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alexpiper / taxreturn

An R package for creating taxonomic reference databases for metabarcoding studies
GNU General Public License v3.0
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Remove reliance on taxizedb #5

Closed alexpiper closed 4 years ago

alexpiper commented 4 years ago

Currently the package relies on taxizedb, which requires SQL. SQL compatibility is currently causing issues on the compute cluster and stopping the package from being installed

I have removed the import requirement for taxizedb, instead implemenet a check if taxizedb is installed, and present a warning that taxize is being used instead if its not installed.

Need to change the fetch_seqs series of functions.

alexpiper commented 4 years ago

Resolve_synonyms is another function that currently errors if taxizedb is not installed

alexpiper commented 4 years ago

Replaced dependency with internal function to download ncbi taxdump