====== Trying to post my message again as there seems to be a problem with my first attempt. ======
Hello all: I am trying to perform a 2D alignment of molecules by using a pattern for which I am using Compute2DCoords. If I use a smarts string matching napthalene the 2D depiction is as one would expect. However, if I am switching to a 5,6 aromatic smarts pattern the matched benzoxazol the 2D structure looks rather unusual. Is there a way to match the 5,6 with the 6,6 pattern behavior? Any hint is very much appreciated, Markus P.S. a work book is attached.
2dDepiction.ipynb
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