snakemake / snakemake-executor-plugin-googlebatch

Snakemake executor plugin for Google Batch
MIT License
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Issue with gs plugin #24

Open vsoch opened 11 months ago

vsoch commented 11 months ago

Hey @johanneskoester ! I've hit this today (working on preemption) and last night with kueue - the latest snakemake container is having an issue with the storage plugins it seems?

__main__.py: error: unrecognized arguments: --storage-gs-keep-local --storage-gs-stay-on-remote False --storage-gs-retries 5

At a high level, I don't understand the setup of these storage plugins and might need your help working on it further. Aside from manually removing these flags from the command (which I did for kueue so it would run) what would you suggest for a next step?

I will link the current PR for preemption following posting this issue.