I am quite a newbie to Qiime2 and I seem to have run into a potential problem regarding the qiime feature-classifier extract-reads.
I am experiencing a very lengthy extract-reads, I have not experienced this problem using my other primers (18S) with other databases (PR2 and SILVA). I am running my pipeline through a high performance computer (so computing power is not a problem - currently using mem-per-cpu=10GB and cpus-per-task=16) and generally takes ~2 hours to run. The database I am using now (Midori) is double the size of the others, but I do not understand how 48 hours is not sufficient for it to run.
Appreciate the help!