Eric, ah, so this IS something you haven't started using. No better time
than now. You will really like this. The command, after displaying the
isosurface, is
write "3hyd.jvxl"
(from the application or signed applet)
then
isosurface color yellow "3hyd.jvxl" mesh nofill
will call it up. It will look exactly like the one you had, but the file
size will be about 30-300 times smaller. (14K vs. 750K in this small protein
case. The 1blu case is 60K for the JVXL file; 1.2Mb for the ccp4 file) and
the loading time should be reduced substantially.
You could certainly try gzipping it. But the JVXL file will still load far
faster, because it doesn't have to do the grid construction that the other
requires.
I think pymol is just using the file values themselves for its cutoff.
Bob
On Tue, Jan 19, 2010 at 2:16 PM, Eric Martz <[email protected]> wrote:
> --- On *Tue, 1/19/10, Robert Hanson <[email protected]>* wrote:
>
> From: Robert Hanson <[email protected]>
>
> Subject: Re: [Jmol-users] Electron Density Map Demo
> To: [email protected]
> Date: Tuesday, January 19, 2010, 2:08 PM
>
>
> Great to hear that, Eric. I would be very interested in seeing on that
> last page a comparison of loading the ccp4 file and a JVXL version of it.
>
> ERIC REPLIES:
> Please explain to me how to save/load the jvxl version. I wonder if that
> will mess up the cutoff? Why not just gzip the .ccp4 file? I haven't tried
> that yet but I assume it will work and cut down on file size.
>
> BOB SAID:
> Main question is: "What's a sigma?"
>
> ERIC REPLIEs:
> I wish I were prepared to answer that :-) Maybe I can find out here at the
> Israel Structural Proteomics Center.
>
>
>
>
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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
------------------------------------------------------------------------------
Throughout its 18-year history, RSA Conference consistently attracts the
world's best and brightest in the field, creating opportunities for Conference
attendees to learn about information security's most important issues through
interactions with peers, luminaries and emerging and established companies.
http://p.sf.net/sfu/rsaconf-dev2dev
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