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This kind of depends on how you define "safe". But, depending on the processor load
The filesystem you copy may be inconsistent
The files themselves may be in an inconsistent state (especially databases)
You may loose data
System status information (i.e. what services are running) may not be correct, and you may encounter bugs in the scripts that recover from that situation.
Possibly other mayhem
There are companies that claim they can safely backup a running system, but I still have to figure out what they mean with safe (i.e. against which of the above they protect) and how they do it.
For now, I gues you got lucky. But you did have a fair chance of being lucky, since the box was doing virtually nothing :-)
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