Add action definitions for LiquidHandlerSetGroup and LiquidHandlerTransferGroup

- Created LiquidHandlerSetGroup.action with fields for group name, wells, and volumes.
- Created LiquidHandlerTransferGroup.action with fields for source and target group names and unit volume.
- Both actions include response fields for return information and success status.
This commit is contained in:
Guangxin Zhang
2025-09-10 20:57:16 +08:00
parent 22b88c8441
commit 1ae274a833
5 changed files with 452 additions and 376 deletions

View File

@@ -1,11 +1,11 @@
from __future__ import annotations
import traceback
from typing import List, Sequence, Optional, Literal, Union, Iterator, Dict, Any, Callable, Set
from typing import List, Sequence, Optional, Literal, Union, Iterator, Dict, Any, Callable, Set, cast
from collections import Counter
import asyncio
import time
import pprint as pp
from pylabrobot.liquid_handling import LiquidHandler, LiquidHandlerBackend, LiquidHandlerChatterboxBackend, Strictness
from pylabrobot.liquid_handling.liquid_handler import TipPresenceProbingMethod
from pylabrobot.liquid_handling.standard import GripDirection
@@ -29,6 +29,7 @@ from pylabrobot.resources import (
class LiquidHandlerMiddleware(LiquidHandler):
def __init__(self, backend: LiquidHandlerBackend, deck: Deck, simulator: bool = False, channel_num: int = 8):
self._simulator = simulator
self.channel_num = channel_num
if simulator:
self._simulate_backend = LiquidHandlerChatterboxBackend(channel_num)
self._simulate_handler = LiquidHandlerAbstract(self._simulate_backend, deck, False)
@@ -104,8 +105,7 @@ class LiquidHandlerMiddleware(LiquidHandler):
offsets: Optional[List[Coordinate]] = None,
**backend_kwargs,
):
print('222'*200)
print(tip_spots)
if self._simulator:
return await self._simulate_handler.pick_up_tips(tip_spots, use_channels, offsets, **backend_kwargs)
return await super().pick_up_tips(tip_spots, use_channels, offsets, **backend_kwargs)
@@ -545,6 +545,7 @@ class LiquidHandlerAbstract(LiquidHandlerMiddleware):
deck: Deck to use.
"""
self._simulator = simulator
self.group_info = dict()
super().__init__(backend, deck, simulator, channel_num)
@classmethod
@@ -556,6 +557,51 @@ class LiquidHandlerAbstract(LiquidHandlerMiddleware):
# REMOVE LIQUID --------------------------------------------------
# ---------------------------------------------------------------
def set_group(self, group_name: str, wells: List[Well], volumes: List[float]):
if len(wells) != 8:
raise RuntimeError(f"Expected 8 wells, got {len(wells)}")
self.group_info[group_name] = wells
self.set_liquid(wells, [group_name] * len(wells), volumes)
async def transfer_group(self, source_group_name: str, target_group_name: str, unit_volume: float):
source_wells = self.group_info.get(source_group_name, [])
target_wells = self.group_info.get(target_group_name, [])
rack_info = dict()
for child in self.deck.children:
if issubclass(child.__class__, TipRack):
rack: TipRack = cast(TipRack, child)
if "plate" not in rack.name.lower():
for tip in rack.get_all_tips():
if unit_volume > tip.maximal_volume:
break
else:
rack_info[rack.name] = (rack, tip.maximal_volume - unit_volume)
if len(rack_info) == 0:
raise ValueError(f"No tip rack can support volume {unit_volume}.")
rack_info = sorted(rack_info.items(), key=lambda x: x[1][1])
for child in self.deck.children:
if child.name == rack_info[0][0]:
target_rack = child
target_rack = cast(TipRack, target_rack)
available_tips = {}
for (idx, name), tipSpot in zip(target_rack._ordering.items(), target_rack.get_all_items()):
if tipSpot.has_tip():
available_tips[idx] = tipSpot
continue
colnum_list = [int(holename[1:]) for holename in available_tips.keys()]
available_cols = [colnum for colnum, count in dict(Counter(colnum_list)).items() if count == 8]
available_cols.sort() # 这样就确定了列号
tips_to_use = [available_tips[f"{chr(65 + i)}{available_cols[0]}"] for i in range(8)]
await self.pick_up_tips(tips_to_use, use_channels=list(range(0, 8)))
await self.aspirate(source_wells, [10] * 8, use_channels=list(range(0, 8)))
await self.dispense(target_wells, [10] * 8, use_channels=list(range(0, 8)))
await self.discard_tips(use_channels=list(range(0, 8)))
async def create_protocol(
self,
protocol_name: str,
@@ -569,6 +615,7 @@ class LiquidHandlerAbstract(LiquidHandlerMiddleware):
"""Create a new protocol with the given metadata."""
pass
async def remove_liquid(
self,
vols: List[float],
@@ -987,8 +1034,8 @@ class LiquidHandlerAbstract(LiquidHandlerMiddleware):
if delays is not None:
await self.custom_delay(seconds=delays[1])
await self.touch_tip(current_targets)
await self.discard_tips()
await self.discard_tips([0,1,2,3,4,5,6,7])
# except Exception as e:
# traceback.print_exc()
# raise RuntimeError(f"Liquid addition failed: {e}") from e

View File

@@ -431,14 +431,14 @@ class PRCXI9300Backend(LiquidHandlerBackend):
async def pick_up_tips(self, ops: List[Pickup], use_channels: List[int] = None):
"""Pick up tips from the specified resource."""
print('where?'*200)
plate_indexes = []
for op in ops:
plate = op.resource.parent
deck = plate.parent
plate_index = deck.children.index(plate)
print(f"Plate index: {plate_index}, Plate name: {plate.name}")
print(f"Number of children in deck: {len(deck.children)}")
# print(f"Plate index: {plate_index}, Plate name: {plate.name}")
# print(f"Number of children in deck: {len(deck.children)}")
plate_indexes.append(plate_index)
@@ -452,8 +452,6 @@ class PRCXI9300Backend(LiquidHandlerBackend):
tip_columns.append(tipspot_index // 8)
if len(set(tip_columns)) != 1:
raise ValueError("All pickups must be from the same tip column. Found different columns: " + str(tip_columns))
# print('111'*99)
# print(plate_indexes[0])
PlateNo = plate_indexes[0] + 1
hole_col = tip_columns[0] + 1
hole_row = 1
@@ -977,153 +975,162 @@ if __name__ == "__main__":
# 4.
# deck = PRCXI9300Deck(name="PRCXI_Deck_9300", size_x=100, size_y=100, size_z=100)
deck = PRCXI9300Deck(name="PRCXI_Deck_9300", size_x=100, size_y=100, size_z=100)
# from pylabrobot.resources.opentrons.tip_racks import opentrons_96_tiprack_300ul,opentrons_96_tiprack_10ul
# from pylabrobot.resources.opentrons.plates import corning_96_wellplate_360ul_flat, nest_96_wellplate_2ml_deep
from pylabrobot.resources.opentrons.tip_racks import opentrons_96_tiprack_300ul,opentrons_96_tiprack_10ul
from pylabrobot.resources.opentrons.plates import corning_96_wellplate_360ul_flat, nest_96_wellplate_2ml_deep
# def get_well_container(name: str) -> PRCXI9300Container:
# well_containers = corning_96_wellplate_360ul_flat(name).serialize()
# plate = PRCXI9300Container(name=name, size_x=50, size_y=50, size_z=10, category="plate",
# ordering=collections.OrderedDict())
# plate_serialized = plate.serialize()
# plate_serialized["parent_name"] = deck.name
# well_containers.update({k: v for k, v in plate_serialized.items() if k not in ["children"]})
# new_plate: PRCXI9300Container = PRCXI9300Container.deserialize(well_containers)
# return new_plate
def get_well_container(name: str) -> PRCXI9300Container:
well_containers = corning_96_wellplate_360ul_flat(name).serialize()
plate = PRCXI9300Container(name=name, size_x=50, size_y=50, size_z=10, category="plate",
ordering=well_containers["ordering"])
plate_serialized = plate.serialize()
plate_serialized["parent_name"] = deck.name
well_containers.update({k: v for k, v in plate_serialized.items() if k not in ["children"]})
new_plate: PRCXI9300Container = PRCXI9300Container.deserialize(well_containers)
return new_plate
# def get_tip_rack(name: str) -> PRCXI9300Container:
# tip_racks = opentrons_96_tiprack_300ul("name").serialize()
# tip_rack = PRCXI9300Container(name=name, size_x=50, size_y=50, size_z=10, category="tip_rack",
# ordering=collections.OrderedDict())
# tip_rack_serialized = tip_rack.serialize()
# tip_rack_serialized["parent_name"] = deck.name
# tip_racks.update({k: v for k, v in tip_rack_serialized.items() if k not in ["children"]})
# new_tip_rack: PRCXI9300Container = PRCXI9300Container.deserialize(tip_racks)
# return new_tip_rack
def get_tip_rack(name: str) -> PRCXI9300Container:
tip_racks = opentrons_96_tiprack_300ul("name").serialize()
tip_rack = PRCXI9300Container(name=name, size_x=50, size_y=50, size_z=10, category="tip_rack",
ordering=tip_racks["ordering"])
tip_rack_serialized = tip_rack.serialize()
tip_rack_serialized["parent_name"] = deck.name
tip_racks.update({k: v for k, v in tip_rack_serialized.items() if k not in ["children"]})
new_tip_rack: PRCXI9300Container = PRCXI9300Container.deserialize(tip_racks)
return new_tip_rack
# plate1 = get_tip_rack("RackT1")
# plate1.load_state({
# "Material": {
# "uuid": "076250742950465b9d6ea29a225dfb00",
# "Code": "ZX-001-300",
# "Name": "300μL Tip头"
# }
# })
plate1 = get_tip_rack("RackT1")
plate1.load_state({
"Material": {
"uuid": "076250742950465b9d6ea29a225dfb00",
"Code": "ZX-001-300",
"Name": "300μL Tip头"
}
})
# plate2 = get_well_container("PlateT2")
# plate2.load_state({
# "Material": {
# "uuid": "57b1e4711e9e4a32b529f3132fc5931f",
# "Code": "ZX-019-2.2",
# "Name": "96深孔板"
# }
# })
plate2 = get_well_container("PlateT2")
plate2.load_state({
"Material": {
"uuid": "57b1e4711e9e4a32b529f3132fc5931f",
"Code": "ZX-019-2.2",
"Name": "96深孔板"
}
})
# plate3 = PRCXI9300Trash("trash", size_x=50, size_y=100, size_z=10, category="trash")
# plate3.load_state({
# "Material": {
# "uuid": "730067cf07ae43849ddf4034299030e9"
# }
# })
plate3 = PRCXI9300Trash("trash", size_x=50, size_y=100, size_z=10, category="trash")
plate3.load_state({
"Material": {
"uuid": "730067cf07ae43849ddf4034299030e9"
}
})
# plate4 = get_well_container("PlateT4")
# plate4.load_state({
# "Material": {
# "uuid": "57b1e4711e9e4a32b529f3132fc5931f",
# "Code": "ZX-019-2.2",
# "Name": "96深孔板"
# }
# })
plate4 = get_well_container("PlateT4")
plate4.load_state({
"Material": {
"uuid": "57b1e4711e9e4a32b529f3132fc5931f",
"Code": "ZX-019-2.2",
"Name": "96深孔板"
}
})
# plate5 = get_well_container("PlateT5")
# plate5.load_state({
# "Material": {
# "uuid": "57b1e4711e9e4a32b529f3132fc5931f",
# "Code": "ZX-019-2.2",
# "Name": "96深孔板"
# }
# })
# plate6 = get_well_container("PlateT6")
plate5 = get_well_container("PlateT5")
plate5.load_state({
"Material": {
"uuid": "57b1e4711e9e4a32b529f3132fc5931f",
"Code": "ZX-019-2.2",
"Name": "96深孔板"
}
})
plate6 = get_well_container("PlateT6")
# plate6.load_state({
# "Material": {
# "uuid": "57b1e4711e9e4a32b529f3132fc5931f",
# "Code": "ZX-019-2.2",
# "Name": "96深孔板"
# }
# })
plate6.load_state({
"Material": {
"uuid": "57b1e4711e9e4a32b529f3132fc5931f",
"Code": "ZX-019-2.2",
"Name": "96深孔板"
}
})
# deck.assign_child_resource(plate1, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(plate2, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(plate3, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(plate4, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(plate5, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(plate6, location=Coordinate(0, 0, 0))
deck.assign_child_resource(plate1, location=Coordinate(0, 0, 0))
deck.assign_child_resource(plate2, location=Coordinate(0, 0, 0))
deck.assign_child_resource(plate3, location=Coordinate(0, 0, 0))
deck.assign_child_resource(plate4, location=Coordinate(0, 0, 0))
deck.assign_child_resource(plate5, location=Coordinate(0, 0, 0))
deck.assign_child_resource(plate6, location=Coordinate(0, 0, 0))
# # print(plate2)
# plate_2_liquids = [[('water', 500)]]*96
# plate2.set_well_liquids(plate_2_liquids)
# handler = PRCXI9300Handler(deck=deck, host="10.181.214.132", port=9999,
# timeout=10.0, setup=False, debug=False,
# matrix_id="71593",
# channel_num=8, axis="Left") # Initialize the handler with the deck and host settings
# handler.set_tiprack([plate1])
handler = PRCXI9300Handler(deck=deck, host="10.181.214.132", port=9999,
timeout=10.0, setup=False, debug=False,
simulator=True,
matrix_id="71593",
channel_num=8, axis="Left") # Initialize the handler with the deck and host settings
# asyncio.run(handler.setup()) # Initialize the handler and setup the connection
# from pylabrobot.resources import set_volume_tracking
# # from pylabrobot.resources import set_tip_tracking
# set_volume_tracking(enabled=True)
plate_2_liquids = handler.set_group("water", plate2.children[:8], [200]*8)
plate5_liquids = handler.set_group("master_mix", plate5.children[:8], [100]*8)
handler.set_tiprack([plate1])
asyncio.run(handler.setup()) # Initialize the handler and setup the connection
from pylabrobot.resources import set_volume_tracking
# from pylabrobot.resources import set_tip_tracking
set_volume_tracking(enabled=True)
# from unilabos.resources.graphio import *
# A = tree_to_list([resource_plr_to_ulab(deck)])
# with open("deck_9300_new.json", "w", encoding="utf-8") as f:
# json.dump(A, f, indent=4, ensure_ascii=False)
# asyncio.run(handler.create_protocol(protocol_name="Test Protocol")) # Initialize the backend and setup the connection
# # A = tree_to_list([resource_plr_to_ulab(deck)])
# # with open("deck_9300_new.json", "w", encoding="utf-8") as f:
# # json.dump(A, f, indent=4, ensure_ascii=False)
asyncio.run(handler.create_protocol(protocol_name="Test Protocol")) # Initialize the backend and setup the connection
asyncio.run(handler.transfer_group("water", "master_mix", 100)) # Reset tip tracking
# # asyncio.run(handler.pick_up_tips(plate1.children[:8],[0,1,2,3,4,5,6,7]))
# # print(plate1.children[:8])
# # asyncio.run(handler.aspirate(plate2.children[:8],[50]*8, [0,1,2,3,4,5,6,7]))
# # print(plate2.children[:8])
# # asyncio.run(handler.dispense(plate5.children[:8],[50]*8,[0,1,2,3,4,5,6,7]))
# # print(plate5.children[:8])
# asyncio.run(handler.pick_up_tips(plate1.children[:8],[0,1,2,3,4,5,6,7]))
# print(plate1.children[:8])
# asyncio.run(handler.aspirate(plate2.children[:8],[50]*8, [0,1,2,3,4,5,6,7]))
# print(plate2.children[:8])
# asyncio.run(handler.dispense(plate5.children[:8],[50]*8,[0,1,2,3,4,5,6,7]))
# print(plate5.children[:8])
# # # # # asyncio.run(handler.drop_tips(tip_rack.children[8:16],[0,1,2,3,4,5,6,7]))
# # asyncio.run(handler.discard_tips())
# #asyncio.run(handler.drop_tips(tip_rack.children[8:16],[0,1,2,3,4,5,6,7]))
# asyncio.run(handler.discard_tips([0,1,2,3,4,5,6,7]))
# # asyncio.run(handler.mix(well_containers.children[:8
# # ], mix_time=3, mix_vol=50, height_to_bottom=0.5, offsets=Coordinate(0, 0, 0), mix_rate=100))
# # #print(json.dumps(handler._unilabos_backend.steps_todo_list, indent=2)) # Print matrix info
# # asyncio.run(handler.add_liquid(
# # asp_vols=[100]*16,
# # dis_vols=[100]*16,
# # reagent_sources=plate2.children[:16],
# # targets=plate5.children[:16],
# # use_channels=[0, 1, 2, 3, 4, 5, 6, 7],
# # flow_rates=[None] * 32,
# # offsets=[Coordinate(0, 0, 0)] * 32,
# # liquid_height=[None] * 16,
# # blow_out_air_volume=[None] * 16,
# # delays=None,
# # mix_time=3,
# # mix_vol=50,
# # spread="wide",
# # ))
# # asyncio.run(handler.run_protocol()) # Run the protocol
# # asyncio.run(handler.remove_liquid(
# # vols=[100]*16,
# # sources=plate2.children[-16:],
# # waste_liquid=plate5.children[:16], # 这个有些奇怪,但是好像也只能这么写
# # use_channels=[0, 1, 2, 3, 4, 5, 6, 7],
# # flow_rates=[None] * 32,
# # offsets=[Coordinate(0, 0, 0)] * 32,
# # liquid_height=[None] * 32,
# # blow_out_air_volume=[None] * 32,
# # spread="wide",
# # ))
# asyncio.run(handler.mix(well_containers.children[:8
# ], mix_time=3, mix_vol=50, height_to_bottom=0.5, offsets=Coordinate(0, 0, 0), mix_rate=100))
# #print(json.dumps(handler._unilabos_backend.steps_todo_list, indent=2)) # Print matrix info
# asyncio.run(handler.add_liquid(
# asp_vols=[100]*16,
# dis_vols=[100]*16,
# reagent_sources=plate2.children[:16],
# targets=plate5.children[:16],
# use_channels=[0, 1, 2, 3, 4, 5, 6, 7],
# flow_rates=[None] * 32,
# offsets=[Coordinate(0, 0, 0)] * 32,
# liquid_height=[None] * 16,
# blow_out_air_volume=[None] * 16,
# delays=None,
# mix_time=3,
# mix_vol=50,
# spread="wide",
# ))
# asyncio.run(handler.run_protocol()) # Run the protocol
# asyncio.run(handler.remove_liquid(
# vols=[100]*16,
# sources=plate2.children[-16:],
# waste_liquid=plate5.children[:16], # 这个有些奇怪,但是好像也只能这么写
# use_channels=[0, 1, 2, 3, 4, 5, 6, 7],
# flow_rates=[None] * 32,
# offsets=[Coordinate(0, 0, 0)] * 32,
# liquid_height=[None] * 32,
# blow_out_air_volume=[None] * 32,
# spread="wide",
# ))
# acid = [20]*8+[40]*8+[60]*8+[80]*8+[100]*8+[120]*8+[140]*8+[160]*8+[180]*8+[200]*8+[220]*8+[240]*8
# alkaline = acid[::-1] # Reverse the acid list for alkaline
@@ -1144,258 +1151,264 @@ if __name__ == "__main__":
# spread="wide",
# ))
# asyncio.run(handler.run_protocol()) # Run the protocol
# # # input("Running protocol...")
# # # input("Press Enter to continue...") # Wait for user input before proceeding
# # # print("PRCXI9300Handler initialized with deck and host settings.")
# # Example usage
# # 1. 用导出的json给每个T1 T2板子设定相应的物料如果是孔板和枪头盒要对应区分
# # 2. 设计一个单点动作流程,可以跑
# # 3.
# # input("Running protocol...")
# # input("Press Enter to continue...") # Wait for user input before proceeding
# # print("PRCXI9300Handler initialized with deck and host settings.")
deck = PRCXI9300Deck(name="PRCXI_Deck", size_x=100, size_y=100, size_z=100)
from pylabrobot.resources.opentrons.tip_racks import tipone_96_tiprack_200ul,opentrons_96_tiprack_10ul
from pylabrobot.resources.opentrons.plates import corning_96_wellplate_360ul_flat, nest_96_wellplate_2ml_deep
### 9320 ###
def get_well_container(name: str) -> PRCXI9300Container:
well_containers = corning_96_wellplate_360ul_flat(name).serialize()
plate = PRCXI9300Container(name=name, size_x=50, size_y=50, size_z=10, category="plate",
ordering=collections.OrderedDict())
plate_serialized = plate.serialize()
plate_serialized["parent_name"] = deck.name
well_containers.update({k: v for k, v in plate_serialized.items() if k not in ["children"]})
new_plate: PRCXI9300Container = PRCXI9300Container.deserialize(well_containers)
return new_plate
def get_tip_rack(name: str) -> PRCXI9300Container:
tip_racks = opentrons_96_tiprack_10ul("name").serialize()
tip_rack = PRCXI9300Container(name=name, size_x=50, size_y=50, size_z=10, category="tip_rack",
ordering=collections.OrderedDict())
tip_rack_serialized = tip_rack.serialize()
tip_rack_serialized["parent_name"] = deck.name
tip_racks.update({k: v for k, v in tip_rack_serialized.items() if k not in ["children"]})
new_tip_rack: PRCXI9300Container = PRCXI9300Container.deserialize(tip_racks)
return new_tip_rack
# deck = PRCXI9300Deck(name="PRCXI_Deck", size_x=100, size_y=100, size_z=100)
# from pylabrobot.resources.opentrons.tip_racks import tipone_96_tiprack_200ul,opentrons_96_tiprack_10ul
# from pylabrobot.resources.opentrons.plates import corning_96_wellplate_360ul_flat, nest_96_wellplate_2ml_deep
# def get_well_container(name: str) -> PRCXI9300Container:
# well_containers = corning_96_wellplate_360ul_flat(name).serialize()
# plate = PRCXI9300Container(name=name, size_x=50, size_y=50, size_z=10, category="plate",
# ordering=collections.OrderedDict())
# plate_serialized = plate.serialize()
# plate_serialized["parent_name"] = deck.name
# well_containers.update({k: v for k, v in plate_serialized.items() if k not in ["children"]})
# new_plate: PRCXI9300Container = PRCXI9300Container.deserialize(well_containers)
# return new_plate
# def get_tip_rack(name: str) -> PRCXI9300Container:
# tip_racks = opentrons_96_tiprack_10ul("name").serialize()
# tip_rack = PRCXI9300Container(name=name, size_x=50, size_y=50, size_z=10, category="tip_rack",
# ordering=collections.OrderedDict())
# tip_rack_serialized = tip_rack.serialize()
# tip_rack_serialized["parent_name"] = deck.name
# tip_racks.update({k: v for k, v in tip_rack_serialized.items() if k not in ["children"]})
# new_tip_rack: PRCXI9300Container = PRCXI9300Container.deserialize(tip_racks)
# return new_tip_rack
plate1 = get_well_container("HPLCPlateT1")
plate1.load_state({
"Material": {
"uuid": "548bbc3df0d4447586f2c19d2c0c0c55",
"Code": "HPLC01",
"Name": "HPLC料盘"
}
})
plate2 = get_well_container("PlateT2")
plate2.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650",
}
})
plate3 = get_well_container("PlateT3")
plate3.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650",
}
})
trash = PRCXI9300Trash(name="trash", size_x=50, size_y=50, size_z=10, category="trash")
trash.load_state({
"Material": {
"uuid": "730067cf07ae43849ddf4034299030e9"
}
})
plate5 = get_well_container("PlateT5")
plate5.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650",
}
})
plate6 = get_well_container("PlateT6")
plate6.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650"
}
})
plate7 = PRCXI9300Container(name="plateT7", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict())
plate7.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650"
}
})
plate8 = get_tip_rack("RackT8")
plate8.load_state({
"Material": {
"uuid": "068b3815e36b4a72a59bae017011b29f",
"Code": "ZX-001-10+",
"Name": "10μL加长 Tip头"
}
})
plate9 = get_well_container("PlateT9")
plate9.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650"
}
})
plate10 = get_well_container("PlateT10")
plate10.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650"
}
})
plate11 = get_well_container("PlateT11")
plate11.load_state({
"Material": {
"uuid": "57b1e4711e9e4a32b529f3132fc5931f",
}
})
plate12 = get_well_container("PlateT12")
plate12.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650"
}
})
plate13 = get_well_container("PlateT13")
plate13.load_state({
"Material": {
"uuid": "04211a2dc93547fe9bf6121eac533650"
}
})
# plate1 = get_well_container("HPLCPlateT1")
# plate1.load_state({
# "Material": {
# "uuid": "548bbc3df0d4447586f2c19d2c0c0c55",
# "Code": "HPLC01",
# "Name": "HPLC料盘"
# }
# })
# plate2 = get_well_container("PlateT2")
# plate2.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650",
# }
# })
# plate3 = get_well_container("PlateT3")
# plate3.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650",
# }
# })
# trash = PRCXI9300Trash(name="trash", size_x=50, size_y=50, size_z=10, category="trash")
# trash.load_state({
# "Material": {
# "uuid": "730067cf07ae43849ddf4034299030e9"
# }
# })
# plate5 = get_well_container("PlateT5")
# plate5.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650",
# }
# })
# plate6 = get_well_container("PlateT6")
# plate6.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650"
# }
# })
# plate7 = PRCXI9300Container(name="plateT7", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict())
# plate7.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650"
# }
# })
# plate8 = get_tip_rack("RackT8")
# plate8.load_state({
# "Material": {
# "uuid": "068b3815e36b4a72a59bae017011b29f",
# "Code": "ZX-001-10+",
# "Name": "10μL加长 Tip头"
# }
# })
# plate9 = get_well_container("PlateT9")
# plate9.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650"
# }
# })
# plate10 = get_well_container("PlateT10")
# plate10.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650"
# }
# })
# plate11 = get_well_container("PlateT11")
# plate11.load_state({
# "Material": {
# "uuid": "57b1e4711e9e4a32b529f3132fc5931f",
# }
# })
# plate12 = get_well_container("PlateT12")
# plate12.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650"
# }
# })
# plate13 = get_well_container("PlateT13")
# plate13.load_state({
# "Material": {
# "uuid": "04211a2dc93547fe9bf6121eac533650"
# }
# })
# container_for_nothing = PRCXI9300Container(name="container_for_nothing", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict())
# # container_for_nothing = PRCXI9300Container(name="container_for_nothing", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict())
deck.assign_child_resource(plate1, location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing1", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing2", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
deck.assign_child_resource(trash, location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing3", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing4", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
deck.assign_child_resource(plate8, location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing5", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing6", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
deck.assign_child_resource(plate11, location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing7", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing8", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(plate1, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing1", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing2", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(trash, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing3", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing4", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(plate8, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing5", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing6", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(plate11, location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing7", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
# deck.assign_child_resource(PRCXI9300Container(name="container_for_nothing8", size_x=50, size_y=50, size_z=10, category="plate", ordering=collections.OrderedDict()), location=Coordinate(0, 0, 0))
handler = PRCXI9300Handler(deck=deck, host="10.181.102.13", port=9999,
timeout=10.0, setup=False, debug=False,
matrix_id="fd383e6d-2d0e-40b5-9c01-1b2870b1f1b1",
channel_num=1, axis="Right") # Initialize the handler with the deck and host settings
# handler = PRCXI9300Handler(deck=deck, host="10.181.102.13", port=9999,
# timeout=10.0, setup=False, debug=False,
# matrix_id="fd383e6d-2d0e-40b5-9c01-1b2870b1f1b1",
# channel_num=8, axis="Right") # Initialize the handler with the deck and host settings
handler.set_tiprack([plate8]) # Set the tip rack for the handler
asyncio.run(handler.setup()) # Initialize the handler and setup the connection
from pylabrobot.resources import set_volume_tracking
# from pylabrobot.resources import set_tip_tracking
set_volume_tracking(enabled=True)
# handler.set_tiprack([plate8]) # Set the tip rack for the handler
# asyncio.run(handler.setup()) # Initialize the handler and setup the connection
# from pylabrobot.resources import set_volume_tracking
# # from pylabrobot.resources import set_tip_tracking
# set_volume_tracking(enabled=True)
plate11.set_well_liquids([("Water", 100) if (i % 8 == 0 and i // 8 < 6) else (None, 100) for i in range(96)]) # Set liquids for every 8 wells in plate8
# plate11.set_well_liquids([("Water", 100) if (i % 8 == 0 and i // 8 < 6) else (None, 100) for i in range(96)]) # Set liquids for every 8 wells in plate8
from unilabos.resources.graphio import *
# from unilabos.resources.graphio import *
A = tree_to_list([resource_plr_to_ulab(deck)])
# with open("deck.json", "w", encoding="utf-8") as f:
# json.dump(A, f, indent=4, ensure_ascii=False)
# A = tree_to_list([resource_plr_to_ulab(deck)])
# # with open("deck.json", "w", encoding="utf-8") as f:
# # json.dump(A, f, indent=4, ensure_ascii=False)
print(plate11.get_well(0).tracker.get_used_volume())
asyncio.run(handler.create_protocol(protocol_name="Test Protocol")) # Initialize the backend and setup the connection
# asyncio.run(handler.pick_up_tips([plate8.children[8]],[0]))
# print(plate8.children[8])
# # asyncio.run(handler.run_protocol())
# asyncio.run(handler.aspirate([plate11.children[0]],[10], [0]))
# print(plate11.children[0])
# # asyncio.run(handler.run_protocol())
# asyncio.run(handler.dispense([plate1.children[0]],[10],[0]))
# print(plate1.children[0])
# # asyncio.run(handler.run_protocol())
# asyncio.run(handler.mix([plate1.children[0]], mix_time=3, mix_vol=5, height_to_bottom=0.5, offsets=Coordinate(0, 0, 0), mix_rate=100))
# print(plate1.children[0])
# asyncio.run(handler.discard_tips())
asyncio.run(handler.add_liquid(
asp_vols=[10]*7,
dis_vols=[10]*7,
reagent_sources=plate11.children[:7],
targets=plate1.children[2:9],
use_channels=[0],
flow_rates=[None] * 7,
offsets=[Coordinate(0, 0, 0)] * 7,
liquid_height=[None] * 7,
blow_out_air_volume=[None] * 2,
delays=None,
mix_time=3,
mix_vol=5,
spread="custom",
))
asyncio.run(handler.run_protocol()) # Run the protocol
# # asyncio.run(handler.transfer_liquid(
# # asp_vols=[10]*2,
# # dis_vols=[10]*2,
# # sources=plate11.children[:2],
# # targets=plate11.children[-2:],
# # use_channels=[0],
# # offsets=[Coordinate(0, 0, 0)] * 4,
# # liquid_height=[None] * 2,
# # blow_out_air_volume=[None] * 2,
# # delays=None,
# # mix_times=3,
# # mix_vol=5,
# # spread="wide",
# # tip_racks=[plate8]
# # ))
# # asyncio.run(handler.remove_liquid(
# # vols=[10]*2,
# # sources=plate11.children[:2],
# # waste_liquid=plate11.children[43],
# # use_channels=[0],
# # offsets=[Coordinate(0, 0, 0)] * 4,
# # liquid_height=[None] * 2,
# # blow_out_air_volume=[None] * 2,
# # delays=None,
# # spread="wide"
# # ))
# asyncio.run(handler.run_protocol())
# print(plate11.get_well(0).tracker.get_used_volume())
# asyncio.run(handler.create_protocol(protocol_name="Test Protocol")) # Initialize the backend and setup the connection
# # asyncio.run(handler.pick_up_tips([plate8.children[8]],[0]))
# # print(plate8.children[8])
# # # asyncio.run(handler.run_protocol())
# # asyncio.run(handler.aspirate([plate11.children[0]],[10], [0]))
# # print(plate11.children[0])
# # # asyncio.run(handler.run_protocol())
# # asyncio.run(handler.dispense([plate1.children[0]],[10],[0]))
# # print(plate1.children[0])
# # # asyncio.run(handler.run_protocol())
# # asyncio.run(handler.mix([plate1.children[0]], mix_time=3, mix_vol=5, height_to_bottom=0.5, offsets=Coordinate(0, 0, 0), mix_rate=100))
# # print(plate1.children[0])
# # asyncio.run(handler.discard_tips())
# # asyncio.run(handler.mix(well_containers.children[:8
# # ], mix_time=3, mix_vol=50, height_to_bottom=0.5, offsets=Coordinate(0, 0, 0), mix_rate=100))
# #print(json.dumps(handler._unilabos_backend.steps_todo_list, indent=2)) # Print matrix info
# asyncio.run(handler.add_liquid(
# asp_vols=[10]*7,
# dis_vols=[10]*7,
# reagent_sources=plate11.children[:7],
# targets=plate1.children[2:9],
# use_channels=[0],
# flow_rates=[None] * 7,
# offsets=[Coordinate(0, 0, 0)] * 7,
# liquid_height=[None] * 7,
# blow_out_air_volume=[None] * 2,
# delays=None,
# mix_time=3,
# mix_vol=5,
# spread="custom",
# ))
# asyncio.run(handler.run_protocol()) # Run the protocol
# # asyncio.run(handler.remove_liquid(
# # vols=[100]*16,
# # sources=well_containers.children[-16:],
# # waste_liquid=well_containers.children[:16], # 这个有些奇怪,但是好像也只能这么写
# # use_channels=[0, 1, 2, 3, 4, 5, 6, 7],
# # flow_rates=[None] * 32,
# # offsets=[Coordinate(0, 0, 0)] * 32,
# # liquid_height=[None] * 32,
# # blow_out_air_volume=[None] * 32,
# # spread="wide",
# # ))
# # asyncio.run(handler.transfer_liquid(
# # asp_vols=[100]*16,
# # dis_vols=[100]*16,
# # tip_racks=[tip_rack],
# # sources=well_containers.children[-16:],
# # targets=well_containers.children[:16],
# # use_channels=[0, 1, 2, 3, 4, 5, 6, 7],
# # offsets=[Coordinate(0, 0, 0)] * 32,
# # asp_flow_rates=[None] * 16,
# # dis_flow_rates=[None] * 16,
# # liquid_height=[None] * 32,
# # blow_out_air_volume=[None] * 32,
# # mix_times=3,
# # mix_vol=50,
# # spread="wide",
# # ))
print(json.dumps(handler._unilabos_backend.steps_todo_list, indent=2)) # Print matrix info
# # input("pick_up_tips add step")
# #asyncio.run(handler.run_protocol()) # Run the protocol
# # input("Running protocol...")
# # input("Press Enter to continue...") # Wait for user input before proceeding
# # print("PRCXI9300Handler initialized with deck and host settings.")
# # # asyncio.run(handler.transfer_liquid(
# # # asp_vols=[10]*2,
# # # dis_vols=[10]*2,
# # # sources=plate11.children[:2],
# # # targets=plate11.children[-2:],
# # # use_channels=[0],
# # # offsets=[Coordinate(0, 0, 0)] * 4,
# # # liquid_height=[None] * 2,
# # # blow_out_air_volume=[None] * 2,
# # # delays=None,
# # # mix_times=3,
# # # mix_vol=5,
# # # spread="wide",
# # # tip_racks=[plate8]
# # # ))
# # # asyncio.run(handler.remove_liquid(
# # # vols=[10]*2,
# # # sources=plate11.children[:2],
# # # waste_liquid=plate11.children[43],
# # # use_channels=[0],
# # # offsets=[Coordinate(0, 0, 0)] * 4,
# # # liquid_height=[None] * 2,
# # # blow_out_air_volume=[None] * 2,
# # # delays=None,
# # # spread="wide"
# # # ))
# # asyncio.run(handler.run_protocol())
# # # asyncio.run(handler.discard_tips())
# # # asyncio.run(handler.mix(well_containers.children[:8
# # # ], mix_time=3, mix_vol=50, height_to_bottom=0.5, offsets=Coordinate(0, 0, 0), mix_rate=100))
# # #print(json.dumps(handler._unilabos_backend.steps_todo_list, indent=2)) # Print matrix info
# # # asyncio.run(handler.remove_liquid(
# # # vols=[100]*16,
# # # sources=well_containers.children[-16:],
# # # waste_liquid=well_containers.children[:16], # 这个有些奇怪,但是好像也只能这么写
# # # use_channels=[0, 1, 2, 3, 4, 5, 6, 7],
# # # flow_rates=[None] * 32,
# # # offsets=[Coordinate(0, 0, 0)] * 32,
# # # liquid_height=[None] * 32,
# # # blow_out_air_volume=[None] * 32,
# # # spread="wide",
# # # ))
# # # asyncio.run(handler.transfer_liquid(
# # # asp_vols=[100]*16,
# # # dis_vols=[100]*16,
# # # tip_racks=[tip_rack],
# # # sources=well_containers.children[-16:],
# # # targets=well_containers.children[:16],
# # # use_channels=[0, 1, 2, 3, 4, 5, 6, 7],
# # # offsets=[Coordinate(0, 0, 0)] * 32,
# # # asp_flow_rates=[None] * 16,
# # # dis_flow_rates=[None] * 16,
# # # liquid_height=[None] * 32,
# # # blow_out_air_volume=[None] * 32,
# # # mix_times=3,
# # # mix_vol=50,
# # # spread="wide",
# # # ))
# # print(json.dumps(handler._unilabos_backend.steps_todo_list, indent=2)) # Print matrix info
# # # input("pick_up_tips add step")
# # #asyncio.run(handler.run_protocol()) # Run the protocol
# # # input("Running protocol...")
# # # input("Press Enter to continue...") # Wait for user input before proceeding
# # # print("PRCXI9300Handler initialized with deck and host settings.")