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storage: change low-level liveness methods to regular time
liveness.IsLive/IsDead were taking an HLC, although liveness expiration doesn not have a logical part. Remove usage of hlc to simplify things. Also standardize the time source used by the different functions testing liveness expiration. Some of them were using clock.Now(), others were using clock.PhysicalTime(). This patch picks the former, which also matches the source used when setting the liveness.Expiration. Release note: None
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