Add a upgrade command method to the Ingress application.

Before_transition does not play nice when used with
OptimisticLocking and this can result in triggering
multiple events

Closes https://gitlab.com/gitlab-org/gitlab-ce/issues/55306

Partially addresses #47424.

Fix up VERSION for each of the applications
* There is no 0.0.1 helm version for jupyterhub. Use the latest version instead
* `:nginx` is not a valid chart version. Lock the ingress application GitLab installs to the latest chart version.
* Use the latest gitlab-runner chart to prevent GitLab installing older versions when users have been installing the lastest version

Always install from the VERSION and not the database `version` column.
This should fix cases like https://gitlab.com/gitlab-org/gitlab-ee/issues/6795 in
the instances where an install command failed previously, which locked the version
in the database to an older version.

Also, ensure that the version column is updated to the version we are
installing.

Add specs to show how previously failed appplications will be handled when the helm installation is run again

Add changelog entry

This reverts merge request !20801

This is refactoring in the lead up to passing mutual TLS certs for helm applications. As such we expect all applications to need config files so we can remove the logic about which applications need and do not need this (ie `#config_map?`).

(#42643)