Thanks for the quick reply Nicholas! And I should have clarified the problem - I am actually using one of the pre-trained classifiers already, not training my own. Sorry the title of this thread is misleading, but the original thread discussing a pre-trained Silva classifier was closed. The command I am running is:
qiime feature-classifier classify-sklearn --i-classifier silva-119-515-806-nb-classifier.qza --i-reads rep-seqs.qza --o-classification taxonomy.qza --p-pre-dispatch 1 --p-reads-per-batch 500
I’ve tried with both the full-length and trimmed trained set but run into the same memory problem for both. I have a very small data set, which is why I’m so confused! I ran the assignment in QIIME1 and it worked fine. I checked my version of scikit-learn and it is 0.19.0. Any thoughts?
Thanks,
Nastassia