https://broadinstitute.github.io/celldega/
pip install celldegaIf running on a new Terra.bio workspace you will need to install vips in a startup script (e.g., startup_script.sh) with the following
#!/bin/bash
apt update
apt install -y libvips
apt install -y libvips-tools
apt install -y libvips-dev
Please see Terra.bio documentation for more information.
Create a virtual environment and and install celldega in editable mode with the optional development dependencies:
python -m venv .venv
source .venv/bin/activate
pip install -e ".[dev]"You then need to install the JavaScript dependencies and run the development server.
npm install
npm run devOpen example.ipynb in JupyterLab, VS Code, or your favorite editor
to start developing. Changes made in js/ will be reflected
in the notebook.
Increment version in project.toml and
$ hatch build
$ hatch publish
$ hatch env prune # Remove old environments
$ hatch env create # Create a new environment based on pyproject.toml
$ hatch shell # Activate the new environment
Increment version in package.json and
$ npm run build
$ npm publish
