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rhysnewell / aviary

A hybrid assembly and MAG recovery pipeline (and more!)
GNU General Public License v3.0
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Snakemake doesn't respect umask value #188

Closed AroneyS closed 10 months ago

AroneyS commented 10 months ago

Looks like Snakemake uses a default umask of something like 077 so snakemake-created folders get permissions like drwx------. Can we set manually with os.umask(0o002) at the start of the main Snakemake like in https://github.com/snakemake/snakemake/issues/2209?

rhysnewell commented 10 months ago

Seems like this would be the more valid solution as the OG solution missed the logs folder: https://github.com/snakemake/snakemake/issues/2209#issuecomment-1505691467

Using that would be fine, IMO. Slapping it into the entry Snakemake file should be fine