Let's Encrypt on Multi Domain Hosting

I use AWS Ubuntu 16.04 with Apache2 to host my websites.

And this script to setup SSL
sudo apt-get install software-properties-common && sudo apt-get update && sudo apt-get install software-properties-common && sudo add-apt-repository ppa:certbot/certbot && sudo apt-get update && sudo apt-get install python-certbot-apache -y && sudo certbot --authenticator webroot --installer apache && sudo certbot --authenticator webroot --installer apache

Now i am setting up vhosts for hosting multiple domains using this method

How do i go about setting up certbot after that?

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