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snakemake

Snakemake: Is it possible to only display "Job counts" using --dryrun?

How can I make Snakemake display only the Job counts fields on a dry run? When performing a real run, that's the first information Snakemake outputs before starting the jobs.

Currently, the way I get job counts is to run Snakemake without the -n flag and immediately cancel it (^C), but that's far from ideal.

Letting the dry run complete will output the Job counts at the end, but that's not feasible for pipelines with hundreds or thousands of jobs.

Desired output:

$ snakemake -n --someflag
Job counts:
        count   jobs
        504     BMO
        1       all
        504     fit_nbinoms
        517     motifs_in_peaks
        503     motifs_outside_peaks
        2029
$
Solution

  • Flag -q does this.

    --quiet, -q    Do not output any progress or rule information.