Einar Coutin wrote: > So you recommend using jvxl files. What other formats besides JVXL do > you recommend. Spartan perhaps? And more Important how can I translate > .cube or G98 files to JVXL? > Basically, if all you are interested in doing is delivering a few surfaces, I strongly recommend JVXL. It's got a compression ratio of about 300:1 over CUBE, and it loads faster. To create a JVXL file from Gaussian output, you can:
1) use the Jmol application (Jmol.jar) to load the file, create the isosurface, and then use write isosurface "filename.jvxl" to create the JVXL file. 2) use the Jmol application with appropriate command-line options -ions (as I recall) to run a script that creates the isosurface and exits without ever showing anything. 3) use the command-line application Jvxl.jar, which comes with the distribution, to do the conversion directly, without any graphical interface. Bob > > Thx. > > 2007/8/5, Bob Hanson <[EMAIL PROTECTED] <mailto:[EMAIL PROTECTED]>>: > > Einar Coutin wrote: > > > Great it worked fine. > > > > I have a couple more questions: > > 1.-now when you load a new model if you had set spin on; it will > > switch back to off. > > correct. This is an intentional change. > > > 2.-MOs now appear by default in orange, why not leave em red and > blue? > > MOs appear in red/blue when loaded directly from the file using the MO > command. Are you using isosurface and CUBE files, perhaps? I do not > recommend this, as it requires massive downloads. But if you are doing > that, use the phase and color options to isosurface: > > isosurface phase color red blue "data/benzene-homo.cub" > > > > > This are not a big deal I know just minor details. > > > > 2007/7/29, Bob Hanson <[EMAIL PROTECTED] > <mailto:[EMAIL PROTECTED]> <mailto:[EMAIL PROTECTED] > <mailto:[EMAIL PROTECTED]>>>: > > > > Einar Coutin wrote: > > > > > > > > 1.-You changed again the aspect ratio system of the Jmol > Applet, > > > > > > I do not believe this is the case. We did, however, change the > > perspective model slightly. Try "set perspectiveModel 10" to use > > the old > > model. In certain cases you may see significant differences, > > particularly with zoom settings. > > > > > > But that's not the problem with your applet on the page > below, anway. > > There you are setting applet height/width to 700x700 in a frame > > that has > > smaller size and no option to overflow gracefully. > > > > > now my moleculas are loaded on my application out of > center, check > > > fenix.cecalc.ula.ve/moleculas > <http://fenix.cecalc.ula.ve/moleculas> > > < http://fenix.cecalc.ula.ve/moleculas> > > <http://fenix.cecalc.ula.ve/moleculas> > > > and hit on the Visualizador Image that appears on the site > header. > > > What can I do to instruct the jmolApplet() function to > fill the > > entire > > > web frame with percentages instead of using pixels? For > example: > > > jmolApplet(100%,100%) > > > > > > jmolApplet(["100%","100%"],) > > > > > > > > -- > > Robert M. Hanson > > Professor of Chemistry > > St. Olaf College > > Northfield, MN > > http://www.stolaf.edu/people/hansonr > > > > > > 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 > > > > > > > > > ------------------------------------------------------------------------- > > This SF.net email is sponsored by: Splunk Inc. > > Still grepping through log files to find problems? Stop. > > Now Search log events and configuration files using AJAX and a > > browser. > > Download your FREE copy of Splunk now >> > http://get.splunk.com/ > > _______________________________________________ > > Jmol-developers mailing list > > [email protected] > <mailto:[email protected]> > > <mailto:[email protected] > <mailto:[email protected]>> > > https://lists.sourceforge.net/lists/listinfo/jmol-developers > > <https://lists.sourceforge.net/lists/listinfo/jmol-developers> > > > > > >------------------------------------------------------------------------ > > > >------------------------------------------------------------------------- > >This SF.net email is sponsored by: Splunk Inc. > >Still grepping through log files to find problems? Stop. > >Now Search log events and configuration files using AJAX and a > browser. > >Download your FREE copy of Splunk now >> http://get.splunk.com/ > > > >------------------------------------------------------------------------ > > > >_______________________________________________ > >Jmol-developers mailing list > > [email protected] > <mailto:[email protected]> > >https://lists.sourceforge.net/lists/listinfo/jmol-developers > <https://lists.sourceforge.net/lists/listinfo/jmol-developers> > > > > > > > -- > Robert M. Hanson > Professor of Chemistry > St. Olaf College > Northfield, MN > http://www.stolaf.edu/people/hansonr > > > 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 > > > > ------------------------------------------------------------------------- > > This SF.net email is sponsored by: Splunk Inc. > Still grepping through log files to find problems? Stop. > Now Search log events and configuration files using AJAX and a > browser. > Download your FREE copy of Splunk now >> http://get.splunk.com/ > _______________________________________________ > Jmol-developers mailing list > [email protected] > <mailto:[email protected]> > https://lists.sourceforge.net/lists/listinfo/jmol-developers > > >------------------------------------------------------------------------ > >------------------------------------------------------------------------- >This SF.net email is sponsored by: Splunk Inc. >Still grepping through log files to find problems? Stop. >Now Search log events and configuration files using AJAX and a browser. >Download your FREE copy of Splunk now >> http://get.splunk.com/ > >------------------------------------------------------------------------ > >_______________________________________________ >Jmol-developers mailing list >[email protected] >https://lists.sourceforge.net/lists/listinfo/jmol-developers > > -- Robert M. Hanson Professor of Chemistry St. Olaf College Northfield, MN http://www.stolaf.edu/people/hansonr 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 ------------------------------------------------------------------------- This SF.net email is sponsored by: Splunk Inc. Still grepping through log files to find problems? Stop. Now Search log events and configuration files using AJAX and a browser. Download your FREE copy of Splunk now >> http://get.splunk.com/ _______________________________________________ Jmol-developers mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-developers
