We need to document this better. Seems to be the problem-of-the-week.
Todd, your problem comes from using Jmol to load files that are local to your hard drive. Specifically for local files:
All data files must be in the directory or a subdirectory of the directory containing JmolApplet.jar.
This is reasonable for all Java applets. Otherwise a rogue applet could start reading the system files on your hard drive.
Bob Hanson
Todd Carlson wrote:
I have written a lot of Chime pages and am just now getting around to learning jmol. I was going to have my biochem students write some simple jmol pages this semester. My experience in the past has been that you must keep things simple in order to do this kind of exercise in class as you never know what might come up, as shown by the fact I spent all morning sorting through this problem:
All the jmol pages at the jmol web site work on my Dell PC running IE6.0 and Mozilla 1.7.3 so I assume my hardware and software is compatible. I downloaded the jmol 10.00 zip file and extracted into a folder on my hard drive in subdirectory "jmolprograms". I then copied the code for the very simple jmol demo page from the jmol.js page (http://jmol.sourceforge.net/jslibrary/) and saved as an html file along with the caffeine.xyz file is subdirectory "jmolpages". I edited the code for my directory structure as instructed at the web page to get:
<html> <head> <title>Simple example</title> <script src="../jmolprograms/Jmol.js"></script> </head> <body> <script> jmolInitialize("../jmolprograms") jmolApplet(200, "load caffeine.xyz"); </script> </body> </html>
This page would display the black jmol box, but no image loaded. After troubleshooting all morning, I find that if I put the same page along with the xyz file in the "jmolprograms" subdirectory, the jmol image comes up fine. I also find that if I put the jmol program files in the root directory, then this page works in either subdirectory:
<html> <head> <title>Simple example</title> <script src="../Jmol.js"></script> </head> <body> <script> jmolInitialize("../") jmolApplet(200, "load caffeine.xyz"); </script> </body> </html>
Finally, when I got the empty jmol box with no image, I could use the jmol menu to open a console window. When I entered a "load caffeine.xyz" command I get a bunch of errors:
File Error:java.security.AccessControlException: access denied and ScriptException:java.security.AccessControlException: access denied
Does anyone know what I'm doing wrong. I would like to get this sorted out or I'll have 15 frustrated students I can't help.
Thanks in advance Todd
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Robert M. Hanson, [EMAIL PROTECTED], 507-646-3107 Professor of Chemistry, St. Olaf College 1520 St. Olaf Ave., Northfield, MN 55057 mailto:[EMAIL PROTECTED] http://www.stolaf.edu/people/hansonr
"Imagination is more important than knowledge." - Albert Einstein
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