_echo_tags surface_optimize_subsets <br /> pdb_hetatm_sort surface_poor <br /> pdb_honor_model_number surface_proximity <br /> pdb_insertions_go_first surface_quality <br /> pdb_insure_orthogonal surface_ramp_above_mode <br /> pdb_literal_names surface_solvent <br /> pdb_no_end_record surface_trim_cutoff <br /> pdb_reformat_names_mode surface_trim_factor <br /> pdb_retain_ids surface_type <br /> pdb_standard_order suspend_updates <br /> pdb_truncate_residue_name swap_dsn6_bytes <br /> pdb_unbond_cations sweep_angle <br /> pdb_use_ter_records sweep_mode <br /> [[pickable]] sweep_phase <br /> png_file_gamma sweep_speed <br /> png_screen_gamma test1 <br /> power test2 <br /> pqr_no_chain_id text <br /> presentation texture_fonts <br /> presentation_auto_quit [[transparency]] <br /> presentation_auto_start transparency_mode <br /> presentation_mode transparency_picking_mode <br /> preserve_chempy_ids triangle_max_passes <br /> pymol_space_max_blue trim_dots <br /> pymol_space_max_green two_sided_lighting <br /> pymol_space_max_red use_display_lists <br /> pymol_space_min_factor valence <br /> raise_exceptions valence_default <br /> rank_assisted_sorts valence_size <br /> ray_blend_blue validate_object_names <br /> ray_blend_colors virtual_trackball <br /> ray_blend_green wildcard <br /> ray_blend_red wizard_prompt_mode <br /> ray_color_ramps wrap_output <br /> <br /> [[Category:Settings|All Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Stick_nub&diff=5578 Stick nub 2006-06-29T03:26:40Z <p>Dberner: Added to Settings category</p> <hr /> <div>==Overview==<br /> <br /> The stick_nub setting controls the height of the cones at the end of the sticks in stick representation.<br /> <br /> ==Syntax==<br /> <br /> set stick_nub, ''float''<br /> <br /> Where ''float'' is a floating point number. The default value is 0.7.<br /> ==Example==<br /> <br /> &lt;source lang=&quot;python&quot;&gt;set stick_nub, 0&lt;/source&gt;<br /> <br /> [[Category:Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Dot_width&diff=5429 Dot width 2006-06-29T03:25:47Z <p>Dberner: Added to Settings category</p> <hr /> <div>==Overview==<br /> <br /> This setting defines the size of the dots, in pixels, in the dots representation.<br /> <br /> ==Syntax==<br /> <br /> set dot_width=''int''<br /> <br /> Where ''int'' is any integer, default is 1 pixel.<br /> <br /> <br /> ==Example==<br /> <br /> &lt;source lang=&quot;python&quot;&gt;set dot_width=4&lt;/source&gt;<br /> <br /> [[Category:Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Pickable&diff=7179 Pickable 2006-06-29T03:24:25Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> The pickable setting is used to determine whether clicking atoms with the mouse can add or remove selections.<br /> <br /> ==Syntax==<br /> To turn off click-to-select:<br /> &lt;source lang=&quot;python&quot;&gt;set pickable, 0&lt;/source&gt;<br /> <br /> To turn on click-to-select (default):<br /> &lt;source lang=&quot;python&quot;&gt;set pickable, 1&lt;/source&gt;<br /> <br /> [[Category:Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Settings&diff=10087 Settings 2006-06-29T03:10:02Z <p>Dberner: </p> <hr /> <div>These are all the PyMol settings. If you feel like documenting them, and what they do, feel free. 6 done, 494 to go !<br /> <br /> active_selections ray_default_renderer <br /> all_states ray_direct_shade <br /> ambient ray_hint_camera <br /> angle_label_position ray_hint_shadow <br /> angle_size ray_improve_shadows <br /> animation ray_interior_color <br /> animation_duration ray_interior_mode <br /> antialias ray_interior_reflect <br /> async_builds ray_interior_shadows <br /> atom_name_wildcard ray_interior_texture <br /> auto_classify_atoms ray_legacy_lighting <br /> auto_color ray_max_passes <br /> auto_dss ray_opaque_background <br /> auto_hide_selections ray_orthoscopic <br /> auto_indicate_flags ray_oversample_cutoff <br /> auto_number_selections ray_pixel_scale <br /> auto_remove_hydrogens ray_shadow <br /> auto_sculpt ray_shadow_decay_factor <br /> auto_show_lines ray_shadow_decay_range <br /> auto_show_nonbonded ray_shadow_fudge <br /> auto_show_selections ray_shadows <br /> auto_show_spheres ray_texture <br /> auto_zoom ray_texture_settings <br /> backface_cull ray_trace_depth_factor <br /> batch_prefix ray_trace_disco_factor <br /> [[bg_rgb]] ray_trace_fog <br /> bonding_vdw_cutoff ray_trace_fog_start <br /> button_mode ray_trace_frames <br /> button_mode_name ray_trace_gain <br /> cache_display ray_trace_mode <br /> cache_frames ray_trace_slope_factor <br /> cache_memory ray_transparency_contrast <br /> [[cartoon_color]] ray_transparency_shadows <br /> [[Cartoon Helix Settings|cartoon_cylindrical_helices]] ray_transparency_spec_cut <br /> cartoon_debug ray_transparency_specular <br /> cartoon_discrete_colors ray_triangle_fudge <br /> cartoon_dumbbell_length reflect <br /> cartoon_dumbbell_radius reflect_power <br /> cartoon_dumbbell_width retain_order <br /> [[Cartoon Helix Settings|cartoon_fancy_helices]] ribbon_color <br /> [[cartoon_fancy_sheets]] ribbon_nucleic_acid_mode <br /> cartoon_flat_cycles ribbon_power <br /> cartoon_flat_sheets ribbon_power_b <br /> cartoon_helix_radius ribbon_radius <br /> cartoon_highlight_color ribbon_sampling <br /> cartoon_ladder_color ribbon_side_chain_helper <br /> cartoon_ladder_mode ribbon_smooth <br /> cartoon_ladder_radius ribbon_throw <br /> cartoon_loop_cap ribbon_trace_atoms <br /> cartoon_loop_quality ribbon_width <br /> cartoon_loop_radius robust_logs <br /> cartoon_nucleic_acid_color rock_delay <br /> cartoon_nucleic_acid_mode roving_byres <br /> cartoon_oval_length roving_cartoon <br /> cartoon_oval_quality roving_delay <br /> cartoon_oval_width roving_detail <br /> cartoon_power roving_isomesh <br /> cartoon_power_b roving_isosurface <br /> cartoon_putty_quality roving_labels <br /> cartoon_putty_radius roving_lines <br /> cartoon_putty_range roving_map1_level <br /> cartoon_putty_scale_max roving_map1_name <br /> cartoon_putty_scale_min roving_map2_level <br /> cartoon_putty_scale_power roving_map2_name <br /> cartoon_rect_length roving_map3_level <br /> cartoon_rect_width roving_map3_name <br /> cartoon_refine roving_nb_spheres <br /> cartoon_refine_normals roving_nonbonded <br /> cartoon_refine_tips roving_origin <br /> cartoon_ring_color roving_origin_z <br /> cartoon_ring_finder roving_origin_z_cushion <br /> cartoon_ring_mode roving_polar_contacts <br /> cartoon_ring_radius roving_polar_cutoff <br /> cartoon_ring_transparency roving_ribbon <br /> cartoon_ring_width roving_selection <br /> cartoon_round_helices roving_spheres <br /> cartoon_sampling roving_sticks <br /> cartoon_side_chain_helper scene_animation <br /> cartoon_smooth_cycles scene_animation_duration <br /> cartoon_smooth_first scene_current_name <br /> cartoon_smooth_last scene_loop <br /> [[cartoon_smooth_loops]] scene_restart_movie_delay <br /> cartoon_throw scenes_changed <br /> cartoon_trace_atoms sculpt_angl_weight <br /> cartoon_transparency sculpt_auto_center <br /> cartoon_tube_cap sculpt_avd_excl <br /> cartoon_tube_quality sculpt_avd_gap <br /> cartoon_tube_radius sculpt_avd_range <br /> cavity_cull sculpt_avd_weight <br /> cgo_dot_radius sculpt_bond_weight <br /> cgo_dot_width sculpt_field_mask <br /> cgo_line_radius sculpt_hb_overlap <br /> cgo_line_width sculpt_hb_overlap_base <br /> cgo_ray_width_scale sculpt_line_weight <br /> cgo_sphere_quality sculpt_max_max <br /> cgo_transparency sculpt_max_min <br /> clamp_colors sculpt_max_scale <br /> connect_bonded sculpt_max_weight <br /> connect_cutoff sculpt_memory <br /> connect_mode sculpt_min_max <br /> coulomb_cutoff sculpt_min_min <br /> coulomb_dielectric sculpt_min_scale <br /> coulomb_units_factor sculpt_min_weight <br /> cull_spheres sculpt_nb_interval <br /> dash_gap sculpt_plan_weight <br /> dash_length sculpt_pyra_weight <br /> dash_radius sculpt_tors_tolerance <br /> dash_round_ends sculpt_tors_weight <br /> dash_width sculpt_tri_max <br /> debug_pick sculpt_tri_min <br /> defer_builds_mode sculpt_tri_mode <br /> defer_updates sculpt_tri_scale <br /> depth_cue sculpt_tri_weight <br /> dihedral_label_position sculpt_vdw_scale <br /> dihedral_size sculpt_vdw_scale14 <br /> direct sculpt_vdw_vis_max <br /> dist_counter sculpt_vdw_vis_mid <br /> distance_exclusion sculpt_vdw_vis_min <br /> dot_color sculpt_vdw_vis_mode <br /> dot_density sculpt_vdw_weight <br /> dot_hydrogens sculpt_vdw_weight14 <br /> dot_lighting sculpting <br /> dot_mode sculpting_cycles <br /> dot_normals secondary_structure <br /> dot_radius security <br /> dot_solvent sel_counter <br /> [[dot_width]] selection_overlay <br /> draw_frames selection_round_points <br /> editor_auto_dihedral selection_visible_only <br /> editor_auto_origin selection_width <br /> editor_label_fragments selection_width_max <br /> fast_idle selection_width_scale <br /> fetch_path [[seq_view]] <br /> field_of_view seq_view_alignment <br /> fit_iterations seq_view_color <br /> fit_tolerance seq_view_discrete_by_state <br /> float_labels seq_view_fill_char <br /> fog seq_view_fill_color <br /> fog_start seq_view_format <br /> frame seq_view_label_color <br /> full_screen seq_view_label_mode <br /> gamma seq_view_label_spacing <br /> gaussian_b_adjust seq_view_label_start <br /> gaussian_b_floor [[seq_view_location]] <br /> gaussian_resolution seq_view_overlay <br /> gl_ambient seq_view_unaligned_color <br /> h_bond_cone seq_view_unaligned_mode <br /> h_bond_cutoff_center session_file <br /> h_bond_cutoff_edge session_migration <br /> h_bond_exclusion session_version_check <br /> h_bond_max_angle shininess <br /> h_bond_power_a show_alpha_checker <br /> h_bond_power_b show_progress <br /> half_bonds simplify_display_lists <br /> hash_max single_image <br /> hide_underscore_names slice_dynamic_grid <br /> idle_delay slice_dynamic_grid_resolution<br /> ignore_case slice_grid <br /> ignore_pdb_segi slice_height_map <br /> image_dots_per_inch slice_height_scale <br /> internal_feedback slice_track_camera <br /> [[Internal Gui|internal_gui]] slow_idle <br /> internal_gui_control_size smooth_color_triangle <br /> internal_gui_mode solvent_radius <br /> internal_gui_width spec_count <br /> [[internal_prompt]] spec_direct <br /> isomesh_auto_state spec_direct_power <br /> label_color spec_power <br /> label_font_id spec_reflect <br /> label_outline_color specular <br /> label_position specular_intensity <br /> label_shadow_mode [[sphere_color]] <br /> label_size sphere_mode <br /> legacy_mouse_zoom sphere_point_max_size <br /> legacy_vdw_radii sphere_point_size <br /> light sphere_quality <br /> light2 [[sphere_scale]] <br /> light3 sphere_solvent <br /> light4 sphere_transparency <br /> light5 spheroid_fill <br /> light6 spheroid_scale <br /> light7 spheroid_smooth <br /> light8 ss_helix_phi_exclude <br /> light9 ss_helix_phi_include <br /> light_count ss_helix_phi_target <br /> line_radius ss_helix_psi_exclude <br /> [[line_smooth]] ss_helix_psi_include <br /> line_stick_helper ss_helix_psi_target <br /> line_width ss_strand_phi_exclude <br /> log_box_selections ss_strand_phi_include <br /> log_conformations ss_strand_phi_target <br /> logging ss_strand_psi_exclude <br /> matrix_mode ss_strand_psi_include <br /> max_threads ss_strand_psi_target <br /> max_triangles state <br /> mesh_color static_singletons <br /> mesh_lighting stereo <br /> mesh_mode stereo_angle <br /> mesh_normals stereo_double_pump_mono <br /> mesh_quality stereo_mode <br /> mesh_radius stereo_shift <br /> mesh_solvent stick_ball <br /> mesh_type stick_ball_ratio <br /> mesh_width stick_color <br /> min_mesh_spacing stick_fixed_radius <br /> mouse_limit [[stick_nub]] <br /> mouse_restart_movie_delay stick_overlap <br /> mouse_scale stick_quality <br /> mouse_selection_mode stick_radius <br /> movie_delay stick_transparency <br /> movie_loop stick_valence_scale <br /> multiplex stop_on_exceptions <br /> no_idle surface_best <br /> nonbonded_size surface_carve_cutoff <br /> normal_workaround surface_carve_selection <br /> normalize_ccp4_maps surface_carve_state <br /> normalize_grd_maps surface_circumscribe <br /> normalize_o_maps surface_clear_cutoff <br /> nvidia_bugs surface_clear_selection <br /> opaque_background surface_clear_state <br /> orthoscopic surface_color <br /> overlay surface_debug <br /> overlay_lines surface_miserable <br /> pdb_conect_all surface_mode <br /> pdb_discrete_chains surface_normal <br /> pdb_echo_tags surface_optimize_subsets <br /> pdb_hetatm_sort surface_poor <br /> pdb_honor_model_number surface_proximity <br /> pdb_insertions_go_first surface_quality <br /> pdb_insure_orthogonal surface_ramp_above_mode <br /> pdb_literal_names surface_solvent <br /> pdb_no_end_record surface_trim_cutoff <br /> pdb_reformat_names_mode surface_trim_factor <br /> pdb_retain_ids surface_type <br /> pdb_standard_order suspend_updates <br /> pdb_truncate_residue_name swap_dsn6_bytes <br /> pdb_unbond_cations sweep_angle <br /> pdb_use_ter_records sweep_mode <br /> [[pickable]] sweep_phase <br /> png_file_gamma sweep_speed <br /> png_screen_gamma test1 <br /> power test2 <br /> pqr_no_chain_id text <br /> presentation texture_fonts <br /> presentation_auto_quit [[transparency]] <br /> presentation_auto_start transparency_mode <br /> presentation_mode transparency_picking_mode <br /> preserve_chempy_ids triangle_max_passes <br /> pymol_space_max_blue trim_dots <br /> pymol_space_max_green two_sided_lighting <br /> pymol_space_max_red use_display_lists <br /> pymol_space_min_factor valence <br /> raise_exceptions valence_default <br /> rank_assisted_sorts valence_size <br /> ray_blend_blue validate_object_names <br /> ray_blend_colors virtual_trackball <br /> ray_blend_green wildcard <br /> ray_blend_red wizard_prompt_mode <br /> ray_color_ramps wrap_output <br /> <br /> [[Category:Settings|All Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Pickable&diff=7178 Pickable 2006-06-29T03:04:59Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> The pickable setting is used to determine whether clicking atoms with the mouse can add or remove selections.<br /> <br /> ==Syntax==<br /> To turn off click-to-select:<br /> &lt;source lang=&quot;python&quot;&gt;set pickable, 0&lt;/source&gt;<br /> <br /> To turn on click-to-select (default):<br /> &lt;source lang=&quot;python&quot;&gt;set pickable, 1&lt;/source&gt;</div> Dberner https://wiki.pymol.org/index.php?title=Settings&diff=10086 Settings 2006-06-29T02:55:38Z <p>Dberner: </p> <hr /> <div>These are all the PyMol settings. If you feel like documenting them, and what they do, feel free. 6 done, 494 to go !<br /> <br /> active_selections ray_default_renderer <br /> all_states ray_direct_shade <br /> ambient ray_hint_camera <br /> angle_label_position ray_hint_shadow <br /> angle_size ray_improve_shadows <br /> animation ray_interior_color <br /> animation_duration ray_interior_mode <br /> antialias ray_interior_reflect <br /> async_builds ray_interior_shadows <br /> atom_name_wildcard ray_interior_texture <br /> auto_classify_atoms ray_legacy_lighting <br /> auto_color ray_max_passes <br /> auto_dss ray_opaque_background <br /> auto_hide_selections ray_orthoscopic <br /> auto_indicate_flags ray_oversample_cutoff <br /> auto_number_selections ray_pixel_scale <br /> auto_remove_hydrogens ray_shadow <br /> auto_sculpt ray_shadow_decay_factor <br /> auto_show_lines ray_shadow_decay_range <br /> auto_show_nonbonded ray_shadow_fudge <br /> auto_show_selections ray_shadows <br /> auto_show_spheres ray_texture <br /> auto_zoom ray_texture_settings <br /> backface_cull ray_trace_depth_factor <br /> batch_prefix ray_trace_disco_factor <br /> [[bg_rgb]] ray_trace_fog <br /> bonding_vdw_cutoff ray_trace_fog_start <br /> button_mode ray_trace_frames <br /> button_mode_name ray_trace_gain <br /> cache_display ray_trace_mode <br /> cache_frames ray_trace_slope_factor <br /> cache_memory ray_transparency_contrast <br /> [[cartoon_color]] ray_transparency_shadows <br /> [[Cartoon Helix Settings|cartoon_cylindrical_helices]] ray_transparency_spec_cut <br /> cartoon_debug ray_transparency_specular <br /> cartoon_discrete_colors ray_triangle_fudge <br /> cartoon_dumbbell_length reflect <br /> cartoon_dumbbell_radius reflect_power <br /> cartoon_dumbbell_width retain_order <br /> [[Cartoon Helix Settings|cartoon_fancy_helices]] ribbon_color <br /> [[cartoon_fancy_sheets]] ribbon_nucleic_acid_mode <br /> cartoon_flat_cycles ribbon_power <br /> cartoon_flat_sheets ribbon_power_b <br /> cartoon_helix_radius ribbon_radius <br /> cartoon_highlight_color ribbon_sampling <br /> cartoon_ladder_color ribbon_side_chain_helper <br /> cartoon_ladder_mode ribbon_smooth <br /> cartoon_ladder_radius ribbon_throw <br /> cartoon_loop_cap ribbon_trace_atoms <br /> cartoon_loop_quality ribbon_width <br /> cartoon_loop_radius robust_logs <br /> cartoon_nucleic_acid_color rock_delay <br /> cartoon_nucleic_acid_mode roving_byres <br /> cartoon_oval_length roving_cartoon <br /> cartoon_oval_quality roving_delay <br /> cartoon_oval_width roving_detail <br /> cartoon_power roving_isomesh <br /> cartoon_power_b roving_isosurface <br /> cartoon_putty_quality roving_labels <br /> cartoon_putty_radius roving_lines <br /> cartoon_putty_range roving_map1_level <br /> cartoon_putty_scale_max roving_map1_name <br /> cartoon_putty_scale_min roving_map2_level <br /> cartoon_putty_scale_power roving_map2_name <br /> cartoon_rect_length roving_map3_level <br /> cartoon_rect_width roving_map3_name <br /> cartoon_refine roving_nb_spheres <br /> cartoon_refine_normals roving_nonbonded <br /> cartoon_refine_tips roving_origin <br /> cartoon_ring_color roving_origin_z <br /> cartoon_ring_finder roving_origin_z_cushion <br /> cartoon_ring_mode roving_polar_contacts <br /> cartoon_ring_radius roving_polar_cutoff <br /> cartoon_ring_transparency roving_ribbon <br /> cartoon_ring_width roving_selection <br /> cartoon_round_helices roving_spheres <br /> cartoon_sampling roving_sticks <br /> cartoon_side_chain_helper scene_animation <br /> cartoon_smooth_cycles scene_animation_duration <br /> cartoon_smooth_first scene_current_name <br /> cartoon_smooth_last scene_loop <br /> [[cartoon_smooth_loops]] scene_restart_movie_delay <br /> cartoon_throw scenes_changed <br /> cartoon_trace_atoms sculpt_angl_weight <br /> cartoon_transparency sculpt_auto_center <br /> cartoon_tube_cap sculpt_avd_excl <br /> cartoon_tube_quality sculpt_avd_gap <br /> cartoon_tube_radius sculpt_avd_range <br /> cavity_cull sculpt_avd_weight <br /> cgo_dot_radius sculpt_bond_weight <br /> cgo_dot_width sculpt_field_mask <br /> cgo_line_radius sculpt_hb_overlap <br /> cgo_line_width sculpt_hb_overlap_base <br /> cgo_ray_width_scale sculpt_line_weight <br /> cgo_sphere_quality sculpt_max_max <br /> cgo_transparency sculpt_max_min <br /> clamp_colors sculpt_max_scale <br /> connect_bonded sculpt_max_weight <br /> connect_cutoff sculpt_memory <br /> connect_mode sculpt_min_max <br /> coulomb_cutoff sculpt_min_min <br /> coulomb_dielectric sculpt_min_scale <br /> coulomb_units_factor sculpt_min_weight <br /> cull_spheres sculpt_nb_interval <br /> dash_gap sculpt_plan_weight <br /> dash_length sculpt_pyra_weight <br /> dash_radius sculpt_tors_tolerance <br /> dash_round_ends sculpt_tors_weight <br /> dash_width sculpt_tri_max <br /> debug_pick sculpt_tri_min <br /> defer_builds_mode sculpt_tri_mode <br /> defer_updates sculpt_tri_scale <br /> depth_cue sculpt_tri_weight <br /> dihedral_label_position sculpt_vdw_scale <br /> dihedral_size sculpt_vdw_scale14 <br /> direct sculpt_vdw_vis_max <br /> dist_counter sculpt_vdw_vis_mid <br /> distance_exclusion sculpt_vdw_vis_min <br /> dot_color sculpt_vdw_vis_mode <br /> dot_density sculpt_vdw_weight <br /> dot_hydrogens sculpt_vdw_weight14 <br /> dot_lighting sculpting <br /> dot_mode sculpting_cycles <br /> dot_normals secondary_structure <br /> dot_radius security <br /> dot_solvent sel_counter <br /> [[dot_width]] selection_overlay <br /> draw_frames selection_round_points <br /> editor_auto_dihedral selection_visible_only <br /> editor_auto_origin selection_width <br /> editor_label_fragments selection_width_max <br /> fast_idle selection_width_scale <br /> fetch_path [[seq_view]] <br /> field_of_view seq_view_alignment <br /> fit_iterations seq_view_color <br /> fit_tolerance seq_view_discrete_by_state <br /> float_labels seq_view_fill_char <br /> fog seq_view_fill_color <br /> fog_start seq_view_format <br /> frame seq_view_label_color <br /> full_screen seq_view_label_mode <br /> gamma seq_view_label_spacing <br /> gaussian_b_adjust seq_view_label_start <br /> gaussian_b_floor [[seq_view_location]] <br /> gaussian_resolution seq_view_overlay <br /> gl_ambient seq_view_unaligned_color <br /> h_bond_cone seq_view_unaligned_mode <br /> h_bond_cutoff_center session_file <br /> h_bond_cutoff_edge session_migration <br /> h_bond_exclusion session_version_check <br /> h_bond_max_angle shininess <br /> h_bond_power_a show_alpha_checker <br /> h_bond_power_b show_progress <br /> half_bonds simplify_display_lists <br /> hash_max single_image <br /> hide_underscore_names slice_dynamic_grid <br /> idle_delay slice_dynamic_grid_resolution<br /> ignore_case slice_grid <br /> ignore_pdb_segi slice_height_map <br /> image_dots_per_inch slice_height_scale <br /> internal_feedback slice_track_camera <br /> [[Internal Gui|internal_gui]] slow_idle <br /> internal_gui_control_size smooth_color_triangle <br /> internal_gui_mode solvent_radius <br /> internal_gui_width spec_count <br /> [[internal_prompt]] spec_direct <br /> isomesh_auto_state spec_direct_power <br /> label_color spec_power <br /> label_font_id spec_reflect <br /> label_outline_color specular <br /> label_position specular_intensity <br /> label_shadow_mode [[sphere_color]] <br /> label_size sphere_mode <br /> legacy_mouse_zoom sphere_point_max_size <br /> legacy_vdw_radii sphere_point_size <br /> light sphere_quality <br /> light2 [[sphere_scale]] <br /> light3 sphere_solvent <br /> light4 sphere_transparency <br /> light5 spheroid_fill <br /> light6 spheroid_scale <br /> light7 spheroid_smooth <br /> light8 ss_helix_phi_exclude <br /> light9 ss_helix_phi_include <br /> light_count ss_helix_phi_target <br /> line_radius ss_helix_psi_exclude <br /> [[line_smooth]] ss_helix_psi_include <br /> line_stick_helper ss_helix_psi_target <br /> line_width ss_strand_phi_exclude <br /> log_box_selections ss_strand_phi_include <br /> log_conformations ss_strand_phi_target <br /> logging ss_strand_psi_exclude <br /> matrix_mode ss_strand_psi_include <br /> max_threads ss_strand_psi_target <br /> max_triangles state <br /> mesh_color static_singletons <br /> mesh_lighting stereo <br /> mesh_mode stereo_angle <br /> mesh_normals stereo_double_pump_mono <br /> mesh_quality stereo_mode <br /> mesh_radius stereo_shift <br /> mesh_solvent stick_ball <br /> mesh_type stick_ball_ratio <br /> mesh_width stick_color <br /> min_mesh_spacing stick_fixed_radius <br /> mouse_limit [[stick_nub]] <br /> mouse_restart_movie_delay stick_overlap <br /> mouse_scale stick_quality <br /> mouse_selection_mode stick_radius <br /> movie_delay stick_transparency <br /> movie_loop stick_valence_scale <br /> multiplex stop_on_exceptions <br /> no_idle surface_best <br /> nonbonded_size surface_carve_cutoff <br /> normal_workaround surface_carve_selection <br /> normalize_ccp4_maps surface_carve_state <br /> normalize_grd_maps surface_circumscribe <br /> normalize_o_maps surface_clear_cutoff <br /> nvidia_bugs surface_clear_selection <br /> opaque_background surface_clear_state <br /> orthoscopic surface_color <br /> overlay surface_debug <br /> overlay_lines surface_miserable <br /> pdb_conect_all surface_mode <br /> pdb_discrete_chains surface_normal <br /> pdb_echo_tags surface_optimize_subsets <br /> pdb_hetatm_sort surface_poor <br /> pdb_honor_model_number surface_proximity <br /> pdb_insertions_go_first surface_quality <br /> pdb_insure_orthogonal surface_ramp_above_mode <br /> pdb_literal_names surface_solvent <br /> pdb_no_end_record surface_trim_cutoff <br /> pdb_reformat_names_mode surface_trim_factor <br /> pdb_retain_ids surface_type <br /> pdb_standard_order suspend_updates <br /> pdb_truncate_residue_name swap_dsn6_bytes <br /> pdb_unbond_cations sweep_angle <br /> pdb_use_ter_records sweep_mode <br /> [[pickable]] sweep_phase <br /> png_file_gamma sweep_speed <br /> png_screen_gamma test1 <br /> power test2 <br /> pqr_no_chain_id text <br /> presentation texture_fonts <br /> presentation_auto_quit transparency <br /> presentation_auto_start transparency_mode <br /> presentation_mode transparency_picking_mode <br /> preserve_chempy_ids triangle_max_passes <br /> pymol_space_max_blue trim_dots <br /> pymol_space_max_green two_sided_lighting <br /> pymol_space_max_red use_display_lists <br /> pymol_space_min_factor valence <br /> raise_exceptions valence_default <br /> rank_assisted_sorts valence_size <br /> ray_blend_blue validate_object_names <br /> ray_blend_colors virtual_trackball <br /> ray_blend_green wildcard <br /> ray_blend_red wizard_prompt_mode <br /> ray_color_ramps wrap_output <br /> <br /> [[Category:Settings|All Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Stick_nub&diff=5577 Stick nub 2006-06-29T02:54:25Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> <br /> The stick_nub setting controls the height of the cones at the end of the sticks in stick representation.<br /> <br /> ==Syntax==<br /> <br /> set stick_nub, ''float''<br /> <br /> Where ''float'' is a floating point number. The default value is 0.7.<br /> ==Example==<br /> <br /> &lt;source lang=&quot;python&quot;&gt;set stick_nub, 0&lt;/source&gt;</div> Dberner https://wiki.pymol.org/index.php?title=Category_talk:FAQ&diff=4088 Category talk:FAQ 2006-06-28T21:44:02Z <p>Dberner: </p> <hr /> <div>We should split out these support type questions into a Q&amp;A page or a support page, and add a more general FAQ page with real FAQ's, perhaps culled from the mailing list. (For example, the common &quot;Is the surface representation solvent-accessible surface or solvent/protein interface.&quot;)</div> Dberner https://wiki.pymol.org/index.php?title=Stick_nub&diff=5576 Stick nub 2006-06-28T00:48:42Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> <br /> stick_nub controls the height of the cones at the end of the sticks in stick representation.<br /> <br /> ==Syntax==<br /> <br /> set stick_nub, ''float''<br /> <br /> Where ''float'' is a floating point number.<br /> <br /> 0.7 is the default value.<br /> <br /> ==Example==<br /> <br /> &lt;source lang=&quot;python&quot;&gt;set stick_nub, 0&lt;/source&gt;</div> Dberner https://wiki.pymol.org/index.php?title=Dot_width&diff=5428 Dot width 2006-06-28T00:48:12Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> <br /> This setting defines the size of the dots, in pixels, in the dots representation.<br /> <br /> ==Syntax==<br /> <br /> set dot_width=''int''<br /> <br /> Where ''int'' is any integer, default is 1 pixel.<br /> <br /> <br /> ==Example==<br /> <br /> &lt;source lang=&quot;python&quot;&gt;set dot_width=4&lt;/source&gt;</div> Dberner https://wiki.pymol.org/index.php?title=Dot_width&diff=5427 Dot width 2006-06-28T00:15:41Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> <br /> This setting defines the size of the dots, in pixels, in the dots representation.<br /> <br /> ==Syntax==<br /> <br /> set dot_width=''int''<br /> <br /> Where ''int'' is any integer, default is 1 pixel.<br /> <br /> <br /> ==Example==<br /> <br /> set dot_width=4</div> Dberner https://wiki.pymol.org/index.php?title=Dot_width&diff=5426 Dot width 2006-06-28T00:12:32Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> <br /> This setting defines the size of the dots, in pixels, in the dots mode display.<br /> <br /> ==Syntax==<br /> <br /> set dot_width=''int''<br /> <br /> ''int'' is any integer, default is 1 (1 pixel.) <br /> <br /> <br /> ==Example==<br /> <br /> set dot_width=4</div> Dberner https://wiki.pymol.org/index.php?title=Stick_nub&diff=5575 Stick nub 2006-06-28T00:10:20Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> <br /> stick_nub controls the height of the cones at the end of the sticks in stick representation.<br /> <br /> ==Syntax==<br /> <br /> set stick_nub, ''float''<br /> <br /> Where ''float'' is a floating point number.<br /> <br /> 0.7 is the default value.<br /> <br /> ==Example==<br /> <br /> set stick_nub, 0</div> Dberner https://wiki.pymol.org/index.php?title=Stick_nub&diff=5574 Stick nub 2006-06-28T00:09:56Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> <br /> stick_nub controls the height of the cones at the end of the sticks in stick representation.<br /> <br /> ===Syntax===<br /> <br /> set stick_nub, ''float''<br /> <br /> Where ''float'' is a floating point number.<br /> <br /> 0.7 is the default value.<br /> <br /> ==Example==<br /> <br /> set stick_nub, 0</div> Dberner https://wiki.pymol.org/index.php?title=Settings&diff=10085 Settings 2006-06-27T23:33:01Z <p>Dberner: </p> <hr /> <div>These are all the PyMol settings. If you feel like documenting them, and what they do, feel free. 6 done, 494 to go !<br /> <br /> active_selections ray_default_renderer <br /> all_states ray_direct_shade <br /> ambient ray_hint_camera <br /> angle_label_position ray_hint_shadow <br /> angle_size ray_improve_shadows <br /> animation ray_interior_color <br /> animation_duration ray_interior_mode <br /> antialias ray_interior_reflect <br /> async_builds ray_interior_shadows <br /> atom_name_wildcard ray_interior_texture <br /> auto_classify_atoms ray_legacy_lighting <br /> auto_color ray_max_passes <br /> auto_dss ray_opaque_background <br /> auto_hide_selections ray_orthoscopic <br /> auto_indicate_flags ray_oversample_cutoff <br /> auto_number_selections ray_pixel_scale <br /> auto_remove_hydrogens ray_shadow <br /> auto_sculpt ray_shadow_decay_factor <br /> auto_show_lines ray_shadow_decay_range <br /> auto_show_nonbonded ray_shadow_fudge <br /> auto_show_selections ray_shadows <br /> auto_show_spheres ray_texture <br /> auto_zoom ray_texture_settings <br /> backface_cull ray_trace_depth_factor <br /> batch_prefix ray_trace_disco_factor <br /> [[bg_rgb]] ray_trace_fog <br /> bonding_vdw_cutoff ray_trace_fog_start <br /> button_mode ray_trace_frames <br /> button_mode_name ray_trace_gain <br /> cache_display ray_trace_mode <br /> cache_frames ray_trace_slope_factor <br /> cache_memory ray_transparency_contrast <br /> [[cartoon_color]] ray_transparency_shadows <br /> [[Cartoon Helix Settings|cartoon_cylindrical_helices]] ray_transparency_spec_cut <br /> cartoon_debug ray_transparency_specular <br /> cartoon_discrete_colors ray_triangle_fudge <br /> cartoon_dumbbell_length reflect <br /> cartoon_dumbbell_radius reflect_power <br /> cartoon_dumbbell_width retain_order <br /> [[Cartoon Helix Settings|cartoon_fancy_helices]] ribbon_color <br /> [[cartoon_fancy_sheets]] ribbon_nucleic_acid_mode <br /> cartoon_flat_cycles ribbon_power <br /> cartoon_flat_sheets ribbon_power_b <br /> cartoon_helix_radius ribbon_radius <br /> cartoon_highlight_color ribbon_sampling <br /> cartoon_ladder_color ribbon_side_chain_helper <br /> cartoon_ladder_mode ribbon_smooth <br /> cartoon_ladder_radius ribbon_throw <br /> cartoon_loop_cap ribbon_trace_atoms <br /> cartoon_loop_quality ribbon_width <br /> cartoon_loop_radius robust_logs <br /> cartoon_nucleic_acid_color rock_delay <br /> cartoon_nucleic_acid_mode roving_byres <br /> cartoon_oval_length roving_cartoon <br /> cartoon_oval_quality roving_delay <br /> cartoon_oval_width roving_detail <br /> cartoon_power roving_isomesh <br /> cartoon_power_b roving_isosurface <br /> cartoon_putty_quality roving_labels <br /> cartoon_putty_radius roving_lines <br /> cartoon_putty_range roving_map1_level <br /> cartoon_putty_scale_max roving_map1_name <br /> cartoon_putty_scale_min roving_map2_level <br /> cartoon_putty_scale_power roving_map2_name <br /> cartoon_rect_length roving_map3_level <br /> cartoon_rect_width roving_map3_name <br /> cartoon_refine roving_nb_spheres <br /> cartoon_refine_normals roving_nonbonded <br /> cartoon_refine_tips roving_origin <br /> cartoon_ring_color roving_origin_z <br /> cartoon_ring_finder roving_origin_z_cushion <br /> cartoon_ring_mode roving_polar_contacts <br /> cartoon_ring_radius roving_polar_cutoff <br /> cartoon_ring_transparency roving_ribbon <br /> cartoon_ring_width roving_selection <br /> cartoon_round_helices roving_spheres <br /> cartoon_sampling roving_sticks <br /> cartoon_side_chain_helper scene_animation <br /> cartoon_smooth_cycles scene_animation_duration <br /> cartoon_smooth_first scene_current_name <br /> cartoon_smooth_last scene_loop <br /> [[cartoon_smooth_loops]] scene_restart_movie_delay <br /> cartoon_throw scenes_changed <br /> cartoon_trace_atoms sculpt_angl_weight <br /> cartoon_transparency sculpt_auto_center <br /> cartoon_tube_cap sculpt_avd_excl <br /> cartoon_tube_quality sculpt_avd_gap <br /> cartoon_tube_radius sculpt_avd_range <br /> cavity_cull sculpt_avd_weight <br /> cgo_dot_radius sculpt_bond_weight <br /> cgo_dot_width sculpt_field_mask <br /> cgo_line_radius sculpt_hb_overlap <br /> cgo_line_width sculpt_hb_overlap_base <br /> cgo_ray_width_scale sculpt_line_weight <br /> cgo_sphere_quality sculpt_max_max <br /> cgo_transparency sculpt_max_min <br /> clamp_colors sculpt_max_scale <br /> connect_bonded sculpt_max_weight <br /> connect_cutoff sculpt_memory <br /> connect_mode sculpt_min_max <br /> coulomb_cutoff sculpt_min_min <br /> coulomb_dielectric sculpt_min_scale <br /> coulomb_units_factor sculpt_min_weight <br /> cull_spheres sculpt_nb_interval <br /> dash_gap sculpt_plan_weight <br /> dash_length sculpt_pyra_weight <br /> dash_radius sculpt_tors_tolerance <br /> dash_round_ends sculpt_tors_weight <br /> dash_width sculpt_tri_max <br /> debug_pick sculpt_tri_min <br /> defer_builds_mode sculpt_tri_mode <br /> defer_updates sculpt_tri_scale <br /> depth_cue sculpt_tri_weight <br /> dihedral_label_position sculpt_vdw_scale <br /> dihedral_size sculpt_vdw_scale14 <br /> direct sculpt_vdw_vis_max <br /> dist_counter sculpt_vdw_vis_mid <br /> distance_exclusion sculpt_vdw_vis_min <br /> dot_color sculpt_vdw_vis_mode <br /> dot_density sculpt_vdw_weight <br /> dot_hydrogens sculpt_vdw_weight14 <br /> dot_lighting sculpting <br /> dot_mode sculpting_cycles <br /> dot_normals secondary_structure <br /> dot_radius security <br /> dot_solvent sel_counter <br /> [[dot_width]] selection_overlay <br /> draw_frames selection_round_points <br /> editor_auto_dihedral selection_visible_only <br /> editor_auto_origin selection_width <br /> editor_label_fragments selection_width_max <br /> fast_idle selection_width_scale <br /> fetch_path [[seq_view]] <br /> field_of_view seq_view_alignment <br /> fit_iterations seq_view_color <br /> fit_tolerance seq_view_discrete_by_state <br /> float_labels seq_view_fill_char <br /> fog seq_view_fill_color <br /> fog_start seq_view_format <br /> frame seq_view_label_color <br /> full_screen seq_view_label_mode <br /> gamma seq_view_label_spacing <br /> gaussian_b_adjust seq_view_label_start <br /> gaussian_b_floor [[seq_view_location]] <br /> gaussian_resolution seq_view_overlay <br /> gl_ambient seq_view_unaligned_color <br /> h_bond_cone seq_view_unaligned_mode <br /> h_bond_cutoff_center session_file <br /> h_bond_cutoff_edge session_migration <br /> h_bond_exclusion session_version_check <br /> h_bond_max_angle shininess <br /> h_bond_power_a show_alpha_checker <br /> h_bond_power_b show_progress <br /> half_bonds simplify_display_lists <br /> hash_max single_image <br /> hide_underscore_names slice_dynamic_grid <br /> idle_delay slice_dynamic_grid_resolution<br /> ignore_case slice_grid <br /> ignore_pdb_segi slice_height_map <br /> image_dots_per_inch slice_height_scale <br /> internal_feedback slice_track_camera <br /> [[Internal Gui|internal_gui]] slow_idle <br /> internal_gui_control_size smooth_color_triangle <br /> internal_gui_mode solvent_radius <br /> internal_gui_width spec_count <br /> [[internal_prompt]] spec_direct <br /> isomesh_auto_state spec_direct_power <br /> label_color spec_power <br /> label_font_id spec_reflect <br /> label_outline_color specular <br /> label_position specular_intensity <br /> label_shadow_mode [[sphere_color]] <br /> label_size sphere_mode <br /> legacy_mouse_zoom sphere_point_max_size <br /> legacy_vdw_radii sphere_point_size <br /> light sphere_quality <br /> light2 [[sphere_scale]] <br /> light3 sphere_solvent <br /> light4 sphere_transparency <br /> light5 spheroid_fill <br /> light6 spheroid_scale <br /> light7 spheroid_smooth <br /> light8 ss_helix_phi_exclude <br /> light9 ss_helix_phi_include <br /> light_count ss_helix_phi_target <br /> line_radius ss_helix_psi_exclude <br /> [[line_smooth]] ss_helix_psi_include <br /> line_stick_helper ss_helix_psi_target <br /> line_width ss_strand_phi_exclude <br /> log_box_selections ss_strand_phi_include <br /> log_conformations ss_strand_phi_target <br /> logging ss_strand_psi_exclude <br /> matrix_mode ss_strand_psi_include <br /> max_threads ss_strand_psi_target <br /> max_triangles state <br /> mesh_color static_singletons <br /> mesh_lighting stereo <br /> mesh_mode stereo_angle <br /> mesh_normals stereo_double_pump_mono <br /> mesh_quality stereo_mode <br /> mesh_radius stereo_shift <br /> mesh_solvent stick_ball <br /> mesh_type stick_ball_ratio <br /> mesh_width stick_color <br /> min_mesh_spacing stick_fixed_radius <br /> mouse_limit [[stick_nub]] <br /> mouse_restart_movie_delay stick_overlap <br /> mouse_scale stick_quality <br /> mouse_selection_mode stick_radius <br /> movie_delay stick_transparency <br /> movie_loop stick_valence_scale <br /> multiplex stop_on_exceptions <br /> no_idle surface_best <br /> nonbonded_size surface_carve_cutoff <br /> normal_workaround surface_carve_selection <br /> normalize_ccp4_maps surface_carve_state <br /> normalize_grd_maps surface_circumscribe <br /> normalize_o_maps surface_clear_cutoff <br /> nvidia_bugs surface_clear_selection <br /> opaque_background surface_clear_state <br /> orthoscopic surface_color <br /> overlay surface_debug <br /> overlay_lines surface_miserable <br /> pdb_conect_all surface_mode <br /> pdb_discrete_chains surface_normal <br /> pdb_echo_tags surface_optimize_subsets <br /> pdb_hetatm_sort surface_poor <br /> pdb_honor_model_number surface_proximity <br /> pdb_insertions_go_first surface_quality <br /> pdb_insure_orthogonal surface_ramp_above_mode <br /> pdb_literal_names surface_solvent <br /> pdb_no_end_record surface_trim_cutoff <br /> pdb_reformat_names_mode surface_trim_factor <br /> pdb_retain_ids surface_type <br /> pdb_standard_order suspend_updates <br /> pdb_truncate_residue_name swap_dsn6_bytes <br /> pdb_unbond_cations sweep_angle <br /> pdb_use_ter_records sweep_mode <br /> pickable sweep_phase <br /> png_file_gamma sweep_speed <br /> png_screen_gamma test1 <br /> power test2 <br /> pqr_no_chain_id text <br /> presentation texture_fonts <br /> presentation_auto_quit transparency <br /> presentation_auto_start transparency_mode <br /> presentation_mode transparency_picking_mode <br /> preserve_chempy_ids triangle_max_passes <br /> pymol_space_max_blue trim_dots <br /> pymol_space_max_green two_sided_lighting <br /> pymol_space_max_red use_display_lists <br /> pymol_space_min_factor valence <br /> raise_exceptions valence_default <br /> rank_assisted_sorts valence_size <br /> ray_blend_blue validate_object_names <br /> ray_blend_colors virtual_trackball <br /> ray_blend_green wildcard <br /> ray_blend_red wizard_prompt_mode <br /> ray_color_ramps wrap_output <br /> <br /> [[Category:Settings|All Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Dot_width&diff=5425 Dot width 2006-06-27T22:40:59Z <p>Dberner: /* Overview */</p> <hr /> <div>==Overview==<br /> <br /> This setting defines the size of the dots, in pixels, in the dots mode display.<br /> <br /> ==Syntax==<br /> <br /> set dot_width=''int''<br /> <br /> ''int'' is any integer, default is 1 (1 pixel.) <br /> <br /> <br /> example: set dot_width=4</div> Dberner https://wiki.pymol.org/index.php?title=Dot_width&diff=5424 Dot width 2006-06-27T22:37:58Z <p>Dberner: </p> <hr /> <div>==Overview==<br /> <br /> This setting defines the size of the dots, in pixels, in the dots mode display.</div> Dberner https://wiki.pymol.org/index.php?title=Settings&diff=10084 Settings 2006-06-27T22:35:12Z <p>Dberner: </p> <hr /> <div>These are all the PyMol settings. If you feel like documenting them, and what they do, feel free. 6 done, 494 to go !<br /> <br /> active_selections ray_default_renderer <br /> all_states ray_direct_shade <br /> ambient ray_hint_camera <br /> angle_label_position ray_hint_shadow <br /> angle_size ray_improve_shadows <br /> animation ray_interior_color <br /> animation_duration ray_interior_mode <br /> antialias ray_interior_reflect <br /> async_builds ray_interior_shadows <br /> atom_name_wildcard ray_interior_texture <br /> auto_classify_atoms ray_legacy_lighting <br /> auto_color ray_max_passes <br /> auto_dss ray_opaque_background <br /> auto_hide_selections ray_orthoscopic <br /> auto_indicate_flags ray_oversample_cutoff <br /> auto_number_selections ray_pixel_scale <br /> auto_remove_hydrogens ray_shadow <br /> auto_sculpt ray_shadow_decay_factor <br /> auto_show_lines ray_shadow_decay_range <br /> auto_show_nonbonded ray_shadow_fudge <br /> auto_show_selections ray_shadows <br /> auto_show_spheres ray_texture <br /> auto_zoom ray_texture_settings <br /> backface_cull ray_trace_depth_factor <br /> batch_prefix ray_trace_disco_factor <br /> [[bg_rgb]] ray_trace_fog <br /> bonding_vdw_cutoff ray_trace_fog_start <br /> button_mode ray_trace_frames <br /> button_mode_name ray_trace_gain <br /> cache_display ray_trace_mode <br /> cache_frames ray_trace_slope_factor <br /> cache_memory ray_transparency_contrast <br /> [[cartoon_color]] ray_transparency_shadows <br /> [[Cartoon Helix Settings|cartoon_cylindrical_helices]] ray_transparency_spec_cut <br /> cartoon_debug ray_transparency_specular <br /> cartoon_discrete_colors ray_triangle_fudge <br /> cartoon_dumbbell_length reflect <br /> cartoon_dumbbell_radius reflect_power <br /> cartoon_dumbbell_width retain_order <br /> [[Cartoon Helix Settings|cartoon_fancy_helices]] ribbon_color <br /> [[cartoon_fancy_sheets]] ribbon_nucleic_acid_mode <br /> cartoon_flat_cycles ribbon_power <br /> cartoon_flat_sheets ribbon_power_b <br /> cartoon_helix_radius ribbon_radius <br /> cartoon_highlight_color ribbon_sampling <br /> cartoon_ladder_color ribbon_side_chain_helper <br /> cartoon_ladder_mode ribbon_smooth <br /> cartoon_ladder_radius ribbon_throw <br /> cartoon_loop_cap ribbon_trace_atoms <br /> cartoon_loop_quality ribbon_width <br /> cartoon_loop_radius robust_logs <br /> cartoon_nucleic_acid_color rock_delay <br /> cartoon_nucleic_acid_mode roving_byres <br /> cartoon_oval_length roving_cartoon <br /> cartoon_oval_quality roving_delay <br /> cartoon_oval_width roving_detail <br /> cartoon_power roving_isomesh <br /> cartoon_power_b roving_isosurface <br /> cartoon_putty_quality roving_labels <br /> cartoon_putty_radius roving_lines <br /> cartoon_putty_range roving_map1_level <br /> cartoon_putty_scale_max roving_map1_name <br /> cartoon_putty_scale_min roving_map2_level <br /> cartoon_putty_scale_power roving_map2_name <br /> cartoon_rect_length roving_map3_level <br /> cartoon_rect_width roving_map3_name <br /> cartoon_refine roving_nb_spheres <br /> cartoon_refine_normals roving_nonbonded <br /> cartoon_refine_tips roving_origin <br /> cartoon_ring_color roving_origin_z <br /> cartoon_ring_finder roving_origin_z_cushion <br /> cartoon_ring_mode roving_polar_contacts <br /> cartoon_ring_radius roving_polar_cutoff <br /> cartoon_ring_transparency roving_ribbon <br /> cartoon_ring_width roving_selection <br /> cartoon_round_helices roving_spheres <br /> cartoon_sampling roving_sticks <br /> cartoon_side_chain_helper scene_animation <br /> cartoon_smooth_cycles scene_animation_duration <br /> cartoon_smooth_first scene_current_name <br /> cartoon_smooth_last scene_loop <br /> [[cartoon_smooth_loops]] scene_restart_movie_delay <br /> cartoon_throw scenes_changed <br /> cartoon_trace_atoms sculpt_angl_weight <br /> cartoon_transparency sculpt_auto_center <br /> cartoon_tube_cap sculpt_avd_excl <br /> cartoon_tube_quality sculpt_avd_gap <br /> cartoon_tube_radius sculpt_avd_range <br /> cavity_cull sculpt_avd_weight <br /> cgo_dot_radius sculpt_bond_weight <br /> cgo_dot_width sculpt_field_mask <br /> cgo_line_radius sculpt_hb_overlap <br /> cgo_line_width sculpt_hb_overlap_base <br /> cgo_ray_width_scale sculpt_line_weight <br /> cgo_sphere_quality sculpt_max_max <br /> cgo_transparency sculpt_max_min <br /> clamp_colors sculpt_max_scale <br /> connect_bonded sculpt_max_weight <br /> connect_cutoff sculpt_memory <br /> connect_mode sculpt_min_max <br /> coulomb_cutoff sculpt_min_min <br /> coulomb_dielectric sculpt_min_scale <br /> coulomb_units_factor sculpt_min_weight <br /> cull_spheres sculpt_nb_interval <br /> dash_gap sculpt_plan_weight <br /> dash_length sculpt_pyra_weight <br /> dash_radius sculpt_tors_tolerance <br /> dash_round_ends sculpt_tors_weight <br /> dash_width sculpt_tri_max <br /> debug_pick sculpt_tri_min <br /> defer_builds_mode sculpt_tri_mode <br /> defer_updates sculpt_tri_scale <br /> depth_cue sculpt_tri_weight <br /> dihedral_label_position sculpt_vdw_scale <br /> dihedral_size sculpt_vdw_scale14 <br /> direct sculpt_vdw_vis_max <br /> dist_counter sculpt_vdw_vis_mid <br /> distance_exclusion sculpt_vdw_vis_min <br /> dot_color sculpt_vdw_vis_mode <br /> dot_density sculpt_vdw_weight <br /> dot_hydrogens sculpt_vdw_weight14 <br /> dot_lighting sculpting <br /> dot_mode sculpting_cycles <br /> dot_normals secondary_structure <br /> dot_radius security <br /> dot_solvent sel_counter <br /> [[dot_width]] selection_overlay <br /> draw_frames selection_round_points <br /> editor_auto_dihedral selection_visible_only <br /> editor_auto_origin selection_width <br /> editor_label_fragments selection_width_max <br /> fast_idle selection_width_scale <br /> fetch_path [[seq_view]] <br /> field_of_view seq_view_alignment <br /> fit_iterations seq_view_color <br /> fit_tolerance seq_view_discrete_by_state <br /> float_labels seq_view_fill_char <br /> fog seq_view_fill_color <br /> fog_start seq_view_format <br /> frame seq_view_label_color <br /> full_screen seq_view_label_mode <br /> gamma seq_view_label_spacing <br /> gaussian_b_adjust seq_view_label_start <br /> gaussian_b_floor [[seq_view_location]] <br /> gaussian_resolution seq_view_overlay <br /> gl_ambient seq_view_unaligned_color <br /> h_bond_cone seq_view_unaligned_mode <br /> h_bond_cutoff_center session_file <br /> h_bond_cutoff_edge session_migration <br /> h_bond_exclusion session_version_check <br /> h_bond_max_angle shininess <br /> h_bond_power_a show_alpha_checker <br /> h_bond_power_b show_progress <br /> half_bonds simplify_display_lists <br /> hash_max single_image <br /> hide_underscore_names slice_dynamic_grid <br /> idle_delay slice_dynamic_grid_resolution<br /> ignore_case slice_grid <br /> ignore_pdb_segi slice_height_map <br /> image_dots_per_inch slice_height_scale <br /> internal_feedback slice_track_camera <br /> [[Internal Gui|internal_gui]] slow_idle <br /> internal_gui_control_size smooth_color_triangle <br /> internal_gui_mode solvent_radius <br /> internal_gui_width spec_count <br /> [[internal_prompt]] spec_direct <br /> isomesh_auto_state spec_direct_power <br /> label_color spec_power <br /> label_font_id spec_reflect <br /> label_outline_color specular <br /> label_position specular_intensity <br /> label_shadow_mode [[sphere_color]] <br /> label_size sphere_mode <br /> legacy_mouse_zoom sphere_point_max_size <br /> legacy_vdw_radii sphere_point_size <br /> light sphere_quality <br /> light2 [[sphere_scale]] <br /> light3 sphere_solvent <br /> light4 sphere_transparency <br /> light5 spheroid_fill <br /> light6 spheroid_scale <br /> light7 spheroid_smooth <br /> light8 ss_helix_phi_exclude <br /> light9 ss_helix_phi_include <br /> light_count ss_helix_phi_target <br /> line_radius ss_helix_psi_exclude <br /> [[line_smooth]] ss_helix_psi_include <br /> line_stick_helper ss_helix_psi_target <br /> line_width ss_strand_phi_exclude <br /> log_box_selections ss_strand_phi_include <br /> log_conformations ss_strand_phi_target <br /> logging ss_strand_psi_exclude <br /> matrix_mode ss_strand_psi_include <br /> max_threads ss_strand_psi_target <br /> max_triangles state <br /> mesh_color static_singletons <br /> mesh_lighting stereo <br /> mesh_mode stereo_angle <br /> mesh_normals stereo_double_pump_mono <br /> mesh_quality stereo_mode <br /> mesh_radius stereo_shift <br /> mesh_solvent stick_ball <br /> mesh_type stick_ball_ratio <br /> mesh_width stick_color <br /> min_mesh_spacing stick_fixed_radius <br /> mouse_limit stick_nub <br /> mouse_restart_movie_delay stick_overlap <br /> mouse_scale stick_quality <br /> mouse_selection_mode stick_radius <br /> movie_delay stick_transparency <br /> movie_loop stick_valence_scale <br /> multiplex stop_on_exceptions <br /> no_idle surface_best <br /> nonbonded_size surface_carve_cutoff <br /> normal_workaround surface_carve_selection <br /> normalize_ccp4_maps surface_carve_state <br /> normalize_grd_maps surface_circumscribe <br /> normalize_o_maps surface_clear_cutoff <br /> nvidia_bugs surface_clear_selection <br /> opaque_background surface_clear_state <br /> orthoscopic surface_color <br /> overlay surface_debug <br /> overlay_lines surface_miserable <br /> pdb_conect_all surface_mode <br /> pdb_discrete_chains surface_normal <br /> pdb_echo_tags surface_optimize_subsets <br /> pdb_hetatm_sort surface_poor <br /> pdb_honor_model_number surface_proximity <br /> pdb_insertions_go_first surface_quality <br /> pdb_insure_orthogonal surface_ramp_above_mode <br /> pdb_literal_names surface_solvent <br /> pdb_no_end_record surface_trim_cutoff <br /> pdb_reformat_names_mode surface_trim_factor <br /> pdb_retain_ids surface_type <br /> pdb_standard_order suspend_updates <br /> pdb_truncate_residue_name swap_dsn6_bytes <br /> pdb_unbond_cations sweep_angle <br /> pdb_use_ter_records sweep_mode <br /> pickable sweep_phase <br /> png_file_gamma sweep_speed <br /> png_screen_gamma test1 <br /> power test2 <br /> pqr_no_chain_id text <br /> presentation texture_fonts <br /> presentation_auto_quit transparency <br /> presentation_auto_start transparency_mode <br /> presentation_mode transparency_picking_mode <br /> preserve_chempy_ids triangle_max_passes <br /> pymol_space_max_blue trim_dots <br /> pymol_space_max_green two_sided_lighting <br /> pymol_space_max_red use_display_lists <br /> pymol_space_min_factor valence <br /> raise_exceptions valence_default <br /> rank_assisted_sorts valence_size <br /> ray_blend_blue validate_object_names <br /> ray_blend_colors virtual_trackball <br /> ray_blend_green wildcard <br /> ray_blend_red wizard_prompt_mode <br /> ray_color_ramps wrap_output <br /> <br /> [[Category:Settings|All Settings]]</div> Dberner https://wiki.pymol.org/index.php?title=Wizard&diff=10631 Wizard 2006-06-27T20:13:10Z <p>Dberner: /* DESCRIPTION */</p> <hr /> <div>===DESCRIPTION===<br /> '''wizard''' launches one of the built-in wizards. There are special Python scripts which work with PyMOL in order to obtain direct user interaction and easily peform complicated tasks.<br /> <br /> ===USAGE===<br /> wizard name<br /> <br /> ===PYMOL API===<br /> &lt;source lang=&quot;python&quot;&gt;<br /> cmd.wizard(string name)<br /> &lt;/source&gt;<br /> <br /> ===EXAMPLE===<br /> wizard distance # launches the distance measurement wizard <br /> <br /> <br /> [[Category:Commands|wizard]]</div> Dberner