command line replacement for prodigal

[alexcritschristoph]

I really appreciate pyrodigal.

Something that I think could be helpful for the community would be a command line interface for it that is essentially a drop in replacement for prodigal, with multi-threading enabled, so someone could run:

pyrodigal -i big_metagenome.fasta -a amino_acids.faa -d genes.fna -t 12

You might not need all of the parameters of prodigal, just -meta, -d, -a. Curious if you would have the time for it.

[althonos]

There is one already, except the -t option is named -j / --jobs 😅

[alexcritschristoph]

OMG I'm a idiot

This is awesome, thank you!

[althonos]

I've added an explicit section to the documentation now: https://pyrodigal.readthedocs.io/en/stable/guide/cli.html