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update SBT and LCA databases for 2.0 compatibility #402

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ctb opened this issue Feb 18, 2018 · 5 comments

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sbt

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ctb commented Feb 18, 2018

'nuff said (?)

This was referenced Feb 18, 2018

what's needed for a 2.0 release? #174

Closed

Precomputed SBT indices corrupted? #411

Closed

phiweger commented May 16, 2018

any update on this issue? the precomputed indices are quite useful :)

Member

luizirber commented May 16, 2018

Hi @phiweger! I posted some updated indices, but I didn't test them properly yet. These are the links:
https://s3-us-west-2.amazonaws.com/sourmash-databases/genbank-d2-k21.tar.gz
https://s3-us-west-2.amazonaws.com/sourmash-databases/genbank-d2-k31.tar.gz
https://s3-us-west-2.amazonaws.com/sourmash-databases/genbank-d2-k51.tar.gz
https://s3-us-west-2.amazonaws.com/sourmash-databases/refseq-d2-k21.tar.gz
https://s3-us-west-2.amazonaws.com/sourmash-databases/refseq-d2-k31.tar.gz
https://s3-us-west-2.amazonaws.com/sourmash-databases/refseq-d2-k51.tar.gz

(and a longer discussion in this issue: #464 (comment) )

phiweger commented May 17, 2018

thank you! are they --scaled 2000 as were the databases linked in the docs?

Member

luizirber commented May 17, 2018

yes, same config as the docs databases (and this is the snakemake workflow that generated them: https://github.com/luizirber/sourmash_databases/blob/master/Snakefile )

luizirber added the sbt label

Contributor Author

ctb commented Dec 26, 2018

Done for LCA DBs as part of #537.

ctb closed this as completed

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