Hi Bob and Jmol developers, We embedded Jmol in our applications. But since version 11.4.(RC1 -4), the JmolStatusListener was not trigged if the viewer failed to load a file (wrong file format or bad URL). But the Jmol console window had the correct error messages. For example, enter this URL (with wrong PDB ID) to the Jmol Java application File-> Open URl
http://www.rcsb.org/pdb/files/2UBI.pdb.gz The Jmol window was not changed and the script console window has these messages: java.io.FileNotFoundException: http://www.rcsb.org/pdb/files/2UBI.pdb.gz ----line 1 command 1 of file null: script "http://www.rcsb.org/pdb/files/2UBI.pdb.gz"; << Script completed >From my application, the JmolStatusLisener's notifyFileLoaded was not >triggered when loading a file failed, but it was triggered when a file was >loaded successfully. The notifyFileLoaded used to work for both cases before >11.4.X. Is these a known issue? If this is intended behavior, is there any way to be notified when loading a file script failed? Thanks in advance, Li Yang -----Original Message----- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Bob Hanson Sent: Monday, June 16, 2008 10:45 AM To: [email protected] Subject: Re: [Jmol-users] Ramachandran overlay You can't overlay Ramachandran plots, because each data frame has its own independent orientation and zoom. If you need to do that, use set appendnew false load ..... ..... so that the models are combined in one model, then display the Ramachandran and selectively choose atoms. (Might be a trick there to count ...) Bob Karl Oberholser wrote: > Hi All, > > I am trying to overlay several Ramachandran plots using the script, > load file1.pdb; ramachandran; load append file2.pdb; ramachandran; > frame 0.0; display 2.1, 4.1. The result of this script is a blank > applet. Sending show frames through the console gives information on > frames 1.1 and 3.1 but nothing on frames 2.1 and 4.1. I thought that > the plot remained in the frame after it was made. Is that not the case? > > Karl > > >------------------------------------------------------------------------ > >------------------------------------------------------------------------- >Check out the new SourceForge.net Marketplace. >It's the best place to buy or sell services for >just about anything Open Source. >http://sourceforge.net/services/buy/index.php > >------------------------------------------------------------------------ > >_______________________________________________ >Jmol-users mailing list >[email protected] >https://lists.sourceforge.net/lists/listinfo/jmol-users > > -- 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 ------------------------------------------------------------------------- Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users ------------------------------------------------------------------------- Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
