fix(lsp): Ensure stdlib is always added before the check_crate phase

[phated]

Description

Problem*

Resolves #1833

Summary*

This moves the addition of the stdlib to the dependency graph into Driver::check_crate, which is the point we know the root is configured and all other dependencies have been added to the driver. This ensures that no matter how or when you call driver.check_crate (e.g. nargo_cli, lsp, or noir_wasm), the stdlib will always be available.

This solution is sub-optimal because the stdlib should probably be the first crate added to the dependency graph and then it should be propagated to each new dep as it is added, but that seemed like a much larger refactor because a lot of the code in the compiler expects FileId(0) to be the crate root.

Documentation

• This PR requires documentation updates when merged.

  • I will submit a noir-lang/docs PR.
  • I will request for and support Dev Rel's help in documenting this PR.

Additional Context

In making this change I also discovered #1839

PR Checklist*

• I have tested the changes locally.
• I have formatted the changes with Prettier and/or cargo fmt on default settings.

[TomAFrench]

Agreed that this is suboptimal but it's better than the current state where we need to remember to add it in externally.