Using the StemmaQT/Qwicc connector

The Pioreactor HAT comes with a connector for the StemmaQT / Qwiic connector that can be used to attach additional hardware for your Pioreactor. See image below:

info

What is StemmaQT / Qwiic? It's simply a standardized physical connector, the JST SH, with electronic connections to 3.3V, GND and I²C. Many other hardware design companies, like Adafruit and SparkFun, implement StemmaQT / Qwiic on their boards, which expands the StemmaQT / Qwiic ecosystem.

Example

Suppose you are placing your Pioreactor in a CO₂ incubator, and want to record the CO₂ concentration of the incubator. The incubator does monitor the CO₂ concentration, but generally this isn't accessible to other tools. What you can do is purchase an external CO₂ sensor with StemmaQT / Qwiic connectors, like the SCD-40, and attach it to your Pioreactor. The Pioreactor can now read from the CO₂ sensor, and build logging, event-loops, plotting, etc. around the measurements.

To read from the sensor, a plugin may be available for it, or you can write a simple Python script like so:

note

To run the script, you'll first need to install the Python library: sudo pip3 install adafruit-circuitpython-scd4x

import sleep
import board
import adafruit_scd4x

from pioreactor.pubsub import publish
from pioreactor.whoami import get_unit_name, get_assigned_experiment_name

i2c = board.I2C()
scd4x = adafruit_scd4x.SCD4X(i2c)

unit = get_unit_name()
exp = get_assigned_experiment_name(unit)

scd4x.start_periodic_measurement()

while True:
    if scd4x.data_ready:
        
        print("CO2: %d ppm" % scd4x.CO2)
        publish(f"pioreactor/{unit}/{exp}/scd4x/co2", scd4x.CO2, retain=True)

        print("Temperature: %0.1f *C" % scd4x.temperature)
        publish(f"pioreactor/{unit}/{exp}/scd4x/temperature", scd4x.temperature, retain=True)

        print("Humidity: %0.1f %%" % scd4x.relative_humidity)
        publish(f"pioreactor/{unit}/{exp}/scd4x/relative_humidity", scd4x.relative_humidity, retain=True)

        print()
    time.sleep(1)

Running this on your Pioreactor will publish the data to MQTT, and thus be available to any other bioreactor job.

You could also turn this into a background job to make it even easier to use!

Example​

Example