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Fix for Overlay jobs running on samples with specialConfiguration metadata

Fix for Overlay jobs running on samples with specialConfiguration metadata. Overlay will now behave like digitization jobs within the specialConfiguration preIncludes. This should mostly fix ATLASSIM-5503, modulo the issue with the RHadrons preInclude accessing MC15JobOptions which still use python 2 syntax.

FYI @tadej, @ewelina

Edited by John Derek Chapman

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