Use the options in the Hole Feature Set tab > Selection panel > Type list to specify how holes in the active Hole Feature Set are selected:
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Select All — Click to select all of the holes in the active Hole Feature Set (they turn yellow).
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Deselect — Click to deselect any selected holes features (they turn white).
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Invert Selection — Select to deselect the holes in the Hole Feature Set that are currently selected, and select the holes in the Hole Feature Set that are currently unselected.