A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

I checked the work directory, and most of the space was held up by intermediate fastq.gz files. Any painless way I can remove the files which are no longer needed in the pipeline?

Not sure about painless, but.. <https://seqera.io/blog/experimental-cleanup-with-nf-boost/|seqera.io/blog/experimental-cleanup-with-nf-boost>

Thanks, I guess I add this to my custom config?

I am processing four samples, each sample is around 20 GB in size (10/10GB between R1 and R2). I have 800 GB of free space, but apparently it isn't enough even with nf-boost.

I think I will just run them one by one, running them with automatic cleanup so at least the work directory becomes free