Nextstrain repository for yellow fever virus

This repository is in the process of being upgraded to follow the pathogen repo guide.

Installation

Follow the standard installation instructions for Nextstrain's suite of software tools.

Working on this repo

This repo is configured to use pre-commit to help automatically catch common coding errors and syntax issues with changes before they are committed to the repo.

If you will be writing new code or otherwise working within this repo, please do the following to get started:

1. install pre-commit by running either python -m pip install pre-commit or brew install pre-commit, depending on your preferred package management solution
2. install the local git hooks by running pre-commit install from the root of the repo
3. when problems are detected, correct them in your local working tree before committing them.

Note that these pre-commit checks are also run in a GitHub Action when changes are pushed to GitHub, so correcting issues locally will prevent extra cycles of correction.