Uses the inference3d module to infer the path of the bee in the photos
You will need to install pathinference, which requires tensorflow. Example:
- Install tensorflow (from [https://www.tensorflow.org/install/pip](tensorflow's page)):
python3 -m pip install 'tensorflow[and-cuda]'
pip install --upgrade tensorflow-probability
pip install tf-keras
- then install pathinference,
pip install git+https://github.com/SheffieldMLtracking/pathinference.git
- finally install this package:
pip install git+https://github.com/SheffieldMLtracking/btinference.git
If you want to render the path install:
sudo apt-get install ffmpeg
Or maybe just use this?
pip install opencv-python-headless
Ran on server: cd /mnt/san/shared/pml_group/Shared/beephotos/2025-09-09/Displacement_11 sudo btalignment . --maxnum 40 --calset cal
Then to view the results: btqviewer . --nobrowser --port 5002 --highlight Ran on my laptop: ssh -N -L 5002:localhost:5002 sa_md1xmtsx@ohiobeeproject.sheffield.ac.uk (then ran btqviewer on my laptop anywhere, just to open the right page in the browser, set port to 5002)
Because we have the non-compacted cal data in a different folder, after doing the alignment one needs to copy the 'cal' folder (really it's just the cal/1010/ Ran on server: sudo cp cal ../Displacement_11_compact/cal -r
Then cded to the right folder: cd /mnt/san/shared/pml_group/Shared/beephotos/2025-09-09/Displacement_11_compact sudo btinference --calset cal --makeanimation bee_1_compact