Implementation of Pyfilesystem for BirdNET: run BirdNET on HPC for faster results
This repository provide the means of using BirdNET on HPCs (i.e. supercomputers) by leveraging Pyfilesystem. If you use BirdNET please cite:
@article{kahl2021birdnet,
title={BirdNET: A deep learning solution for avian diversity monitoring},
author={Kahl, Stefan and Wood, Connor M and Eibl, Maximilian and Klinck, Holger},
journal={Ecological Informatics},
volume={61},
pages={101236},
year={2021},
publisher={Elsevier}
}
How to run the scripts
On HPC:
Pull the image as a .sif file for compliance with singularity
singularity pull birdnet.sif ghcr.io/ninanor/birdnet-analyzer:main
Provided the config file has been updated and that the HPC uses TORQUE run:
qsub run_birdnet_hpc.sh
Locally
Pull the docker image:
docker pull ghcr.io/ninanor/birdnet-analyzer:main
Provided the config has been updated (especially CONNECTION_STRING set to False) run:
./run_birdnet_local.sh