Installation

Requirements

Python ≥ 3.10
The four upstream PEN-STACK packages (pinned versions):
- genome-atlas>=0.7.2,<0.8.0
- mech-class>=0.5.4,<0.6.0
- pen-score>=0.1.3,<0.2.0
- pen-assemble>=0.5.2,<0.6.0

From source

git clone https://github.com/ahmedanees-m/pen-compare.git
cd pen-compare
pip install -e ".[webserver,rag]"

Docker (recommended for full pipeline)

docker run --rm \
  -v ~/pen-assemble:/workspace/pen-assemble \
  -p 8501:8501 \
  pen-stack/compare:0.1.0

Streamlit Community Cloud

The Streamlit app is deployed at the repository’s GitHub URL. It uses pre-computed JSON caches in data/cache/ and requires only the packages listed in requirements.txt.