opentrons 8.6.0__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 +557 -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 +187 -0
- opentrons/drivers/asyncio/communication/errors.py +88 -0
- opentrons/drivers/asyncio/communication/serial_connection.py +557 -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/scripts/update_module_fw.py +274 -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 +276 -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 +1186 -0
- opentrons/motion_planning/__init__.py +32 -0
- opentrons/motion_planning/adjacent_slots_getters.py +168 -0
- opentrons/motion_planning/deck_conflict.py +501 -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 +400 -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 +1027 -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 +1006 -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 +3272 -0
- opentrons/protocol_api/labware.py +1579 -0
- opentrons/protocol_api/module_contexts.py +1447 -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 +339 -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
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- 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
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- 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 +1515 -0
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- opentrons/protocol_engine/state/pipettes.py +905 -0
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- 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 +310 -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 +310 -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 +852 -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
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- opentrons/protocols/__init__.py +6 -0
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- opentrons/protocols/advanced_control/mix.py +60 -0
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- opentrons/protocols/api_support/deck_type.py +110 -0
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- opentrons/protocols/api_support/labware_like.py +233 -0
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- opentrons/protocols/parse.py +671 -0
- opentrons/protocols/types.py +159 -0
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- opentrons/simulate.py +1065 -0
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- 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
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- opentrons/types.py +618 -0
- opentrons/util/__init__.py +1 -0
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- 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-8.6.0.dist-info/METADATA +37 -0
- opentrons-8.6.0.dist-info/RECORD +601 -0
- opentrons-8.6.0.dist-info/WHEEL +4 -0
- opentrons-8.6.0.dist-info/entry_points.txt +3 -0
- opentrons-8.6.0.dist-info/licenses/LICENSE +202 -0
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"Y": Y_MAX_SPEED,
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"Z": Z_MAX_SPEED,
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"A": A_MAX_SPEED,
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"B": B_MAX_SPEED,
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"C": C_MAX_SPEED,
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}
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+
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DEFAULT_CURRENT_STRING = " ".join(
|
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+
["{}{}".format(key, value) for key, value in DEFAULT_CURRENT.items()]
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)
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+
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DEFAULT_DECK_CALIBRATION_V2: List[List[float]] = [
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[1.00, 0.00, 0.00],
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[0.00, 1.00, 0.00],
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[0.00, 0.00, 1.00],
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]
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DEFAULT_SIMULATION_CALIBRATION: List[List[float]] = [
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[1.0, 0.0, 0.0, 0.0],
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[0.0, 1.0, 0.0, 0.0],
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[0.0, 0.0, 1.0, -25.0],
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[0.0, 0.0, 0.0, 1.0],
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]
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+
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X_ACCELERATION = 3000
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Y_ACCELERATION = 2000
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Z_ACCELERATION = 1500
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A_ACCELERATION = 1500
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B_ACCELERATION = 200
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C_ACCELERATION = 200
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DEFAULT_ACCELERATION: Dict[str, float] = {
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"X": X_ACCELERATION,
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"Y": Y_ACCELERATION,
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"Z": Z_ACCELERATION,
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"A": A_ACCELERATION,
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"B": B_ACCELERATION,
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"C": C_ACCELERATION,
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}
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DEFAULT_PIPETTE_CONFIGS: Dict[str, float] = {
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"homePosition": 220,
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"stepsPerMM": 768,
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"maxTravel": 30,
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}
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+
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DEFAULT_GANTRY_STEPS_PER_MM: Dict[str, float] = {
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"X": 80.00,
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"Y": 80.00,
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"Z": 400,
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"A": 400,
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}
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+
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+
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DEFAULT_MOUNT_OFFSET = [-34, 0, 0]
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DEFAULT_PIPETTE_OFFSET = [0.0, 0.0, 0.0]
|
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SERIAL_SPEED = 115200
|
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+
DEFAULT_LOG_LEVEL = "INFO"
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+
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+
DictType = TypeVar("DictType", bound=Dict[str, Any])
|
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+
|
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+
|
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+
def _build_dict_with_default(
|
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+
from_conf: Union[DictType, str, None], default: DictType
|
|
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|
+
) -> DictType:
|
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|
+
if not isinstance(from_conf, dict):
|
|
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+
return default
|
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+
else:
|
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+
return cast(DictType, from_conf)
|
|
160
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+
|
|
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+
|
|
162
|
+
def _build_hw_versioned_current_dict(
|
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163
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+
from_conf: Optional[Dict[str, Any]], default: CurrentDict
|
|
164
|
+
) -> CurrentDict:
|
|
165
|
+
if not from_conf or not isinstance(from_conf, dict):
|
|
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+
return default
|
|
167
|
+
# special case: if this is a valid old (i.e. not model-specific) current
|
|
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|
+
# setup, migrate it.
|
|
169
|
+
if "default" not in from_conf and not (set("XYZABC") - set(from_conf.keys())):
|
|
170
|
+
new_dct = deepcopy(default)
|
|
171
|
+
# Because there's no case in which a machine with a more recent revision
|
|
172
|
+
# than 2.1 should have a valid and edited robot config when updating
|
|
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|
+
# to this code, we should default it to 2.1 to avoid breaking other
|
|
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|
+
# robots
|
|
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|
+
new_dct["2.1"] = cast(AxisDict, from_conf)
|
|
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|
+
return new_dct
|
|
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|
+
return cast(CurrentDict, from_conf)
|
|
178
|
+
|
|
179
|
+
|
|
180
|
+
def build_with_defaults(robot_settings: Dict[str, Any]) -> RobotConfig:
|
|
181
|
+
return RobotConfig(
|
|
182
|
+
model="OT-2 Standard",
|
|
183
|
+
name=robot_settings.get("name", "Ada Lovelace"),
|
|
184
|
+
version=ROBOT_CONFIG_VERSION,
|
|
185
|
+
gantry_steps_per_mm=_build_dict_with_default(
|
|
186
|
+
robot_settings.get("steps_per_mm"), DEFAULT_GANTRY_STEPS_PER_MM
|
|
187
|
+
),
|
|
188
|
+
acceleration=_build_dict_with_default(
|
|
189
|
+
robot_settings.get("acceleration"), DEFAULT_ACCELERATION
|
|
190
|
+
),
|
|
191
|
+
serial_speed=robot_settings.get("serial_speed", SERIAL_SPEED),
|
|
192
|
+
default_current=_build_hw_versioned_current_dict(
|
|
193
|
+
robot_settings.get("default_current"), DEFAULT_CURRENT
|
|
194
|
+
),
|
|
195
|
+
low_current=_build_hw_versioned_current_dict(
|
|
196
|
+
robot_settings.get("low_current"), LOW_CURRENT
|
|
197
|
+
),
|
|
198
|
+
high_current=_build_hw_versioned_current_dict(
|
|
199
|
+
robot_settings.get("high_current"), HIGH_CURRENT
|
|
200
|
+
),
|
|
201
|
+
default_max_speed=robot_settings.get("default_max_speed", DEFAULT_MAX_SPEEDS),
|
|
202
|
+
log_level=robot_settings.get("log_level", DEFAULT_LOG_LEVEL),
|
|
203
|
+
default_pipette_configs=robot_settings.get(
|
|
204
|
+
"default_pipette_configs", DEFAULT_PIPETTE_CONFIGS
|
|
205
|
+
),
|
|
206
|
+
z_retract_distance=robot_settings.get("z_retract_distance", Z_RETRACT_DISTANCE),
|
|
207
|
+
left_mount_offset=robot_settings.get("left_mount_offset", DEFAULT_MOUNT_OFFSET),
|
|
208
|
+
)
|
|
209
|
+
|
|
210
|
+
|
|
211
|
+
def serialize(config: RobotConfig) -> Dict[str, Any]:
|
|
212
|
+
config_dict = asdict(config)
|
|
213
|
+
config_dict.pop("model", None)
|
|
214
|
+
return config_dict
|
|
@@ -0,0 +1,499 @@
|
|
|
1
|
+
from typing import Any, Dict, cast, List, Iterable, Tuple, Optional
|
|
2
|
+
from typing_extensions import Final
|
|
3
|
+
from dataclasses import asdict
|
|
4
|
+
|
|
5
|
+
from opentrons.hardware_control.types import OT3AxisKind, InstrumentProbeType
|
|
6
|
+
from .types import (
|
|
7
|
+
OT3Config,
|
|
8
|
+
ByGantryLoad,
|
|
9
|
+
OT3CurrentSettings,
|
|
10
|
+
OT3MotionSettings,
|
|
11
|
+
OT3Transform,
|
|
12
|
+
Offset,
|
|
13
|
+
OT3CalibrationSettings,
|
|
14
|
+
CapacitivePassSettings,
|
|
15
|
+
LiquidProbeSettings,
|
|
16
|
+
ZSenseSettings,
|
|
17
|
+
EdgeSenseSettings,
|
|
18
|
+
)
|
|
19
|
+
|
|
20
|
+
|
|
21
|
+
DEFAULT_PIPETTE_OFFSET = [0.0, 0.0, 0.0]
|
|
22
|
+
DEFAULT_MODULE_OFFSET = [0.0, 0.0, 0.0]
|
|
23
|
+
|
|
24
|
+
DEFAULT_LIQUID_PROBE_SETTINGS: Final[LiquidProbeSettings] = LiquidProbeSettings(
|
|
25
|
+
mount_speed=5,
|
|
26
|
+
plunger_speed=15,
|
|
27
|
+
plunger_impulse_time=0.2,
|
|
28
|
+
sensor_threshold_pascals=15,
|
|
29
|
+
aspirate_while_sensing=False,
|
|
30
|
+
z_overlap_between_passes_mm=0.1,
|
|
31
|
+
plunger_reset_offset=2.0,
|
|
32
|
+
samples_for_baselining=20,
|
|
33
|
+
sample_time_sec=0.004,
|
|
34
|
+
)
|
|
35
|
+
|
|
36
|
+
DEFAULT_CALIBRATION_SETTINGS: Final[OT3CalibrationSettings] = OT3CalibrationSettings(
|
|
37
|
+
z_offset=ZSenseSettings(
|
|
38
|
+
pass_settings=CapacitivePassSettings(
|
|
39
|
+
prep_distance_mm=4.0,
|
|
40
|
+
max_overrun_distance_mm=5.0,
|
|
41
|
+
speed_mm_per_s=1.0,
|
|
42
|
+
sensor_threshold_pf=3.0,
|
|
43
|
+
),
|
|
44
|
+
),
|
|
45
|
+
edge_sense=EdgeSenseSettings(
|
|
46
|
+
overrun_tolerance_mm=0.4,
|
|
47
|
+
early_sense_tolerance_mm=0.5,
|
|
48
|
+
pass_settings=CapacitivePassSettings(
|
|
49
|
+
prep_distance_mm=1,
|
|
50
|
+
max_overrun_distance_mm=0.5,
|
|
51
|
+
speed_mm_per_s=1,
|
|
52
|
+
sensor_threshold_pf=3.0,
|
|
53
|
+
),
|
|
54
|
+
search_initial_tolerance_mm=12.0,
|
|
55
|
+
search_iteration_limit=8,
|
|
56
|
+
),
|
|
57
|
+
probe_length=44.5,
|
|
58
|
+
)
|
|
59
|
+
|
|
60
|
+
ROBOT_CONFIG_VERSION: Final = 1
|
|
61
|
+
DEFAULT_LOG_LEVEL: Final = "INFO"
|
|
62
|
+
DEFAULT_MACHINE_TRANSFORM: Final[OT3Transform] = [
|
|
63
|
+
[-1.0, 0.0, 0.0],
|
|
64
|
+
[0.0, -1.0, 0.0],
|
|
65
|
+
[0.0, 0.0, -1.0],
|
|
66
|
+
]
|
|
67
|
+
DEFAULT_BELT_ATTITUDE: Final[OT3Transform] = [
|
|
68
|
+
[1.0, 0.0, 0.0],
|
|
69
|
+
[0.0, 1.0, 0.0],
|
|
70
|
+
[0.0, 0.0, 1.0],
|
|
71
|
+
]
|
|
72
|
+
DEFAULT_CARRIAGE_OFFSET: Final[Offset] = (477.20, 493.8, 253.475)
|
|
73
|
+
DEFAULT_LEFT_MOUNT_OFFSET: Final[Offset] = (-13.5, -60.5, 255.675)
|
|
74
|
+
DEFAULT_RIGHT_MOUNT_OFFSET: Final[Offset] = (40.5, -60.5, 255.675)
|
|
75
|
+
DEFAULT_GRIPPER_MOUNT_OFFSET: Final[Offset] = (84.55, -12.75, 93.85)
|
|
76
|
+
DEFAULT_SAFE_HOME_DISTANCE: Final = 5
|
|
77
|
+
DEFAULT_EMULSIFYING_PIPETTE_AXIS_MAX_SPEED: Final = 90
|
|
78
|
+
|
|
79
|
+
DEFAULT_MAX_SPEEDS: Final[ByGantryLoad[Dict[OT3AxisKind, float]]] = ByGantryLoad(
|
|
80
|
+
high_throughput_1000={
|
|
81
|
+
OT3AxisKind.X: 350,
|
|
82
|
+
OT3AxisKind.Y: 300,
|
|
83
|
+
OT3AxisKind.Z: 35,
|
|
84
|
+
OT3AxisKind.P: 15,
|
|
85
|
+
OT3AxisKind.Z_G: 50,
|
|
86
|
+
OT3AxisKind.Q: 10,
|
|
87
|
+
},
|
|
88
|
+
high_throughput_200={
|
|
89
|
+
OT3AxisKind.X: 350,
|
|
90
|
+
OT3AxisKind.Y: 300,
|
|
91
|
+
OT3AxisKind.Z: 35,
|
|
92
|
+
OT3AxisKind.P: 15,
|
|
93
|
+
OT3AxisKind.Z_G: 50,
|
|
94
|
+
OT3AxisKind.Q: 10,
|
|
95
|
+
},
|
|
96
|
+
low_throughput={
|
|
97
|
+
OT3AxisKind.X: 350,
|
|
98
|
+
OT3AxisKind.Y: 300,
|
|
99
|
+
OT3AxisKind.Z: 100,
|
|
100
|
+
OT3AxisKind.P: 70,
|
|
101
|
+
OT3AxisKind.Z_G: 50,
|
|
102
|
+
},
|
|
103
|
+
)
|
|
104
|
+
|
|
105
|
+
DEFAULT_ACCELERATIONS: Final[ByGantryLoad[Dict[OT3AxisKind, float]]] = ByGantryLoad(
|
|
106
|
+
high_throughput_1000={
|
|
107
|
+
OT3AxisKind.X: 700,
|
|
108
|
+
OT3AxisKind.Y: 600,
|
|
109
|
+
OT3AxisKind.Z: 150,
|
|
110
|
+
OT3AxisKind.P: 30,
|
|
111
|
+
OT3AxisKind.Z_G: 150,
|
|
112
|
+
OT3AxisKind.Q: 10,
|
|
113
|
+
},
|
|
114
|
+
high_throughput_200={
|
|
115
|
+
OT3AxisKind.X: 700,
|
|
116
|
+
OT3AxisKind.Y: 600,
|
|
117
|
+
OT3AxisKind.Z: 150,
|
|
118
|
+
OT3AxisKind.P: 30,
|
|
119
|
+
OT3AxisKind.Z_G: 150,
|
|
120
|
+
OT3AxisKind.Q: 10,
|
|
121
|
+
},
|
|
122
|
+
low_throughput={
|
|
123
|
+
OT3AxisKind.X: 800,
|
|
124
|
+
OT3AxisKind.Y: 600,
|
|
125
|
+
OT3AxisKind.Z: 150,
|
|
126
|
+
OT3AxisKind.P: 100,
|
|
127
|
+
OT3AxisKind.Z_G: 150,
|
|
128
|
+
},
|
|
129
|
+
)
|
|
130
|
+
|
|
131
|
+
DEFAULT_MAX_SPEED_DISCONTINUITY: Final[
|
|
132
|
+
ByGantryLoad[Dict[OT3AxisKind, float]]
|
|
133
|
+
] = ByGantryLoad(
|
|
134
|
+
high_throughput_1000={
|
|
135
|
+
OT3AxisKind.X: 10,
|
|
136
|
+
OT3AxisKind.Y: 10,
|
|
137
|
+
OT3AxisKind.Z: 5,
|
|
138
|
+
OT3AxisKind.P: 5,
|
|
139
|
+
OT3AxisKind.Z_G: 5,
|
|
140
|
+
OT3AxisKind.Q: 5,
|
|
141
|
+
},
|
|
142
|
+
high_throughput_200={
|
|
143
|
+
OT3AxisKind.X: 10,
|
|
144
|
+
OT3AxisKind.Y: 10,
|
|
145
|
+
OT3AxisKind.Z: 5,
|
|
146
|
+
OT3AxisKind.P: 5,
|
|
147
|
+
OT3AxisKind.Z_G: 5,
|
|
148
|
+
OT3AxisKind.Q: 5,
|
|
149
|
+
},
|
|
150
|
+
low_throughput={
|
|
151
|
+
OT3AxisKind.X: 10,
|
|
152
|
+
OT3AxisKind.Y: 10,
|
|
153
|
+
OT3AxisKind.Z: 5,
|
|
154
|
+
OT3AxisKind.P: 10,
|
|
155
|
+
OT3AxisKind.Z_G: 5,
|
|
156
|
+
},
|
|
157
|
+
)
|
|
158
|
+
|
|
159
|
+
DEFAULT_DIRECTION_CHANGE_SPEED_DISCONTINUITY: Final[
|
|
160
|
+
ByGantryLoad[Dict[OT3AxisKind, float]]
|
|
161
|
+
] = ByGantryLoad(
|
|
162
|
+
high_throughput_1000={
|
|
163
|
+
OT3AxisKind.X: 5,
|
|
164
|
+
OT3AxisKind.Y: 5,
|
|
165
|
+
OT3AxisKind.Z: 1,
|
|
166
|
+
OT3AxisKind.P: 5,
|
|
167
|
+
OT3AxisKind.Q: 5,
|
|
168
|
+
OT3AxisKind.Z_G: 5,
|
|
169
|
+
},
|
|
170
|
+
high_throughput_200={
|
|
171
|
+
OT3AxisKind.X: 5,
|
|
172
|
+
OT3AxisKind.Y: 5,
|
|
173
|
+
OT3AxisKind.Z: 1,
|
|
174
|
+
OT3AxisKind.P: 5,
|
|
175
|
+
OT3AxisKind.Q: 5,
|
|
176
|
+
OT3AxisKind.Z_G: 5,
|
|
177
|
+
},
|
|
178
|
+
low_throughput={
|
|
179
|
+
OT3AxisKind.X: 5,
|
|
180
|
+
OT3AxisKind.Y: 5,
|
|
181
|
+
OT3AxisKind.Z: 1,
|
|
182
|
+
OT3AxisKind.P: 5,
|
|
183
|
+
OT3AxisKind.Z_G: 5,
|
|
184
|
+
},
|
|
185
|
+
)
|
|
186
|
+
|
|
187
|
+
DEFAULT_HOLD_CURRENT: Final[ByGantryLoad[Dict[OT3AxisKind, float]]] = ByGantryLoad(
|
|
188
|
+
high_throughput_1000={
|
|
189
|
+
OT3AxisKind.X: 0.5,
|
|
190
|
+
OT3AxisKind.Y: 0.5,
|
|
191
|
+
OT3AxisKind.Z: 0.5,
|
|
192
|
+
OT3AxisKind.P: 0.8,
|
|
193
|
+
OT3AxisKind.Z_G: 0.2,
|
|
194
|
+
OT3AxisKind.Q: 0.3,
|
|
195
|
+
},
|
|
196
|
+
high_throughput_200={
|
|
197
|
+
OT3AxisKind.X: 0.5,
|
|
198
|
+
OT3AxisKind.Y: 0.5,
|
|
199
|
+
OT3AxisKind.Z: 0.5,
|
|
200
|
+
OT3AxisKind.P: 0.8,
|
|
201
|
+
OT3AxisKind.Z_G: 0.2,
|
|
202
|
+
OT3AxisKind.Q: 0.3,
|
|
203
|
+
},
|
|
204
|
+
low_throughput={
|
|
205
|
+
OT3AxisKind.X: 0.5,
|
|
206
|
+
OT3AxisKind.Y: 0.5,
|
|
207
|
+
OT3AxisKind.Z: 0.1,
|
|
208
|
+
OT3AxisKind.P: 0.3,
|
|
209
|
+
OT3AxisKind.Z_G: 0.2,
|
|
210
|
+
},
|
|
211
|
+
)
|
|
212
|
+
|
|
213
|
+
DEFAULT_RUN_CURRENT: Final[ByGantryLoad[Dict[OT3AxisKind, float]]] = ByGantryLoad(
|
|
214
|
+
high_throughput_1000={
|
|
215
|
+
OT3AxisKind.X: 1.25,
|
|
216
|
+
OT3AxisKind.Y: 1.4,
|
|
217
|
+
OT3AxisKind.Z: 1.5,
|
|
218
|
+
OT3AxisKind.P: 0.8,
|
|
219
|
+
OT3AxisKind.Z_G: 0.67,
|
|
220
|
+
OT3AxisKind.Q: 1.5,
|
|
221
|
+
},
|
|
222
|
+
high_throughput_200={
|
|
223
|
+
OT3AxisKind.X: 1.25,
|
|
224
|
+
OT3AxisKind.Y: 1.4,
|
|
225
|
+
OT3AxisKind.Z: 1.5,
|
|
226
|
+
OT3AxisKind.P: 1.0,
|
|
227
|
+
OT3AxisKind.Z_G: 0.67,
|
|
228
|
+
OT3AxisKind.Q: 1.5,
|
|
229
|
+
},
|
|
230
|
+
low_throughput={
|
|
231
|
+
OT3AxisKind.X: 1.25,
|
|
232
|
+
OT3AxisKind.Y: 1.2,
|
|
233
|
+
OT3AxisKind.Z: 1.0,
|
|
234
|
+
# TODO: verify this value
|
|
235
|
+
OT3AxisKind.P: 1.0,
|
|
236
|
+
OT3AxisKind.Z_G: 0.67,
|
|
237
|
+
},
|
|
238
|
+
)
|
|
239
|
+
|
|
240
|
+
|
|
241
|
+
def _build_log_files_with_default(
|
|
242
|
+
from_conf: Any,
|
|
243
|
+
default: Optional[Dict[InstrumentProbeType, str]],
|
|
244
|
+
) -> Optional[Dict[InstrumentProbeType, str]]:
|
|
245
|
+
print(f"from_conf {from_conf} default {default}")
|
|
246
|
+
if not isinstance(from_conf, dict):
|
|
247
|
+
if default is None:
|
|
248
|
+
return None
|
|
249
|
+
else:
|
|
250
|
+
return {k: v for k, v in default.items()}
|
|
251
|
+
else:
|
|
252
|
+
validated: Dict[InstrumentProbeType, str] = {}
|
|
253
|
+
for k, v in from_conf.items():
|
|
254
|
+
if isinstance(k, InstrumentProbeType):
|
|
255
|
+
validated[k] = v
|
|
256
|
+
else:
|
|
257
|
+
try:
|
|
258
|
+
enumval = InstrumentProbeType[k]
|
|
259
|
+
except KeyError: # not an enum entry
|
|
260
|
+
pass
|
|
261
|
+
else:
|
|
262
|
+
validated[enumval] = v
|
|
263
|
+
print(f"result {validated}")
|
|
264
|
+
return validated
|
|
265
|
+
|
|
266
|
+
|
|
267
|
+
def _build_dict_with_default(
|
|
268
|
+
from_conf: Any,
|
|
269
|
+
default: Dict[OT3AxisKind, float],
|
|
270
|
+
) -> Dict[OT3AxisKind, float]:
|
|
271
|
+
if not isinstance(from_conf, dict):
|
|
272
|
+
return {k: v for k, v in default.items()}
|
|
273
|
+
else:
|
|
274
|
+
validated: Dict[OT3AxisKind, float] = {}
|
|
275
|
+
# Keep what is specified, handling it being
|
|
276
|
+
# either enum element name string or enum element directly
|
|
277
|
+
for k, v in from_conf.items():
|
|
278
|
+
if isinstance(k, OT3AxisKind):
|
|
279
|
+
validated[k] = v
|
|
280
|
+
else:
|
|
281
|
+
try:
|
|
282
|
+
enumval = OT3AxisKind[k]
|
|
283
|
+
except KeyError: # not an enum entry
|
|
284
|
+
pass
|
|
285
|
+
else:
|
|
286
|
+
validated[enumval] = v
|
|
287
|
+
# Add what's missing relative to the default
|
|
288
|
+
for k, default_v in default.items():
|
|
289
|
+
if k in from_conf:
|
|
290
|
+
validated[k] = from_conf[k]
|
|
291
|
+
elif k.name in from_conf:
|
|
292
|
+
validated[k] = from_conf[k.name]
|
|
293
|
+
else:
|
|
294
|
+
validated[k] = default_v
|
|
295
|
+
return validated
|
|
296
|
+
|
|
297
|
+
|
|
298
|
+
def _build_default_bpk(
|
|
299
|
+
from_conf: Any, default: ByGantryLoad[Dict[OT3AxisKind, float]]
|
|
300
|
+
) -> ByGantryLoad[Dict[OT3AxisKind, float]]:
|
|
301
|
+
return ByGantryLoad(
|
|
302
|
+
low_throughput=_build_dict_with_default(
|
|
303
|
+
from_conf.get("low_throughput", {}), default.low_throughput
|
|
304
|
+
),
|
|
305
|
+
high_throughput_1000=_build_dict_with_default(
|
|
306
|
+
from_conf.get("high_throughput_1000", {}), default.high_throughput_1000
|
|
307
|
+
),
|
|
308
|
+
high_throughput_200=_build_dict_with_default(
|
|
309
|
+
from_conf.get("high_throughput_200", {}), default.high_throughput_200
|
|
310
|
+
),
|
|
311
|
+
)
|
|
312
|
+
|
|
313
|
+
|
|
314
|
+
def _build_default_offset(from_conf: Any, default: Offset) -> Offset:
|
|
315
|
+
if not isinstance(from_conf, (list, tuple)) or len(from_conf) != 3:
|
|
316
|
+
return default
|
|
317
|
+
return cast(Offset, tuple(from_conf))
|
|
318
|
+
|
|
319
|
+
|
|
320
|
+
def _build_default_transform(
|
|
321
|
+
from_conf: Any, default: List[List[float]]
|
|
322
|
+
) -> List[List[float]]:
|
|
323
|
+
if (
|
|
324
|
+
not isinstance(from_conf, list)
|
|
325
|
+
or len(from_conf) != 3
|
|
326
|
+
or not all(isinstance(elem, list) for elem in from_conf)
|
|
327
|
+
or not all(len(e) == 3 for e in from_conf)
|
|
328
|
+
or not all(
|
|
329
|
+
all(isinstance(elem, (int, float)) for elem in vec) for vec in from_conf
|
|
330
|
+
)
|
|
331
|
+
):
|
|
332
|
+
return default
|
|
333
|
+
return cast(OT3Transform, from_conf)
|
|
334
|
+
|
|
335
|
+
|
|
336
|
+
def _build_default_cap_pass(
|
|
337
|
+
from_conf: Any, default: CapacitivePassSettings
|
|
338
|
+
) -> CapacitivePassSettings:
|
|
339
|
+
return CapacitivePassSettings(
|
|
340
|
+
prep_distance_mm=from_conf.get("prep_distance_mm", default.prep_distance_mm),
|
|
341
|
+
max_overrun_distance_mm=from_conf.get(
|
|
342
|
+
"max_overrun_distance_mm", default.max_overrun_distance_mm
|
|
343
|
+
),
|
|
344
|
+
speed_mm_per_s=from_conf.get("speed_mm_per_s", default.speed_mm_per_s),
|
|
345
|
+
sensor_threshold_pf=from_conf.get(
|
|
346
|
+
"sensor_threshold_pf", default.sensor_threshold_pf
|
|
347
|
+
),
|
|
348
|
+
)
|
|
349
|
+
|
|
350
|
+
|
|
351
|
+
def _build_default_liquid_probe(
|
|
352
|
+
from_conf: Any, default: LiquidProbeSettings
|
|
353
|
+
) -> LiquidProbeSettings:
|
|
354
|
+
return LiquidProbeSettings(
|
|
355
|
+
mount_speed=from_conf.get("mount_speed", default.mount_speed),
|
|
356
|
+
plunger_speed=from_conf.get("plunger_speed", default.plunger_speed),
|
|
357
|
+
plunger_impulse_time=from_conf.get(
|
|
358
|
+
"plunger_impulse_time", default.plunger_impulse_time
|
|
359
|
+
),
|
|
360
|
+
sensor_threshold_pascals=from_conf.get(
|
|
361
|
+
"sensor_threshold_pascals", default.sensor_threshold_pascals
|
|
362
|
+
),
|
|
363
|
+
aspirate_while_sensing=from_conf.get(
|
|
364
|
+
"aspirate_while_sensing", default.aspirate_while_sensing
|
|
365
|
+
),
|
|
366
|
+
z_overlap_between_passes_mm=from_conf.get(
|
|
367
|
+
"z_overlap_between_passes_mm", default.z_overlap_between_passes_mm
|
|
368
|
+
),
|
|
369
|
+
plunger_reset_offset=from_conf.get(
|
|
370
|
+
"plunger_reset_offset", default.plunger_reset_offset
|
|
371
|
+
),
|
|
372
|
+
samples_for_baselining=from_conf.get(
|
|
373
|
+
"samples_for_baselining", default.samples_for_baselining
|
|
374
|
+
),
|
|
375
|
+
sample_time_sec=from_conf.get("sample_time_sec", default.sample_time_sec),
|
|
376
|
+
)
|
|
377
|
+
|
|
378
|
+
|
|
379
|
+
def _build_default_z_pass(from_conf: Any, default: ZSenseSettings) -> ZSenseSettings:
|
|
380
|
+
return ZSenseSettings(
|
|
381
|
+
pass_settings=_build_default_cap_pass(
|
|
382
|
+
from_conf.get("pass_settings", {}), default.pass_settings
|
|
383
|
+
),
|
|
384
|
+
)
|
|
385
|
+
|
|
386
|
+
|
|
387
|
+
def _build_default_edge_sense(
|
|
388
|
+
from_conf: Any, default: EdgeSenseSettings
|
|
389
|
+
) -> EdgeSenseSettings:
|
|
390
|
+
return EdgeSenseSettings(
|
|
391
|
+
overrun_tolerance_mm=from_conf.get(
|
|
392
|
+
"overrun_tolerance_mm", default.overrun_tolerance_mm
|
|
393
|
+
),
|
|
394
|
+
early_sense_tolerance_mm=from_conf.get(
|
|
395
|
+
"early_sense_tolerance_mm", default.early_sense_tolerance_mm
|
|
396
|
+
),
|
|
397
|
+
pass_settings=_build_default_cap_pass(
|
|
398
|
+
from_conf.get("pass_settings", {}), default.pass_settings
|
|
399
|
+
),
|
|
400
|
+
search_initial_tolerance_mm=from_conf.get(
|
|
401
|
+
"search_initial_tolerance_mm", default.search_initial_tolerance_mm
|
|
402
|
+
),
|
|
403
|
+
search_iteration_limit=from_conf.get(
|
|
404
|
+
"search_iteration_limit", default.search_iteration_limit
|
|
405
|
+
),
|
|
406
|
+
)
|
|
407
|
+
|
|
408
|
+
|
|
409
|
+
def _build_default_calibration(
|
|
410
|
+
from_conf: Any, default: OT3CalibrationSettings
|
|
411
|
+
) -> OT3CalibrationSettings:
|
|
412
|
+
return OT3CalibrationSettings(
|
|
413
|
+
z_offset=_build_default_z_pass(from_conf.get("z_offset", {}), default.z_offset),
|
|
414
|
+
edge_sense=_build_default_edge_sense(
|
|
415
|
+
from_conf.get("edge_sense", {}), default.edge_sense
|
|
416
|
+
),
|
|
417
|
+
probe_length=from_conf.get("probe_length", default.probe_length),
|
|
418
|
+
)
|
|
419
|
+
|
|
420
|
+
|
|
421
|
+
def build_with_defaults(robot_settings: Dict[str, Any]) -> OT3Config:
|
|
422
|
+
motion_settings = robot_settings.get("motion_settings", {})
|
|
423
|
+
current_settings = robot_settings.get("current_settings", {})
|
|
424
|
+
return OT3Config(
|
|
425
|
+
model="OT-3 Standard",
|
|
426
|
+
version=ROBOT_CONFIG_VERSION,
|
|
427
|
+
name=robot_settings.get("name", "Grace Hopper"),
|
|
428
|
+
log_level=robot_settings.get("log_level", DEFAULT_LOG_LEVEL),
|
|
429
|
+
motion_settings=OT3MotionSettings(
|
|
430
|
+
default_max_speed=_build_default_bpk(
|
|
431
|
+
motion_settings.get("default_max_speed", {}), DEFAULT_MAX_SPEEDS
|
|
432
|
+
),
|
|
433
|
+
acceleration=_build_default_bpk(
|
|
434
|
+
motion_settings.get("acceleration", {}), DEFAULT_ACCELERATIONS
|
|
435
|
+
),
|
|
436
|
+
max_speed_discontinuity=_build_default_bpk(
|
|
437
|
+
motion_settings.get("max_speed_discontinuity", {}),
|
|
438
|
+
DEFAULT_MAX_SPEED_DISCONTINUITY,
|
|
439
|
+
),
|
|
440
|
+
direction_change_speed_discontinuity=_build_default_bpk(
|
|
441
|
+
motion_settings.get("direction_change_speed_discontinuity", {}),
|
|
442
|
+
DEFAULT_DIRECTION_CHANGE_SPEED_DISCONTINUITY,
|
|
443
|
+
),
|
|
444
|
+
),
|
|
445
|
+
current_settings=OT3CurrentSettings(
|
|
446
|
+
hold_current=_build_default_bpk(
|
|
447
|
+
current_settings.get("hold_current", {}),
|
|
448
|
+
DEFAULT_HOLD_CURRENT,
|
|
449
|
+
),
|
|
450
|
+
run_current=_build_default_bpk(
|
|
451
|
+
current_settings.get("run_current", {}),
|
|
452
|
+
DEFAULT_RUN_CURRENT,
|
|
453
|
+
),
|
|
454
|
+
),
|
|
455
|
+
safe_home_distance=robot_settings.get(
|
|
456
|
+
"safe_home_distance", DEFAULT_SAFE_HOME_DISTANCE
|
|
457
|
+
),
|
|
458
|
+
deck_transform=_build_default_transform(
|
|
459
|
+
robot_settings.get("deck_transform", []), DEFAULT_MACHINE_TRANSFORM
|
|
460
|
+
),
|
|
461
|
+
carriage_offset=_build_default_offset(
|
|
462
|
+
robot_settings.get("carriage_offset", []), DEFAULT_CARRIAGE_OFFSET
|
|
463
|
+
),
|
|
464
|
+
left_mount_offset=_build_default_offset(
|
|
465
|
+
robot_settings.get("left_mount_offset", []), DEFAULT_LEFT_MOUNT_OFFSET
|
|
466
|
+
),
|
|
467
|
+
right_mount_offset=_build_default_offset(
|
|
468
|
+
robot_settings.get("right_mount_offset", []), DEFAULT_RIGHT_MOUNT_OFFSET
|
|
469
|
+
),
|
|
470
|
+
gripper_mount_offset=_build_default_offset(
|
|
471
|
+
robot_settings.get("gripper_mount_offset", []), DEFAULT_GRIPPER_MOUNT_OFFSET
|
|
472
|
+
),
|
|
473
|
+
calibration=_build_default_calibration(
|
|
474
|
+
robot_settings.get("calibration", {}), DEFAULT_CALIBRATION_SETTINGS
|
|
475
|
+
),
|
|
476
|
+
liquid_sense=_build_default_liquid_probe(
|
|
477
|
+
robot_settings.get("liquid_sense", {}), DEFAULT_LIQUID_PROBE_SETTINGS
|
|
478
|
+
),
|
|
479
|
+
)
|
|
480
|
+
|
|
481
|
+
|
|
482
|
+
def serialize(config: OT3Config) -> Dict[str, Any]:
|
|
483
|
+
def _build_dict(pairs: Iterable[Tuple[Any, Any]]) -> Dict[str, Any]:
|
|
484
|
+
def _normalize_key(key: Any) -> Any:
|
|
485
|
+
if isinstance(key, OT3AxisKind) or isinstance(key, InstrumentProbeType):
|
|
486
|
+
return key.name
|
|
487
|
+
return key
|
|
488
|
+
|
|
489
|
+
def _normalize_value(value: Any) -> Any:
|
|
490
|
+
if isinstance(value, dict):
|
|
491
|
+
return {
|
|
492
|
+
_normalize_key(k): _normalize_value(v) for k, v in value.items()
|
|
493
|
+
}
|
|
494
|
+
else:
|
|
495
|
+
return value
|
|
496
|
+
|
|
497
|
+
return dict((_normalize_key(key), _normalize_value(val)) for key, val in pairs)
|
|
498
|
+
|
|
499
|
+
return asdict(config, dict_factory=_build_dict)
|