nanover namespace

Subpackages

• nanover.app package
  • Submodules
    • nanover.app.app_server module
      • NanoverApplicationServer
      • SupportsClose
      • qualified_server_name()
      • start_default_server_and_discovery()
    • nanover.app.client module
      • NanoverImdClient
      • need_frames()
      • need_imd()
      • need_multiplayer()
      • need_trajectory_joined()
    • nanover.app.frame_app module
      • NanoverFrameApplication
    • nanover.app.imd_app module
      • NanoverImdApplication
    • nanover.app.multiuser module
      • add_multiuser_commands()
    • nanover.app.runner module
      • NanoverRunner
    • nanover.app.selection module
      • RenderingSelection
      • get_nested_or_default()
• nanover.ase package
  • Subpackages
    • nanover.ase.openmm package
      • Submodules
  • Submodules
    • nanover.ase.converter module
      • add_ase_box_vectors_to_frame_data()
      • add_ase_positions_to_frame_data()
      • add_ase_state_to_frame_data()
      • add_ase_topology_to_frame_data()
      • add_frame_data_positions_to_ase()
      • add_frame_data_topology_to_ase()
      • ase_to_frame_data()
      • frame_data_to_ase()
      • generate_bonds_from_ase()
      • get_radius_of_element()
    • nanover.ase.frame_adaptor module
      • send_ase_frame()
    • nanover.ase.imd module
      • NanoverASEDynamics
    • nanover.ase.imd_calculator module
      • ImdCalculator
      • get_periodic_box_lengths()
    • nanover.ase.null_calculator module
      • NullCalculator
    • nanover.ase.trajectory_logger module
      • TrajectoryLogger
      • UnsupportedFormatError
      • validate_ase_can_append_filename()
      • validate_ase_can_append_format()
    • nanover.ase.wall_constraint module
      • VelocityWallConstraint
• nanover.command package
  • Submodules
    • nanover.command.command_info module
      • CommandInfo
    • nanover.command.command_service module
      • CommandRegistration
      • CommandService
• nanover.core package
  • Submodules
    • nanover.core.grpc_client module
      • GrpcClient
    • nanover.core.grpc_server module
      • GrpcServer
      • get_requested_port_or_default()
    • nanover.core.nanover_client module
      • NanoverClient
      • NanoverStubClient
    • nanover.core.nanover_server module
      • NanoverServer
• nanover.essd package
  • Submodules
    • nanover.essd.client module
      • DiscoveryClient
    • nanover.essd.list_cli module
      • handle_user_arguments()
      • main()
      • print_hub()
    • nanover.essd.server module
      • Example
      • DiscoveryServer
      • configure_reusable_socket()
    • nanover.essd.servicehub module
      • ServiceHub
    • nanover.essd.utils module
      • get_broadcast_addresses()
      • get_broadcastable_ip()
      • get_ipv4_addresses()
      • is_in_network()
      • resolve_host_broadcast_address()
• nanover.imd package
  • Submodules
    • nanover.imd.imd_client module
      • ImdClient
    • nanover.imd.imd_force module
      • ForceCalculator
      • apply_single_interaction_force()
      • calculate_constant_force()
      • calculate_gaussian_force()
      • calculate_imd_force()
      • calculate_spring_force()
      • get_center_of_mass_subset()
      • wrap_pbc()
    • nanover.imd.imd_server module
      • ImdServer
    • nanover.imd.imd_state module
      • ImdStateWrapper
      • dict_to_interaction()
      • interaction_to_dict()
    • nanover.imd.particle_interaction module
      • ParticleInteraction
• nanover.lammps package
  • Submodules
    • nanover.lammps.LammpsImd module
      • LammpsImd
    • nanover.lammps.conversions module
      • LammpsUnitConverter
    • nanover.lammps.mock module
      • MockLammps
• nanover.mdanalysis package
  • Submodules
    • nanover.mdanalysis.converter module
      • FrameDataField
      • FrameDataFieldConversion
      • add_frame_positions_to_mda()
      • add_frame_topology_to_mda()
      • add_mda_positions_to_frame_data()
      • add_mda_topology_to_frame_data()
      • frame_data_to_mdanalysis()
      • mdanalysis_to_frame_data()
      • nullable_int()
    • nanover.mdanalysis.universe module
      • KeyConversion
      • NanoverParser
      • NanoverReader
      • batched()
      • explosion_mask()
      • has_topology()
• nanover.nglview package
  • Submodules
    • nanover.nglview.nglclient module
      • FrameDataStructure
      • NGLClient
      • fill_empty_fields()
      • frame_data_to_nglwidget()
      • frame_data_to_pdb()
      • mda_to_pdb_str()
• nanover.omni package
  • Submodules
    • nanover.omni.ase_omm module
      • ASEOpenMMSimulation
      • InitialState
    • nanover.omni.cli module
      • get_all_paths()
      • handle_user_arguments()
      • initialise_runner()
      • main()
    • nanover.omni.omni module
      • InternalRunner
      • OmniRunner
      • Simulation
    • nanover.omni.openmm module
      • OpenMMSimulation
    • nanover.omni.playback module
      • PlaybackSimulation
    • nanover.omni.record module
      • record_from_server()
      • record_state()
      • record_trajectory()
    • nanover.omni.rich module
• nanover.openmm package
  • Submodules
    • nanover.openmm.cli module
      • main()
    • nanover.openmm.converter module
      • add_openmm_state_to_frame_data()
      • add_openmm_topology_to_frame_data()
      • openmm_to_frame_data()
    • nanover.openmm.imd module
      • ImdForceManager
      • NanoverImdReporter
      • NextReport
      • add_imd_force_to_system()
      • create_imd_force()
      • get_imd_forces_from_system()
      • get_sparse_forces()
      • populate_imd_force()
    • nanover.openmm.nanoverreporter module
      • NanoverReporter
    • nanover.openmm.potentials module
      • restrain_particles()
      • restraint_force()
    • nanover.openmm.runner module
      • OpenMMRunner
      • SimulationEntry
    • nanover.openmm.serializer module
      • deserialize_simulation()
      • serialize_simulation()
• nanover.protocol namespace
  • Subpackages
    • nanover.protocol.command package
      • Submodules
    • nanover.protocol.state package
      • Submodules
    • nanover.protocol.trajectory package
      • Submodules
  • Submodules
    • nanover.protocol.array_pb2 module
      • FloatArray
      • IndexArray
      • StringArray
      • ValueArray
    • nanover.protocol.array_pb2_grpc module
• nanover.recording namespace
  • Submodules
    • nanover.recording.reading module
      • InvalidMagicNumber
      • Parseable
      • UnsupportedFormatVersion
      • advance_to_first_coordinate_frame()
      • advance_to_first_particle_frame()
      • iter_recording_buffers()
      • iter_recording_entries()
      • iter_recording_files()
      • iter_state_file()
      • iter_state_recording()
      • iter_trajectory_file()
      • iter_trajectory_recording()
      • iter_trajectory_with_elapsed_integrated()
      • read()
      • read_u128()
      • read_u64()
    • nanover.recording.writing module
      • Serializable
      • record_entries()
      • record_messages()
      • record_messages_to_file()
      • write_entry()
      • write_header()
      • write_u128()
      • write_u64()
• nanover.state namespace
  • Submodules
    • nanover.state.state_dictionary module
      • StateDictionary
    • nanover.state.state_service module
      • StateService
      • dictionary_change_to_state_update()
      • locks_update_to_acquire_release()
      • state_update_to_dictionary_change()
      • validate_dict_is_serializable()
• nanover.testing package
  • Submodules
    • nanover.testing.asserts module
      • assert_equal_soon()
      • assert_in_soon()
      • assert_not_in_soon()
• nanover.trajectory package
  • Submodules
    • nanover.trajectory.frame_client module
      • FrameClient
    • nanover.trajectory.frame_data module
      • ArraysView
      • FrameData
      • MissingDataError
      • RecordView
      • ValuesView
    • nanover.trajectory.frame_publisher module
      • FramePublisher
    • nanover.trajectory.frame_server module
      • FrameServer
• nanover.utilities package
  • Submodules
    • nanover.utilities.change_buffers module
      • DictionaryChange
      • DictionaryChangeBuffer
      • DictionaryChangeMultiView
      • ObjectFrozenError
    • nanover.utilities.event module
      • Event
    • nanover.utilities.grpc_utilities module
      • RpcAlreadyTerminatedError
      • subscribe_channel_connectivity_change()
      • subscribe_rpc_termination()
    • nanover.utilities.key_lockable_map module
      • KeyLockableMap
      • ResourceLockedError
    • nanover.utilities.protobuf_utilities module
      • deep_copy_serializable_dict()
      • dict_to_struct()
      • list_value_to_list()
      • object_to_value()
      • struct_to_dict()
      • value_to_object()
    • nanover.utilities.request_queues module
      • DictOfQueues
      • GetFrameResponseAggregatingQueue
      • SingleItemQueue
    • nanover.utilities.timing module
      • VariableIntervalGenerator
      • wait_busy()
      • wait_mixed()
      • yield_interval()