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Changing weights is certainly intended to be accounted for, though I hadn't tested it as much as other features. I know it couldn't be the coordinate limits inside each node, because they are copying the min/max values from the points which don't change with weighting. Do you remember which version of the tree were you trying this with?

Don´t remember exactly, it was months ago, but it is either the one published here in the wiki, or the other being used in DrussGT.

DrussGT uses an old version.