refactor: compile args + config to opts (#9552)
### Description
Refactors our config setup to explicitly transform the `Args` and
`Config` to `Opts` in the `CommandBase` constructor. This accomplishes a
few things:
- Limits our usage of args beyond `cli`. Args are structured according
to the CLI parsing logic, so there are multiple fields that do the same
thing (args.command.run_args and args.run_args). By compiling down to
`Opts`, we can use a more normalized structure.
- Remove the requirement that we have a `Command::Run` to create a `Run`
struct. This requires us to mock out a `Command::Run` in places like
`query` or `ls`, which is unnecessary.
- Fix a potential nasty bug where we change the `Args` struct via
`CommandBase::args_mut` but that change is not propagated to the config
because it's cached via a `OnceCell`.
- Finally, and most importantly, allow us to construct a `Run` without
`Args`. This is very important for `query`.
However, this does create a change where `CommandBase::new` is now
fallible. Overall this is fine, but it does mean that we sometimes error
earlier than before. I couldn't figure out an alternative without making
`Config` reactive on any `Args` change
### Testing Instructions
<!--
Give a quick description of steps to test your changes.
-->
