I’m currently using the “Moving Pictures” tutorial to help me analyze my own data, and have gotten to the stage where I try to train my feature classifier on the 341F/805R primers for my current data set.
What ends up happening though is that I get an error message stating
Plugin error from feature-classifier:
No matches found
I’ve tried using the primers provided in the files from the company that did the sequencing, and I’ve tried using the primers found in the tutorial and I keep ending up with the same error!
Hi @leahtee,
Thanks for posting! Interesting error. This statement seems particularly diagnostic:
That seems to indicate that the reference sequences that you are using may be somehow faulty. A couple questions:
Where is the 99_otus.qza file from? If you could also point me to the link you used for download that would be great (just in case we need to try rebuilding this on our end)
Could you also please share the commands that you used to import this? And any other steps that you used between downloading and extract-reads.
Could you also please share the full error traceback — either run this command with the --verbose flag added to the end of the command, or read the contents of the log file that is listed in the error message. This will help us pinpoint precisely where the problem is occurring if the reference file does not lead to an obvious fault.
After downloading, I moved the greengenes file into the directory I’ve been working within, but unzipped the files (i.e. the .txt and the .fasta) and moved them out of the original file folder (gg_13_8_otus.tar.gz) and into the directory.
Lastly, here is the error message with the debug info
Plugin error from feature-classifier:
No matches found
Debug info has been saved to /tmp/qiime2-q2cli-err-ksh878ys.log
Very strange. I have replicated your commands locally and have no issue — the output contains 406010 sequences.
Here’s a different thought — the primer sequences that you are inputting might contain special characters that are that are throwing off the extraction. Writing commands in some word processors and text programs will sometimes automatically create these special characters as part of auto-correct, and copying/pasting from websites is another frequent cause. Do you maybe want to try typing out the commands entirely in your terminal?
Thanks!
P.S., this does not look like a bug in the code, so I don’t think I need to see the error traceback after all, but the full error log for the command you used would be contained in /tmp/qiime2-q2cli-err-ksh878ys.log according to the output that you provided. just letting you know in case you have future support questions in the forum that will require this, or if you ever run into an error and want to take a look under the hood. thanks!
Hi @Nicholas_Bokulich! I tried it again, and got the same error as before, even with typing in the commands and sequences, rather than copying and pasting them.
Do you think it has to do with the primer sequences themselves (i.e. that I’m using a sequence that is too long)? Or maybe it’s my truncation, should I be using the 120 instead of the 212 I’ve chosen?
Sorry if these questions seem kind of naive, I’m new to QIIME!
Thanks for sharing the file! Problem solved — you imported aligned reference sequences. Instead, you should use the unaligned reference sequences (in the “rep_set” directory of the greengenes files).
Let me know if you are still running into trouble with the unaligned seqs!
