I would use:
x = {_S and connected (_S)}.size / 2
or for the applet in JavaScript:
var nSS = jmolEvaluate("{_S and connected({_S})}.length / 2")
Bob
On Mon, Apr 12, 2010 at 7:58 AM, Eric Martz <[email protected]>wrote:
> I would like to get the count of disulfide bonds.
>
> At http://chemapps.stolaf.edu/jmol/docs/examples-11/new.htm
>
> javascript alert(jmolGetPropertyAsArray("bondInfo", "cys.sg").length)
>
> alerts "3", the number of ssbonds in 1crn. It also correctly alerts
> "6" for 3kwb (which six disulfides and four cys residues not in
> disulfide bonds). Perfect!
>
> 1. Is the above syntax the correct/recommended method for javascript?
>
> getproperty bondinfo sulfur
> and
> getproperty bondinfo "cys.sg" # quotes are required
>
> report six bonded atoms for 3kwb.
>
> 2. However, I have not discerned the correct syntax for assigning the
> number of ssbonds to a Jmol variable.
>
> x = getproperty bondinfo "cys.sg"
> print x
>
> produces
>
> Token[keyword(5/0x8101005) value="getproperty"]
>
> print x.length
>
> produces
>
> 0
>
> ???
>
> The example at http://chemapps.stolaf.edu/jmol/docs/#getproperty
>
> var modelInfo = jmolGetPropertyAsArray("modelInfo")
> alert(modelInfo.modelCount)
> for (int i = 0; i < modelInfo.modelCount; i++)
> alert(modelInfo.models[i].name).
>
> used .modelCount.
>
> However, I see no .bondCount in the report from getproperty bondinfo "
> cys.sg".
>
> 3. How would I get the .bondCount in Jmol?
>
> 4. If I successfully get the .bondCount into a Jmol variable (or any
> other value), can I retrieve that value in javascript?
>
> x = 5
> javascript alert(jmolGetPropertyAsString(x))
>
> produces no alert at new.htm.
>
> Thanks, -Eric
>
>
>
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--
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
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