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abr11 protocol with stacker
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rclarke0 committed Jan 9, 2025
1 parent b4bfa2d commit 2bfe813
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Showing 2 changed files with 32 additions and 33 deletions.
Original file line number Diff line number Diff line change
Expand Up @@ -65,35 +65,33 @@ def run(protocol: ProtocolContext) -> None:
# if on deck:
INCUBATION_SPEED = heater_shaker_speed * 0.5
INCUBATION_MIN = 60
# load labware

sample_plate_1 = protocol.load_labware(
"nest_96_wellplate_2ml_deep", "B2", "sample plate 1"
# load labware stacker
stacker_deep_wells = helpers.load_stacker_module(
protocol, "PS241204SZEVT22", "C4", "nest_96_wellplate_2ml_deep"
)
sample_plate_2 = protocol.load_labware(
"nest_96_wellplate_2ml_deep", "C4", "sample plate 2"
)

# load labware
sample_plate_1 = stacker_deep_wells.unload_and_move_labware("B2")
wash_res = protocol.load_labware("nest_12_reservoir_15ml", "B1", "wash")
reagent_res = protocol.load_labware(
"opentrons_15_tuberack_nest_15ml_conical", "C3", "reagents"
)
waste_res = protocol.load_labware("nest_1_reservoir_290ml", "D2", "Liquid Waste")

tips = protocol.load_labware("opentrons_flex_96_tiprack_1000ul", "B3")
tips_sample = protocol.load_labware(
"opentrons_flex_96_tiprack_1000ul", "A2", "sample tips"
# stacker 1: 1000 ul tips
tip_stacker_1000 = helpers.load_stacker_module(
protocol, "PS241204SZEVT25", "B4", "opentrons_flex_96_tiprack_1000ul"
)
# Unload tip racks
tips = tip_stacker_1000.unload_and_move_labware("B3")
tips_sample = tip_stacker_1000.unload_and_move_labware("A2")
tips_sample_loc = tips_sample.wells()[:95]
tips_reused = tip_stacker_1000.unload_and_move_labware("C2")
tips_reused_loc = tips_reused.wells()[:95]
tip_rack_list: List[Labware] = [tips, tips_sample, tips_reused]
if READY_FOR_SDSPAGE == 0:
tips_elu = protocol.load_labware(
"opentrons_flex_96_tiprack_1000ul", "A1", "elution tips"
)
tips_elu = tip_stacker_1000.unload_and_move_labware("A1")
tips_elu_loc = tips_elu.wells()[:95]
tips_reused = protocol.load_labware(
"opentrons_flex_96_tiprack_1000ul", "C2", "reused tips"
)
tips_reused_loc = tips_reused.wells()[:95]
tip_rack_list.append(tips_elu)

p1000 = protocol.load_instrument(
"flex_8channel_1000", eight_channel_mount, tip_racks=[tips]
)
Expand All @@ -103,24 +101,21 @@ def run(protocol: ProtocolContext) -> None:
h_s: HeaterShakerContext = protocol.load_module(
helpers.hs_str, "D1"
) # type: ignore[assignment]
working_plate, h_s_adapter = helpers.load_hs_adapter_and_labware(
"nest_96_wellplate_2ml_deep", h_s, "Working Plate"
)
h_s_adapter = h_s.load_adapter("opentrons_96_deep_well_adapter")
h_s.open_labware_latch()
working_plate = stacker_deep_wells.unload_and_move_labware(h_s_adapter)

if READY_FOR_SDSPAGE == 0:
temp: TemperatureModuleContext = protocol.load_module(
helpers.temp_str, "D3"
) # type: ignore[assignment]
final_plate, temp_adapter = helpers.load_temp_adapter_and_labware(
"nest_96_wellplate_2ml_deep", temp, "Final Plate"
)
temp_adapter = temp.load_adapter("opentrons_96_deep_well_adapter")
final_plate = stacker_deep_wells.unload_and_move_labware(temp_adapter)
mag: MagneticBlockContext = protocol.load_module(
helpers.mag_str, "C1"
) # type: ignore[assignment]

# liquids
samples1 = sample_plate_1.rows()[0][:NUM_COL] # 1
samples2 = sample_plate_2.rows()[0][:NUM_COL] # 1
beads = reagent_res.wells()[0] # 2
ab = reagent_res.wells()[1] # 3
elu = reagent_res.wells()[2] # 4
Expand All @@ -139,7 +134,6 @@ def run(protocol: ProtocolContext) -> None:
"Elution": [{"well": elu, "volume": 9800.0}],
"Wash": [{"well": wash, "volume": 1500.0}],
"Samples 1": [{"well": samples1, "volume": 250.0}],
"Samples 2": [{"well": samples2, "volume": 250.0}],
}
helpers.find_liquid_height_of_loaded_liquids(
protocol, liquid_vols_and_wells, p1000_single
Expand Down Expand Up @@ -296,12 +290,14 @@ def run(sample_plate: Labware) -> None:
use_gripper=True,
flex_stacker=True,
)
helpers.move_labware_to_destination(
protocol=protocol, labware=sample_plate_2, dest="B2", use_gripper=True
)
sample_plate_2 = stacker_deep_wells.unload_and_move_labware("B2")
stacker_deep_wells.move_and_store_labware(sample_plate_1)

run(sample_plate_2)

helpers.clean_up_plates(p1000_single, [wash_res], waste, 1000)
helpers.find_liquid_height_of_all_wells(protocol, p1000_single, [waste_res["A1"]])
# reload tip racks and labware
helpers.move_to_stacker_and_store(tip_stacker_1000, tip_rack_list)
if deactivate_modules_bool:
helpers.deactivate_modules(protocol)
7 changes: 5 additions & 2 deletions abr-testing/abr_testing/protocols/helpers.py
Original file line number Diff line number Diff line change
Expand Up @@ -688,9 +688,12 @@ def unload_and_move(
stacker.unload_and_move_labware(new_location=new_location)


def move_to_stacker_and_store(stacker: StackerModule, lw: Labware) -> None:
def move_to_stacker_and_store(
stacker: StackerModule, list_of_labware: List[Labware]
) -> None:
"""Move labware from deck into stacker."""
stacker.move_and_store_labware(lw=lw)
for labware in list_of_labware:
stacker.move_and_store_labware(lw=labware)


def move_lid_from_stacker_to_tc_plate(
Expand Down

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