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ModelBuilder outputs defaulting to shapefile

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Greetings All

This has plagued me for sometime now and because I dont do it regularly enough, I haven't bothered addressing it. Until Now.

When I create a model with a bunch of interconnected tools, some of the tools insist on adding a ".shp" to the output. Even though the gdb workspace & name are entered as variables. Like so:

%Workspace%\%Output FC%

How do I get ModelBuilder to know that my workspace is a geodatabase and that all generated content doesn't need a shp extension??

Thanks in advance

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