The bioBakery help forum

RAM in humann_regroup_table, etc. commands

Hi! I have a very big dataset with thousands of samples and I am processing the Humann3 outputs with the commands that come with the 3.0.0 version. The renaming and regrouping take a huge amount of RAM and I was not able to perform the regrouping on non-stratified gene abundance tables with 800G of RAM. Is there any way to reduce the peak RAM requirements for the commands that process the joined humann3 output tables?

Hi! I am still wondering if there is a workaround to avoid having to use so much RAM for the humann_regroup table? Or can I just regroup the tables individually and use the humann_join_tables after?