Charlie

**Describe the bug** Docker tags have a 'v' in front of them right now but the references to them don't

**What's the feature?** At the moment logging is a little fractured between snakemake's `log` and `stdout/stderr`. The former is better in local execution situations while the latter is better when...

More informative error when proper executor isn't installed

1

**Describe the bug** When the necessary executor isn't installed now, snakemake will fail with an invalid choice message. Sunbeam should provide the proper remediation (go install the proper executor https://snakemake.github.io/snakemake-plugin-catalog/plugins/executor/slurm.html)

**What's the feature?** Use snakemake's envmodules where possible (in addition to conda envs) to give platform optimized versions of tools if they exist. **Additional context** https://snakemake.readthedocs.io/en/v8.1.0/snakefiles/deployment.html#using-environment-modules

* [ ] I have run `pytest .tests/` on a local deployment and the tests passed successfully * [ ] If this adds a new output file, I have added...

https://github.com/kylebittinger/heyfastq/

**What's the feature?** Move the functionality for dealing with configs in sunbeamlib into an object

Workflow defines configfile config/config.yml but it is not present or accessible.

4

How do I specify the path to my config file? I've tried moving it around but the GH action doesn't seem to pick it up from anywhere automatically. .github/workflows/main.yaml ```...

snakemake: error: argument --executor/-e: invalid choice:

2

**Is your feature request related to a problem? Please describe.** Running snakemake without the specified executor/storage plugin gives this error: ``` snakemake: error: argument --executor/-e: invalid choice: ``` which is...

URL_LIST feature suggestion

1

Hi again, sorry for the back to back issues. This one's more of a feature request. I'm trying to run this action on a dev site as part of a...