nanover.jupyter package

Submodules

• nanover.jupyter.alignment_transform module
  • AlignmentTransform
    • AlignmentTransform.alignment
    • AlignmentTransform.config()
    • AlignmentTransform.key
    • AlignmentTransform.on_frame_update()
• nanover.jupyter.controls module
  • interact_button()
  • make_button()
  • make_toggle()
  • show_app_server_controls()
  • show_runner_controls()
• nanover.jupyter.frame_listener module
  • FrameListener
    • FrameListener.close()
    • FrameListener.from_runner()
    • FrameListener.on_frame_update()
    • FrameListener.start()
• nanover.jupyter.ghost_follower module
  • GhostFollowerAgent
    • GhostFollowerAgent.ghost
    • GhostFollowerAgent.key
    • GhostFollowerAgent.setup()
    • GhostFollowerAgent.update_interactions()
• nanover.jupyter.ghosts module
  • GhostMoleculeData
    • GhostMoleculeData.draw()
    • GhostMoleculeData.from_atom_group()
    • GhostMoleculeData.from_frame_data()
    • GhostMoleculeData.ghost_atom_positions
    • GhostMoleculeData.ghost_bond_pairs
    • GhostMoleculeData.system_atom_indices
  • GhostMoleculeObject
    • GhostMoleculeObject.clear()
    • GhostMoleculeObject.from_ghost_data()
    • GhostMoleculeObject.ghost_data
    • GhostMoleculeObject.key
    • GhostMoleculeObject.redraw()
    • GhostMoleculeObject.utilities
    • GhostMoleculeObject.visuals
  • draw_ghost()
• nanover.jupyter.imd_agent module
  • ImdAgent
    • ImdAgent.close()
    • ImdAgent.on_frame_update()
    • ImdAgent.update_interactions()
• nanover.jupyter.modes module
  • Mode
    • Mode.on_button_pressed()
    • Mode.on_button_released()
    • Mode.on_cursor_updated()
    • Mode.on_enter()
    • Mode.on_exit()
    • Mode.on_interaction_started()
    • Mode.on_interaction_stopped()
    • Mode.on_interaction_updated()
• nanover.jupyter.nglclient module
  • FrameDataStructure
    • FrameDataStructure.get_structure_string()
  • NGLClient
    • NGLClient.recv_frame()
    • NGLClient.view
  • fill_empty_fields()
  • frame_data_to_nglwidget()
  • frame_data_to_pdb()
  • mda_to_pdb_str()
• nanover.jupyter.transform_grabbing module
  • TransformGrabData
    • TransformGrabData.data
    • TransformGrabData.offset_matrix
    • TransformGrabData.rotate
    • TransformGrabData.scale
    • TransformGrabData.transform_id
    • TransformGrabData.transform_initial_matrix
    • TransformGrabData.translate
  • TransformGrabbingContext
    • TransformGrabbingContext.add_grab()
    • TransformGrabbingContext.cursor_in_object_parent_matrix()
    • TransformGrabbingContext.end_grab()
    • TransformGrabbingContext.end_grab_from_cursor()
    • TransformGrabbingContext.from_utilities()
    • TransformGrabbingContext.get_grab()
    • TransformGrabbingContext.start_grab_from_cursor()
    • TransformGrabbingContext.transform_is_grabbed()
    • TransformGrabbingContext.update_grab_from_cursor()
  • constrain_matrix_update()
• nanover.jupyter.transform_handles module
  • HandleGrabData
    • HandleGrabData.handle
  • use_transform_handles()
• nanover.jupyter.utilities module
  • InteractionsUtility
    • InteractionsUtility.prefix
    • InteractionsUtility.remove_interaction()
    • InteractionsUtility.update_interaction()
  • ModesManager
    • ModesManager.add_mode()
    • ModesManager.add_normal_mode()
    • ModesManager.clear_all_modes()
    • ModesManager.enter_mode()
    • ModesManager.remove_mode()
  • NanoverClientUtilities
    • NanoverClientUtilities.from_client()
  • NanoverServerUtilities
    • NanoverServerUtilities.add_interaction_mode()
    • NanoverServerUtilities.define_command()
    • NanoverServerUtilities.from_client()
    • NanoverServerUtilities.from_runner()
    • NanoverServerUtilities.get_shared_state_value()
    • NanoverServerUtilities.hide_solvent()
    • NanoverServerUtilities.intersect_transform_handles()
    • NanoverServerUtilities.make_ghost_from_frame_data()
    • NanoverServerUtilities.make_ghost_from_mdanalysis()
    • NanoverServerUtilities.mark_checkpoint()
    • NanoverServerUtilities.notify_all()
    • NanoverServerUtilities.scene_transform
    • NanoverServerUtilities.set_shared_state_value()
    • NanoverServerUtilities.show_controls()
    • NanoverServerUtilities.show_logging()
    • NanoverServerUtilities.start_recording()
    • NanoverServerUtilities.stop_recording()
    • NanoverServerUtilities.use_recording_commands()
    • NanoverServerUtilities.use_transform_handles()
  • NanoverSharedUtilities
  • PanelsUtility
    • PanelsUtility.button()
    • PanelsUtility.header()
    • PanelsUtility.prefix
    • PanelsUtility.remove_panel()
    • PanelsUtility.slider()
    • PanelsUtility.update_panel()
  • SceneObjectsUtility
    • SceneObjectsUtility.prefix
    • SceneObjectsUtility.remove_label()
    • SceneObjectsUtility.remove_line()
    • SceneObjectsUtility.remove_shape()
    • SceneObjectsUtility.remove_sprite()
    • SceneObjectsUtility.update_label()
    • SceneObjectsUtility.update_line()
    • SceneObjectsUtility.update_shape()
    • SceneObjectsUtility.update_sprite()
  • SelectionsUtility
    • SelectionsUtility.modify_selection()
    • SelectionsUtility.prefix
    • SelectionsUtility.remove_selection()
    • SelectionsUtility.update_selection()
  • StateKeysUtility
    • StateKeysUtility.all_prefixed()
    • StateKeysUtility.all_prefixed_items()
    • StateKeysUtility.check_flush()
    • StateKeysUtility.clear()
    • StateKeysUtility.clear_all()
    • StateKeysUtility.flush()
    • StateKeysUtility.from_client()
    • StateKeysUtility.from_runner()
    • StateKeysUtility.prefix
    • StateKeysUtility.remove_object()
    • StateKeysUtility.update_object()
  • StateTransformEntry
    • StateTransformEntry.parent
    • StateTransformEntry.transform
  • TransformHandlesUtility
    • TransformHandlesUtility.prefix
    • TransformHandlesUtility.remove_handle()
    • TransformHandlesUtility.update_handle()
  • TransformsUtility
    • TransformsUtility.fetch_transform()
    • TransformsUtility.fetch_transform_entry()
    • TransformsUtility.fetch_transform_root()
    • TransformsUtility.get_parent()
    • TransformsUtility.prefix
    • TransformsUtility.remove_transform()
    • TransformsUtility.update_transform()
  • make_id_generator()