[Jmol-developers] Accesible solvent area calculation

2010-11-24 Thread Héctor Valverde Pareja
Hello, dear developers. This is the first time i write in this list. Nice to be between all you. I can see that Jmol is capable of calculate de surface of proteins. Now, i want to implement this code in my java program. Which clases i need to obtain the values of the solvent accesible and

Re: [Jmol-developers] Accesible solvent area calculation

2010-11-24 Thread Robert Hanson
Héctor, The best way to do this would be to include Jmol in your project as a JmolViewer object and use that API. But if you want to do this from scratch, look at the src/jmol/jvxl directory, which is the origin of all the surfaces. src/jmol/jvxl/readers/IsoSolventReader.java creates the protein

Re: [Jmol-developers] Accesible solvent area calculation

2010-11-24 Thread Héctor Valverde Pareja
Thanks you very much indeed, i will use both of the ways you propose to learn. I`ll tell you my advances in a nearly future. Bye. El 24/11/2010, a las 16:02, Robert Hanson escribió: Héctor, The best way to do this would be to include Jmol in your project as a JmolViewer object and use

Re: [Jmol-developers] Ideas for Jmol extension for MediaWiki

2010-11-24 Thread Nicolas Vervelle
Hi Jonathan, On Tue, Nov 23, 2010 at 8:59 PM, Jonathan Gutow gu...@uwosh.edu wrote: Nico, Bob can give you the details, but I think both things you suggest are possible. However, I see one big problem: in general I do not think we should default to opening a live Jmol in the wiki. A

Re: [Jmol-developers] Ideas for Jmol extension for MediaWiki

2010-11-24 Thread Robert Hanson
Very important to use the UNSIGNED applet, I think, by the way. Just too much the signed applet could do in a Wiki environment. -- 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