I am trying to build a classifier using “greengenes” database. Here is the command I am using:
qiime feature-classifier extract-reads --i-sequences gg_13_5_otus.qza --p-f-primer AATGATACGGCGACCACCGAGATCTACACTATGGTAATTGTCCTACGGGAGGCAGCAG --p-r-primer CAAGCAGAAGACGGCATACGAGATGCCGCATTCGATNNNNNNNNNNNNCCGTCAATTCMTTTRAGT --o-reads gg_13_5_ref_seqs.qza
The above command has been running for 3 days but there’s no output. I have built greengenes based classifier in the past using the same set of input files (i.e. fasta & taxonomy file) but with a different set of primers (took few hours). But since it has been running for days now, I am wandering if I am doing something wrong?
I installed QIIME2 within a
conda environment. Any help would be greatly appreciated.