I'll check out the slider business -- does anyone know of a simple slider
widget that works universally?
On Wed, Feb 9, 2011 at 12:43 PM, Shore, Jay jay.sh...@sdstate.edu wrote:
It is very cool.
I like it a lot – thank you for developing it.
Interestingly, on my MacBook (10.6.6) the slider
Bob—a bit of a learning curve, but the jQuery UI Slider is phenomenal:
http://jqueryui.com/demos/slider/
Cheers, Mike
On Thu, Feb 10, 2011 at 10:00 AM, Robert Hanson hans...@stolaf.edu wrote:
I'll check out the slider business -- does anyone know of a simple slider
widget that works
Dear Bob,
Each of the 4 chains in 1hjx ends with a residue, Thr383, for which
only a single atom, the main chain nitrogen, has coordinates. Jmol
(including 12.0.31) fails to recognize this atom as protein, despite
it being within group THR.
restrict not (protein, nucleic, hetero)
should
I am in the midst of processing internal grant proposals so haven't
got time to dig. Does anybody remember if the cut-off syntax for
isosurface changed between 11.8 and 12.0? The reason I ask is that
some of my old web pages that use the isosurface command to display
surfaces from .cube
Part of the problem there may be that, as far as I understand, Jmol
algorithm for protein is more complex than identifying amino acid
residues by name (that's what amino does).
I think I read about the algorithm inside the source of
JmolConstants.java
I do not mean to defend that every atom
show me the syntax. Shouldn't be a problem. So that's a bug.
On Thu, Feb 10, 2011 at 11:14 AM, Jonathan Gutow gu...@uwosh.edu wrote:
I am in the midst of processing internal grant proposals so haven't
got time to dig. Does anybody remember if the cut-off syntax for
isosurface changed between
Years ago Jmol did not have a way of adapting to bizarre structures as well
as it does today, and the PDB database was littered with bizarre structures.
It's not a bug; Jmol requires an alpha carbon, not a nitrogen to define a
protein.
If you can find a number of additional structures in the PDB
Oliver, try http://chemapps.stolaf.edu/jmol/docs/examples-12/Jmol-12.zip
Should be fixed there. Also found an error in that routine relating to
labels.
version=12.1.35_dev
version=12.0.32_dev
# bug fix: {xxx}.label = xxx does not allow saving state
# bug fix: {xxx}.element = B only assigns B to
Hi Bob
Thank you, I'm happy to confirm that this problem is now fixed.
Oliver
On Thu, Feb 10, 2011 at 11:25, Robert Hanson hans...@stolaf.edu wrote:
Oliver, try http://chemapps.stolaf.edu/jmol/docs/examples-12/Jmol-12.zip
Should be fixed there. Also found an error in that routine relating to
chiming in from the sidelines: I agree with Bob... The bug here is that
PDB structure!
-Tom
On Thu, Feb 10, 2011 at 10:14 AM, Robert Hanson hans...@stolaf.edu wrote:
Years ago Jmol did not have a way of adapting to bizarre structures as well
as it does today, and the PDB database was littered
Maybe this:
select amino and not protein # will pick those anomalous atoms
select protein,amino # will pick all protein atoms
--
The ultimate all-in-one performance toolkit: Intel(R) Parallel Studio XE:
Pinpoint
Hi,
Though I mentioned to this issue before, it's probably better to start
a new thread for this:
When I load a molecule with an embedded jmolscript to the
Jmol-application directly via the command line, the embedded script is
not executed.
for example:
I take caffeine.xyz from
Not intended; just never tested.
version=12.1.35_dev
version=12.0.30_dev
# bug fix: application with file name does not run jmolscript: embedded
scripts
see http://chemapps.stolaf.edu/jmol/docs/examples-12/Jmol-12.zip
On Thu, Feb 10, 2011 at 2:56 PM, Oliver Stueker
Hi Bob,
It works great now!
Thanks,
Oliver
(btw.: How was your presentation in Redmond? )
On Thu, Feb 10, 2011 at 14:50, Robert Hanson hans...@stolaf.edu wrote:
Not intended; just never tested.
version=12.1.35_dev
version=12.0.30_dev
# bug fix: application with file name does not run
The presentation at Microsoft Research went without a hitch.
http://prezi.com/khaylnfjmbls/jmol-icsti/ This was quite a diverse group,
and there were many good questions.
On Thu, Feb 10, 2011 at 4:14 PM, Oliver Stueker
revilo2...@users.sourceforge.net wrote:
Hi Bob,
It works great now!
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