error importing Bracken database

Library Plugin Support
3

Thank you! Bracken also has a c in it which I failed to notice despite reading their documentation yesterday when trying to figure out which files I needed :smiley:

Here is the full code for any future moshers!

#Download DB from:
#https://benlangmead.github.io/aws-indexes/k2
#e.g.
wget -c https://genome-idx.s3.amazonaws.com/kraken/k2_pluspfp_16gb_20231009.tar.gz

tar -xf k2_pluspfp_16gb_20231009.tar.gz
mkdir -p k2_pluspfp_16gb_20231009_q2
cp k2_pluspfp_16gb_20231009/*.k2d k2_pluspfp_16gb_20231009_q2/

conda activate qiime2-shotgun-2023.9

qiime tools import \
    --type 'Kraken2DB' \
    --input-path k2_pluspfp_16gb_20231009_q2 \
    --output-path k2_pluspf.qza
    
cp k2_pluspfp_16gb_20231009/*.kmer_distrib k2_pluspfp_16gb_20231009_q2/
rm k2_pluspfp_16gb_20231009_q2/*.k2d
    
qiime tools import \
    --type 'BrackenDB' \
    --input-path k2_pluspfp_16gb_20231009_q2 \
    --output-path b_pluspf.qza

#tidy up
#rm -R k2_pluspfp_16gb_20231009_q2
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