Checks your local setup to see if you have a supported build environment.
Three environments are supported, each of which will be tested:
Our Docker image is the preferred build environment. Docker itself must be installed and configured on your computer first, but once it is, the build environment is robust and reproducible.
Your native ambient environment will be tested for snakemake, augur, and auspice. Their presence implies a working build environment, but does not guarantee it.
Remote jobs on AWS Batch. Your AWS account, if credentials are available in your environment or via aws-cli configuration, will be tested for the presence of appropriate resources. Their presence implies a working AWS Batch environment, but does not guarantee it.
usage: nextstrain check-setup [-h] [--set-default]
Set the default environment to the first which passes check-setup. Checks run in the order: docker, native, aws-batch.