Hello <!here>, Is there a way to directly change the number of threads or cores in the MAG pipeline at the workflow level? We need to process multiple deeper-depth samples on the server to reduce the overall time.

What do you mean exactly at a workflow level?

I was looking for the thread configuration in

nextflow.config

, but I realized it's actually defined in

base.config

with the other resource settings. Now I understand. Never mind!

OK!

You likely need to configure the pipeline to your available computational resources to you machine or infrastructure. Please see the following two(!) sections: - https://nf-co.re/docs/usage/getting_started/configuration#tuning-workflow-resources - https://nf-co.re/docs/usage/getting_started/configuration#max-resources of the documentation for more information.

Thank you @James Fellows Yates, For aircraft wastewater shotgun data, do you recommend any additional settings based on your experience? Any guidance would be helpful!

No clue, I've never worked on that type of sample sorry

No worries, Thanks!

I am right now looking at wastewater from a wastewater treatment plant. Its quite divers, i.e. all time to multiple days (just put a lot) and memory of most processes need to be up as well.