Pipeline components for real-time virus analysis

how to run

  • Download FASTA file via fauna and ensure the path set in zika.prepare.py is correct
cd zika
rm auspice/* prepared/* processed/* #makes it cleaner
python zika.prepare.py # creates JSONs in the folder prepared
python zika.process.py # creates files in processed/ and auspice/
cp auspice/* ../../auspice/data/ #assuming your directory structure is like mine!
cd ../../auspice
node dev-server.js local #or npm run start:local