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The direction of a path determines whether it is internal or external. External paths run clockwise and internals run anti clockwise. This is because the right hand side of a plasma cut has a better quality than the left hand side.

When you press the Classify Paths button PrimeCut will look at the path directions and change them depending on whether it thinks they are internal or external. Will only need to be used after you have made significant changes to geometry.

You can determine whether the path directions are correct by looking at the icon (for the part concerned) in the pane at the left of the screen or by using the Filled Parts option in the Nesting Editor.