Remove AnalysisNeighborhood::setUseBoundingBox()

Remove AnalysisNeighborhood::setUseBoundingBox()

Originally, this was added to provide more control for the caller about
how the search is done, with main user probably being more comprehensive
tests.  This method was possible because at that time, all the
coordinates were clamped to the edges of the grid when determining the
cell, so it was at most a bit inefficient if some positions were outside
the grid.

But now, there is no clamping, so this method no longer works correctly:
the grid must cover all the reference positions (i.e., be at least the
size of the bounding box), so that the reference positions really are
within the grid cell to which they belong.  Otherwise, when the grid
cells to search are pruned based on their distance from the test
position, some pairs could be missed.

Change-Id: I94ae4081f456c08ff89779ef20b91be0ca061d96