Opentrons OT-2 SOP

Overview

This document describes onboarding the Opentrons OT-2 instrument into Genie’s LabOS.

Prerequisites

Functional, calibrated, network connected OT-2. Must be possible to run a simple protocol from the Opentrons App.
Enable SSH access to the OT2 (see Opentrons Help Center)
Genie LabOS Account
Network connected Windows PC

Installation

Instrument Connector

You only need to install a single Instrument Connector per network, even if you are managing multiple instruments.

From the Windows PC, log in to Genie’s LabOS.
Click on your name in the top right corner of the screen and select Connectors
Click on the + icon to add a new Connector
- Download the Windows Connector
- Generate a Registration Code (be sure to copy and save it) and click Claim
Install the Windows Connector on the PC, entering the registration code when prompted
A few seconds after the installation finishes, refresh the Connector screen. The installed connector will be listed in the Connectors table. By default its name will be set to the registration code. You can click on the name to change it to something more user friendly.

OT-2

LabOS communicates with the OT-2 over a REST API Server, which needs to be installed on the instrument. To install it, simply SSH into the Opentrons system and run the following command:

				
					wget -q -O - https://raw.githubusercontent.com/genie-inc/opentrons_rest_api/master/install.sh | sh

You will need to repeat this installation procedure each time you upgrade the Opentrons software.

OT-2 Modules

Plug all modules, such as the OT-2 Magnetic Module, into the Desktop PC instead of plugging them into the OT-2. The Instrument Connector will communicate directly with the accessories, bypassing the OT-2.

Onboarding

Perform the steps below from LabOS.

Add Instrument

Navigate to the Virtual Lab page
Click on the + icon to add a new Instrument
- Select the previously installed Instrument Connector and click Continue
- Enter a user friendly name for the instrument, such as “My OT-2“
- Set the Type to Liquid Handler
- Set the Model to Opentrons OT-2
- Set the URL to http://{IP}:8080 where {IP} is the OT-2’s IP address
- Click on Add Instrument

Configure Heads

Navigate to the Virtual Lab page
Open the OT-2 Instrument
Select the Configuration tab
Change the Head configuration(s) to match the pipettes on the OT-2
Click Save
Select the Actions tab
Run the Home command to verify the LabOS is able to communicate with the instrument

Configure Modules

Navigate to the Virtual Lab page
Onboard Opentrons Modules into LabOS
- For example, add a new instrument of type Magnet and model Opentrons Magnetic Module
Open the OT2 Instrument
Select the Deck tab
Select the onboarded instrument for the deck slot (e.g. B3) where the instrument is located
Click Save

Recalibration

Use the Opentrons Native UI to replace pipettes and thereafter re-calibrate the instrument and power cycle it. Once calibrated, login to LabOS, select the OT-2 instrument, click on the Configuration tab, modify the Heads and click Save.

Changing the pipettes on the OT-2 (e.g. P20 to P1000) will invalidate the previously generated settings, since the settings were generated for different pipettes. Simply re-generate the settings to bind your protocol to the new OT-2 configuration.