Run iLogic rules in linked files

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I have numerous assemblies linked to my top level assembly through it's parameters (as below) and I use iLogic to swap them in and out.
The assemblies currently in my top level share a lot of sub-parts with the linked assemblies, so when the geometry of those parts are altered through my iLogic form I lose constraints etc within the linked assemblies. Assumingly because they are not open/within my top level model their rules are not triggering, so I have to open them manually and run the rules manually.
Any idea's on how I can get the rules to trigger on these linked assemblies even though they are not open?
Just to note, I get notified of the constraint errors of the linked assemblies through the Design Doctor even though they are not open.
Hope this makes sense, please ask if I need to explain more as. Its bugging me massively!!