Renew letsencrypt with easy engine, the proper way.

You may use these Easy Engine commands,
ee site update --letsencrypt=off
ee site update --letsencrypt=on
ee site update --letsencrypt=renew

but only the last one is actually needed to renew the certificate.

If you do not have letsencrypt from some reason you can intall it with

apt-get install letsencrypt

but always good to use the US encoding in your command line.
export LC_ALL="en_US.UTF-8"
export LC_CTYPE="en_US.UTF-8"

Note that Let’s Encrypt will not work with cloudflare enabled, since you need to have the original server IP for this.
Make sure also you have the CNAME pointing to else the certificate renew or creation will not work.

To automate the process of renew put this into the crontab if this is not already set.
0 0 * * 0 ee site update --le=renew --all 2> /dev/null

This will renew all the sites you have on your system frequently.