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Use config.toml to configure Gitaly

What does this MR do?

Change the init script and the installation/update instructions to configure Gitaly via config.toml.

Are there points in the code the reviewer needs to double check?

Why was this MR needed?

Environment variables were not flexible enough to specify storage configuration.

Screenshots (if relevant)

Does this MR meet the acceptance criteria?

What are the relevant issue numbers?

https://gitlab.com/gitlab-org/gitaly/issues/176

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