Run pathogen-repo-ci in CI with new docker-base images produced in CI #147
Description
Context
Updating the Snakemake version in docker-base from v5 to v7 was quite involved. One major hurdle was that it wasn't straight forward to test workflows for compatibility with the new image. It would be good if we had more automation helping us check new images don't break anything - or be able to notice issues quickly so that they can be addressed.
Description
When updating the docker-base image, it would be nice if we could see whether the pathogen CI for various repos still passes with the new docker-base image.
We could manually run these tests in each repo with the new images, but that is tedious. Running pathogen CI as part of docker-base CI may be helpful in quickly spotting issues.
We would probably use the results only in informative ways, not to prevent a new image from being published as pathogen CI can fail for reasons other than the image update.