I typed as per the manual:
kraken2-build --standard --threads 24 --db download-taxonomy
and that appeared to work as I got the message:
Database construction complete. [Total: 43m39.729s]
I don't think I was able to "clean" successfully as per the manual.
I have been trying use Kraken and keep getting the error message:
kraken2: database ("/home/mcs/refs/kraken2/standard") does not contain necessary file taxo.k2d
Is there any remedy for this?