Kevin has fixed the problems with CIF files (mostly). Thank you, Kevin! I think this is a pretty good start to a solution to a very difficult problem. If you take a look at
http://chemapps.stolaf.edu/jmol/chemdoodle and its contained files, you will see some interesting ones. Specifically, http://chemapps.stolaf.edu/jmol/chemdoodle/JmolCD.js is a library of extensions to ChemDoodle. What it actually does is to create a high-level object called "Jmol" (conveniently!) that loads applets in a new way. I think it is our new "Jmol object" JavaScript. And I suggest we make it THE development platform for the applet. It's really got some nice features, like being able to go to a server-side JmolData.jar if Java or applets are not enabled on a device to get just an image, or work just like we have now, if you want that. It does require an additional 250K JavaScript download, but if you are willing to live with that, I think it has a lot to offer. This library is used by http://chemapps.stolaf.edu/jmol/chemdoodle/test2.htm Take a look behind the scenes there, and you will see this: var Info = { id: "molgrabber1", width: 300, height: 300, debug: true, addSelectionOptions: true, serverURL: "http://chemapps.stolaf.edu/jmol/jmolcd2.php";, defaultModel: "morphine", useChemDoodleOnly: useChemDoodleOnly, useJmolOnly: useJmolOnly, useWebGlIfAvailable: useWebGlIfAvailable, useImageOnly: useImageOnly, jmolJarPath: ".", jmolJarFile: (useSignedApplet ? "JmolAppletSigned.jar" : "JmolApplet.jar"), jmolIsSigned: useSignedApplet, jmolReadyFunctionName: "jmol_isReady" } and then, later: <script>molgrabber = Jmol.getMolGrabber(Info)</script> That's all there is to it! This creates a Jmol object called "molgrabber" that can act like the applet, but also do all sorts of other interesting things. As this progresses, I'll add all the standard applet code to that, and eventually, I think, Jmol.js will no longer be necessary, though right now it is. For example, right now you can use molgrabber.script("background white") or whatever. Mind you, ChemDoodle has no high-level scripting language, and it's not set up to change an image on the fly, so that would only work if you have just the standard Jmol applet there. But in any case, it's a start. Here's a new capability of the UNSIGNED applet: molgrabber.search("$tylenol") That retrieves the NCI "tylenol" model. molgrabber.search("=1crn") Does what you think. -- retrieves a model from the PDB database, even for the unsigned applet. So check it out! Bob -- 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
------------------------------------------------------------------------------ For Developers, A Lot Can Happen In A Second. Boundary is the first to Know...and Tell You. Monitor Your Applications in Ultra-Fine Resolution. Try it FREE! http://p.sf.net/sfu/Boundary-d2dvs2
_______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
