Re: [Jmol-users] Re : Re: Re : Re: display and upload local file

2009-08-26 Thread Robert Hanson
I'm curious what exactly the problem is. What is your ultimate goal, which you are having problems with -- or doesn't it relate to Jmol? On Wed, Aug 26, 2009 at 4:47 PM, rob yang wrote: > > Hi all, > > > I am seeing now that Chrome and Safari (Windows) have the same security > limitation as >

Re: [Jmol-users] generating multiple isosurfaces in jvxl

2009-08-26 Thread Robert Hanson
These are surfaces of some kind? On Wed, Aug 26, 2009 at 5:35 PM, Thomas Engel wrote: > Hello, > how can I easily generate a multiple isosurface jvxl-file from a mol2 > data file format, containing up to 100 structures/frames of a reaction? > > Thanks, > Thomas > > > > --

[Jmol-users] generating multiple isosurfaces in jvxl

2009-08-26 Thread Thomas Engel
Hello, how can I easily generate a multiple isosurface jvxl-file from a mol2 data file format, containing up to 100 structures/frames of a reaction? Thanks, Thomas -- Let Crystal Reports handle the reporting - Free Crys

Re: [Jmol-users] Re : Re: Re : Re: display and upload local file

2009-08-26 Thread rob yang
Hi all, > I am seeing now that Chrome and Safari (Windows) have the same security > limitation as > Firefox on reading the value of input file, but cannot use the files.item() > method which works > for Firefox. More research needed :-( This is essentially my problem-- getastext, getasbinar

Re: [Jmol-users] Slowdown by atoms outside viewport

2009-08-26 Thread Robert Hanson
Hi, Eric, I'm also not seeing the problem. part of the issue is that the translucency requires a second pass. Not much of a way around that. But you could check to see if that's part of the problem. Jmol has quite a bit of code to check that it's not rendering items that are fully outside the win

Re: [Jmol-users] Slowdown by atoms outside viewport

2009-08-26 Thread Jeff Hansen
It may be that there is a problem, but I don't see it on my computer which is a MacBook Pro running OS X 10.5.8 and using Safari 4.0.3. The animation runs smoothly throughout. *** Jeff Hansen Department of Chemistry and Biochemistry DePauw Universi

[Jmol-users] Slowdown by atoms outside viewport

2009-08-26 Thread Eric Martz
Jmol's rendering appears to me to become very slow at high zoom, when there are many atoms outside the viewport. That is, spinning and zooming get slow and jerky. For example, http://proteopedia.org/wiki/index.php/User:Eric_Martz/Molecular_Playground/Tamiflu Click the "Play Animation" button. N

Re: [Jmol-users] ChemDoodle <=> Jmol?

2009-08-26 Thread Rzepa, Henry
>There do have some iPhone/iPod touch app for 3D molecule viewing. Here >is one http://www.sunsetlakesoftware.com/molecules . I think there is a connection of sorts between the above app and Jmol. The app I think relies on the original Roger Sayle Rasmol opensource codes; I presume it was po