Megadetector-v5 SLURM

Getting started

git clone 'https://github.com/Biodiversity-CatTracker2/megadetector-v5-SLURM.git'
git clone 'https://github.com/ultralytics/yolov5.git'

module load anaconda
conda create -n yolov5 python=3.8 --yes
conda activate yolov5
pip install -r yolov5/requirements.txt

Usage

cd megadetector-v5-SLURM

• Edit download.sh to replace the placeholders, then run:

sbatch download.sh

• When download is over, edit predict.sh to replace the placeholders, then run:

sbatch predict.sh

• Get the <jobid>.err file and create a channel on notify.run, edit check.sh to replace the placeholders, then run:

sbatch check.sh

Notes

• Remove --drive-shared-with-me from download.sh and predict.sh if the folder is not a shared folder.