abr11 protocol with stacker

Author: rclarke0

abr-testing/abr_testing/protocols/active_protocols/11_Dynabeads_IP_Flex_96well_RIT.py

@@ -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]
     )
@@ -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
@@ -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
@@ -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)

abr-testing/abr_testing/protocols/helpers.py

@@ -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(