Update Ingress definitions to have explicit cert

1. For all projects with a custom chart:

   1. add:

     annotations:
       cert-manager.io/cluster-issuer: letsencrypt

   2. remove:

       kubernetes.io/ingress.class: nginx
       kubernetes.io/tls-acme: 'true'

2. For other projects, create .gitlab/auto-deploy-values.yaml with the following

ingress:
  annotations:
    cert-manager.io/cluster-issuer: letsencrypt