flake: use builtins.fetchTree to shallow-clone grammar repos

Here we perform a shallow fetch using builtins.fetchTree. In order
to make this work, we need to specify the `ref' for any repository
that doesn't have `master' as its default branch (I'm not sure why
this limitation exists since we don't need this when performing
the shallow fetch in `--grammar build')

This `ref' field is ignored by helix, so I have left it undocumented
for now, but I could be open to documenting it.

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