Resolve redundancy between getCoordinates and makeCoordinates

In box.pxi, there are two very similar functions called getCoordinates() and makeCoordinates(). It appears that they do the same thing, but one works on numpy arrays and the other on lists. Only getCoordinates() is currently tested. The redundancy between these should be eliminated in favor of one method that accepts either input type (and possibly arrays of coordinates to convert them in bulk).

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