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Use safe System::Clock types for system timers (#10779)
#### Problem Timer functions take plain integer arguments and rely on callers to get the units correct. Part of #10062 _Some operations on System::Clock types are not safe_ #### Change overview Change `System::Layer` and `PlatformManager` timers to take `System::Clock::Timeout` instead of plain integers. This change primarily converts arguments at call sites by wrapping with a `Clock::Milliseconds32()` constructor or similar operation. Future changes will convert types further up the call stack. #### Testing CI; no change to functionality intended.
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