Terminal carbon atom labels

User 73531e86ff

06-10-2009 14:21:19

Hi,


We are using the toolkit to generate structure images.  For a number of cases I've see overlap between the long terminal carbon labels (CH3) and other atom labels.


An example structure which does this: C[C@@]12CCCCC1CCC1CCCC[C@]12F


We would prefer not to display the label for terminal carbons.  I've tried using the cv_off option but this never shows the label under any scenario (e.g. isotopes).


Is there a way to have JChem treat the terminal carbon atoms exactly the same as non-terminal atoms?


Regards,


Shane

ChemAxon 7c2d26e5cf

07-10-2009 12:36:40

Use, the "H_off" or "H_hetero" image export option. The first one hides all implicit hydrogens, the second one let displaying implicit hydrogens only on non-carbon atoms.


http://www.chemaxon.com/marvin/help/formats/images-doc.html#options


In both cases, the terminal carbon atom stays invisible since its implicit hydrogens are also invisible.


http://www.chemaxon.com/marvin/help/sketch/sketch-basic.html#implicit-explicit-H

User 73531e86ff

07-10-2009 14:01:06

The H_hetero option was exactly what I was looking for.


Thank you very much.  


Shane