Thanks for the suggestion. I tried it and got this: [cswank@scctest convert_test]$ java -jar /app/www/auto_opv/src/opv/opv/views/static/applets/jmol-12.0.19/JmolData.jar x.mol -n -s mo.spt Exception in thread "main" java.lang.NullPointerException at org.jmol.viewer.Viewer.initialize(Unknown Source) at org.jmol.viewer.Viewer.<init>(Unknown Source) at org.jmol.viewer.Viewer.allocateViewer(Unknown Source) at org.jmol.api.JmolViewer.allocateViewer(Unknown Source) at org.openscience.jmol.app.JmolData.<init>(Unknown Source) at org.openscience.jmol.app.JmolData.main(Unknown Source)
I found another thread that suggested using Xvfb, and I'm trying that. I'll let you know if I get anywhere. If the JmolData.jar is supposed to work, I would much prefer that. Craig On Jan 25, 2011, at 1:01 PM, Robert Hanson wrote: No graphics on that Linux. Try JmolData.jar instead of Jmol.jar On Tue, Jan 25, 2011 at 12:43 PM, Swank, Craig <[email protected]<mailto:[email protected]>> wrote: Hello, I need to convert tens of thousands of cube files to jvxl files. I am able to do this on my mac by running a command like: java -jar Jmol.jar -ionx HOMO.cube script where script contains: isosurface SIGN color red blue cutoff 0.02 HOMO.cube; write "myfile.jvxl" This all works well. The problem is that I need to run this conversion on the linux box where I am creating a database with the jvxl files and a bunch of other stuff. When I try to do this, I get an error: java -jar mol.jar -ionx HOMO.cube script Exception in thread "main" java.awt.HeadlessException: No X11 DISPLAY variable was set, but this program performed an operation which requires it. at java.awt.GraphicsEnvironment.checkHeadless(GraphicsEnvironment.java:173) at java.awt.Window.<init>(Window.java:437) at java.awt.Frame.<init>(Frame.java:419) at java.awt.Frame.<init>(Frame.java:384) at javax.swing.JFrame.<init>(JFrame.java:174) at org.openscience.jmol.app.jmolpanel.JmolPanel.startJmol(Unknown Source) at org.openscience.jmol.app.Jmol.main(Unknown Source) I've seen someone else referencing this same problem on this thread: https://sourceforge.net/mailarchive/message.php?msg_id=12772213 So, even with the --nodisplay option set, Jmol needs access to an xserver. No x server will be available when my data importer is running. Is there any way around this? Thanks, Craig ------------------------------------------------------------------------------ Special Offer-- Download ArcSight Logger for FREE (a $49 USD value)! Finally, a world-class log management solution at an even better price-free! Download using promo code Free_Logger_4_Dev2Dev. Offer expires February 28th, so secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsight-sfd2d _______________________________________________ Jmol-users mailing list [email protected]<mailto:[email protected]> https://lists.sourceforge.net/lists/listinfo/jmol-users -- 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 <ATT00001..txt><ATT00002..txt> ------------------------------------------------------------------------------ Special Offer-- Download ArcSight Logger for FREE (a $49 USD value)! Finally, a world-class log management solution at an even better price-free! Download using promo code Free_Logger_4_Dev2Dev. Offer expires February 28th, so secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsight-sfd2d _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
