Philip, Hmmm ... for some reason, I didn't get your message.
I searched my mail archive and I don't have it. In any case, thanks for clarifying this. Miguel > Actually, I posted to the group yesterday or friday night I think. The > issue of the icon appearing in the dock but not launching is the result > of an incomplete install of java in the panther upgrade. I think it > only occurs if you upgrade to panther, rather than an archive and > install or a clean install. I observed that as well. But someone > posted to this group a fix which I proceeded to perform and now things > work. The fix is Apple developer Technical Note TN2099. I think it > was Tim who posted it originally. > > <http://developer.apple.com/technotes/tn2002/tn2099.html> > > Phil > > > J. Philip Bays > Professor of Chemistry > Science Hall 158 > Saint Mary's College > Notre Dame IN 46556 > (574) 284-4663 > On Nov 23, 2003, at 12:53 PM, Miguel wrote: > >> Philip, >> >> Where were you when I needed you?! :-) >> >> I could have *sworn* that *somebody* was running OK on Panther, but I >> couldn't remember who it was. >> >> Many people are having trouble on Panther with the Jmol application. >> Several people have reported that the icon appears in the dock, but >> that >> the window never appears. >> >> Henry tested it using the 1.4.2 pre-release Java and it didn't work >> with >> it either. >> >> I have filed a bug report with Apple. >> >> Miguel >> >> >>> Miguel: >>> >>> What do you mean when you say that jMol does not work in OSX >>> (panther). >>> I know it does not work perfectly, but I can display structures and >>> manipulate them. And I can, using the contextual menu (right mouse >>> button), change the appearance of the structures. So there is some >>> functionality. >>> >>> Phil >>> >>> J. Philip Bays >>> Professor of Chemistry >>> Science Hall 158 >>> Saint Mary's College >>> Notre Dame IN 46556 >>> (574) 284-4663 >>> On Nov 23, 2003, at 9:37 AM, Miguel wrote: >>> >>>> Theo, >>>> >>>> >>>> >>>>> Hello, >>>>> I have two questions concerning the Jmol APPLET!!! >>>>> 1) Is it possible to change the default atom colors? With 'normal' >>>>> Jmol >>>>> I changed the colors in the ./jmol/jmol_atomtypes.txt file. >>>> Atom colors can be changed through the RasMol scripting commands: >>>> select carbon >>>> color atoms [xRRGGBB] >>>> select hydrogen >>>> color atoms hotpink >>>> select oxygen >>>> color atoms [100, 200, 50] >>>> >>>>> 2) Is there >>>>> a way that one can calculate interatomic distances? If I >>>>> right-click, >>>>> the Java Applet Window says that it can show Measurements... If >>>>> the possiblity to measure distances, angles etc. is not yet >>>>> implemented, will this feature be included in future versions? >>>> >>>> The measurment mechanism needs more work in the applet. From a >>>> script, >>>> you >>>> can use the RasMol script command 'monitor <atomIndex1> >>>> <atomIndex2>' to >>>> measure a distance. >>>> >>>> However, the mouse gestures to allow end-users to make their own >>>> measurements are not currently implemented in the applet. This will >>>> be >>>> added in a future version. >>>> >>>>> Furthermore, I have a >>>>> very general question. I read that Jmol did work perfectly with Mac >>>>> OS X. >>>> If you read something that says it works "perfectly" then that is >>>> not true >>>> :-( >>>> >>>> None of the browsers on OS X support LiveConnect communications >>>> between JavaScript and Java Applets, so there is no clean mechanism >>>> for scripting >>>> using JavaScript. >>>> >>>> Nevertheless, scripting can be accomplished on OS X using the >>>> JmolAppletControl mechanism of adding applet buttons. >>>> >>>> This code is currently in beta test and is not well documented. But >>>> if >>>> you >>>> have some experience with web development you should be able to >>>> figure >>>> it >>>> out quickly. >>>> >>>>> Is there any news of improvements with Panther (10.3), which seems >>>>> to >>>>> have Java 1.4 and the latest version of Safari ???? >>>> >>>> The news is not good for Panther. The Jmol application does not >>>> work. I have filed a bug report with Apple. >>>> >>>> The JmolApplet, on the other hand, seems to work OK. It continues to >>>> have >>>> the same JavaScript limitations. The easiest way to check out the >>>> behavior >>>> of the applet on a particular platform is to go to: >>>> http://jmol.sourceforge.net/preview >>>> >>>> Miguel >>>> >>>> >>>> >>>> >>>> >>>> >>>> ------------------------------------------------------- >>>> This SF.net email is sponsored by: SF.net Giveback Program. >>>> Does SourceForge.net help you be more productive? Does it >>>> help you create better code? SHARE THE LOVE, and help us help YOU! >>>> Click Here: http://sourceforge.net/donate/ >>>> _______________________________________________ >>>> Jmol-users mailing list >>>> [EMAIL PROTECTED] >>>> https://lists.sourceforge.net/lists/listinfo/jmol-users >> >> >> -------------------------------------------------- >> Miguel Howard [EMAIL PROTECTED] >> c/Pe�a Primera 11-13 esc dcha 6B >> 37002 Salamanca >> Espa�a Spain >> -------------------------------------------------- >> telefono casa 923 27 10 82 movil 650 52 54 58 >> -------------------------------------------------- >> To call from the US dial 9:00 am Pacific US = >> home 011 34 923 27 10 82 12:00 noon Eastern US = >> cell 011 34 650 52 54 58 6:00 pm Spain >> -------------------------------------------------- -------------------------------------------------- Miguel Howard [EMAIL PROTECTED] c/Pe�a Primera 11-13 esc dcha 6B 37002 Salamanca Espa�a Spain -------------------------------------------------- telefono casa 923 27 10 82 movil 650 52 54 58 -------------------------------------------------- To call from the US dial 9:00 am Pacific US = home 011 34 923 27 10 82 12:00 noon Eastern US = cell 011 34 650 52 54 58 6:00 pm Spain -------------------------------------------------- ------------------------------------------------------- This SF.net email is sponsored by: SF.net Giveback Program. Does SourceForge.net help you be more productive? Does it help you create better code? SHARE THE LOVE, and help us help YOU! Click Here: http://sourceforge.net/donate/ _______________________________________________ Jmol-users mailing list [EMAIL PROTECTED] https://lists.sourceforge.net/lists/listinfo/jmol-users
