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I have been reading around and cannot seem to find anything that will allow me to save a model animation as an OBJ file that would allow for CFD analysis in a different software. Any help on how to do this would be a great help, thanks!

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no OBJ does not support animations,

check more about all the specifications about .obj here: http://paulbourke.net/dataformats/obj/

I suggest using FBX (.fbx) or Alembic (.abc) for importing object with animations

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