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Published 20 hours ago • verified publisher icon fbreitwieser

Can I use databases build with Kraken2

Open aldertzomer opened this issue 5 years ago • 4 comments

To use an existing database, does it have to be a kraken database or can I also use a kraken2 database? build_taxdb works, but krakenuniq generates the error: database ("./bacteria") does not contain necessary file database.kdb , the bacteria folder contains only k2d files.

aldertzomer avatar Oct 25 '18 09:10 aldertzomer

i have the same issue, kraken2 database seems not to have kdb files (kraken v1) that are necessary for the krakenuniq to run...

potant avatar Nov 12 '18 07:11 potant

From a conversation with the author, at the moment only Kraken1. Kraken2 may be supported in the future.

andersgs avatar Nov 26 '18 04:11 andersgs

Hi @aldertzomer and @potant , @andersgs is correct. Currently we only support the Kraken v1 database format, as Kraken v2 databases are very different. We do hope to support it in the future, but this will take some time. I extended the README to address this question.

fbreitwieser avatar Dec 10 '18 18:12 fbreitwieser

@fbreitwieser any movement on supporting Kraken2 databases in KrakenUniq ?

tseemann avatar Jun 27 '19 01:06 tseemann