config: Batch input/output configuration on load

We batch modesets and input configuration performed during config reload
but commit for every command during the intial config load. There is no
need to perform commits during the initial config load as outputs have
not yet been created, but swaybg spawn should still be batched.

At the same time, replace direct calls to apply output configuration
with request_modeset to properly handle the modeset timer.

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