Installation

First, install dependencies

• Linux with Python = 3.8.*

• Detectron2: follow Detectron2 installation instructions.

# create conda environment
conda create --name cellotype python=3.8
conda activate cellotype
# install pytorch and detectron2
conda install pytorch==1.9.0 torchvision==0.10.0 cudatoolkit=11.1 -c pytorch -c nvidia
python -m pip install 'git+https://github.com/facebookresearch/detectron2.git'
# (add --user if you don't have permission)

# Compile Deformable-DETR CUDA operators
git clone https://github.com/fundamentalvision/Deformable-DETR.git
cd Deformable-DETR
cd ./models/ops
sh ./make.sh

# install cellotype
pip install cellotype