Dear Avogadro community,
I think Avogadro is a great tool and i have been using it to try to visualize the distribution of charges around compounds.
One of the easiest ways to do so I found is to generate electrostatic potential surfaces for the compounds (at Extensions > Create Surfaces > Surface type: Van der Waals, Color by: Electrostatic Potential).
I have trying to insert and take out charges from atoms (at View > Properties > Atom Properties > Formal Charge) in these compunds and see the difference in these surface, but apparently the surface does not change its distribution automatically after the change in formal charge.
Also, when i just go and delete the molecule completely (in order to make a new surface, as automatic updating doesnt happen), the surface remains there, even without any atoms.
Now, my quetions are then two:
- Is there a way to enable these surfaces to be updated together with the choices in formal charges for individual atoms in the molecule as decribed?
and 2. Is there a way to specifically delete one such surface together with the molecule or mainting the molecule?
Thanks for the help and congratulations for the great tool!