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os: Do not use Docker for the segmenter #645

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os: Do not use Docker for the segmenter
sonnyp Jun 25, 2025
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sonnyp Jun 30, 2025
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sonnyp Jun 30, 2025
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sonnyp Jun 30, 2025
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2 changes: 1 addition & 1 deletion os/forklift/forklift-pallet-version
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@@ -1 +1 @@
a4ec796
3776e964ba612ea88edb9afc92969c165735afff
19 changes: 19 additions & 0 deletions os/python-hardware-controller/etc/systemd/system/planktoscope-org.segmenter.service
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[Unit]
Description=Run the PlanktoScope segmenter
# Wait for Forklift to bring up mosquitto, in case the segmenter needs to start after mosquitto
Wants=forklift-apply.service
After=forklift-apply.service
# Start after Node-RED so that Node-RED can catch all MQTT messages emitted at startup
After=nodered.service

[Service]
Type=simple
Environment=HOME=/home/pi
Environment=SEGMENTER_PIPELINE_SUBTRACT_CONSECUTIVE_MASKS=true
WorkingDirectory=/home/pi/PlanktoScope/segmenter
ExecStart=/home/pi/.local/bin/poetry run python -u main.py
User=pi
Group=pi

[Install]
WantedBy=multi-user.target
9 changes: 8 additions & 1 deletion os/python-hardware-controller/install.sh
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Expand Up @@ -18,11 +18,18 @@ pipx install poetry==2.1.3
pipx ensurepath
PATH="$PATH:/home/pi/.local/bin"

# Set up the hardware controllers
# Set up the hardware controller
sudo -E apt-get install -y --no-install-recommends -o Dpkg::Progress-Fancy=0 \
i2c-tools libopenjp2-7 python3-picamera2
poetry --directory "$HOME/PlanktoScope/controller" install \
--compile
file="/etc/systemd/system/planktoscope-org.controller.service"
sudo cp "$config_files_root$file" "$file"
sudo systemctl enable "planktoscope-org.controller.service"

# Set up the segmenter
poetry --directory "$HOME/PlanktoScope/segmenter" install \
--compile
file="/etc/systemd/system/planktoscope-org.segmenter.service"
sudo cp "$config_files_root$file" "$file"
sudo systemctl enable "planktoscope-org.segmenter.service"
9 changes: 3 additions & 6 deletions segmenter/README.md
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Expand Up @@ -22,13 +22,10 @@ Install all dependencies including development tooling:
poetry install --with dev
```

Start controller for development:
Start segmenter for development:

```sh
docker ps
# copy the container id of the segmenter
docker stop <container-id>

sudo systemctl stop planktoscope-org.segmenter.service
poetry run python -u main.py
# make changes and restart
```
Expand All @@ -51,7 +48,7 @@ We recommand using [https://code.visualstudio.com/docs/remote/ssh](https://code.

To use this project, you'll need:

- Python >= 3.9
- Python >= 3.11.2
- Poetry 2.1.3

## Licensing
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3 changes: 0 additions & 3 deletions segmenter/apt-packages
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# numpy/scipy dependencies
libatomic1

# opencv dependencies
libopenjp2-7
libavcodec59
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