Bob
Miguel wrote:
I have some questions:
hover:
My testing indicates that "hover off" works from post-load
javascript-based scripting (buttons, command line) but not from param
name=script value="hover off"
Hmmm ... don't know.
There are problems with initialization. With many properties, setting the values only works *after* a molecule is loaded. That may be what is going on in this case.
Q: Something out of sync here?
could be.
dots:
Q: What are dots? And why would there by concave, convex, and saddle dots?
Dots represent the vanderwaals or the solvent accessible surface.
A vanderwaals surface is self-explanatory.
A solvent accessible surface is the surface that would be accessible by a sphere of a given size. The default size is 1.2 A, the size of the oxygen atom in HOH.
Convex surface is the vdw surface that is completely accessible.
Saddle surface is the saddle shape that is created when one sphere rolls around two other spheres that are close together.
A concave surface is the cavity where a sphere would sit when it was in contact with three other spheres.
Check out: http://www.jmol.org/demo/dots
It is really pretty cool. May get more use when we fill in the surface an color it according to charge.
set color:
Q: What is prueba (en Jmol, por favor)?
'prueba' means test. It is just the shell of a shape that I have used for testing from time-to-time.
frank:
I would have thought frank would be viewer.setShowMultipleBonds(getSetBoolean());
Q: Some reason it's
viewer.setShapeSize(JmolConstants.SHAPE_FRANK,getSetAxesTypeMad());
Currently the mechanism for activating/turning on a shape is to give it a non-zero size. I am not particularly happy with this, but I have been unable to come up with anything better. This is related to the initialization problem with shapes.
? (Why would you allow a dotted frank?)
Don't know ... probably a bug caused by copying code when the Frank shape was created.
echo:
Q: What's an echo?
The RasMol scripting language supports a command called 'echo'. In RasMol, the echo text goes to the console.
I extended this by creating three areas where text could be echoed ... top, middle, and bottom. Within each of these areas one can set the text to go to the left, center, or right. There is full font control, including size and face. Color can also be controlled individually.
I think it is quite powerful for educational purposes ... it just needs to be documented :-)
Miguel
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