opentrons 8.6.0a1__py3-none-any.whl
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- opentrons/__init__.py +150 -0
- opentrons/_version.py +34 -0
- opentrons/calibration_storage/__init__.py +54 -0
- opentrons/calibration_storage/deck_configuration.py +62 -0
- opentrons/calibration_storage/encoder_decoder.py +31 -0
- opentrons/calibration_storage/file_operators.py +142 -0
- opentrons/calibration_storage/helpers.py +103 -0
- opentrons/calibration_storage/ot2/__init__.py +34 -0
- opentrons/calibration_storage/ot2/deck_attitude.py +85 -0
- opentrons/calibration_storage/ot2/mark_bad_calibration.py +27 -0
- opentrons/calibration_storage/ot2/models/__init__.py +0 -0
- opentrons/calibration_storage/ot2/models/v1.py +149 -0
- opentrons/calibration_storage/ot2/pipette_offset.py +129 -0
- opentrons/calibration_storage/ot2/tip_length.py +281 -0
- opentrons/calibration_storage/ot3/__init__.py +31 -0
- opentrons/calibration_storage/ot3/deck_attitude.py +83 -0
- opentrons/calibration_storage/ot3/gripper_offset.py +156 -0
- opentrons/calibration_storage/ot3/models/__init__.py +0 -0
- opentrons/calibration_storage/ot3/models/v1.py +122 -0
- opentrons/calibration_storage/ot3/module_offset.py +138 -0
- opentrons/calibration_storage/ot3/pipette_offset.py +95 -0
- opentrons/calibration_storage/types.py +45 -0
- opentrons/cli/__init__.py +21 -0
- opentrons/cli/__main__.py +5 -0
- opentrons/cli/analyze.py +501 -0
- opentrons/config/__init__.py +631 -0
- opentrons/config/advanced_settings.py +871 -0
- opentrons/config/defaults_ot2.py +214 -0
- opentrons/config/defaults_ot3.py +499 -0
- opentrons/config/feature_flags.py +86 -0
- opentrons/config/gripper_config.py +55 -0
- opentrons/config/reset.py +203 -0
- opentrons/config/robot_configs.py +187 -0
- opentrons/config/types.py +183 -0
- opentrons/drivers/__init__.py +0 -0
- opentrons/drivers/absorbance_reader/__init__.py +11 -0
- opentrons/drivers/absorbance_reader/abstract.py +72 -0
- opentrons/drivers/absorbance_reader/async_byonoy.py +352 -0
- opentrons/drivers/absorbance_reader/driver.py +81 -0
- opentrons/drivers/absorbance_reader/hid_protocol.py +161 -0
- opentrons/drivers/absorbance_reader/simulator.py +84 -0
- opentrons/drivers/asyncio/__init__.py +0 -0
- opentrons/drivers/asyncio/communication/__init__.py +22 -0
- opentrons/drivers/asyncio/communication/async_serial.py +183 -0
- opentrons/drivers/asyncio/communication/errors.py +88 -0
- opentrons/drivers/asyncio/communication/serial_connection.py +552 -0
- opentrons/drivers/command_builder.py +102 -0
- opentrons/drivers/flex_stacker/__init__.py +13 -0
- opentrons/drivers/flex_stacker/abstract.py +214 -0
- opentrons/drivers/flex_stacker/driver.py +768 -0
- opentrons/drivers/flex_stacker/errors.py +68 -0
- opentrons/drivers/flex_stacker/simulator.py +309 -0
- opentrons/drivers/flex_stacker/types.py +367 -0
- opentrons/drivers/flex_stacker/utils.py +19 -0
- opentrons/drivers/heater_shaker/__init__.py +5 -0
- opentrons/drivers/heater_shaker/abstract.py +76 -0
- opentrons/drivers/heater_shaker/driver.py +204 -0
- opentrons/drivers/heater_shaker/simulator.py +94 -0
- opentrons/drivers/mag_deck/__init__.py +6 -0
- opentrons/drivers/mag_deck/abstract.py +44 -0
- opentrons/drivers/mag_deck/driver.py +208 -0
- opentrons/drivers/mag_deck/simulator.py +63 -0
- opentrons/drivers/rpi_drivers/__init__.py +33 -0
- opentrons/drivers/rpi_drivers/dev_types.py +94 -0
- opentrons/drivers/rpi_drivers/gpio.py +282 -0
- opentrons/drivers/rpi_drivers/gpio_simulator.py +127 -0
- opentrons/drivers/rpi_drivers/interfaces.py +15 -0
- opentrons/drivers/rpi_drivers/types.py +364 -0
- opentrons/drivers/rpi_drivers/usb.py +102 -0
- opentrons/drivers/rpi_drivers/usb_simulator.py +22 -0
- opentrons/drivers/serial_communication.py +151 -0
- opentrons/drivers/smoothie_drivers/__init__.py +4 -0
- opentrons/drivers/smoothie_drivers/connection.py +51 -0
- opentrons/drivers/smoothie_drivers/constants.py +121 -0
- opentrons/drivers/smoothie_drivers/driver_3_0.py +1933 -0
- opentrons/drivers/smoothie_drivers/errors.py +49 -0
- opentrons/drivers/smoothie_drivers/parse_utils.py +143 -0
- opentrons/drivers/smoothie_drivers/simulator.py +99 -0
- opentrons/drivers/smoothie_drivers/types.py +16 -0
- opentrons/drivers/temp_deck/__init__.py +10 -0
- opentrons/drivers/temp_deck/abstract.py +54 -0
- opentrons/drivers/temp_deck/driver.py +197 -0
- opentrons/drivers/temp_deck/simulator.py +57 -0
- opentrons/drivers/thermocycler/__init__.py +12 -0
- opentrons/drivers/thermocycler/abstract.py +99 -0
- opentrons/drivers/thermocycler/driver.py +395 -0
- opentrons/drivers/thermocycler/simulator.py +126 -0
- opentrons/drivers/types.py +107 -0
- opentrons/drivers/utils.py +222 -0
- opentrons/execute.py +742 -0
- opentrons/hardware_control/__init__.py +65 -0
- opentrons/hardware_control/__main__.py +77 -0
- opentrons/hardware_control/adapters.py +98 -0
- opentrons/hardware_control/api.py +1347 -0
- opentrons/hardware_control/backends/__init__.py +7 -0
- opentrons/hardware_control/backends/controller.py +400 -0
- opentrons/hardware_control/backends/errors.py +9 -0
- opentrons/hardware_control/backends/estop_state.py +164 -0
- opentrons/hardware_control/backends/flex_protocol.py +497 -0
- opentrons/hardware_control/backends/ot3controller.py +1930 -0
- opentrons/hardware_control/backends/ot3simulator.py +900 -0
- opentrons/hardware_control/backends/ot3utils.py +664 -0
- opentrons/hardware_control/backends/simulator.py +442 -0
- opentrons/hardware_control/backends/status_bar_state.py +240 -0
- opentrons/hardware_control/backends/subsystem_manager.py +431 -0
- opentrons/hardware_control/backends/tip_presence_manager.py +173 -0
- opentrons/hardware_control/backends/types.py +14 -0
- opentrons/hardware_control/constants.py +6 -0
- opentrons/hardware_control/dev_types.py +125 -0
- opentrons/hardware_control/emulation/__init__.py +0 -0
- opentrons/hardware_control/emulation/abstract_emulator.py +21 -0
- opentrons/hardware_control/emulation/app.py +56 -0
- opentrons/hardware_control/emulation/connection_handler.py +38 -0
- opentrons/hardware_control/emulation/heater_shaker.py +150 -0
- opentrons/hardware_control/emulation/magdeck.py +60 -0
- opentrons/hardware_control/emulation/module_server/__init__.py +8 -0
- opentrons/hardware_control/emulation/module_server/client.py +78 -0
- opentrons/hardware_control/emulation/module_server/helpers.py +130 -0
- opentrons/hardware_control/emulation/module_server/models.py +31 -0
- opentrons/hardware_control/emulation/module_server/server.py +110 -0
- opentrons/hardware_control/emulation/parser.py +74 -0
- opentrons/hardware_control/emulation/proxy.py +241 -0
- opentrons/hardware_control/emulation/run_emulator.py +68 -0
- opentrons/hardware_control/emulation/scripts/__init__.py +0 -0
- opentrons/hardware_control/emulation/scripts/run_app.py +54 -0
- opentrons/hardware_control/emulation/scripts/run_module_emulator.py +72 -0
- opentrons/hardware_control/emulation/scripts/run_smoothie.py +37 -0
- opentrons/hardware_control/emulation/settings.py +119 -0
- opentrons/hardware_control/emulation/simulations.py +133 -0
- opentrons/hardware_control/emulation/smoothie.py +192 -0
- opentrons/hardware_control/emulation/tempdeck.py +69 -0
- opentrons/hardware_control/emulation/thermocycler.py +128 -0
- opentrons/hardware_control/emulation/types.py +10 -0
- opentrons/hardware_control/emulation/util.py +38 -0
- opentrons/hardware_control/errors.py +43 -0
- opentrons/hardware_control/execution_manager.py +164 -0
- opentrons/hardware_control/instruments/__init__.py +5 -0
- opentrons/hardware_control/instruments/instrument_abc.py +39 -0
- opentrons/hardware_control/instruments/ot2/__init__.py +0 -0
- opentrons/hardware_control/instruments/ot2/instrument_calibration.py +152 -0
- opentrons/hardware_control/instruments/ot2/pipette.py +777 -0
- opentrons/hardware_control/instruments/ot2/pipette_handler.py +995 -0
- opentrons/hardware_control/instruments/ot3/__init__.py +0 -0
- opentrons/hardware_control/instruments/ot3/gripper.py +420 -0
- opentrons/hardware_control/instruments/ot3/gripper_handler.py +173 -0
- opentrons/hardware_control/instruments/ot3/instrument_calibration.py +214 -0
- opentrons/hardware_control/instruments/ot3/pipette.py +858 -0
- opentrons/hardware_control/instruments/ot3/pipette_handler.py +1030 -0
- opentrons/hardware_control/module_control.py +332 -0
- opentrons/hardware_control/modules/__init__.py +69 -0
- opentrons/hardware_control/modules/absorbance_reader.py +373 -0
- opentrons/hardware_control/modules/errors.py +7 -0
- opentrons/hardware_control/modules/flex_stacker.py +948 -0
- opentrons/hardware_control/modules/heater_shaker.py +426 -0
- opentrons/hardware_control/modules/lid_temp_status.py +35 -0
- opentrons/hardware_control/modules/magdeck.py +233 -0
- opentrons/hardware_control/modules/mod_abc.py +245 -0
- opentrons/hardware_control/modules/module_calibration.py +93 -0
- opentrons/hardware_control/modules/plate_temp_status.py +61 -0
- opentrons/hardware_control/modules/tempdeck.py +299 -0
- opentrons/hardware_control/modules/thermocycler.py +731 -0
- opentrons/hardware_control/modules/types.py +417 -0
- opentrons/hardware_control/modules/update.py +255 -0
- opentrons/hardware_control/modules/utils.py +73 -0
- opentrons/hardware_control/motion_utilities.py +318 -0
- opentrons/hardware_control/nozzle_manager.py +422 -0
- opentrons/hardware_control/ot3_calibration.py +1171 -0
- opentrons/hardware_control/ot3api.py +3227 -0
- opentrons/hardware_control/pause_manager.py +31 -0
- opentrons/hardware_control/poller.py +112 -0
- opentrons/hardware_control/protocols/__init__.py +106 -0
- opentrons/hardware_control/protocols/asyncio_configurable.py +11 -0
- opentrons/hardware_control/protocols/calibratable.py +45 -0
- opentrons/hardware_control/protocols/chassis_accessory_manager.py +90 -0
- opentrons/hardware_control/protocols/configurable.py +48 -0
- opentrons/hardware_control/protocols/event_sourcer.py +18 -0
- opentrons/hardware_control/protocols/execution_controllable.py +33 -0
- opentrons/hardware_control/protocols/flex_calibratable.py +96 -0
- opentrons/hardware_control/protocols/flex_instrument_configurer.py +52 -0
- opentrons/hardware_control/protocols/gripper_controller.py +55 -0
- opentrons/hardware_control/protocols/hardware_manager.py +51 -0
- opentrons/hardware_control/protocols/identifiable.py +16 -0
- opentrons/hardware_control/protocols/instrument_configurer.py +206 -0
- opentrons/hardware_control/protocols/liquid_handler.py +266 -0
- opentrons/hardware_control/protocols/module_provider.py +16 -0
- opentrons/hardware_control/protocols/motion_controller.py +243 -0
- opentrons/hardware_control/protocols/position_estimator.py +45 -0
- opentrons/hardware_control/protocols/simulatable.py +10 -0
- opentrons/hardware_control/protocols/stoppable.py +9 -0
- opentrons/hardware_control/protocols/types.py +27 -0
- opentrons/hardware_control/robot_calibration.py +224 -0
- opentrons/hardware_control/scripts/README.md +28 -0
- opentrons/hardware_control/scripts/__init__.py +1 -0
- opentrons/hardware_control/scripts/gripper_control.py +208 -0
- opentrons/hardware_control/scripts/ot3gripper +7 -0
- opentrons/hardware_control/scripts/ot3repl +7 -0
- opentrons/hardware_control/scripts/repl.py +187 -0
- opentrons/hardware_control/scripts/tc_control.py +97 -0
- opentrons/hardware_control/simulator_setup.py +260 -0
- opentrons/hardware_control/thread_manager.py +431 -0
- opentrons/hardware_control/threaded_async_lock.py +97 -0
- opentrons/hardware_control/types.py +792 -0
- opentrons/hardware_control/util.py +234 -0
- opentrons/legacy_broker.py +53 -0
- opentrons/legacy_commands/__init__.py +1 -0
- opentrons/legacy_commands/commands.py +483 -0
- opentrons/legacy_commands/helpers.py +153 -0
- opentrons/legacy_commands/module_commands.py +215 -0
- opentrons/legacy_commands/protocol_commands.py +54 -0
- opentrons/legacy_commands/publisher.py +155 -0
- opentrons/legacy_commands/robot_commands.py +51 -0
- opentrons/legacy_commands/types.py +1115 -0
- opentrons/motion_planning/__init__.py +32 -0
- opentrons/motion_planning/adjacent_slots_getters.py +168 -0
- opentrons/motion_planning/deck_conflict.py +396 -0
- opentrons/motion_planning/errors.py +35 -0
- opentrons/motion_planning/types.py +42 -0
- opentrons/motion_planning/waypoints.py +218 -0
- opentrons/ordered_set.py +138 -0
- opentrons/protocol_api/__init__.py +105 -0
- opentrons/protocol_api/_liquid.py +157 -0
- opentrons/protocol_api/_liquid_properties.py +814 -0
- opentrons/protocol_api/_nozzle_layout.py +31 -0
- opentrons/protocol_api/_parameter_context.py +300 -0
- opentrons/protocol_api/_parameters.py +31 -0
- opentrons/protocol_api/_transfer_liquid_validation.py +108 -0
- opentrons/protocol_api/_types.py +43 -0
- opentrons/protocol_api/config.py +23 -0
- opentrons/protocol_api/core/__init__.py +23 -0
- opentrons/protocol_api/core/common.py +33 -0
- opentrons/protocol_api/core/core_map.py +74 -0
- opentrons/protocol_api/core/engine/__init__.py +22 -0
- opentrons/protocol_api/core/engine/_default_labware_versions.py +179 -0
- opentrons/protocol_api/core/engine/deck_conflict.py +348 -0
- opentrons/protocol_api/core/engine/exceptions.py +19 -0
- opentrons/protocol_api/core/engine/instrument.py +2391 -0
- opentrons/protocol_api/core/engine/labware.py +238 -0
- opentrons/protocol_api/core/engine/load_labware_params.py +73 -0
- opentrons/protocol_api/core/engine/module_core.py +1025 -0
- opentrons/protocol_api/core/engine/overlap_versions.py +20 -0
- opentrons/protocol_api/core/engine/pipette_movement_conflict.py +358 -0
- opentrons/protocol_api/core/engine/point_calculations.py +64 -0
- opentrons/protocol_api/core/engine/protocol.py +1153 -0
- opentrons/protocol_api/core/engine/robot.py +139 -0
- opentrons/protocol_api/core/engine/stringify.py +74 -0
- opentrons/protocol_api/core/engine/transfer_components_executor.py +990 -0
- opentrons/protocol_api/core/engine/well.py +241 -0
- opentrons/protocol_api/core/instrument.py +459 -0
- opentrons/protocol_api/core/labware.py +151 -0
- opentrons/protocol_api/core/legacy/__init__.py +11 -0
- opentrons/protocol_api/core/legacy/_labware_geometry.py +37 -0
- opentrons/protocol_api/core/legacy/deck.py +369 -0
- opentrons/protocol_api/core/legacy/labware_offset_provider.py +108 -0
- opentrons/protocol_api/core/legacy/legacy_instrument_core.py +709 -0
- opentrons/protocol_api/core/legacy/legacy_labware_core.py +235 -0
- opentrons/protocol_api/core/legacy/legacy_module_core.py +592 -0
- opentrons/protocol_api/core/legacy/legacy_protocol_core.py +612 -0
- opentrons/protocol_api/core/legacy/legacy_well_core.py +162 -0
- opentrons/protocol_api/core/legacy/load_info.py +67 -0
- opentrons/protocol_api/core/legacy/module_geometry.py +547 -0
- opentrons/protocol_api/core/legacy/well_geometry.py +148 -0
- opentrons/protocol_api/core/legacy_simulator/__init__.py +16 -0
- opentrons/protocol_api/core/legacy_simulator/legacy_instrument_core.py +624 -0
- opentrons/protocol_api/core/legacy_simulator/legacy_protocol_core.py +85 -0
- opentrons/protocol_api/core/module.py +484 -0
- opentrons/protocol_api/core/protocol.py +311 -0
- opentrons/protocol_api/core/robot.py +51 -0
- opentrons/protocol_api/core/well.py +116 -0
- opentrons/protocol_api/core/well_grid.py +45 -0
- opentrons/protocol_api/create_protocol_context.py +177 -0
- opentrons/protocol_api/deck.py +223 -0
- opentrons/protocol_api/disposal_locations.py +244 -0
- opentrons/protocol_api/instrument_context.py +3212 -0
- opentrons/protocol_api/labware.py +1579 -0
- opentrons/protocol_api/module_contexts.py +1425 -0
- opentrons/protocol_api/module_validation_and_errors.py +61 -0
- opentrons/protocol_api/protocol_context.py +1688 -0
- opentrons/protocol_api/robot_context.py +303 -0
- opentrons/protocol_api/validation.py +761 -0
- opentrons/protocol_engine/__init__.py +155 -0
- opentrons/protocol_engine/actions/__init__.py +65 -0
- opentrons/protocol_engine/actions/action_dispatcher.py +30 -0
- opentrons/protocol_engine/actions/action_handler.py +13 -0
- opentrons/protocol_engine/actions/actions.py +302 -0
- opentrons/protocol_engine/actions/get_state_update.py +38 -0
- opentrons/protocol_engine/clients/__init__.py +5 -0
- opentrons/protocol_engine/clients/sync_client.py +174 -0
- opentrons/protocol_engine/clients/transports.py +197 -0
- opentrons/protocol_engine/commands/__init__.py +757 -0
- opentrons/protocol_engine/commands/absorbance_reader/__init__.py +61 -0
- opentrons/protocol_engine/commands/absorbance_reader/close_lid.py +154 -0
- opentrons/protocol_engine/commands/absorbance_reader/common.py +6 -0
- opentrons/protocol_engine/commands/absorbance_reader/initialize.py +151 -0
- opentrons/protocol_engine/commands/absorbance_reader/open_lid.py +154 -0
- opentrons/protocol_engine/commands/absorbance_reader/read.py +226 -0
- opentrons/protocol_engine/commands/air_gap_in_place.py +162 -0
- opentrons/protocol_engine/commands/aspirate.py +244 -0
- opentrons/protocol_engine/commands/aspirate_in_place.py +184 -0
- opentrons/protocol_engine/commands/aspirate_while_tracking.py +211 -0
- opentrons/protocol_engine/commands/blow_out.py +146 -0
- opentrons/protocol_engine/commands/blow_out_in_place.py +119 -0
- opentrons/protocol_engine/commands/calibration/__init__.py +60 -0
- opentrons/protocol_engine/commands/calibration/calibrate_gripper.py +166 -0
- opentrons/protocol_engine/commands/calibration/calibrate_module.py +117 -0
- opentrons/protocol_engine/commands/calibration/calibrate_pipette.py +96 -0
- opentrons/protocol_engine/commands/calibration/move_to_maintenance_position.py +156 -0
- opentrons/protocol_engine/commands/command.py +308 -0
- opentrons/protocol_engine/commands/command_unions.py +974 -0
- opentrons/protocol_engine/commands/comment.py +57 -0
- opentrons/protocol_engine/commands/configure_for_volume.py +108 -0
- opentrons/protocol_engine/commands/configure_nozzle_layout.py +115 -0
- opentrons/protocol_engine/commands/custom.py +67 -0
- opentrons/protocol_engine/commands/dispense.py +194 -0
- opentrons/protocol_engine/commands/dispense_in_place.py +179 -0
- opentrons/protocol_engine/commands/dispense_while_tracking.py +204 -0
- opentrons/protocol_engine/commands/drop_tip.py +232 -0
- opentrons/protocol_engine/commands/drop_tip_in_place.py +205 -0
- opentrons/protocol_engine/commands/flex_stacker/__init__.py +64 -0
- opentrons/protocol_engine/commands/flex_stacker/common.py +900 -0
- opentrons/protocol_engine/commands/flex_stacker/empty.py +293 -0
- opentrons/protocol_engine/commands/flex_stacker/fill.py +281 -0
- opentrons/protocol_engine/commands/flex_stacker/retrieve.py +339 -0
- opentrons/protocol_engine/commands/flex_stacker/set_stored_labware.py +328 -0
- opentrons/protocol_engine/commands/flex_stacker/store.py +326 -0
- opentrons/protocol_engine/commands/generate_command_schema.py +61 -0
- opentrons/protocol_engine/commands/get_next_tip.py +134 -0
- opentrons/protocol_engine/commands/get_tip_presence.py +87 -0
- opentrons/protocol_engine/commands/hash_command_params.py +38 -0
- opentrons/protocol_engine/commands/heater_shaker/__init__.py +102 -0
- opentrons/protocol_engine/commands/heater_shaker/close_labware_latch.py +83 -0
- opentrons/protocol_engine/commands/heater_shaker/deactivate_heater.py +82 -0
- opentrons/protocol_engine/commands/heater_shaker/deactivate_shaker.py +84 -0
- opentrons/protocol_engine/commands/heater_shaker/open_labware_latch.py +110 -0
- opentrons/protocol_engine/commands/heater_shaker/set_and_wait_for_shake_speed.py +125 -0
- opentrons/protocol_engine/commands/heater_shaker/set_target_temperature.py +90 -0
- opentrons/protocol_engine/commands/heater_shaker/wait_for_temperature.py +102 -0
- opentrons/protocol_engine/commands/home.py +100 -0
- opentrons/protocol_engine/commands/identify_module.py +86 -0
- opentrons/protocol_engine/commands/labware_handling_common.py +29 -0
- opentrons/protocol_engine/commands/liquid_probe.py +464 -0
- opentrons/protocol_engine/commands/load_labware.py +210 -0
- opentrons/protocol_engine/commands/load_lid.py +154 -0
- opentrons/protocol_engine/commands/load_lid_stack.py +272 -0
- opentrons/protocol_engine/commands/load_liquid.py +95 -0
- opentrons/protocol_engine/commands/load_liquid_class.py +144 -0
- opentrons/protocol_engine/commands/load_module.py +223 -0
- opentrons/protocol_engine/commands/load_pipette.py +167 -0
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- opentrons/protocol_engine/commands/magnetic_module/disengage.py +97 -0
- opentrons/protocol_engine/commands/magnetic_module/engage.py +119 -0
- opentrons/protocol_engine/commands/move_labware.py +546 -0
- opentrons/protocol_engine/commands/move_relative.py +102 -0
- opentrons/protocol_engine/commands/move_to_addressable_area.py +176 -0
- opentrons/protocol_engine/commands/move_to_addressable_area_for_drop_tip.py +198 -0
- opentrons/protocol_engine/commands/move_to_coordinates.py +107 -0
- opentrons/protocol_engine/commands/move_to_well.py +119 -0
- opentrons/protocol_engine/commands/movement_common.py +338 -0
- opentrons/protocol_engine/commands/pick_up_tip.py +241 -0
- opentrons/protocol_engine/commands/pipetting_common.py +443 -0
- opentrons/protocol_engine/commands/prepare_to_aspirate.py +121 -0
- opentrons/protocol_engine/commands/pressure_dispense.py +155 -0
- opentrons/protocol_engine/commands/reload_labware.py +90 -0
- opentrons/protocol_engine/commands/retract_axis.py +75 -0
- opentrons/protocol_engine/commands/robot/__init__.py +70 -0
- opentrons/protocol_engine/commands/robot/close_gripper_jaw.py +96 -0
- opentrons/protocol_engine/commands/robot/common.py +18 -0
- opentrons/protocol_engine/commands/robot/move_axes_relative.py +101 -0
- opentrons/protocol_engine/commands/robot/move_axes_to.py +100 -0
- opentrons/protocol_engine/commands/robot/move_to.py +94 -0
- opentrons/protocol_engine/commands/robot/open_gripper_jaw.py +86 -0
- opentrons/protocol_engine/commands/save_position.py +109 -0
- opentrons/protocol_engine/commands/seal_pipette_to_tip.py +353 -0
- opentrons/protocol_engine/commands/set_rail_lights.py +67 -0
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- opentrons/protocol_engine/commands/temperature_module/__init__.py +46 -0
- opentrons/protocol_engine/commands/temperature_module/deactivate.py +86 -0
- opentrons/protocol_engine/commands/temperature_module/set_target_temperature.py +97 -0
- opentrons/protocol_engine/commands/temperature_module/wait_for_temperature.py +104 -0
- opentrons/protocol_engine/commands/thermocycler/__init__.py +152 -0
- opentrons/protocol_engine/commands/thermocycler/close_lid.py +87 -0
- opentrons/protocol_engine/commands/thermocycler/deactivate_block.py +80 -0
- opentrons/protocol_engine/commands/thermocycler/deactivate_lid.py +80 -0
- opentrons/protocol_engine/commands/thermocycler/open_lid.py +87 -0
- opentrons/protocol_engine/commands/thermocycler/run_extended_profile.py +171 -0
- opentrons/protocol_engine/commands/thermocycler/run_profile.py +124 -0
- opentrons/protocol_engine/commands/thermocycler/set_target_block_temperature.py +140 -0
- opentrons/protocol_engine/commands/thermocycler/set_target_lid_temperature.py +100 -0
- opentrons/protocol_engine/commands/thermocycler/wait_for_block_temperature.py +93 -0
- opentrons/protocol_engine/commands/thermocycler/wait_for_lid_temperature.py +89 -0
- opentrons/protocol_engine/commands/touch_tip.py +189 -0
- opentrons/protocol_engine/commands/unsafe/__init__.py +161 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_blow_out_in_place.py +100 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_drop_tip_in_place.py +121 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_engage_axes.py +82 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_place_labware.py +208 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_stacker_close_latch.py +94 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_stacker_manual_retrieve.py +295 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_stacker_open_latch.py +91 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_stacker_prepare_shuttle.py +136 -0
- opentrons/protocol_engine/commands/unsafe/unsafe_ungrip_labware.py +77 -0
- opentrons/protocol_engine/commands/unsafe/update_position_estimators.py +90 -0
- opentrons/protocol_engine/commands/unseal_pipette_from_tip.py +153 -0
- opentrons/protocol_engine/commands/verify_tip_presence.py +100 -0
- opentrons/protocol_engine/commands/wait_for_duration.py +76 -0
- opentrons/protocol_engine/commands/wait_for_resume.py +75 -0
- opentrons/protocol_engine/create_protocol_engine.py +193 -0
- opentrons/protocol_engine/engine_support.py +28 -0
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- opentrons/protocol_engine/errors/__init__.py +191 -0
- opentrons/protocol_engine/errors/error_occurrence.py +182 -0
- opentrons/protocol_engine/errors/exceptions.py +1308 -0
- opentrons/protocol_engine/execution/__init__.py +50 -0
- opentrons/protocol_engine/execution/command_executor.py +216 -0
- opentrons/protocol_engine/execution/create_queue_worker.py +102 -0
- opentrons/protocol_engine/execution/door_watcher.py +119 -0
- opentrons/protocol_engine/execution/equipment.py +819 -0
- opentrons/protocol_engine/execution/error_recovery_hardware_state_synchronizer.py +101 -0
- opentrons/protocol_engine/execution/gantry_mover.py +686 -0
- opentrons/protocol_engine/execution/hardware_stopper.py +147 -0
- opentrons/protocol_engine/execution/heater_shaker_movement_flagger.py +207 -0
- opentrons/protocol_engine/execution/labware_movement.py +297 -0
- opentrons/protocol_engine/execution/movement.py +349 -0
- opentrons/protocol_engine/execution/pipetting.py +607 -0
- opentrons/protocol_engine/execution/queue_worker.py +86 -0
- opentrons/protocol_engine/execution/rail_lights.py +25 -0
- opentrons/protocol_engine/execution/run_control.py +33 -0
- opentrons/protocol_engine/execution/status_bar.py +34 -0
- opentrons/protocol_engine/execution/thermocycler_movement_flagger.py +188 -0
- opentrons/protocol_engine/execution/thermocycler_plate_lifter.py +81 -0
- opentrons/protocol_engine/execution/tip_handler.py +550 -0
- opentrons/protocol_engine/labware_offset_standardization.py +194 -0
- opentrons/protocol_engine/notes/__init__.py +17 -0
- opentrons/protocol_engine/notes/notes.py +59 -0
- opentrons/protocol_engine/plugins.py +104 -0
- opentrons/protocol_engine/protocol_engine.py +683 -0
- opentrons/protocol_engine/resources/__init__.py +26 -0
- opentrons/protocol_engine/resources/deck_configuration_provider.py +232 -0
- opentrons/protocol_engine/resources/deck_data_provider.py +94 -0
- opentrons/protocol_engine/resources/file_provider.py +161 -0
- opentrons/protocol_engine/resources/fixture_validation.py +58 -0
- opentrons/protocol_engine/resources/labware_data_provider.py +106 -0
- opentrons/protocol_engine/resources/labware_validation.py +73 -0
- opentrons/protocol_engine/resources/model_utils.py +32 -0
- opentrons/protocol_engine/resources/module_data_provider.py +44 -0
- opentrons/protocol_engine/resources/ot3_validation.py +21 -0
- opentrons/protocol_engine/resources/pipette_data_provider.py +379 -0
- opentrons/protocol_engine/slot_standardization.py +128 -0
- opentrons/protocol_engine/state/__init__.py +1 -0
- opentrons/protocol_engine/state/_abstract_store.py +27 -0
- opentrons/protocol_engine/state/_axis_aligned_bounding_box.py +50 -0
- opentrons/protocol_engine/state/_labware_origin_math.py +636 -0
- opentrons/protocol_engine/state/_move_types.py +83 -0
- opentrons/protocol_engine/state/_well_math.py +193 -0
- opentrons/protocol_engine/state/addressable_areas.py +699 -0
- opentrons/protocol_engine/state/command_history.py +309 -0
- opentrons/protocol_engine/state/commands.py +1158 -0
- opentrons/protocol_engine/state/config.py +39 -0
- opentrons/protocol_engine/state/files.py +57 -0
- opentrons/protocol_engine/state/fluid_stack.py +138 -0
- opentrons/protocol_engine/state/geometry.py +2359 -0
- opentrons/protocol_engine/state/inner_well_math_utils.py +548 -0
- opentrons/protocol_engine/state/labware.py +1459 -0
- opentrons/protocol_engine/state/liquid_classes.py +82 -0
- opentrons/protocol_engine/state/liquids.py +73 -0
- opentrons/protocol_engine/state/module_substates/__init__.py +45 -0
- opentrons/protocol_engine/state/module_substates/absorbance_reader_substate.py +35 -0
- opentrons/protocol_engine/state/module_substates/flex_stacker_substate.py +112 -0
- opentrons/protocol_engine/state/module_substates/heater_shaker_module_substate.py +115 -0
- opentrons/protocol_engine/state/module_substates/magnetic_block_substate.py +17 -0
- opentrons/protocol_engine/state/module_substates/magnetic_module_substate.py +65 -0
- opentrons/protocol_engine/state/module_substates/temperature_module_substate.py +67 -0
- opentrons/protocol_engine/state/module_substates/thermocycler_module_substate.py +163 -0
- opentrons/protocol_engine/state/modules.py +1500 -0
- opentrons/protocol_engine/state/motion.py +373 -0
- opentrons/protocol_engine/state/pipettes.py +905 -0
- opentrons/protocol_engine/state/state.py +421 -0
- opentrons/protocol_engine/state/state_summary.py +36 -0
- opentrons/protocol_engine/state/tips.py +420 -0
- opentrons/protocol_engine/state/update_types.py +904 -0
- opentrons/protocol_engine/state/wells.py +290 -0
- opentrons/protocol_engine/types/__init__.py +308 -0
- opentrons/protocol_engine/types/automatic_tip_selection.py +39 -0
- opentrons/protocol_engine/types/command_annotations.py +53 -0
- opentrons/protocol_engine/types/deck_configuration.py +81 -0
- opentrons/protocol_engine/types/execution.py +96 -0
- opentrons/protocol_engine/types/hardware_passthrough.py +25 -0
- opentrons/protocol_engine/types/instrument.py +47 -0
- opentrons/protocol_engine/types/instrument_sensors.py +47 -0
- opentrons/protocol_engine/types/labware.py +131 -0
- opentrons/protocol_engine/types/labware_movement.py +22 -0
- opentrons/protocol_engine/types/labware_offset_location.py +111 -0
- opentrons/protocol_engine/types/labware_offset_vector.py +16 -0
- opentrons/protocol_engine/types/liquid.py +40 -0
- opentrons/protocol_engine/types/liquid_class.py +59 -0
- opentrons/protocol_engine/types/liquid_handling.py +13 -0
- opentrons/protocol_engine/types/liquid_level_detection.py +191 -0
- opentrons/protocol_engine/types/location.py +194 -0
- opentrons/protocol_engine/types/module.py +303 -0
- opentrons/protocol_engine/types/partial_tip_configuration.py +76 -0
- opentrons/protocol_engine/types/run_time_parameters.py +133 -0
- opentrons/protocol_engine/types/tip.py +18 -0
- opentrons/protocol_engine/types/util.py +21 -0
- opentrons/protocol_engine/types/well_position.py +124 -0
- opentrons/protocol_reader/__init__.py +37 -0
- opentrons/protocol_reader/extract_labware_definitions.py +66 -0
- opentrons/protocol_reader/file_format_validator.py +152 -0
- opentrons/protocol_reader/file_hasher.py +27 -0
- opentrons/protocol_reader/file_identifier.py +284 -0
- opentrons/protocol_reader/file_reader_writer.py +90 -0
- opentrons/protocol_reader/input_file.py +16 -0
- opentrons/protocol_reader/protocol_files_invalid_error.py +6 -0
- opentrons/protocol_reader/protocol_reader.py +188 -0
- opentrons/protocol_reader/protocol_source.py +124 -0
- opentrons/protocol_reader/role_analyzer.py +86 -0
- opentrons/protocol_runner/__init__.py +26 -0
- opentrons/protocol_runner/create_simulating_orchestrator.py +118 -0
- opentrons/protocol_runner/json_file_reader.py +55 -0
- opentrons/protocol_runner/json_translator.py +314 -0
- opentrons/protocol_runner/legacy_command_mapper.py +848 -0
- opentrons/protocol_runner/legacy_context_plugin.py +116 -0
- opentrons/protocol_runner/protocol_runner.py +530 -0
- opentrons/protocol_runner/python_protocol_wrappers.py +179 -0
- opentrons/protocol_runner/run_orchestrator.py +496 -0
- opentrons/protocol_runner/task_queue.py +95 -0
- opentrons/protocols/__init__.py +6 -0
- opentrons/protocols/advanced_control/__init__.py +0 -0
- opentrons/protocols/advanced_control/common.py +38 -0
- opentrons/protocols/advanced_control/mix.py +60 -0
- opentrons/protocols/advanced_control/transfers/__init__.py +0 -0
- opentrons/protocols/advanced_control/transfers/common.py +180 -0
- opentrons/protocols/advanced_control/transfers/transfer.py +972 -0
- opentrons/protocols/advanced_control/transfers/transfer_liquid_utils.py +231 -0
- opentrons/protocols/api_support/__init__.py +0 -0
- opentrons/protocols/api_support/constants.py +8 -0
- opentrons/protocols/api_support/deck_type.py +110 -0
- opentrons/protocols/api_support/definitions.py +18 -0
- opentrons/protocols/api_support/instrument.py +151 -0
- opentrons/protocols/api_support/labware_like.py +233 -0
- opentrons/protocols/api_support/tip_tracker.py +175 -0
- opentrons/protocols/api_support/types.py +32 -0
- opentrons/protocols/api_support/util.py +403 -0
- opentrons/protocols/bundle.py +89 -0
- opentrons/protocols/duration/__init__.py +4 -0
- opentrons/protocols/duration/errors.py +5 -0
- opentrons/protocols/duration/estimator.py +628 -0
- opentrons/protocols/execution/__init__.py +0 -0
- opentrons/protocols/execution/dev_types.py +181 -0
- opentrons/protocols/execution/errors.py +40 -0
- opentrons/protocols/execution/execute.py +84 -0
- opentrons/protocols/execution/execute_json_v3.py +275 -0
- opentrons/protocols/execution/execute_json_v4.py +359 -0
- opentrons/protocols/execution/execute_json_v5.py +28 -0
- opentrons/protocols/execution/execute_python.py +169 -0
- opentrons/protocols/execution/json_dispatchers.py +87 -0
- opentrons/protocols/execution/types.py +7 -0
- opentrons/protocols/geometry/__init__.py +0 -0
- opentrons/protocols/geometry/planning.py +297 -0
- opentrons/protocols/labware.py +312 -0
- opentrons/protocols/models/__init__.py +0 -0
- opentrons/protocols/models/json_protocol.py +679 -0
- opentrons/protocols/parameters/__init__.py +0 -0
- opentrons/protocols/parameters/csv_parameter_definition.py +77 -0
- opentrons/protocols/parameters/csv_parameter_interface.py +96 -0
- opentrons/protocols/parameters/exceptions.py +34 -0
- opentrons/protocols/parameters/parameter_definition.py +272 -0
- opentrons/protocols/parameters/types.py +17 -0
- opentrons/protocols/parameters/validation.py +267 -0
- opentrons/protocols/parse.py +671 -0
- opentrons/protocols/types.py +159 -0
- opentrons/py.typed +0 -0
- opentrons/resources/scripts/lpc21isp +0 -0
- opentrons/resources/smoothie-edge-8414642.hex +23010 -0
- opentrons/simulate.py +1065 -0
- opentrons/system/__init__.py +6 -0
- opentrons/system/camera.py +51 -0
- opentrons/system/log_control.py +59 -0
- opentrons/system/nmcli.py +856 -0
- opentrons/system/resin.py +24 -0
- opentrons/system/smoothie_update.py +15 -0
- opentrons/system/wifi.py +204 -0
- opentrons/tools/__init__.py +0 -0
- opentrons/tools/args_handler.py +22 -0
- opentrons/tools/write_pipette_memory.py +157 -0
- opentrons/types.py +618 -0
- opentrons/util/__init__.py +1 -0
- opentrons/util/async_helpers.py +166 -0
- opentrons/util/broker.py +84 -0
- opentrons/util/change_notifier.py +47 -0
- opentrons/util/entrypoint_util.py +278 -0
- opentrons/util/get_union_elements.py +26 -0
- opentrons/util/helpers.py +6 -0
- opentrons/util/linal.py +178 -0
- opentrons/util/logging_config.py +265 -0
- opentrons/util/logging_queue_handler.py +61 -0
- opentrons/util/performance_helpers.py +157 -0
- opentrons-8.6.0a1.dist-info/METADATA +37 -0
- opentrons-8.6.0a1.dist-info/RECORD +600 -0
- opentrons-8.6.0a1.dist-info/WHEEL +4 -0
- opentrons-8.6.0a1.dist-info/entry_points.txt +3 -0
- opentrons-8.6.0a1.dist-info/licenses/LICENSE +202 -0
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"""Specify the presence of a piece of labware on the module.
|
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97
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+
|
|
98
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+
:param labware: The labware object. This object should be already
|
|
99
|
+
initialized and its parent should be set to this
|
|
100
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+
module's geometry. To initialize and load a labware
|
|
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|
+
onto the module in one step, see
|
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+
:py:meth:`load_labware`.
|
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+
:returns: The properly-linked labware object
|
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104
|
+
|
|
105
|
+
.. deprecated:: 2.14
|
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106
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+
Use :py:meth:`load_labware` or :py:meth:`load_labware_by_definition`.
|
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|
+
"""
|
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|
+
if not isinstance(self._core, LegacyModuleCore):
|
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raise UnsupportedAPIError(
|
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api_element="`ModuleContext.load_labware_object`",
|
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|
+
since_version="2.14",
|
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extra_message="Use `ModuleContext.load_labware` or `load_labware_by_definition` instead.",
|
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+
)
|
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+
|
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+
_log.warning(
|
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|
+
"`ModuleContext.load_labware_object` is an internal, deprecated method. Use `ModuleContext.load_labware` or `load_labware_by_definition` instead."
|
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+
)
|
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+
core = cast(LegacyModuleCore, self._core)
|
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+
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+
assert (
|
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+
labware.parent == core.geometry
|
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+
), "Labware is not configured with this module as its parent"
|
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+
|
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+
return core.geometry.add_labware(labware)
|
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+
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+
def load_labware(
|
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self,
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name: str,
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label: Optional[str] = None,
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namespace: Optional[str] = None,
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version: Optional[int] = None,
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adapter: Optional[str] = None,
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lid: Optional[str] = None,
|
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) -> Labware:
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+
"""Load a labware onto the module using its load parameters.
|
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+
|
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+
The parameters of this function behave like those of
|
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+
:py:obj:`ProtocolContext.load_labware` (which loads labware directly
|
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|
+
onto the deck). Note that the parameter ``name`` here corresponds to
|
|
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+
``load_name`` on the ``ProtocolContext`` function.
|
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|
+
|
|
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+
:returns: The initialized and loaded labware object.
|
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143
|
+
|
|
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|
+
.. versionadded:: 2.1
|
|
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|
+
The *label,* *namespace,* and *version* parameters.
|
|
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|
+
"""
|
|
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|
+
if self._api_version < APIVersion(2, 1) and (
|
|
148
|
+
label is not None or namespace is not None or version != 1
|
|
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|
+
):
|
|
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|
+
_log.warning(
|
|
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|
+
f"You have specified API {self.api_version}, but you "
|
|
152
|
+
"are trying to utilize new load_labware parameters in 2.1"
|
|
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|
+
)
|
|
154
|
+
|
|
155
|
+
load_location: Union[ModuleCore, LabwareCore]
|
|
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|
+
if adapter is not None:
|
|
157
|
+
if self._api_version < APIVersion(2, 15):
|
|
158
|
+
raise APIVersionError(
|
|
159
|
+
api_element="Loading a labware on an adapter",
|
|
160
|
+
until_version="2.15",
|
|
161
|
+
current_version=f"{self._api_version}",
|
|
162
|
+
)
|
|
163
|
+
loaded_adapter = self.load_adapter(
|
|
164
|
+
name=adapter,
|
|
165
|
+
namespace=namespace,
|
|
166
|
+
)
|
|
167
|
+
load_location = loaded_adapter._core
|
|
168
|
+
else:
|
|
169
|
+
load_location = self._core
|
|
170
|
+
|
|
171
|
+
name = validation.ensure_lowercase_name(name)
|
|
172
|
+
|
|
173
|
+
# todo(mm, 2024-11-08): This check belongs in opentrons.protocol_api.core.engine.deck_conflict.
|
|
174
|
+
# We're currently doing it here, at the ModuleContext level, for consistency with what
|
|
175
|
+
# ProtocolContext.load_labware() does. (It should also be moved to the deck_conflict module.)
|
|
176
|
+
if self._get_type() == "absorbanceReaderType":
|
|
177
|
+
if cast(AbsorbanceReaderCore, self._core).is_lid_on():
|
|
178
|
+
raise CommandPreconditionViolated(
|
|
179
|
+
f"Cannot load {name} onto the Absorbance Reader Module when its lid is closed."
|
|
180
|
+
)
|
|
181
|
+
|
|
182
|
+
labware_core = self._protocol_core.load_labware(
|
|
183
|
+
load_name=name,
|
|
184
|
+
label=label if label is None else str(label),
|
|
185
|
+
namespace=namespace,
|
|
186
|
+
version=version,
|
|
187
|
+
location=load_location,
|
|
188
|
+
)
|
|
189
|
+
if lid is not None:
|
|
190
|
+
if self._api_version < validation.LID_STACK_VERSION_GATE:
|
|
191
|
+
raise APIVersionError(
|
|
192
|
+
api_element="Loading a lid on a Labware",
|
|
193
|
+
until_version="2.23",
|
|
194
|
+
current_version=f"{self._api_version}",
|
|
195
|
+
)
|
|
196
|
+
self._protocol_core.load_lid(
|
|
197
|
+
load_name=lid,
|
|
198
|
+
location=labware_core,
|
|
199
|
+
namespace=namespace,
|
|
200
|
+
version=version,
|
|
201
|
+
)
|
|
202
|
+
|
|
203
|
+
if isinstance(self._core, LegacyModuleCore):
|
|
204
|
+
labware = cast(LegacyModuleCore, self._core).add_labware_core(
|
|
205
|
+
cast(LegacyLabwareCore, labware_core)
|
|
206
|
+
)
|
|
207
|
+
else:
|
|
208
|
+
labware = Labware(
|
|
209
|
+
core=labware_core,
|
|
210
|
+
api_version=self._api_version,
|
|
211
|
+
protocol_core=self._protocol_core,
|
|
212
|
+
core_map=self._core_map,
|
|
213
|
+
)
|
|
214
|
+
|
|
215
|
+
self._core_map.add(labware_core, labware)
|
|
216
|
+
|
|
217
|
+
return labware
|
|
218
|
+
|
|
219
|
+
@requires_version(2, 0)
|
|
220
|
+
def load_labware_from_definition(
|
|
221
|
+
self, definition: LabwareDefinition, label: Optional[str] = None
|
|
222
|
+
) -> Labware:
|
|
223
|
+
"""Load a labware onto the module using an inline definition.
|
|
224
|
+
|
|
225
|
+
:param definition: The labware definition.
|
|
226
|
+
:param str label: An optional special name to give the labware. If
|
|
227
|
+
specified, this is the name the labware will appear
|
|
228
|
+
as in the run log and the calibration view in the
|
|
229
|
+
Opentrons app.
|
|
230
|
+
:returns: The initialized and loaded labware object.
|
|
231
|
+
"""
|
|
232
|
+
load_params = self._protocol_core.add_labware_definition(definition)
|
|
233
|
+
|
|
234
|
+
return self.load_labware(
|
|
235
|
+
name=load_params.load_name,
|
|
236
|
+
namespace=load_params.namespace,
|
|
237
|
+
version=load_params.version,
|
|
238
|
+
label=label,
|
|
239
|
+
)
|
|
240
|
+
|
|
241
|
+
@requires_version(2, 1)
|
|
242
|
+
def load_labware_by_name(
|
|
243
|
+
self,
|
|
244
|
+
name: str,
|
|
245
|
+
label: Optional[str] = None,
|
|
246
|
+
namespace: Optional[str] = None,
|
|
247
|
+
version: Optional[int] = None,
|
|
248
|
+
) -> Labware:
|
|
249
|
+
"""
|
|
250
|
+
.. deprecated:: 2.0
|
|
251
|
+
Use :py:meth:`load_labware` instead.
|
|
252
|
+
"""
|
|
253
|
+
_log.warning("load_labware_by_name is deprecated. Use load_labware instead.")
|
|
254
|
+
return self.load_labware(
|
|
255
|
+
name=name,
|
|
256
|
+
label=label,
|
|
257
|
+
namespace=namespace,
|
|
258
|
+
version=version,
|
|
259
|
+
)
|
|
260
|
+
|
|
261
|
+
@requires_version(2, 15)
|
|
262
|
+
def load_adapter(
|
|
263
|
+
self,
|
|
264
|
+
name: str,
|
|
265
|
+
namespace: Optional[str] = None,
|
|
266
|
+
version: Optional[int] = None,
|
|
267
|
+
) -> Labware:
|
|
268
|
+
"""Load an adapter onto the module using its load parameters.
|
|
269
|
+
|
|
270
|
+
The parameters of this function behave like those of
|
|
271
|
+
:py:obj:`ProtocolContext.load_adapter` (which loads adapters directly
|
|
272
|
+
onto the deck). Note that the parameter ``name`` here corresponds to
|
|
273
|
+
``load_name`` on the ``ProtocolContext`` function.
|
|
274
|
+
|
|
275
|
+
:returns: The initialized and loaded adapter object.
|
|
276
|
+
"""
|
|
277
|
+
labware_core = self._protocol_core.load_adapter(
|
|
278
|
+
load_name=name,
|
|
279
|
+
namespace=namespace,
|
|
280
|
+
version=version,
|
|
281
|
+
location=self._core,
|
|
282
|
+
)
|
|
283
|
+
|
|
284
|
+
if isinstance(self._core, LegacyModuleCore):
|
|
285
|
+
adapter = cast(LegacyModuleCore, self._core).add_labware_core(
|
|
286
|
+
cast(LegacyLabwareCore, labware_core)
|
|
287
|
+
)
|
|
288
|
+
else:
|
|
289
|
+
adapter = Labware(
|
|
290
|
+
core=labware_core,
|
|
291
|
+
api_version=self._api_version,
|
|
292
|
+
protocol_core=self._protocol_core,
|
|
293
|
+
core_map=self._core_map,
|
|
294
|
+
)
|
|
295
|
+
|
|
296
|
+
self._core_map.add(labware_core, adapter)
|
|
297
|
+
|
|
298
|
+
return adapter
|
|
299
|
+
|
|
300
|
+
@requires_version(2, 15)
|
|
301
|
+
def load_adapter_from_definition(self, definition: LabwareDefinition) -> Labware:
|
|
302
|
+
"""Load an adapter onto the module using an inline definition.
|
|
303
|
+
|
|
304
|
+
:param definition: The labware definition.
|
|
305
|
+
:returns: The initialized and loaded labware object.
|
|
306
|
+
"""
|
|
307
|
+
load_params = self._protocol_core.add_labware_definition(definition)
|
|
308
|
+
|
|
309
|
+
return self.load_adapter(
|
|
310
|
+
name=load_params.load_name,
|
|
311
|
+
namespace=load_params.namespace,
|
|
312
|
+
version=load_params.version,
|
|
313
|
+
)
|
|
314
|
+
|
|
315
|
+
@property
|
|
316
|
+
@requires_version(2, 0)
|
|
317
|
+
def labware(self) -> Optional[Labware]:
|
|
318
|
+
"""The labware (if any) present on this module."""
|
|
319
|
+
labware_core = self._protocol_core.get_labware_on_module(self._core)
|
|
320
|
+
return self._core_map.get(labware_core)
|
|
321
|
+
|
|
322
|
+
@property
|
|
323
|
+
@requires_version(2, 14)
|
|
324
|
+
def parent(self) -> str:
|
|
325
|
+
"""The name of the slot the module is on.
|
|
326
|
+
|
|
327
|
+
On a Flex, this will be like ``"D1"``. On an OT-2, this will be like ``"1"``.
|
|
328
|
+
See :ref:`deck-slots`.
|
|
329
|
+
"""
|
|
330
|
+
return self._core.get_deck_slot_id()
|
|
331
|
+
|
|
332
|
+
@property
|
|
333
|
+
@requires_version(2, 0)
|
|
334
|
+
def geometry(self) -> LegacyModuleGeometry:
|
|
335
|
+
"""The object representing the module as an item on the deck.
|
|
336
|
+
|
|
337
|
+
.. deprecated:: 2.14
|
|
338
|
+
Use properties of the :py:class:`ModuleContext` instead,
|
|
339
|
+
like :py:meth:`model` and :py:meth:`type`
|
|
340
|
+
"""
|
|
341
|
+
if isinstance(self._core, LegacyModuleCore):
|
|
342
|
+
return cast(LegacyModuleCore, self._core).geometry
|
|
343
|
+
|
|
344
|
+
raise UnsupportedAPIError(
|
|
345
|
+
api_element="`ModuleContext.geometry`",
|
|
346
|
+
since_version="2.14",
|
|
347
|
+
extra_message="Use properties of the `ModuleContext` itself.",
|
|
348
|
+
)
|
|
349
|
+
|
|
350
|
+
def __repr__(self) -> str:
|
|
351
|
+
class_name = self.__class__.__name__
|
|
352
|
+
display_name = self._core.get_display_name()
|
|
353
|
+
location = self._core.get_deck_slot().id
|
|
354
|
+
|
|
355
|
+
return f"{class_name} at {display_name} on {location} lw {self.labware}"
|
|
356
|
+
|
|
357
|
+
|
|
358
|
+
class TemperatureModuleContext(ModuleContext):
|
|
359
|
+
"""An object representing a connected Temperature Module.
|
|
360
|
+
|
|
361
|
+
It should not be instantiated directly; instead, it should be
|
|
362
|
+
created through :py:meth:`.ProtocolContext.load_module`.
|
|
363
|
+
|
|
364
|
+
.. versionadded:: 2.0
|
|
365
|
+
|
|
366
|
+
"""
|
|
367
|
+
|
|
368
|
+
_core: TemperatureModuleCore
|
|
369
|
+
|
|
370
|
+
@property
|
|
371
|
+
@requires_version(2, 14)
|
|
372
|
+
def serial_number(self) -> str:
|
|
373
|
+
"""Get the module's unique hardware serial number."""
|
|
374
|
+
return self._core.get_serial_number()
|
|
375
|
+
|
|
376
|
+
@publish(command=cmds.tempdeck_set_temp)
|
|
377
|
+
@requires_version(2, 0)
|
|
378
|
+
def set_temperature(self, celsius: float) -> None:
|
|
379
|
+
"""Set a target temperature and wait until the module reaches the target.
|
|
380
|
+
|
|
381
|
+
No other protocol commands will execute while waiting for the temperature.
|
|
382
|
+
|
|
383
|
+
:param celsius: A value between 4 and 95, representing the target temperature in °C.
|
|
384
|
+
"""
|
|
385
|
+
self._core.set_target_temperature(celsius)
|
|
386
|
+
self._core.wait_for_target_temperature()
|
|
387
|
+
|
|
388
|
+
@publish(command=cmds.tempdeck_set_temp)
|
|
389
|
+
@requires_version(2, 3)
|
|
390
|
+
def start_set_temperature(self, celsius: float) -> None:
|
|
391
|
+
"""Set the target temperature without waiting for the target to be hit.
|
|
392
|
+
|
|
393
|
+
:param celsius: A value between 4 and 95, representing the target temperature in °C.
|
|
394
|
+
"""
|
|
395
|
+
self._core.set_target_temperature(celsius)
|
|
396
|
+
|
|
397
|
+
@publish(command=cmds.tempdeck_await_temp)
|
|
398
|
+
@requires_version(2, 3)
|
|
399
|
+
def await_temperature(self, celsius: float) -> None:
|
|
400
|
+
"""Wait until module reaches temperature.
|
|
401
|
+
|
|
402
|
+
:param celsius: A value between 4 and 95, representing the target temperature in °C.
|
|
403
|
+
"""
|
|
404
|
+
self._core.wait_for_target_temperature(celsius)
|
|
405
|
+
|
|
406
|
+
@publish(command=cmds.tempdeck_deactivate)
|
|
407
|
+
@requires_version(2, 0)
|
|
408
|
+
def deactivate(self) -> None:
|
|
409
|
+
"""Stop heating or cooling, and turn off the fan."""
|
|
410
|
+
self._core.deactivate()
|
|
411
|
+
|
|
412
|
+
@property
|
|
413
|
+
@requires_version(2, 0)
|
|
414
|
+
def temperature(self) -> float:
|
|
415
|
+
"""The current temperature of the Temperature Module's deck in °C.
|
|
416
|
+
|
|
417
|
+
Returns ``0`` in simulation if no target temperature has been set.
|
|
418
|
+
"""
|
|
419
|
+
return self._core.get_current_temperature()
|
|
420
|
+
|
|
421
|
+
@property
|
|
422
|
+
@requires_version(2, 0)
|
|
423
|
+
def target(self) -> Optional[float]:
|
|
424
|
+
"""The target temperature of the Temperature Module's deck in °C.
|
|
425
|
+
|
|
426
|
+
Returns ``None`` if no target has been set.
|
|
427
|
+
"""
|
|
428
|
+
return self._core.get_target_temperature()
|
|
429
|
+
|
|
430
|
+
@property
|
|
431
|
+
@requires_version(2, 3)
|
|
432
|
+
def status(self) -> str:
|
|
433
|
+
"""One of four possible temperature statuses:
|
|
434
|
+
|
|
435
|
+
- ``holding at target`` – The module has reached its target temperature
|
|
436
|
+
and is actively maintaining that temperature.
|
|
437
|
+
- ``cooling`` – The module is cooling to a target temperature.
|
|
438
|
+
- ``heating`` – The module is heating to a target temperature.
|
|
439
|
+
- ``idle`` – The module has been deactivated.
|
|
440
|
+
"""
|
|
441
|
+
return self._core.get_status().value
|
|
442
|
+
|
|
443
|
+
|
|
444
|
+
class MagneticModuleContext(ModuleContext):
|
|
445
|
+
"""An object representing a connected Magnetic Module.
|
|
446
|
+
|
|
447
|
+
It should not be instantiated directly; instead, it should be
|
|
448
|
+
created through :py:meth:`.ProtocolContext.load_module`.
|
|
449
|
+
|
|
450
|
+
.. versionadded:: 2.0
|
|
451
|
+
"""
|
|
452
|
+
|
|
453
|
+
_core: MagneticModuleCore
|
|
454
|
+
|
|
455
|
+
@property
|
|
456
|
+
@requires_version(2, 14)
|
|
457
|
+
def serial_number(self) -> str:
|
|
458
|
+
"""Get the module's unique hardware serial number."""
|
|
459
|
+
return self._core.get_serial_number()
|
|
460
|
+
|
|
461
|
+
@publish(command=cmds.magdeck_calibrate)
|
|
462
|
+
@requires_version(2, 0)
|
|
463
|
+
def calibrate(self) -> None:
|
|
464
|
+
"""Calibrate the Magnetic Module.
|
|
465
|
+
|
|
466
|
+
.. deprecated:: 2.14
|
|
467
|
+
This method is unnecessary; remove any usage.
|
|
468
|
+
"""
|
|
469
|
+
if self._api_version < ENGINE_CORE_API_VERSION:
|
|
470
|
+
_log.warning(
|
|
471
|
+
"`MagneticModuleContext.calibrate` doesn't do anything useful"
|
|
472
|
+
" and will be removed in Protocol API version 2.14 and higher."
|
|
473
|
+
)
|
|
474
|
+
self._core._sync_module_hardware.calibrate() # type: ignore[attr-defined]
|
|
475
|
+
else:
|
|
476
|
+
raise UnsupportedAPIError(
|
|
477
|
+
api_element="`MagneticModuleContext.calibrate`",
|
|
478
|
+
since_version="2.14",
|
|
479
|
+
)
|
|
480
|
+
|
|
481
|
+
@publish(command=cmds.magdeck_engage)
|
|
482
|
+
@requires_version(2, 0)
|
|
483
|
+
def engage(
|
|
484
|
+
self,
|
|
485
|
+
height: Optional[float] = None,
|
|
486
|
+
offset: Optional[float] = None,
|
|
487
|
+
height_from_base: Optional[float] = None,
|
|
488
|
+
) -> None:
|
|
489
|
+
"""Raise the Magnetic Module's magnets. You can specify how high the magnets
|
|
490
|
+
should move:
|
|
491
|
+
|
|
492
|
+
- No parameter: Move to the default height for the loaded labware. If
|
|
493
|
+
the loaded labware has no default, or if no labware is loaded, this will
|
|
494
|
+
raise an error.
|
|
495
|
+
|
|
496
|
+
- ``height_from_base`` – Move this many millimeters above the bottom
|
|
497
|
+
of the labware. Acceptable values are between ``0`` and ``25``.
|
|
498
|
+
|
|
499
|
+
This is the recommended way to adjust the magnets' height.
|
|
500
|
+
|
|
501
|
+
.. versionadded:: 2.2
|
|
502
|
+
|
|
503
|
+
- ``offset`` – Move this many millimeters above (positive value) or below
|
|
504
|
+
(negative value) the default height for the loaded labware. The sum of
|
|
505
|
+
the default height and ``offset`` must be between 0 and 25.
|
|
506
|
+
|
|
507
|
+
- ``height`` – Intended to move this many millimeters above the magnets'
|
|
508
|
+
home position. However, depending on the generation of module and the loaded
|
|
509
|
+
labware, this may produce unpredictable results. You should normally use
|
|
510
|
+
``height_from_base`` instead.
|
|
511
|
+
|
|
512
|
+
.. versionchanged:: 2.14
|
|
513
|
+
This parameter has been removed.
|
|
514
|
+
|
|
515
|
+
You shouldn't specify more than one of these parameters. However, if you do,
|
|
516
|
+
their order of precedence is ``height``, then ``height_from_base``, then ``offset``.
|
|
517
|
+
"""
|
|
518
|
+
if height is not None:
|
|
519
|
+
if self._api_version >= _MAGNETIC_MODULE_HEIGHT_PARAM_REMOVED_IN:
|
|
520
|
+
raise UnsupportedAPIError(
|
|
521
|
+
api_element="The height parameter of MagneticModuleContext.engage()",
|
|
522
|
+
since_version=f"{_MAGNETIC_MODULE_HEIGHT_PARAM_REMOVED_IN}",
|
|
523
|
+
current_version=f"{self._api_version}",
|
|
524
|
+
extra_message="Use offset or height_from_base.",
|
|
525
|
+
)
|
|
526
|
+
self._core.engage(height_from_home=height)
|
|
527
|
+
|
|
528
|
+
# This version check has a bug:
|
|
529
|
+
# if the caller sets height_from_base in an API version that's too low,
|
|
530
|
+
# we will silently ignore it instead of raising APIVersionError.
|
|
531
|
+
# Leaving this unfixed because we haven't thought through
|
|
532
|
+
# how to do backwards-compatible fixes to our version checking itself.
|
|
533
|
+
elif height_from_base is not None and self._api_version >= APIVersion(2, 2):
|
|
534
|
+
self._core.engage(height_from_base=height_from_base)
|
|
535
|
+
|
|
536
|
+
else:
|
|
537
|
+
self._core.engage_to_labware(
|
|
538
|
+
offset=offset or 0,
|
|
539
|
+
preserve_half_mm=self._api_version < APIVersion(2, 3),
|
|
540
|
+
)
|
|
541
|
+
|
|
542
|
+
@publish(command=cmds.magdeck_disengage)
|
|
543
|
+
@requires_version(2, 0)
|
|
544
|
+
def disengage(self) -> None:
|
|
545
|
+
"""Lower the magnets back into the Magnetic Module."""
|
|
546
|
+
self._core.disengage()
|
|
547
|
+
|
|
548
|
+
@property
|
|
549
|
+
@requires_version(2, 0)
|
|
550
|
+
def status(self) -> str:
|
|
551
|
+
"""The status of the module, either ``engaged`` or ``disengaged``."""
|
|
552
|
+
return self._core.get_status().value
|
|
553
|
+
|
|
554
|
+
|
|
555
|
+
class ThermocyclerContext(ModuleContext):
|
|
556
|
+
"""An object representing a connected Thermocycler Module.
|
|
557
|
+
|
|
558
|
+
It should not be instantiated directly; instead, it should be
|
|
559
|
+
created through :py:meth:`.ProtocolContext.load_module`.
|
|
560
|
+
|
|
561
|
+
.. versionadded:: 2.0
|
|
562
|
+
"""
|
|
563
|
+
|
|
564
|
+
_core: ThermocyclerCore
|
|
565
|
+
|
|
566
|
+
@property
|
|
567
|
+
@requires_version(2, 14)
|
|
568
|
+
def serial_number(self) -> str:
|
|
569
|
+
"""Get the module's unique hardware serial number."""
|
|
570
|
+
return self._core.get_serial_number()
|
|
571
|
+
|
|
572
|
+
@publish(command=cmds.thermocycler_open)
|
|
573
|
+
@requires_version(2, 0)
|
|
574
|
+
def open_lid(self) -> str:
|
|
575
|
+
"""Open the lid."""
|
|
576
|
+
return self._core.open_lid().value
|
|
577
|
+
|
|
578
|
+
@publish(command=cmds.thermocycler_close)
|
|
579
|
+
@requires_version(2, 0)
|
|
580
|
+
def close_lid(self) -> str:
|
|
581
|
+
"""Close the lid."""
|
|
582
|
+
return self._core.close_lid().value
|
|
583
|
+
|
|
584
|
+
@publish(command=cmds.thermocycler_set_block_temp)
|
|
585
|
+
@requires_version(2, 0)
|
|
586
|
+
def set_block_temperature(
|
|
587
|
+
self,
|
|
588
|
+
temperature: float,
|
|
589
|
+
hold_time_seconds: Optional[float] = None,
|
|
590
|
+
hold_time_minutes: Optional[float] = None,
|
|
591
|
+
ramp_rate: Optional[float] = None,
|
|
592
|
+
block_max_volume: Optional[float] = None,
|
|
593
|
+
) -> None:
|
|
594
|
+
"""Set the target temperature for the well block, in °C.
|
|
595
|
+
|
|
596
|
+
:param temperature: A value between 4 and 99, representing the target
|
|
597
|
+
temperature in °C.
|
|
598
|
+
:param hold_time_minutes: The number of minutes to hold, after reaching
|
|
599
|
+
``temperature``, before proceeding to the
|
|
600
|
+
next command. If ``hold_time_seconds`` is also
|
|
601
|
+
specified, the times are added together.
|
|
602
|
+
:param hold_time_seconds: The number of seconds to hold, after reaching
|
|
603
|
+
``temperature``, before proceeding to the
|
|
604
|
+
next command. If ``hold_time_minutes`` is also
|
|
605
|
+
specified, the times are added together.
|
|
606
|
+
:param block_max_volume: The greatest volume of liquid contained in any
|
|
607
|
+
individual well of the loaded labware, in µL.
|
|
608
|
+
If not specified, the default is 25 µL.
|
|
609
|
+
|
|
610
|
+
.. note::
|
|
611
|
+
|
|
612
|
+
If ``hold_time_minutes`` and ``hold_time_seconds`` are not
|
|
613
|
+
specified, the Thermocycler will proceed to the next command
|
|
614
|
+
immediately after ``temperature`` is reached.
|
|
615
|
+
"""
|
|
616
|
+
seconds = validation.ensure_hold_time_seconds(
|
|
617
|
+
seconds=hold_time_seconds, minutes=hold_time_minutes
|
|
618
|
+
)
|
|
619
|
+
self._core.set_target_block_temperature(
|
|
620
|
+
celsius=temperature,
|
|
621
|
+
hold_time_seconds=seconds,
|
|
622
|
+
block_max_volume=block_max_volume,
|
|
623
|
+
)
|
|
624
|
+
self._core.wait_for_block_temperature()
|
|
625
|
+
|
|
626
|
+
@publish(command=cmds.thermocycler_set_lid_temperature)
|
|
627
|
+
@requires_version(2, 0)
|
|
628
|
+
def set_lid_temperature(self, temperature: float) -> None:
|
|
629
|
+
"""Set the target temperature for the heated lid, in °C.
|
|
630
|
+
|
|
631
|
+
:param temperature: A value between 37 and 110, representing the target
|
|
632
|
+
temperature in °C.
|
|
633
|
+
|
|
634
|
+
.. note::
|
|
635
|
+
|
|
636
|
+
The Thermocycler will proceed to the next command immediately after
|
|
637
|
+
``temperature`` is reached.
|
|
638
|
+
|
|
639
|
+
"""
|
|
640
|
+
self._core.set_target_lid_temperature(celsius=temperature)
|
|
641
|
+
self._core.wait_for_lid_temperature()
|
|
642
|
+
|
|
643
|
+
@publish(command=cmds.thermocycler_execute_profile)
|
|
644
|
+
@requires_version(2, 0)
|
|
645
|
+
def execute_profile(
|
|
646
|
+
self,
|
|
647
|
+
steps: List[ThermocyclerStep],
|
|
648
|
+
repetitions: int,
|
|
649
|
+
block_max_volume: Optional[float] = None,
|
|
650
|
+
) -> None:
|
|
651
|
+
"""Execute a Thermocycler profile, defined as a cycle of
|
|
652
|
+
``steps``, for a given number of ``repetitions``.
|
|
653
|
+
|
|
654
|
+
:param steps: List of steps that make up a single cycle.
|
|
655
|
+
Each list item should be a dictionary that maps to the parameters
|
|
656
|
+
of the :py:meth:`set_block_temperature` method. The dictionary's
|
|
657
|
+
keys must be ``temperature`` and one or both of
|
|
658
|
+
``hold_time_seconds`` and ``hold_time_minutes``.
|
|
659
|
+
:param repetitions: The number of times to repeat the cycled steps.
|
|
660
|
+
:param block_max_volume: The greatest volume of liquid contained in any
|
|
661
|
+
individual well of the loaded labware, in µL.
|
|
662
|
+
If not specified, the default is 25 µL.
|
|
663
|
+
|
|
664
|
+
.. versionchanged:: 2.21
|
|
665
|
+
Fixed run log listing number of steps instead of number of repetitions.
|
|
666
|
+
|
|
667
|
+
"""
|
|
668
|
+
repetitions = validation.ensure_thermocycler_repetition_count(repetitions)
|
|
669
|
+
validated_steps = validation.ensure_thermocycler_profile_steps(steps)
|
|
670
|
+
self._core.execute_profile(
|
|
671
|
+
steps=validated_steps,
|
|
672
|
+
repetitions=repetitions,
|
|
673
|
+
block_max_volume=block_max_volume,
|
|
674
|
+
)
|
|
675
|
+
|
|
676
|
+
@publish(command=cmds.thermocycler_deactivate_lid)
|
|
677
|
+
@requires_version(2, 0)
|
|
678
|
+
def deactivate_lid(self) -> None:
|
|
679
|
+
"""Turn off the lid heater."""
|
|
680
|
+
self._core.deactivate_lid()
|
|
681
|
+
|
|
682
|
+
@publish(command=cmds.thermocycler_deactivate_block)
|
|
683
|
+
@requires_version(2, 0)
|
|
684
|
+
def deactivate_block(self) -> None:
|
|
685
|
+
"""Turn off the well block temperature controller."""
|
|
686
|
+
self._core.deactivate_block()
|
|
687
|
+
|
|
688
|
+
@publish(command=cmds.thermocycler_deactivate)
|
|
689
|
+
@requires_version(2, 0)
|
|
690
|
+
def deactivate(self) -> None:
|
|
691
|
+
"""Turn off both the well block temperature controller and the lid heater."""
|
|
692
|
+
self._core.deactivate()
|
|
693
|
+
|
|
694
|
+
@property
|
|
695
|
+
@requires_version(2, 0)
|
|
696
|
+
def lid_position(self) -> Optional[str]:
|
|
697
|
+
"""One of these possible lid statuses:
|
|
698
|
+
|
|
699
|
+
- ``closed`` – The lid is closed.
|
|
700
|
+
- ``in_between`` – The lid is neither open nor closed.
|
|
701
|
+
- ``open`` – The lid is open.
|
|
702
|
+
- ``unknown`` – The lid position can't be determined.
|
|
703
|
+
"""
|
|
704
|
+
status = self._core.get_lid_position()
|
|
705
|
+
return status.value if status is not None else None
|
|
706
|
+
|
|
707
|
+
@property
|
|
708
|
+
@requires_version(2, 0)
|
|
709
|
+
def block_temperature_status(self) -> str:
|
|
710
|
+
"""One of five possible temperature statuses:
|
|
711
|
+
|
|
712
|
+
- ``holding at target`` – The block has reached its target temperature
|
|
713
|
+
and is actively maintaining that temperature.
|
|
714
|
+
- ``cooling`` – The block is cooling to a target temperature.
|
|
715
|
+
- ``heating`` – The block is heating to a target temperature.
|
|
716
|
+
- ``idle`` – The block is not currently heating or cooling.
|
|
717
|
+
- ``error`` – The temperature status can't be determined.
|
|
718
|
+
"""
|
|
719
|
+
return self._core.get_block_temperature_status().value
|
|
720
|
+
|
|
721
|
+
@property
|
|
722
|
+
@requires_version(2, 0)
|
|
723
|
+
def lid_temperature_status(self) -> Optional[str]:
|
|
724
|
+
"""One of five possible temperature statuses:
|
|
725
|
+
|
|
726
|
+
- ``holding at target`` – The lid has reached its target temperature
|
|
727
|
+
and is actively maintaining that temperature.
|
|
728
|
+
- ``cooling`` – The lid has previously heated and is now passively cooling.
|
|
729
|
+
`The Thermocycler lid does not have active cooling.`
|
|
730
|
+
- ``heating`` – The lid is heating to a target temperature.
|
|
731
|
+
- ``idle`` – The lid has not heated since the beginning of the protocol.
|
|
732
|
+
- ``error`` – The temperature status can't be determined.
|
|
733
|
+
"""
|
|
734
|
+
status = self._core.get_lid_temperature_status()
|
|
735
|
+
return status.value if status is not None else None
|
|
736
|
+
|
|
737
|
+
@property
|
|
738
|
+
@requires_version(2, 0)
|
|
739
|
+
def block_temperature(self) -> Optional[float]:
|
|
740
|
+
"""The current temperature of the well block in °C."""
|
|
741
|
+
return self._core.get_block_temperature()
|
|
742
|
+
|
|
743
|
+
@property
|
|
744
|
+
@requires_version(2, 0)
|
|
745
|
+
def block_target_temperature(self) -> Optional[float]:
|
|
746
|
+
"""The target temperature of the well block in °C."""
|
|
747
|
+
return self._core.get_block_target_temperature()
|
|
748
|
+
|
|
749
|
+
@property
|
|
750
|
+
@requires_version(2, 0)
|
|
751
|
+
def lid_temperature(self) -> Optional[float]:
|
|
752
|
+
"""The current temperature of the lid in °C."""
|
|
753
|
+
return self._core.get_lid_temperature()
|
|
754
|
+
|
|
755
|
+
@property
|
|
756
|
+
@requires_version(2, 0)
|
|
757
|
+
def lid_target_temperature(self) -> Optional[float]:
|
|
758
|
+
"""The target temperature of the lid in °C."""
|
|
759
|
+
return self._core.get_lid_target_temperature()
|
|
760
|
+
|
|
761
|
+
@property
|
|
762
|
+
@requires_version(2, 0)
|
|
763
|
+
def ramp_rate(self) -> Optional[float]:
|
|
764
|
+
"""The current ramp rate in °C/s."""
|
|
765
|
+
return self._core.get_ramp_rate()
|
|
766
|
+
|
|
767
|
+
@property
|
|
768
|
+
@requires_version(2, 0)
|
|
769
|
+
def hold_time(self) -> Optional[float]:
|
|
770
|
+
"""Remaining hold time in seconds."""
|
|
771
|
+
return self._core.get_hold_time()
|
|
772
|
+
|
|
773
|
+
@property
|
|
774
|
+
@requires_version(2, 0)
|
|
775
|
+
def total_cycle_count(self) -> Optional[int]:
|
|
776
|
+
"""Number of repetitions for current set cycle"""
|
|
777
|
+
return self._core.get_total_cycle_count()
|
|
778
|
+
|
|
779
|
+
@property
|
|
780
|
+
@requires_version(2, 0)
|
|
781
|
+
def current_cycle_index(self) -> Optional[int]:
|
|
782
|
+
"""Index of the current set cycle repetition"""
|
|
783
|
+
return self._core.get_current_cycle_index()
|
|
784
|
+
|
|
785
|
+
@property
|
|
786
|
+
@requires_version(2, 0)
|
|
787
|
+
def total_step_count(self) -> Optional[int]:
|
|
788
|
+
"""Number of steps within the current cycle"""
|
|
789
|
+
return self._core.get_total_step_count()
|
|
790
|
+
|
|
791
|
+
@property
|
|
792
|
+
@requires_version(2, 0)
|
|
793
|
+
def current_step_index(self) -> Optional[int]:
|
|
794
|
+
"""Index of the current step within the current cycle"""
|
|
795
|
+
return self._core.get_current_step_index()
|
|
796
|
+
|
|
797
|
+
|
|
798
|
+
class HeaterShakerContext(ModuleContext):
|
|
799
|
+
"""An object representing a connected Heater-Shaker Module.
|
|
800
|
+
|
|
801
|
+
It should not be instantiated directly; instead, it should be
|
|
802
|
+
created through :py:meth:`.ProtocolContext.load_module`.
|
|
803
|
+
|
|
804
|
+
.. versionadded:: 2.13
|
|
805
|
+
"""
|
|
806
|
+
|
|
807
|
+
_core: HeaterShakerCore
|
|
808
|
+
|
|
809
|
+
@property
|
|
810
|
+
@requires_version(2, 14)
|
|
811
|
+
def serial_number(self) -> str:
|
|
812
|
+
"""Get the module's unique hardware serial number."""
|
|
813
|
+
return self._core.get_serial_number()
|
|
814
|
+
|
|
815
|
+
@property
|
|
816
|
+
@requires_version(2, 13)
|
|
817
|
+
def target_temperature(self) -> Optional[float]:
|
|
818
|
+
"""The target temperature of the Heater-Shaker's plate in °C.
|
|
819
|
+
|
|
820
|
+
Returns ``None`` if no target has been set.
|
|
821
|
+
"""
|
|
822
|
+
return self._core.get_target_temperature()
|
|
823
|
+
|
|
824
|
+
@property
|
|
825
|
+
@requires_version(2, 13)
|
|
826
|
+
def current_temperature(self) -> float:
|
|
827
|
+
"""The current temperature of the Heater-Shaker's plate in °C.
|
|
828
|
+
|
|
829
|
+
Returns ``23`` in simulation if no target temperature has been set.
|
|
830
|
+
"""
|
|
831
|
+
return self._core.get_current_temperature()
|
|
832
|
+
|
|
833
|
+
@property
|
|
834
|
+
@requires_version(2, 13)
|
|
835
|
+
def current_speed(self) -> int:
|
|
836
|
+
"""The current speed of the Heater-Shaker's plate in rpm."""
|
|
837
|
+
return self._core.get_current_speed()
|
|
838
|
+
|
|
839
|
+
@property
|
|
840
|
+
@requires_version(2, 13)
|
|
841
|
+
def target_speed(self) -> Optional[int]:
|
|
842
|
+
"""Target speed of the Heater-Shaker's plate in rpm."""
|
|
843
|
+
return self._core.get_target_speed()
|
|
844
|
+
|
|
845
|
+
@property
|
|
846
|
+
@requires_version(2, 13)
|
|
847
|
+
def temperature_status(self) -> str:
|
|
848
|
+
"""One of five possible temperature statuses:
|
|
849
|
+
|
|
850
|
+
- ``holding at target`` – The module has reached its target temperature
|
|
851
|
+
and is actively maintaining that temperature.
|
|
852
|
+
- ``cooling`` – The module has previously heated and is now passively cooling.
|
|
853
|
+
`The Heater-Shaker does not have active cooling.`
|
|
854
|
+
- ``heating`` – The module is heating to a target temperature.
|
|
855
|
+
- ``idle`` – The module has not heated since the beginning of the protocol.
|
|
856
|
+
- ``error`` – The temperature status can't be determined.
|
|
857
|
+
"""
|
|
858
|
+
return self._core.get_temperature_status().value
|
|
859
|
+
|
|
860
|
+
@property
|
|
861
|
+
@requires_version(2, 13)
|
|
862
|
+
def speed_status(self) -> str:
|
|
863
|
+
"""One of five possible shaking statuses:
|
|
864
|
+
|
|
865
|
+
- ``holding at target`` – The module has reached its target shake speed
|
|
866
|
+
and is actively maintaining that speed.
|
|
867
|
+
- ``speeding up`` – The module is increasing its shake speed towards a target.
|
|
868
|
+
- ``slowing down`` – The module was previously shaking at a faster speed
|
|
869
|
+
and is currently reducing its speed to a lower target or to deactivate.
|
|
870
|
+
- ``idle`` – The module is not shaking.
|
|
871
|
+
- ``error`` – The shaking status can't be determined.
|
|
872
|
+
"""
|
|
873
|
+
return self._core.get_speed_status().value
|
|
874
|
+
|
|
875
|
+
@property
|
|
876
|
+
@requires_version(2, 13)
|
|
877
|
+
def labware_latch_status(self) -> str:
|
|
878
|
+
"""One of six possible latch statuses:
|
|
879
|
+
|
|
880
|
+
- ``opening`` – The latch is currently opening (in motion).
|
|
881
|
+
- ``idle_open`` – The latch is open and not moving.
|
|
882
|
+
- ``closing`` – The latch is currently closing (in motion).
|
|
883
|
+
- ``idle_closed`` – The latch is closed and not moving.
|
|
884
|
+
- ``idle_unknown`` – The default status upon reset, regardless of physical latch position.
|
|
885
|
+
Use :py:meth:`~HeaterShakerContext.close_labware_latch` before other commands
|
|
886
|
+
requiring confirmation that the latch is closed.
|
|
887
|
+
- ``unknown`` – The latch status can't be determined.
|
|
888
|
+
"""
|
|
889
|
+
return self._core.get_labware_latch_status().value
|
|
890
|
+
|
|
891
|
+
@requires_version(2, 13)
|
|
892
|
+
def set_and_wait_for_temperature(self, celsius: float) -> None:
|
|
893
|
+
"""Set a target temperature and wait until the module reaches the target.
|
|
894
|
+
|
|
895
|
+
No other protocol commands will execute while waiting for the temperature.
|
|
896
|
+
|
|
897
|
+
.. versionchanged:: 2.25
|
|
898
|
+
Removed the minimum temperature limit of 37 °C. Note that temperatures under ambient are
|
|
899
|
+
not achievable.
|
|
900
|
+
|
|
901
|
+
:param celsius: A value under 95, representing the target temperature in °C.
|
|
902
|
+
Values are automatically truncated to two decimal places,
|
|
903
|
+
and the Heater-Shaker module has a temperature accuracy of ±0.5 °C.
|
|
904
|
+
"""
|
|
905
|
+
self.set_target_temperature(celsius=celsius)
|
|
906
|
+
self.wait_for_temperature()
|
|
907
|
+
|
|
908
|
+
@requires_version(2, 13)
|
|
909
|
+
@publish(command=cmds.heater_shaker_set_target_temperature)
|
|
910
|
+
def set_target_temperature(self, celsius: float) -> None:
|
|
911
|
+
"""Set target temperature and return immediately.
|
|
912
|
+
|
|
913
|
+
Sets the Heater-Shaker's target temperature and returns immediately without
|
|
914
|
+
waiting for the target to be reached. Does not delay the protocol until
|
|
915
|
+
target temperature has reached.
|
|
916
|
+
Use :py:meth:`~.HeaterShakerContext.wait_for_temperature` to delay
|
|
917
|
+
protocol execution.
|
|
918
|
+
|
|
919
|
+
.. versionchanged:: 2.25
|
|
920
|
+
Removed the minimum temperature limit of 37 °C. Note that temperatures under ambient are
|
|
921
|
+
not achievable.
|
|
922
|
+
|
|
923
|
+
:param celsius: A value under 95, representing the target temperature in °C.
|
|
924
|
+
Values are automatically truncated to two decimal places,
|
|
925
|
+
and the Heater-Shaker module has a temperature accuracy of ±0.5 °C.
|
|
926
|
+
"""
|
|
927
|
+
validated_temp = validate_heater_shaker_temperature(
|
|
928
|
+
celsius=celsius, api_version=self.api_version
|
|
929
|
+
)
|
|
930
|
+
self._core.set_target_temperature(celsius=validated_temp)
|
|
931
|
+
|
|
932
|
+
@requires_version(2, 13)
|
|
933
|
+
@publish(command=cmds.heater_shaker_wait_for_temperature)
|
|
934
|
+
def wait_for_temperature(self) -> None:
|
|
935
|
+
"""Delays protocol execution until the Heater-Shaker has reached its target
|
|
936
|
+
temperature.
|
|
937
|
+
|
|
938
|
+
Raises an error if no target temperature was previously set.
|
|
939
|
+
"""
|
|
940
|
+
self._core.wait_for_target_temperature()
|
|
941
|
+
|
|
942
|
+
@requires_version(2, 13)
|
|
943
|
+
@publish(command=cmds.heater_shaker_set_and_wait_for_shake_speed)
|
|
944
|
+
def set_and_wait_for_shake_speed(self, rpm: int) -> None:
|
|
945
|
+
"""Set a shake speed in rpm and block execution of further commands until the module reaches the target.
|
|
946
|
+
|
|
947
|
+
Reaching a target shake speed typically only takes a few seconds.
|
|
948
|
+
|
|
949
|
+
.. note::
|
|
950
|
+
|
|
951
|
+
Before shaking, this command will retract the pipettes upward if they are parked adjacent to the Heater-Shaker.
|
|
952
|
+
|
|
953
|
+
:param rpm: A value between 200 and 3000, representing the target shake speed in revolutions per minute.
|
|
954
|
+
"""
|
|
955
|
+
validated_speed = validate_heater_shaker_speed(rpm=rpm)
|
|
956
|
+
self._core.set_and_wait_for_shake_speed(rpm=validated_speed)
|
|
957
|
+
|
|
958
|
+
@requires_version(2, 13)
|
|
959
|
+
@publish(command=cmds.heater_shaker_open_labware_latch)
|
|
960
|
+
def open_labware_latch(self) -> None:
|
|
961
|
+
"""Open the Heater-Shaker's labware latch.
|
|
962
|
+
|
|
963
|
+
The labware latch needs to be closed before:
|
|
964
|
+
* Shaking
|
|
965
|
+
* Pipetting to or from the labware on the Heater-Shaker
|
|
966
|
+
* Pipetting to or from labware to the left or right of the Heater-Shaker
|
|
967
|
+
|
|
968
|
+
Attempting to open the latch while the Heater-Shaker is shaking will raise an error.
|
|
969
|
+
|
|
970
|
+
.. note::
|
|
971
|
+
|
|
972
|
+
Before opening the latch, this command will retract the pipettes upward
|
|
973
|
+
if they are parked adjacent to the left or right of the Heater-Shaker.
|
|
974
|
+
"""
|
|
975
|
+
self._core.open_labware_latch()
|
|
976
|
+
|
|
977
|
+
@requires_version(2, 13)
|
|
978
|
+
@publish(command=cmds.heater_shaker_close_labware_latch)
|
|
979
|
+
def close_labware_latch(self) -> None:
|
|
980
|
+
"""Closes the labware latch.
|
|
981
|
+
|
|
982
|
+
The labware latch needs to be closed using this method before sending a shake command,
|
|
983
|
+
even if the latch was manually closed before starting the protocol.
|
|
984
|
+
"""
|
|
985
|
+
self._core.close_labware_latch()
|
|
986
|
+
|
|
987
|
+
@requires_version(2, 13)
|
|
988
|
+
@publish(command=cmds.heater_shaker_deactivate_shaker)
|
|
989
|
+
def deactivate_shaker(self) -> None:
|
|
990
|
+
"""Stops shaking.
|
|
991
|
+
|
|
992
|
+
Decelerating to 0 rpm typically only takes a few seconds.
|
|
993
|
+
"""
|
|
994
|
+
self._core.deactivate_shaker()
|
|
995
|
+
|
|
996
|
+
@requires_version(2, 13)
|
|
997
|
+
@publish(command=cmds.heater_shaker_deactivate_heater)
|
|
998
|
+
def deactivate_heater(self) -> None:
|
|
999
|
+
"""Stops heating.
|
|
1000
|
+
|
|
1001
|
+
The module will passively cool to room temperature.
|
|
1002
|
+
The Heater-Shaker does not have active cooling.
|
|
1003
|
+
"""
|
|
1004
|
+
self._core.deactivate_heater()
|
|
1005
|
+
|
|
1006
|
+
|
|
1007
|
+
class MagneticBlockContext(ModuleContext):
|
|
1008
|
+
"""An object representing a Magnetic Block.
|
|
1009
|
+
|
|
1010
|
+
It should not be instantiated directly; instead, it should be
|
|
1011
|
+
created through :py:meth:`.ProtocolContext.load_module`.
|
|
1012
|
+
|
|
1013
|
+
.. versionadded:: 2.15
|
|
1014
|
+
"""
|
|
1015
|
+
|
|
1016
|
+
_core: MagneticBlockCore
|
|
1017
|
+
|
|
1018
|
+
|
|
1019
|
+
class AbsorbanceReaderContext(ModuleContext):
|
|
1020
|
+
"""An object representing a connected Absorbance Plate Reader Module.
|
|
1021
|
+
|
|
1022
|
+
It should not be instantiated directly; instead, it should be
|
|
1023
|
+
created through :py:meth:`.ProtocolContext.load_module`.
|
|
1024
|
+
|
|
1025
|
+
.. versionadded:: 2.21
|
|
1026
|
+
"""
|
|
1027
|
+
|
|
1028
|
+
_core: AbsorbanceReaderCore
|
|
1029
|
+
|
|
1030
|
+
@property
|
|
1031
|
+
@requires_version(2, 21)
|
|
1032
|
+
def serial_number(self) -> str:
|
|
1033
|
+
"""Get the module's unique hardware serial number."""
|
|
1034
|
+
return self._core.get_serial_number()
|
|
1035
|
+
|
|
1036
|
+
@requires_version(2, 21)
|
|
1037
|
+
def close_lid(self) -> None:
|
|
1038
|
+
"""Use the Flex Gripper to close the lid of the Absorbance Plate Reader.
|
|
1039
|
+
|
|
1040
|
+
You must call this method before initializing the reader, even if the reader was
|
|
1041
|
+
in the closed position at the start of the protocol.
|
|
1042
|
+
"""
|
|
1043
|
+
self._core.close_lid()
|
|
1044
|
+
|
|
1045
|
+
@requires_version(2, 21)
|
|
1046
|
+
def open_lid(self) -> None:
|
|
1047
|
+
"""Use the Flex Gripper to open the lid of the Absorbance Plate Reader."""
|
|
1048
|
+
self._core.open_lid()
|
|
1049
|
+
|
|
1050
|
+
@requires_version(2, 21)
|
|
1051
|
+
def is_lid_on(self) -> bool:
|
|
1052
|
+
"""Return ``True`` if the Absorbance Plate Reader's lid is currently closed."""
|
|
1053
|
+
return self._core.is_lid_on()
|
|
1054
|
+
|
|
1055
|
+
@requires_version(2, 21)
|
|
1056
|
+
def initialize(
|
|
1057
|
+
self,
|
|
1058
|
+
mode: ABSMeasureMode,
|
|
1059
|
+
wavelengths: List[int],
|
|
1060
|
+
reference_wavelength: Optional[int] = None,
|
|
1061
|
+
) -> None:
|
|
1062
|
+
"""Prepare the Absorbance Plate Reader to read a plate.
|
|
1063
|
+
|
|
1064
|
+
See :ref:`absorbance-initialization` for examples.
|
|
1065
|
+
|
|
1066
|
+
:param mode: Either ``"single"`` or ``"multi"``.
|
|
1067
|
+
|
|
1068
|
+
- In single measurement mode, :py:meth:`.AbsorbanceReaderContext.read` uses
|
|
1069
|
+
one sample wavelength and an optional reference wavelength.
|
|
1070
|
+
- In multiple measurement mode, :py:meth:`.AbsorbanceReaderContext.read` uses
|
|
1071
|
+
a list of up to six sample wavelengths.
|
|
1072
|
+
:param wavelengths: A list of wavelengths, in nm, to measure.
|
|
1073
|
+
|
|
1074
|
+
- In the default hardware configuration, each wavelength must be one of
|
|
1075
|
+
``450`` (blue), ``562`` (green), ``600`` (orange), or ``650`` (red). In
|
|
1076
|
+
custom hardware configurations, the module may accept other integers
|
|
1077
|
+
between 350 and 1000.
|
|
1078
|
+
- The list must contain only one item when initializing a single measurement.
|
|
1079
|
+
- The list can contain one to six items when initializing a multiple measurement.
|
|
1080
|
+
:param reference_wavelength: An optional reference wavelength, in nm. If provided,
|
|
1081
|
+
:py:meth:`.AbsorbanceReaderContext.read` will read at the reference
|
|
1082
|
+
wavelength and then subtract the reference wavelength values from the
|
|
1083
|
+
measurement wavelength values. Can only be used with single measurements.
|
|
1084
|
+
"""
|
|
1085
|
+
self._core.initialize(
|
|
1086
|
+
mode, wavelengths, reference_wavelength=reference_wavelength
|
|
1087
|
+
)
|
|
1088
|
+
|
|
1089
|
+
@requires_version(2, 21)
|
|
1090
|
+
def read(
|
|
1091
|
+
self, export_filename: Optional[str] = None
|
|
1092
|
+
) -> Dict[int, Dict[str, float]]:
|
|
1093
|
+
"""Read a plate on the Absorbance Plate Reader.
|
|
1094
|
+
|
|
1095
|
+
This method always returns a dictionary of measurement data. It optionally will
|
|
1096
|
+
save a CSV file of the results to the Flex filesystem, which you can access from
|
|
1097
|
+
the Recent Protocol Runs screen in the Opentrons App. These files are `only` saved
|
|
1098
|
+
if you specify ``export_filename``.
|
|
1099
|
+
|
|
1100
|
+
In simulation, the values for each well key in the dictionary are set to zero, and
|
|
1101
|
+
no files are written.
|
|
1102
|
+
|
|
1103
|
+
.. note::
|
|
1104
|
+
|
|
1105
|
+
Avoid divide-by-zero errors when simulating and using the results of this
|
|
1106
|
+
method later in the protocol. If you divide by any of the measurement
|
|
1107
|
+
values, use :py:meth:`.ProtocolContext.is_simulating` to use alternate dummy
|
|
1108
|
+
data or skip the division step.
|
|
1109
|
+
|
|
1110
|
+
:param export_filename: An optional file basename. If provided, this method
|
|
1111
|
+
will write a CSV file for each measurement in the read operation. File
|
|
1112
|
+
names will use the value of this parameter, the measurement wavelength
|
|
1113
|
+
supplied in :py:meth:`~.AbsorbanceReaderContext.initialize`, and a
|
|
1114
|
+
``.csv`` extension. For example, when reading at wavelengths 450 and 562
|
|
1115
|
+
with ``export_filename="my_data"``, there will be two output files:
|
|
1116
|
+
``my_data_450.csv`` and ``my_data_562.csv``.
|
|
1117
|
+
|
|
1118
|
+
See :ref:`absorbance-csv` for information on working with these CSV files.
|
|
1119
|
+
|
|
1120
|
+
:returns: A dictionary of wavelengths to dictionary of values ordered by well name.
|
|
1121
|
+
"""
|
|
1122
|
+
return self._core.read(filename=export_filename)
|
|
1123
|
+
|
|
1124
|
+
|
|
1125
|
+
class FlexStackerContext(ModuleContext):
|
|
1126
|
+
"""An object representing a connected Flex Stacker module.
|
|
1127
|
+
|
|
1128
|
+
It should not be instantiated directly; instead, it should be
|
|
1129
|
+
created through :py:meth:`.ProtocolContext.load_module`.
|
|
1130
|
+
|
|
1131
|
+
.. versionadded:: 2.25
|
|
1132
|
+
"""
|
|
1133
|
+
|
|
1134
|
+
_core: FlexStackerCore
|
|
1135
|
+
|
|
1136
|
+
@property
|
|
1137
|
+
@requires_version(2, 25)
|
|
1138
|
+
def serial_number(self) -> str:
|
|
1139
|
+
"""Get the module's unique hardware serial number."""
|
|
1140
|
+
return self._core.get_serial_number()
|
|
1141
|
+
|
|
1142
|
+
@requires_version(2, 25)
|
|
1143
|
+
def retrieve(self) -> Labware:
|
|
1144
|
+
"""Retrieve a labware from the Flex Stacker and place it on the shuttle.
|
|
1145
|
+
|
|
1146
|
+
:returns: The retrieved :py:class:`Labware` object. This will always be the main labware,
|
|
1147
|
+
even if the Flex Stacker contains labware on an adapter. To get the adapter object,
|
|
1148
|
+
call :py:class:`Labware.parent` on the returned labware.
|
|
1149
|
+
|
|
1150
|
+
"""
|
|
1151
|
+
labware_core = self._core.retrieve()
|
|
1152
|
+
|
|
1153
|
+
return self._core_map.get_or_add(
|
|
1154
|
+
labware_core,
|
|
1155
|
+
Labware._builder_for_core_map(
|
|
1156
|
+
self._api_version, self._protocol_core, self._core_map
|
|
1157
|
+
),
|
|
1158
|
+
)
|
|
1159
|
+
|
|
1160
|
+
@requires_version(2, 25)
|
|
1161
|
+
def store(self) -> None:
|
|
1162
|
+
"""Move the labware currently on the Flex Stacker shuttle into the Flex Stacker."""
|
|
1163
|
+
self._core.store()
|
|
1164
|
+
|
|
1165
|
+
def _labware_to_cores(self, labware: Sequence[Labware]) -> list[LabwareCore]:
|
|
1166
|
+
return [labware._core for labware in labware]
|
|
1167
|
+
|
|
1168
|
+
def _cores_to_labware(self, cores: Sequence[LabwareCore]) -> list[Labware]:
|
|
1169
|
+
def _convert() -> Iterator[Labware]:
|
|
1170
|
+
for core in cores:
|
|
1171
|
+
yield self._core_map.get_or_add(
|
|
1172
|
+
core,
|
|
1173
|
+
Labware._builder_for_core_map(
|
|
1174
|
+
self._api_version, self._protocol_core, self._core_map
|
|
1175
|
+
),
|
|
1176
|
+
)
|
|
1177
|
+
|
|
1178
|
+
return list(_convert())
|
|
1179
|
+
|
|
1180
|
+
@requires_version(2, 25)
|
|
1181
|
+
def get_max_storable_labware_from_list(
|
|
1182
|
+
self,
|
|
1183
|
+
labware: list[Labware],
|
|
1184
|
+
stacking_offset_z: float | None = None,
|
|
1185
|
+
) -> list[Labware]:
|
|
1186
|
+
"""Limit a list of labware instances to the number that can be stored in a Flex Stacker.
|
|
1187
|
+
|
|
1188
|
+
A Flex Stacker has a limited amount of internal space and computes the number of labware
|
|
1189
|
+
(or labware with lids or adapters) that it can store based on the heights of the labware
|
|
1190
|
+
and the amount they overlap when placed on top of each other. To know how many of a given
|
|
1191
|
+
labware the Flex Stacker can store, the Flex Stacker must know what labware it is.
|
|
1192
|
+
|
|
1193
|
+
You can use this function to take a list of labware and return the elements that the
|
|
1194
|
+
stacker can currently store from it. The returned list is then guaranteed to be suitable
|
|
1195
|
+
for passing to :py:meth:`.set_stored_labware_items`.
|
|
1196
|
+
|
|
1197
|
+
This function limits the list of labware based on the overall maximum number the stacker
|
|
1198
|
+
can hold and will not change as labware is added or removed. To limit a list of labware to
|
|
1199
|
+
the amount that will currently fit in the Flex Stacker, use
|
|
1200
|
+
:py:meth:`.get_current_storable_labware_from_list`.
|
|
1201
|
+
|
|
1202
|
+
.. note::
|
|
1203
|
+
|
|
1204
|
+
If a stacking offset is provided, make sure the same value is used when
|
|
1205
|
+
configuring the Flex Stacker with :py:meth:`.set_stored_labware_items`.
|
|
1206
|
+
|
|
1207
|
+
See :py:meth:`.set_stored_labware_items` for more details on stacking offset.
|
|
1208
|
+
|
|
1209
|
+
"""
|
|
1210
|
+
return self._cores_to_labware(
|
|
1211
|
+
self._core.get_max_storable_labware_from_list(
|
|
1212
|
+
self._labware_to_cores(labware), stacking_offset_z
|
|
1213
|
+
),
|
|
1214
|
+
)
|
|
1215
|
+
|
|
1216
|
+
@requires_version(2, 25)
|
|
1217
|
+
def get_current_storable_labware_from_list(
|
|
1218
|
+
self, labware: list[Labware]
|
|
1219
|
+
) -> list[Labware]:
|
|
1220
|
+
"""Limit a list of labware instances to the number that the Flex Stacker currently has space for,
|
|
1221
|
+
based on the labware that is already stored in the Flex Stacker.
|
|
1222
|
+
|
|
1223
|
+
You can use this function to take a list of labware and return the elements that the
|
|
1224
|
+
stacker can currently store from it. The returned list is then guaranteed to be suitable
|
|
1225
|
+
for passing to :py:meth:`.fill`.
|
|
1226
|
+
|
|
1227
|
+
The number of elements in the returned list will change as labware is added to or removed from
|
|
1228
|
+
the Flex Stacker. To get a list limited to the overall maximum number of labware the Flex Stacker
|
|
1229
|
+
can store, use :py:meth:`.get_max_storable_labware_from_list`.
|
|
1230
|
+
"""
|
|
1231
|
+
return self._cores_to_labware(
|
|
1232
|
+
self._core.get_current_storable_labware_from_list(
|
|
1233
|
+
self._labware_to_cores(labware)
|
|
1234
|
+
)
|
|
1235
|
+
)
|
|
1236
|
+
|
|
1237
|
+
@requires_version(2, 25)
|
|
1238
|
+
def get_max_storable_labware(self) -> int:
|
|
1239
|
+
"""Get the number of labware that the Flex Stacker can store with its current stored labware configuration.
|
|
1240
|
+
|
|
1241
|
+
You can use this function to get the total number of labware that the Flex Stacker can store. This
|
|
1242
|
+
number is the overall maximum and will not change as labware is added or removed. To get the space
|
|
1243
|
+
currently available in the Flex Stacker, use :py:meth:`.get_current_storable_labware`.
|
|
1244
|
+
"""
|
|
1245
|
+
return self._core.get_max_storable_labware()
|
|
1246
|
+
|
|
1247
|
+
@requires_version(2, 25)
|
|
1248
|
+
def get_current_storable_labware(self) -> int:
|
|
1249
|
+
"""Get the number of labware that the Flex Stacker currently has space for.
|
|
1250
|
+
|
|
1251
|
+
The number will change as labware is added or removed. To get the overall maximum number of labware the
|
|
1252
|
+
Flex Stacker can store, use :py:meth:`.get_max_storable_labware`.
|
|
1253
|
+
"""
|
|
1254
|
+
return self._core.get_current_storable_labware()
|
|
1255
|
+
|
|
1256
|
+
@requires_version(2, 25)
|
|
1257
|
+
def set_stored_labware_items(
|
|
1258
|
+
self,
|
|
1259
|
+
labware: list[Labware],
|
|
1260
|
+
stacking_offset_z: float | None,
|
|
1261
|
+
) -> None:
|
|
1262
|
+
"""Configure a Flex Stacker by providing an initial list of stored labware objects.
|
|
1263
|
+
|
|
1264
|
+
The kind of labware stored by the Flex Stacker will be calculated from the list of labware
|
|
1265
|
+
specified here. You can use this to store labware objects that you have already created
|
|
1266
|
+
so that, for instance, you can set their liquid state or nicknames. There are several
|
|
1267
|
+
restrictions on the values of the ``labware`` argument:
|
|
1268
|
+
- ``labware`` must have at least one element
|
|
1269
|
+
- Elements of ``labware`` will be stored along with their lid, if any, and an adapter they
|
|
1270
|
+
rest on, if any. These must be compatible with the Flex Stacker.
|
|
1271
|
+
- All elements of ``labware`` must be loaded :py:obj:`OFF_DECK`.
|
|
1272
|
+
- All elements of ``labware`` must be the same kind of labware. If any of them have lids, they
|
|
1273
|
+
must all have lids, and the lids must be the same. If any of them are on adapters, they all
|
|
1274
|
+
must be on adapters, and the adapters must be the same.
|
|
1275
|
+
- The number of labware objects must fit in the stacker physically. To make sure the labware
|
|
1276
|
+
will fit, use the return value of :py:method:`.get_max_storable_labware_from_list`.
|
|
1277
|
+
|
|
1278
|
+
:param labware: A list of labware to load into the stacker.
|
|
1279
|
+
:param stacking_offset_z: Stacking offset in mm between labware units to override the
|
|
1280
|
+
calculated value from labware definitions.
|
|
1281
|
+
|
|
1282
|
+
.. note::
|
|
1283
|
+
|
|
1284
|
+
The stacking offset is the amount of vertical overlap (in mm) between the bottomside of a
|
|
1285
|
+
labware unit and the topside of the unit below. This offset is used to determine how many
|
|
1286
|
+
units can fit in the stacker and calculates the Z position of the shuttle when retrieving
|
|
1287
|
+
or storing labware. The stacking offset is calculated automatically from the labware
|
|
1288
|
+
definitions, but you can override it by providing a value here.
|
|
1289
|
+
|
|
1290
|
+
There are four possible stacking configurations, each with a different way of calculating
|
|
1291
|
+
the stacking offset:
|
|
1292
|
+
- Bare labware: labware (bottomside) overlaps with labware (topside)
|
|
1293
|
+
- Labware on adapter: the adapter (bottomside) of the upper unit overlaps with labware (topside)
|
|
1294
|
+
of the unit below.
|
|
1295
|
+
- Labware with lid: the labware (bottomside) of the upper unit overlaps the lid (topside)
|
|
1296
|
+
of the unit below.
|
|
1297
|
+
- Labware with lid and adapter: the adapter (bottomside) of the upper unit overlaps the
|
|
1298
|
+
lid (topside) of the unit below.
|
|
1299
|
+
|
|
1300
|
+
"""
|
|
1301
|
+
self._core.set_stored_labware_items(
|
|
1302
|
+
self._labware_to_cores(labware),
|
|
1303
|
+
stacking_offset_z=stacking_offset_z,
|
|
1304
|
+
)
|
|
1305
|
+
|
|
1306
|
+
@requires_version(2, 25)
|
|
1307
|
+
def set_stored_labware(
|
|
1308
|
+
self,
|
|
1309
|
+
load_name: str,
|
|
1310
|
+
namespace: str | None = None,
|
|
1311
|
+
version: int | None = None,
|
|
1312
|
+
adapter: str | None = None,
|
|
1313
|
+
lid: str | None = None,
|
|
1314
|
+
count: int | None = None,
|
|
1315
|
+
stacking_offset_z: float | None = None,
|
|
1316
|
+
) -> None:
|
|
1317
|
+
"""Configure what kind of labware the Flex Stacker will store.
|
|
1318
|
+
|
|
1319
|
+
:param str load_name: A string to use for looking up a labware definition.
|
|
1320
|
+
You can find the ``load_name`` for any Opentrons-verified labware on the
|
|
1321
|
+
`Labware Library <https://labware.opentrons.com>`__.
|
|
1322
|
+
:param str namespace: The namespace that the labware definition belongs to.
|
|
1323
|
+
If unspecified, the API will automatically search two namespaces:
|
|
1324
|
+
|
|
1325
|
+
- ``"opentrons"``, to load standard Opentrons labware definitions.
|
|
1326
|
+
- ``"custom_beta"``, to load custom labware definitions created with the
|
|
1327
|
+
`Custom Labware Creator <https://labware.opentrons.com/create>`__.
|
|
1328
|
+
|
|
1329
|
+
You might need to specify an explicit ``namespace`` if you have a custom
|
|
1330
|
+
definition whose ``load_name`` is the same as an Opentrons-verified
|
|
1331
|
+
definition, and you want to explicitly choose one or the other.
|
|
1332
|
+
:param version: The version of the labware definition. You should normally
|
|
1333
|
+
leave this unspecified to let ``load_labware()`` choose a version
|
|
1334
|
+
automatically.
|
|
1335
|
+
:param adapter: An adapter to load the labware on top of. Accepts the same
|
|
1336
|
+
values as the ``load_name`` parameter of :py:meth:`.load_adapter`. The
|
|
1337
|
+
adapter will use the same namespace as the labware, and the API will
|
|
1338
|
+
choose the adapter's version automatically.
|
|
1339
|
+
:param lid: A lid to load the on top of the main labware. Accepts the same
|
|
1340
|
+
values as the ``load_name`` parameter of :py:meth:`.load_lid_stack`. The
|
|
1341
|
+
lid will use the same namespace as the labware, and the API will
|
|
1342
|
+
choose the lid's version automatically.
|
|
1343
|
+
:param count: The number of labware that the Flex Stacker should start the protocol
|
|
1344
|
+
storing. If not specified, this will be the maximum amount of this kind of
|
|
1345
|
+
labware that the Flex Stacker is capable of storing.
|
|
1346
|
+
:param stacking_offset_z: Stacking offset in mm between labware units to override the
|
|
1347
|
+
calculated value from labware definitions.
|
|
1348
|
+
|
|
1349
|
+
.. note::
|
|
1350
|
+
|
|
1351
|
+
The stacking offset is the amount of vertical overlap (in mm) between the bottomside of a
|
|
1352
|
+
labware unit and the topside of the unit below. This offset is used to determine how many
|
|
1353
|
+
units can fit in the stacker and calculates the Z position of the shuttle when retrieving
|
|
1354
|
+
or storing labware. The stacking offset is calculated automatically from the labware
|
|
1355
|
+
definitions, but you can override it by providing a value here.
|
|
1356
|
+
|
|
1357
|
+
There are four possible stacking configurations, each with a different way of calculating
|
|
1358
|
+
the stacking offset:
|
|
1359
|
+
- Bare labware: labware (bottomside) overlaps with labware (topside)
|
|
1360
|
+
- Labware on adapter: the adapter (bottomside) of the upper unit overlaps with labware (topside)
|
|
1361
|
+
of the unit below.
|
|
1362
|
+
- Labware with lid: the labware (bottomside) of the upper unit overlaps the lid (topside)
|
|
1363
|
+
of the unit below.
|
|
1364
|
+
- Labware with lid and adapter: the adapter (bottomside) of the upper unit overlaps the
|
|
1365
|
+
lid (topside) of the unit below.
|
|
1366
|
+
|
|
1367
|
+
"""
|
|
1368
|
+
self._core.set_stored_labware(
|
|
1369
|
+
main_load_name=load_name,
|
|
1370
|
+
main_namespace=namespace,
|
|
1371
|
+
main_version=version,
|
|
1372
|
+
lid_load_name=lid,
|
|
1373
|
+
lid_namespace=namespace,
|
|
1374
|
+
lid_version=version,
|
|
1375
|
+
adapter_load_name=adapter,
|
|
1376
|
+
adapter_namespace=namespace,
|
|
1377
|
+
adapter_version=version,
|
|
1378
|
+
count=count,
|
|
1379
|
+
stacking_offset_z=stacking_offset_z,
|
|
1380
|
+
)
|
|
1381
|
+
|
|
1382
|
+
@requires_version(2, 25)
|
|
1383
|
+
def fill(self, count: int | None = None, message: str | None = None) -> None:
|
|
1384
|
+
"""Pause the protocol to add more labware to the Flex Stacker.
|
|
1385
|
+
|
|
1386
|
+
:param message: A message to display in the Opentrons App to note what kind of labware to add.
|
|
1387
|
+
:param count: The amount of labware the Flex Stacker should hold after this command is executed.
|
|
1388
|
+
If not specified, the Flex Stacker should be full after this command is executed.
|
|
1389
|
+
"""
|
|
1390
|
+
self._core.fill(count, message)
|
|
1391
|
+
|
|
1392
|
+
@requires_version(2, 25)
|
|
1393
|
+
def fill_items(self, labware: list[Labware], message: str | None = None) -> None:
|
|
1394
|
+
"""Pause the protocol to add a specific list of labware to the Flex Stacker.
|
|
1395
|
+
|
|
1396
|
+
The ``labware`` argument must follow certain rules:
|
|
1397
|
+
- It should have at least one item
|
|
1398
|
+
- Its elements should be the same kind of labware previously passed to
|
|
1399
|
+
:py:meth:`.set_stored_labware_items` or loaded by :py:meth:`.set_stored_labware`
|
|
1400
|
+
- Its elements should all be loaded :py:obj:`OFF_DECK`
|
|
1401
|
+
|
|
1402
|
+
:param message: A message to display in the Opentrons App.
|
|
1403
|
+
:param labware: The list of labware to add, following the rules above.
|
|
1404
|
+
"""
|
|
1405
|
+
self._core.fill_items(self._labware_to_cores(labware), message)
|
|
1406
|
+
|
|
1407
|
+
@requires_version(2, 25)
|
|
1408
|
+
def empty(self, message: str | None = None) -> None:
|
|
1409
|
+
"""Pause the protocol to remove labware from the Flex Stacker.
|
|
1410
|
+
|
|
1411
|
+
:param message: A message to display in the Opentrons App to note what should be removed from
|
|
1412
|
+
the Flex Stacker.
|
|
1413
|
+
"""
|
|
1414
|
+
self._core.empty(
|
|
1415
|
+
message,
|
|
1416
|
+
)
|
|
1417
|
+
|
|
1418
|
+
@requires_version(2, 25)
|
|
1419
|
+
def get_stored_labware(self) -> list[Labware]:
|
|
1420
|
+
"""Get the list of labware currently stored inside the stacker.
|
|
1421
|
+
|
|
1422
|
+
The first element of the list is on the bottom and will be the item retrieved by a call to
|
|
1423
|
+
:py:meth:`.retrieve`.
|
|
1424
|
+
"""
|
|
1425
|
+
return self._cores_to_labware(self._core.get_stored_labware())
|