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Material opacity should come through in the 3DS format but I'll have to verify that. It certainly does in other formats.
A good technique, though, to give the impression of glass it to use a texture that has an alpha transparency layer. For the bitmap, add some scratches or a little dirt.
Finally, if you're window glass is a separate object, say "pane", then you can call worldObject.alpha(0.5, "pane") and it'll search through and set any sub-objects named "pane" to be 50% transparent.
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