I am experiencing some troubles running qiime2 for open reference OTU picking in sense that it works well in my hand with a small number of samples and subsampled sequences (500 sequences per 8 samples) but now I am running 8 samples with 100,000 sequences and it appears to me that it lasts more. In addition to that I have tried to run a dataset of 200 samples (100,000 sequences each) but it seems to be blocked. Compare to the same step using qiime1 it seems to me slower. Is my experience in line with the expected one?
the command is
qiime vsearch cluster-features-open-reference
in a linux cluster
Thanks a lot