search

snakemake / snakemake-github-action

A Github action for running a Snakemake workflow
MIT License
53 stars 12 forks source link

Is `--kubernetes` flag an option? #28

Closed jairav closed 1 year ago

jairav commented 1 year ago

Is this possible? I'd like to create a GitHub action that gets cluster credentials, and executes the snakemake action with those credentials on GKE. I haven't seen any examples or documentation. It seems like I could use stagein: to get credentials or even create the cluster.

jairav commented 1 year ago

In order for this to be possible, the snakemake docker image would have to contain the gcloud sdk. We could then pass it credentials in order to get cluster credentials and execute.