I've been trying to run my sequences through SILVA_123 and I have gotten 2 different types of errors depending on which data set I use.
the first code I send through
pick_open_reference_otus.py -i F16_16S/1_qlab/combined_seqs.fna -o F16_16S/5_SILVA_usearch/silva123_otus -r SILVA123_QIIME_release/rep_set/rep_set_16S_only/97/97_otus_16S.fasta -p F16_16S/silva-123-params.txt
and this results in
*** ERROR RAISED DURING STEP: Pick Reference OTUs
Command run was:
pick_otus.py -i F16_16S/1_qlab/combined_seqs.fna -o F16_16S/5_SILVA_usearch/silva123_otus/step1_otus -r SILVA123_QIIME_release/rep_set/rep_set_16S_only/97/97_otus_16S.fasta -m uclust_ref --enable_rev_strand_match --suppress_new_clusters
Command returned exit status: 137
The error I'm getting on a different set of data is:
pick_open_reference_otus.py -i 3_mock/combined_seqs.fna -o tmp_MSC_SILVA_opref_otus -r ~/SILVA123_QIIME_release/rep_set/rep_set_16S_only/97/97_otus_16S.fasta -p ~/F16_16S/silva-123-params.txt
burrito.util.ApplicationError: Error running uclust. Possible causes are unsupported version (current supported version is v1.2.22) is installed or improperly formatted input file was provided
I literally ran these at the same time, so I'm not sure what the real underlying issue is here. The last code ran fine when it was just the defaults for pick_open_reference_otus.py. So I'm not sure it's UClust that is the issue.
I've read the previous posts about similar issues and I've attached my parameters file.
Can anyone help me decipher what the issue might be?