Deploying Flask Application on Azure App service using Github Actions Without overwriting all files

Question

I'm trying to automate the deployment of a flask application on a development instance of the azure app service. The workflow triggers each time a new commit is made on a branch called "development". So far so good. However my application uses a config file to store some information and some .pem files to encrypt/decrypt tokens. Each time my workflow triggers, a new container is launched and these files are "removed".

I'd like to find a way to deploy my code but keep my config and .pem files intact. Is this possible and would it be possible to give me an example of a workflow file that i could use to achieve this?