There should be a line at the top of the PHI file which gives the location of the obj. It has to be absolutely correct, including the correct path. The group names used also have to match the group names used in the obj - exactly. If those two criteria are satisfied and the obj is in the right place then I don't know what else could be wrong. You might like to try building the PHI from scratch by pressing the OBJ button to load the obj file and then setting up the hierarchy using the group names that PHI builder automatically generates from the obj.

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