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Ensuring ConfigFlags.Input.Files is filled when configuring DAOD_PHYS->D2AOD

James Catmore requested to merge jcatmore/athena:master-update_DAODtoD2AODSkeleton into master

An oversight on my part meant that the transforms skeleton for DAOD_PHYS->D2AOD was not filling ConfigFlags.Input.Files with the input DAOD_PHYS file name, such that downstream applications using the new-style configuration (especially trigger) would crash because the filename would come out as _ATHENA_GENERIC_INPUTFILE_NAME_.

Adding the two new lines fixes this issue.

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