This script works, and it does paint the colors rygb over the range -.07 to
0.7, whatever that means! I intend no sarcasm with the ! mark. I've used these
values for several years. I just don't know what the actual numbers mean in
charge units. They just work. I arrived at them by trial and erro
Actually, it doesn't matter much how the color range is determined though
confounding. If there is a method, it should be able to invoked, is it?
>>> using cmd : show isosurface
I am a able to get the default parameters for the color range setting, but
it doesn't really solve my question since the
Hi again
"load append" should work, but notice that once you load more than one
model, you need ti use the "frame" or "model" command to display them.
Also, they may be in different coordinate systems, so one model could be
off-screen.
I does not matter if you use checkboxes, buttons or links
Exactly! I'm confused. I recall trying to make some sense of this in the
Spartan docs, but I never found a clear answer. In Jmol, I believe that the
range is intended as a charge mim/max set, but there is a definite lack of
magnitude consistency in say Spartan vs MMFF94 or Accelrys charges.
The
Hello all,
i used this script in a jmol apple to view a list of pdb structures.
jmolCheckbox("load append '';display protein;","hide
protein;"," ") ;
Even if i use this script i am not able to append multiple structures,the
only thing i can do is just loading one pdb file at a time.
I am not comfor
On 5/19/2013 12:25 PM, Otis Rothenberger wrote:
Chen,
The menu command is:
isosurface delete resolution 0 molecular map MEP translucent
This hides an important issue that I don't fully understand because of
seemingly inconsistent charge units in various files. The issue is the
charge range o
Chen,
The menu command is:
isosurface delete resolution 0 molecular map MEP translucent
This hides an important issue that I don't fully understand because of
seemingly inconsistent charge units in various files. The issue is the charge
range of painted colors. The above uses a default range t
Hello, Nanthini
Clearing models once and again could lead you into memory use problems,
but you can certainly try.
The command you need to clear a whole model loaded is
zap file
zap model
See http://www.stolaf.edu/academics/chemapps/jmol/docs/#zap
Example:
load mol1.pdb;
load append mol2.pdb;
Hello Chen
You can try enetering this in the script console just after you use the menu
option:
show isosurface
amongst the long text displayed, there is a section entitled
which has the script that will render the isosurface you have.
As for getting a color, you can include the color definit
Hi Bob,
I am scripting to render a molecule surface in the exactly same way as I
click the surface options in jmol menu. However, the color of the
surface(electrostatic surface) is never consistent. Is there a way to get
the command and parameters used in the menu:surface?
Cheers,
_
10 matches
Mail list logo
