Results directory uses lots of disk space

The results directory contains a lot of results. For example, the GCN4 project with 9 SE samples yields a 89GB big results directory. Each samples takes around 8-10GB. Big chuncks of this are used by quant_kallisto, start and map_genome with each >1GB.

Also, I think there could be a redundancy in STAR_coverage and the results in ALFA as there is a copy of BED files at some point.

Are all the files needed or could some be marked as temporary in the workflow? E.g. results/star_indexes is already 1606M. Could it be deleted once the workflow finished successfully?

A potential side effect of cleaning up the results, besides the reduction of disk space, is that browsing the results becomes easier.