How will environment affect the testing schedule

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Simple scenario where I have experienced testing schedule affected by environment change.
I was working on a datawarehouse product, where a Multidimensional (MDD) cube building is possible, which was successful while executing on 2003 Windows server but the same was failing when tried to build the same over 2008 Windows server, later identified as an environment issue with 2008 windows server.

Which requires fix from the Microsoft, thereby the testing schedule got affected.

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