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Make copy of existing configuration

James Nutt requested to merge dj-fix-omnibus-configuration into master

Make copy of existing configuration rather than referencing the Runtime config directly.

I believe that https://gitlab.com/gitlab-org/gitlab/-/issues/326077 was because upon first configuration of the first omnibus Gitaly cluster, the configuration also applied to Runtime::Scenario.omnibus_configuration rather than JUST the Gitaly cluster.

This, I believe was causing the Duplication error.

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