Plugin error from feature-classifier: BLAST6 file is empty.

Technical Support
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1

Hi, I'm trying to build updated databases for 18S, COI and 12S (mifish).

Once I have my fasta file with the sequences and the taxonomy tsv files i use qiime commands to convert into qza files:

qiime tools import --type 'FeatureData[Sequence]' --input-path xxx.fasta --input-format DNAFASTAFormat --output-path xxx.qza
qiime tools import --type 'FeatureData[Taxonomy]' --input-format HeaderlessTSVTaxonomyFormat --input-path** xxx.tsv --output-path xxx.qza**

I then use the feature classifier to assign taxonomies:
qiime feature-classifier classify-consensus-blast
--i-query mifish_rep-seqs.qza
--i-reference-reads references.12s.miyaSeqs.qza
--i-reference-taxonomy references.12s.miyaTaxonomy.qza
--p-perc-identity 0.97
--output-dir references.12s.miyaTaxonomy97

But I always get an error for any new database I try:
Plugin error from feature-classifier:

BLAST6 file is empty.

Could you please help me out? This used to work really well, maybe 3-4 years ago but not anymore.
Thank you.
Vera

2

Hello @cefas23,

Could rerun with the --verbose flag and post the output? It seems like maybe it's erroring because there were no hits, thus an empty blast6 file.

3

Hello

I've checked and that might be the reason. thanks.
another error with a different data and database shows up.
When I run :
qiime feature-classifier classify-consensus-blast
--i-query nis_trimmed_ASVs/nis_rep-seqs.qza
--i-reference-reads COIsequence23.qza
--i-reference-taxonomy COItaxonomy23.qza
--p-perc-identity 0.97
--output-dir nis_COItaxonomy97/
--verbose

I get this error:
(1/1) Invalid value for '--i-reference-reads': COIsequence23.qza was created
by 'QIIME 2023.5.1'. The currently installed framework cannot interpret
archive version '6'.

could you please advice?
Thank you.

4

Hello @cefas23,

It looks like COIsequence23.qza was generated with qiime 2023.5, which introduced a new archive version, but you're using something lower than 2023.5. If you upgrade to 2023.5 or generate COIsequence23.qza with <2023.5, this issue should go away.

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