I am testing out Snakemake profiles and would like to specify the number of jobs to be the same as the number of available cores. When using command-line arguments, I would be able to do this:
and Snakemake will determine the right number of cores to allocate. If I instead of a
profile/config.yaml file that looks like
I get this error:
snakemake: error: argument --cores/--jobs/-j: invalid int value: 'None'
Is there a way to get the behavior of simply passing
-j while using profiles?