@synsci/cli-darwin-x64 1.1.97 → 1.1.99

package/bin/skills/opentrons-integration/references/api_reference.md

@@ -1,366 +0,0 @@
-# Opentrons Python Protocol API v2 Reference
-
-## Protocol Context Methods
-
-### Labware Management
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `load_labware(name, location, label=None, namespace=None, version=None)` | Load labware onto deck | Labware object |
-| `load_adapter(name, location, namespace=None, version=None)` | Load adapter onto deck | Labware object |
-| `load_labware_from_definition(definition, location, label=None)` | Load custom labware from JSON | Labware object |
-| `load_labware_on_adapter(name, adapter, label=None)` | Load labware on adapter | Labware object |
-| `load_labware_by_name(name, location, label=None, namespace=None, version=None)` | Alternative load method | Labware object |
-| `load_lid_stack(load_name, location, quantity=None)` | Load lid stack (Flex only) | Labware object |
-
-### Instrument Management
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `load_instrument(instrument_name, mount, tip_racks=None, replace=False)` | Load pipette | InstrumentContext |
-
-### Module Management
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `load_module(module_name, location=None, configuration=None)` | Load hardware module | ModuleContext |
-
-### Liquid Management
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `define_liquid(name, description=None, display_color=None)` | Define liquid type | Liquid object |
-
-### Execution Control
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `pause(msg=None)` | Pause protocol execution | None |
-| `resume()` | Resume after pause | None |
-| `delay(seconds=0, minutes=0, msg=None)` | Delay execution | None |
-| `comment(msg)` | Add comment to protocol log | None |
-| `home()` | Home all axes | None |
-| `set_rail_lights(on)` | Control rail lights (Flex only) | None |
-
-### Protocol Properties
-
-| Property | Description | Type |
-|----------|-------------|------|
-| `deck` | Deck layout | Deck object |
-| `fixed_trash` | Fixed trash location (OT-2) | TrashBin object |
-| `loaded_labwares` | Dictionary of loaded labware | Dict |
-| `loaded_instruments` | Dictionary of loaded instruments | Dict |
-| `loaded_modules` | Dictionary of loaded modules | Dict |
-| `is_simulating()` | Check if protocol is simulating | Bool |
-| `bundled_data` | Access to bundled data files | Dict |
-| `params` | Runtime parameters | ParametersContext |
-
-## Instrument Context (Pipette) Methods
-
-### Tip Management
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `pick_up_tip(location=None, presses=None, increment=None)` | Pick up tip | InstrumentContext |
-| `drop_tip(location=None, home_after=True)` | Drop tip in trash | InstrumentContext |
-| `return_tip(home_after=True)` | Return tip to rack | InstrumentContext |
-| `reset_tipracks()` | Reset tip tracking | None |
-
-### Liquid Handling - Basic
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `aspirate(volume=None, location=None, rate=1.0)` | Aspirate liquid | InstrumentContext |
-| `dispense(volume=None, location=None, rate=1.0, push_out=None)` | Dispense liquid | InstrumentContext |
-| `blow_out(location=None)` | Expel remaining liquid | InstrumentContext |
-| `touch_tip(location=None, radius=1.0, v_offset=-1.0, speed=60.0)` | Remove droplets from tip | InstrumentContext |
-| `mix(repetitions=1, volume=None, location=None, rate=1.0)` | Mix liquid | InstrumentContext |
-| `air_gap(volume=None, height=None)` | Create air gap | InstrumentContext |
-
-### Liquid Handling - Complex
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `transfer(volume, source, dest, **kwargs)` | Transfer liquid | InstrumentContext |
-| `distribute(volume, source, dest, **kwargs)` | Distribute from one to many | InstrumentContext |
-| `consolidate(volume, source, dest, **kwargs)` | Consolidate from many to one | InstrumentContext |
-
-**transfer(), distribute(), consolidate() kwargs:**
-- `new_tip`: 'always', 'once', or 'never'
-- `trash`: True/False - trash tips after use
-- `touch_tip`: True/False - touch tip after aspirate/dispense
-- `blow_out`: True/False - blow out after dispense
-- `mix_before`: (repetitions, volume) tuple
-- `mix_after`: (repetitions, volume) tuple
-- `disposal_volume`: Extra volume for contamination prevention
-- `carryover`: True/False - enable multi-transfer for large volumes
-- `gradient`: (start_concentration, end_concentration) for gradients
-
-### Movement and Positioning
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `move_to(location, force_direct=False, minimum_z_height=None, speed=None)` | Move to location | InstrumentContext |
-| `home()` | Home pipette axes | None |
-
-### Pipette Properties
-
-| Property | Description | Type |
-|----------|-------------|------|
-| `default_speed` | Default movement speed | Float |
-| `min_volume` | Minimum pipette volume | Float |
-| `max_volume` | Maximum pipette volume | Float |
-| `current_volume` | Current volume in tip | Float |
-| `has_tip` | Check if tip is attached | Bool |
-| `name` | Pipette name | String |
-| `model` | Pipette model | String |
-| `mount` | Mount location | String |
-| `channels` | Number of channels | Int |
-| `tip_racks` | Associated tip racks | List |
-| `trash_container` | Trash location | TrashBin object |
-| `starting_tip` | Starting tip for protocol | Well object |
-| `flow_rate` | Flow rate settings | FlowRates object |
-
-### Flow Rate Properties
-
-Access via `pipette.flow_rate`:
-
-| Property | Description | Units |
-|----------|-------------|-------|
-| `aspirate` | Aspirate flow rate | µL/s |
-| `dispense` | Dispense flow rate | µL/s |
-| `blow_out` | Blow out flow rate | µL/s |
-
-## Labware Methods
-
-### Well Access
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `wells()` | Get all wells | List[Well] |
-| `wells_by_name()` | Get wells dictionary | Dict[str, Well] |
-| `rows()` | Get wells by row | List[List[Well]] |
-| `columns()` | Get wells by column | List[List[Well]] |
-| `rows_by_name()` | Get rows dictionary | Dict[str, List[Well]] |
-| `columns_by_name()` | Get columns dictionary | Dict[str, List[Well]] |
-
-### Labware Properties
-
-| Property | Description | Type |
-|----------|-------------|------|
-| `name` | Labware name | String |
-| `parent` | Parent location | Location object |
-| `quirks` | Labware quirks list | List |
-| `magdeck_engage_height` | Magnetic module height | Float |
-| `uri` | Labware URI | String |
-| `calibrated_offset` | Calibration offset | Point |
-
-## Well Methods and Properties
-
-### Liquid Operations
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `load_liquid(liquid, volume)` | Load liquid into well | None |
-| `load_empty()` | Mark well as empty | None |
-| `from_center_cartesian(x, y, z)` | Get location from center | Location |
-
-### Location Methods
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `top(z=0)` | Get location at top of well | Location |
-| `bottom(z=0)` | Get location at bottom of well | Location |
-| `center()` | Get location at center of well | Location |
-
-### Well Properties
-
-| Property | Description | Type |
-|----------|-------------|------|
-| `diameter` | Well diameter (circular) | Float |
-| `length` | Well length (rectangular) | Float |
-| `width` | Well width (rectangular) | Float |
-| `depth` | Well depth | Float |
-| `max_volume` | Maximum volume | Float |
-| `display_name` | Display name | String |
-| `has_tip` | Check if tip present | Bool |
-
-## Module Contexts
-
-### Temperature Module
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `set_temperature(celsius)` | Set target temperature | None |
-| `await_temperature(celsius)` | Wait for temperature | None |
-| `deactivate()` | Turn off temperature control | None |
-| `load_labware(name, label=None, namespace=None, version=None)` | Load labware on module | Labware |
-
-**Properties:**
-- `temperature`: Current temperature (°C)
-- `target`: Target temperature (°C)
-- `status`: 'idle', 'holding', 'cooling', or 'heating'
-- `labware`: Loaded labware
-
-### Magnetic Module
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `engage(height_from_base=None, offset=None, height=None)` | Engage magnets | None |
-| `disengage()` | Disengage magnets | None |
-| `load_labware(name, label=None, namespace=None, version=None)` | Load labware on module | Labware |
-
-**Properties:**
-- `status`: 'engaged' or 'disengaged'
-- `labware`: Loaded labware
-
-### Heater-Shaker Module
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `set_target_temperature(celsius)` | Set heater target | None |
-| `wait_for_temperature()` | Wait for temperature | None |
-| `set_and_wait_for_temperature(celsius)` | Set and wait | None |
-| `deactivate_heater()` | Turn off heater | None |
-| `set_and_wait_for_shake_speed(rpm)` | Set shake speed | None |
-| `deactivate_shaker()` | Turn off shaker | None |
-| `open_labware_latch()` | Open latch | None |
-| `close_labware_latch()` | Close latch | None |
-| `load_labware(name, label=None, namespace=None, version=None)` | Load labware on module | Labware |
-
-**Properties:**
-- `temperature`: Current temperature (°C)
-- `target_temperature`: Target temperature (°C)
-- `current_speed`: Current shake speed (rpm)
-- `target_speed`: Target shake speed (rpm)
-- `labware_latch_status`: 'idle_open', 'idle_closed', 'opening', 'closing'
-- `status`: Module status
-- `labware`: Loaded labware
-
-### Thermocycler Module
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `open_lid()` | Open lid | None |
-| `close_lid()` | Close lid | None |
-| `set_lid_temperature(celsius)` | Set lid temperature | None |
-| `deactivate_lid()` | Turn off lid heater | None |
-| `set_block_temperature(temperature, hold_time_seconds=0, hold_time_minutes=0, ramp_rate=None, block_max_volume=None)` | Set block temperature | None |
-| `deactivate_block()` | Turn off block | None |
-| `execute_profile(steps, repetitions, block_max_volume=None)` | Run temperature profile | None |
-| `load_labware(name, label=None, namespace=None, version=None)` | Load labware on module | Labware |
-
-**Profile step format:**
-```python
-{'temperature': 95, 'hold_time_seconds': 30, 'hold_time_minutes': 0}
-```
-
-**Properties:**
-- `block_temperature`: Current block temperature (°C)
-- `block_target_temperature`: Target block temperature (°C)
-- `lid_temperature`: Current lid temperature (°C)
-- `lid_target_temperature`: Target lid temperature (°C)
-- `lid_position`: 'open', 'closed', 'in_between'
-- `ramp_rate`: Block temperature ramp rate (°C/s)
-- `status`: Module status
-- `labware`: Loaded labware
-
-### Absorbance Plate Reader Module
-
-| Method | Description | Returns |
-|--------|-------------|---------|
-| `initialize(mode, wavelengths)` | Initialize reader | None |
-| `read(export_filename=None)` | Read plate | Dict |
-| `close_lid()` | Close lid | None |
-| `open_lid()` | Open lid | None |
-| `load_labware(name, label=None, namespace=None, version=None)` | Load labware on module | Labware |
-
-**Read modes:**
-- `'single'`: Single wavelength
-- `'multi'`: Multiple wavelengths
-
-**Properties:**
-- `is_lid_on`: Lid status
-- `labware`: Loaded labware
-
-## Common Labware API Names
-
-### Plates
-
-- `corning_96_wellplate_360ul_flat`
-- `nest_96_wellplate_100ul_pcr_full_skirt`
-- `nest_96_wellplate_200ul_flat`
-- `biorad_96_wellplate_200ul_pcr`
-- `appliedbiosystems_384_wellplate_40ul`
-
-### Reservoirs
-
-- `nest_12_reservoir_15ml`
-- `nest_1_reservoir_195ml`
-- `usascientific_12_reservoir_22ml`
-
-### Tip Racks
-
-**Flex:**
-- `opentrons_flex_96_tiprack_50ul`
-- `opentrons_flex_96_tiprack_200ul`
-- `opentrons_flex_96_tiprack_1000ul`
-
-**OT-2:**
-- `opentrons_96_tiprack_20ul`
-- `opentrons_96_tiprack_300ul`
-- `opentrons_96_tiprack_1000ul`
-
-### Tube Racks
-
-- `opentrons_10_tuberack_falcon_4x50ml_6x15ml_conical`
-- `opentrons_24_tuberack_nest_1.5ml_snapcap`
-- `opentrons_24_tuberack_nest_1.5ml_screwcap`
-- `opentrons_15_tuberack_falcon_15ml_conical`
-
-### Adapters
-
-- `opentrons_flex_96_tiprack_adapter`
-- `opentrons_96_deep_well_adapter`
-- `opentrons_aluminum_flat_bottom_plate`
-
-## Error Handling
-
-Common exceptions:
-
-- `OutOfTipsError`: No tips available
-- `LabwareNotLoadedError`: Labware not loaded on deck
-- `InvalidContainerError`: Invalid labware specification
-- `InstrumentNotLoadedError`: Pipette not loaded
-- `InvalidVolumeError`: Volume out of range
-
-## Simulation and Debugging
-
-Check simulation status:
-```python
-if protocol.is_simulating():
-    protocol.comment('Running in simulation')
-```
-
-Access bundled data files:
-```python
-data_file = protocol.bundled_data['data.csv']
-with open(data_file) as f:
-    data = f.read()
-```
-
-## Version Compatibility
-
-API Level compatibility:
-
-| API Level | Features |
-|-----------|----------|
-| 2.19 | Latest features, Flex support |
-| 2.18 | Absorbance plate reader |
-| 2.17 | Liquid tracking improvements |
-| 2.16 | Flex 8-channel partial tip pickup |
-| 2.15 | Heater-Shaker Gen1 |
-| 2.13 | Temperature Module Gen2 |
-| 2.0-2.12 | Core OT-2 functionality |
-
-Always use the latest stable API version for new protocols.

package/bin/skills/opentrons-integration/scripts/basic_protocol_template.py

@@ -1,67 +0,0 @@
-#!/usr/bin/env python3
-"""
-Basic Opentrons Protocol Template
-
-This template provides a minimal starting point for creating Opentrons protocols.
-Replace the placeholder values and add your specific protocol logic.
-"""
-
-from opentrons import protocol_api
-
-# Metadata
-metadata = {
-    'protocolName': 'Basic Protocol Template',
-    'author': 'Your Name <email@example.com>',
-    'description': 'A basic protocol template for Opentrons',
-    'apiLevel': '2.19'
-}
-
-# Requirements
-requirements = {
-    'robotType': 'Flex',  # or 'OT-2'
-    'apiLevel': '2.19'
-}
-
-def run(protocol: protocol_api.ProtocolContext):
-    """
-    Main protocol function.
-
-    Args:
-        protocol: The protocol context provided by Opentrons
-    """
-
-    # Load tip racks
-    tips_200 = protocol.load_labware('opentrons_flex_96_tiprack_200ul', 'D1')
-
-    # Load labware
-    source_plate = protocol.load_labware(
-        'nest_96_wellplate_200ul_flat',
-        'D2',
-        label='Source Plate'
-    )
-
-    dest_plate = protocol.load_labware(
-        'nest_96_wellplate_200ul_flat',
-        'D3',
-        label='Destination Plate'
-    )
-
-    # Load pipette
-    pipette = protocol.load_instrument(
-        'p300_single_flex',
-        'left',
-        tip_racks=[tips_200]
-    )
-
-    # Protocol commands
-    protocol.comment('Starting protocol...')
-
-    # Example: Transfer from A1 to B1
-    pipette.transfer(
-        volume=50,
-        source=source_plate['A1'],
-        dest=dest_plate['B1'],
-        new_tip='always'
-    )
-
-    protocol.comment('Protocol complete!')

package/bin/skills/opentrons-integration/scripts/pcr_setup_template.py

@@ -1,154 +0,0 @@
-#!/usr/bin/env python3
-"""
-PCR Setup Protocol Template
-
-This template demonstrates how to set up PCR reactions using the Thermocycler module.
-Includes master mix distribution, sample addition, and PCR cycling.
-"""
-
-from opentrons import protocol_api
-
-metadata = {
-    'protocolName': 'PCR Setup with Thermocycler',
-    'author': 'Opentrons',
-    'description': 'Automated PCR setup and cycling protocol',
-    'apiLevel': '2.19'
-}
-
-requirements = {
-    'robotType': 'Flex',
-    'apiLevel': '2.19'
-}
-
-def run(protocol: protocol_api.ProtocolContext):
-    """
-    Sets up PCR reactions and runs thermocycler.
-
-    Protocol performs:
-    1. Distributes master mix to PCR plate
-    2. Adds DNA samples
-    3. Runs PCR cycling program
-    """
-
-    # Load thermocycler module
-    tc_mod = protocol.load_module('thermocyclerModuleV2')
-    tc_plate = tc_mod.load_labware('nest_96_wellplate_100ul_pcr_full_skirt')
-
-    # Load tips and reagents
-    tips_20 = protocol.load_labware('opentrons_flex_96_tiprack_50ul', 'C1')
-    tips_200 = protocol.load_labware('opentrons_flex_96_tiprack_200ul', 'C2')
-    reagent_rack = protocol.load_labware(
-        'opentrons_24_tuberack_nest_1.5ml_snapcap',
-        'D1',
-        label='Reagents'
-    )
-
-    # Load pipettes
-    p20 = protocol.load_instrument('p50_single_flex', 'left', tip_racks=[tips_20])
-    p300 = protocol.load_instrument('p300_single_flex', 'right', tip_racks=[tips_200])
-
-    # Define liquids
-    master_mix = protocol.define_liquid(
-        name='PCR Master Mix',
-        description='2x PCR master mix',
-        display_color='#FFB6C1'
-    )
-
-    template_dna = protocol.define_liquid(
-        name='Template DNA',
-        description='DNA samples',
-        display_color='#90EE90'
-    )
-
-    # Load liquids
-    reagent_rack['A1'].load_liquid(liquid=master_mix, volume=1000)
-    for i in range(8):  # 8 samples
-        reagent_rack.wells()[i + 1].load_liquid(liquid=template_dna, volume=50)
-
-    # PCR setup parameters
-    num_samples = 8
-    master_mix_volume = 20  # µL per reaction
-    template_volume = 5  # µL per reaction
-    total_reaction_volume = 25  # µL
-
-    protocol.comment('Starting PCR setup...')
-
-    # Open thermocycler lid
-    tc_mod.open_lid()
-    protocol.comment('Thermocycler lid opened')
-
-    # Step 1: Distribute master mix
-    protocol.comment(f'Distributing {master_mix_volume}µL master mix to {num_samples} wells...')
-    p300.distribute(
-        master_mix_volume,
-        reagent_rack['A1'],
-        tc_plate.wells()[:num_samples],
-        new_tip='once',
-        disposal_volume=10  # Extra volume to prevent shortage
-    )
-
-    # Step 2: Add template DNA
-    protocol.comment('Adding template DNA to each well...')
-    for i in range(num_samples):
-        p20.transfer(
-            template_volume,
-            reagent_rack.wells()[i + 1],  # Sample tubes
-            tc_plate.wells()[i],  # PCR plate wells
-            mix_after=(3, 10),  # Mix 3x with 10µL
-            new_tip='always'
-        )
-
-    protocol.comment('PCR reactions prepared')
-
-    # Close lid and start PCR
-    tc_mod.close_lid()
-    protocol.comment('Thermocycler lid closed')
-
-    # Set lid temperature
-    tc_mod.set_lid_temperature(celsius=105)
-    protocol.comment('Lid heating to 105°C')
-
-    # Initial denaturation
-    protocol.comment('Initial denaturation...')
-    tc_mod.set_block_temperature(
-        temperature=95,
-        hold_time_seconds=180,
-        block_max_volume=total_reaction_volume
-    )
-
-    # PCR cycling profile
-    protocol.comment('Starting PCR cycling...')
-    profile = [
-        {'temperature': 95, 'hold_time_seconds': 15},  # Denaturation
-        {'temperature': 60, 'hold_time_seconds': 30},  # Annealing
-        {'temperature': 72, 'hold_time_seconds': 30}   # Extension
-    ]
-
-    num_cycles = 35
-    tc_mod.execute_profile(
-        steps=profile,
-        repetitions=num_cycles,
-        block_max_volume=total_reaction_volume
-    )
-
-    # Final extension
-    protocol.comment('Final extension...')
-    tc_mod.set_block_temperature(
-        temperature=72,
-        hold_time_minutes=5,
-        block_max_volume=total_reaction_volume
-    )
-
-    # Hold at 4°C
-    protocol.comment('Cooling to 4°C for storage...')
-    tc_mod.set_block_temperature(
-        temperature=4,
-        block_max_volume=total_reaction_volume
-    )
-
-    # Deactivate and open
-    tc_mod.deactivate_lid()
-    tc_mod.open_lid()
-
-    protocol.comment('PCR complete! Plate ready for removal.')
-    protocol.comment(f'Completed {num_cycles} cycles for {num_samples} samples')

package/bin/skills/opentrons-integration/scripts/serial_dilution_template.py

@@ -1,96 +0,0 @@
-#!/usr/bin/env python3
-"""
-Serial Dilution Protocol Template
-
-This template demonstrates how to perform a serial dilution across a plate row.
-Useful for creating concentration gradients for assays.
-"""
-
-from opentrons import protocol_api
-
-metadata = {
-    'protocolName': 'Serial Dilution Template',
-    'author': 'Opentrons',
-    'description': 'Serial dilution protocol for creating concentration gradients',
-    'apiLevel': '2.19'
-}
-
-requirements = {
-    'robotType': 'Flex',
-    'apiLevel': '2.19'
-}
-
-def run(protocol: protocol_api.ProtocolContext):
-    """
-    Performs a serial dilution across plate rows.
-
-    Protocol performs:
-    1. Adds diluent to all wells except the first column
-    2. Transfers stock solution to first column
-    3. Performs serial dilutions across rows
-    """
-
-    # Load labware
-    tips = protocol.load_labware('opentrons_flex_96_tiprack_200ul', 'D1')
-    reservoir = protocol.load_labware('nest_12_reservoir_15ml', 'D2', label='Reservoir')
-    plate = protocol.load_labware('corning_96_wellplate_360ul_flat', 'D3', label='Dilution Plate')
-
-    # Load pipette
-    p300 = protocol.load_instrument('p300_single_flex', 'left', tip_racks=[tips])
-
-    # Define liquids (optional, for visualization)
-    diluent = protocol.define_liquid(
-        name='Diluent',
-        description='Buffer or growth media',
-        display_color='#B0E0E6'
-    )
-
-    stock = protocol.define_liquid(
-        name='Stock Solution',
-        description='Concentrated stock',
-        display_color='#FF6347'
-    )
-
-    # Load liquids into wells
-    reservoir['A1'].load_liquid(liquid=diluent, volume=15000)
-    reservoir['A2'].load_liquid(liquid=stock, volume=5000)
-
-    # Protocol parameters
-    dilution_factor = 2  # 1:2 dilution
-    transfer_volume = 100  # µL
-    num_dilutions = 11  # Number of dilution steps
-
-    protocol.comment('Starting serial dilution protocol')
-
-    # Step 1: Add diluent to all wells except first column
-    protocol.comment('Adding diluent to wells...')
-    for row in plate.rows()[:8]:  # For each row (A-H)
-        p300.transfer(
-            transfer_volume,
-            reservoir['A1'],  # Diluent source
-            row[1:],  # All wells except first (columns 2-12)
-            new_tip='once'
-        )
-
-    # Step 2: Add stock solution to first column
-    protocol.comment('Adding stock solution to first column...')
-    p300.transfer(
-        transfer_volume * 2,  # Double volume for first well
-        reservoir['A2'],  # Stock source
-        [row[0] for row in plate.rows()[:8]],  # First column (wells A1-H1)
-        new_tip='always'
-    )
-
-    # Step 3: Perform serial dilution
-    protocol.comment('Performing serial dilutions...')
-    for row in plate.rows()[:8]:  # For each row
-        p300.transfer(
-            transfer_volume,
-            row[:num_dilutions],  # Source wells (1-11)
-            row[1:num_dilutions + 1],  # Destination wells (2-12)
-            mix_after=(3, 50),  # Mix 3x with 50µL after each transfer
-            new_tip='always'
-        )
-
-    protocol.comment('Serial dilution complete!')
-    protocol.comment(f'Created {num_dilutions} dilutions with {dilution_factor}x dilution factor')