search

oschwengers / bakta

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
GNU General Public License v3.0
448 stars 55 forks source link

(Re-)Generating bakta outputs from the JSON only #304

Closed oschwengers closed 1 month ago

oschwengers commented 4 months ago

Discussed in https://github.com/oschwengers/bakta/discussions/300

Originally posted by **cpauvert** July 3, 2024 ... I use bakta regularly and like initially to have all the files (EMBL, faa, ffn, gbff, gff tsv etc.) in case some of my colleagues would like to browse or pipe them to other tools. However, with larger quantities of isolates, larger quantities of files, and I figured, not all of them needs to be backed up as they could all be re generated from the JSON. The idea would be to have a small scripts that could be bundled with bakta (with the repo only) to import the JSON file and allow to write any of the standards bakta outputs files if they need to be regenerated...