Use EKS as a pseudo-labeler to accelerate pose estimation projects..
Install ffmpeg
First, check to see if you have ffmpeg installed by typing the following in the terminal:
ffmpeg -version
If not, install:
sudo apt install ffmpeg
Set up a conda environment
conda create --yes --name labeler python=3.8
conda activate labeler
Install dependencies
Lightning Pose:
git clone https://github.com/danbider/lightning-pose.git
cd lightning-pose
pip install -e .
cd ..
Ensemble Kalman Smoother:
git clone https://github.com/paninski-lab/eks.git
cd eks
pip install -e .
cd ..
Install pseudo-labeler package locally
git clone https://github.com/paninski-lab/keypoint-pseudo-labeler.git
cd keypoint-pseudo-labeler
pip install -e .
cd ..
python pipelines/run_pipeline.py --config <path_to_pipeline_config>