Shiny app code for exploring the dynamics of compartmental models

Serve

This setup predominantly follows this blog with modifications to a. deploy each server within a docker-container and b. use CloudFlare as a proxy service.

Build images

docker build -f serve/Dockerfile --target simple -t sir_dynamics:simple .
docker build -f serve/Dockerfile --target complicated -t sir_dynamics:complicated .

SSL certs

Create SSL certificates with a provider, CloudFlare for example, and copy them to the serve/certs folder. This should include

• cloudflare.crt
• hjtunwin.uk.crt
• hjtunwin.uk.key

Download serve/certs/dhparam.pem with

curl https://ssl-config.mozilla.org/ffdhe2048.txt > serve/certs/dhparam.pem

Set password

Create username/password with

echo -n 'niph' > serve/.htpasswd
openssl passwd -apr1 >> serve/.htpasswd

which will allow you to type the password interactively (only the hash is stored)

Start server

Finally, start/stop the server images with

docker compose up -d
docker compose down

inside the serve/ directory.

Code updates

Build images:

docker build -f serve/Dockerfile --target simple -t sir_dynamics:simple .
docker build -f serve/Dockerfile --target complicated -t sir_dynamics:complicated .

from root directory.

Then from serve/ directory, run docker compose restart

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