# to find the version and location of the greengenes reference database, look to the qiime1 default settings:
print_qiime_config.py -t
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pick_otus_reference_seqs_fp: .miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/rep_set/97_otus.fasta
sc_queue: all.q
topiaryexplorer_project_dir: None
pynast_template_alignment_fp: .miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/rep_set_aligned/85_otus.pynast.fasta
cluster_jobs_fp: start_parallel_jobs.py
pynast_template_alignment_blastdb: None
assign_taxonomy_reference_seqs_fp: .miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/rep_set/97_otus.fasta
torque_queue: friendlyq
jobs_to_start: 1
slurm_time: None
denoiser_min_per_core: 50
assign_taxonomy_id_to_taxonomy_fp: .miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/taxonomy/97_otu_taxonomy.txt
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# Location: in this example the greengenes database files are located at:
.miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/
__init__.py
__init__.pyc
rep_set/97_otus.fasta
rep_set_aligned/85_otus.pynast.fasta
taxonomy/97_otu_taxonomy.txt
trees/97_otus.tree
http://greengenes.secondgenome.com/downloads
→ How to replace Greengenes (QIIME1 default) with SILVA reference database?