[dune] [stdlib] Build the standard library natively with Dune.

This completes a pure Dune bootstrap of Coq.

There is still the question if we should modify `coqdep` so it does
output a dependency on `Init.Prelude.vo` in certain cases.

TODO: We still double-add `theories` and `plugins` [in coqinit and in
Dune], this should be easy to clean up.

Setting `libs_init_load_path` does give a correct build indeed;
however we still must call this for compatibility?

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