Collisions caused by smoothing
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I was getting collisions reported in a 3D Contour toolpath. But watching it in the simulation, it appeared to be fine. The moves that were colliding were a simple retracts, straight up out of a machined groove.
Eventually, I discovered that what was supposed to be a straight-up retract, was actually not. Rather than being constant, the X and Y positions were very slightly different at the top of the retract than at the bottom. Like, rounding-error sort of slight. But that small lateral movement during the retract would cause the tool to collide with the wall of the groove.
On a hunch, I turned off the Smoothing option, and that fixed it. The retracts that collided before were now perfectly vertical, with the X or Y movement at all.
I was trying to produce a simplified model that reproduced the problem, but I haven't been able to make it work yet.