Download reference databases and files

Sydney-Informatics-Hub / ONT-bacpac-nf

Bacterial profiling workflow for ONT data, written in Nextflow.

GNU General Public License v3.0

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Download reference databases and files #17

Closed georgiesamaha closed 1 month ago

georgiesamaha commented 5 months ago

Currently using wget for this but want to speed up. Kraken2 db download is limiting factor in workflow execution time, taking ~1.4 hours to complete. Will look into aria2 as an alternative that can segment and parallelise downloads.

georgiesamaha commented 1 month ago

Can't do on Gadi, only 1cpu on copyq. Will explore with cloud configuration