I understand what you are saying. And I am mulling on it. If I asked a student on a test to draw a stereoisomer of 2-bromopentane and she drew a structure which was correct at the chiral center but implied another chiral center with a wedge hydrogen, how would I grade that question? Still thinking about that. I am not saying that further programming work needs to be done on this, but asking how I can instruct the students in using it. (By the way, I am retiring so it will not be my issue to implement.)
Of course this issue would arise with any other program. In Marvin, for example, you can get the IUPAC name and generating that would also ignore the non-chiral center. Phil On May 12, 2010, at 10:49 PM, Robert Hanson wrote: > OK, Phil, got your other message... > > Right -- JME makes some assumptions here -- for example, if you have a CH2 > group and indicate one of the H atoms as UP with a wedge, JME will assign > that to be a stereocenter even though it is not. One could test for that, of > course, but what about 2 CH3 groups? Same idea. So an instructor would want > make sure the key is "normal" and does not show more stereochemistry than > there is. It won't matter what the student writes -- as long as the key does > not show stereochemistry where there is none. > > There was a problem with DOWN bonds disappearing when going to Jmol 2D->3D. > I've got that fixed now. > > > On Wed, May 12, 2010 at 8:54 PM, Philip Bays <pb...@saintmarys.edu> wrote: > OK. While the two are different, they are not different if the student > enters the structure with the hydrogen displayed on the non-chiral carbon. > Apparently you assume that the teacher is smarter than the student and would > not do that, or that the teacher might have a reason for wanting that entered. > > So I guess it works. > > J. Philip Bays > Professor of Chemistry > Department of Chemistry and Physics > Saint Mary's College > Notre Dame, IN 46556 > (574) 284-4663 > pb...@saintmarys.edu > > > > > ------------------------------------------------------------------------------ > > _______________________________________________ > Jmol-users mailing list > Jmol-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/jmol-users > > > > -- > Robert M. Hanson > Professor of Chemistry > St. Olaf College > 1520 St. Olaf Ave. > Northfield, MN 55057 > http://www.stolaf.edu/people/hansonr > phone: 507-786-3107 > > > If nature does not answer first what we want, > it is better to take what answer we get. > > -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 > ------------------------------------------------------------------------------ > > _______________________________________________ > Jmol-users mailing list > Jmol-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/jmol-users J. Philip Bays Professor of Chemistry Department of Chemistry and Physics Saint Mary's College Notre Dame, IN 46556 (574) 284-4663 pb...@saintmarys.edu
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