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taxonium_backend

README.md

Backend

nvm use 18

yarn install

node server.js --data_url https://cov2tree.nyc3.cdn.digitaloceanspaces.com/tfci-taxonium2.jsonl

node --experimental-fetch server.js --database_dir ./database/ --port 8080 --ssl --config_json config.json

Non-SSL public: node --experimental-fetch server.js --database_dir ./database/ --port 8080 --config_json config_public.json

GISAID: node --experimental-fetch server.js --database_dir /mnt/data/amended_data/ --port 8000 --config_json config_gisaid.json

then start the dev server for the front-end and go to e.g. http://localhost:3000/?backend=http://localhost:8000

If you need to regenerate the data run make_pandas.py:

cd data_processing
python3 make_pandas.py

Docker

docker pull theosanderson/taxonium_backend:master

docker run -p 80:80 -e "DATA_URL=https://cov2tree.nyc3.cdn.digitaloceanspaces.com/latest_public.jsonl.gz" -e "CONFIG_JSON=config_public.json" theosanderson/taxonium_backend:master

Deployment on Vultr with SSL. I used: https://www.vultr.com/docs/how-to-deploy-a-next-js-application-with-vultr-kubernetes-engine-and-vultr-load-balancer/#Part_3___Expose_the_Next_js_application_with_secure_SSL_certificates