I have used the reference file SILVA_132_LSURef_tax_silva_trunc.fasta (593 318 kb), and taxonomy file taxmap_slv_lsu_ref_132.txt (27 175 kb), to classify my sequences (processed successfully using mothur until this step), but the run stayed forever at
Using 8 processors.
Generating search database…
What could be the reason? Are the files too big? I tried to use get.lineage to pick the taxa of interest (Eukaryota-Bacteria; Cyanobateria), but the pick was only successful in the taxonomy file. I searched throughout the fasta file and there were these taxa. There was no use by deleting the “>” symbol in the fasta file either.