ah, YES, "alpha polymers" -- this is fixed.
Andreas Prlic wrote:
>Hi!
>
>On the latest svn checkout from trunk:
>loading a simple CA-only PDB file into Jmol via an applications loads
>and displays the atoms fine:
>
> String pdb = "ATOM 2 CA ALA 1 43.888 10.862 -6.231
> 1 0\n"+
> "ATOM 7 CA PRO 2 46.689 12.815 -4.561
> 1 0\n"+
> "ATOM 14 CA ARG 4 44.872 15.621 -2.730
> 1 0\n"+
> "ATOM 25 CA LYS 5 48.356 17.146 -2.714
> 1 0\n"+
> "ATOM 34 CA PHE 6 49.089 18.463 0.778
> 1 0\n"+
> "ATOM 45 CA PHE 7 48.167 22.143 0.886
> 1 0\n";
>
>
> viewer.openStringInline(pdb);
>
>but adding a
>viewer.evalString("select *; cartoon on;");
>
>throws
>
>apple.awt.EventQueueExceptionHandler Caught Throwable :
>java.lang.ClassCastException
>java.lang.ClassCastException
> at
>org.jmol.viewer.CartoonRenderer.initializeChain(CartoonRenderer.java:
>128)
> at
>org.jmol.viewer.CartoonRenderer.renderMpspolymer(CartoonRenderer.java:
>105)
> at org.jmol.viewer.MpsRenderer.render(MpsRenderer.java:43)
> at org.jmol.viewer.ShapeRenderer.render(ShapeRenderer.java:60)
> at org.jmol.viewer.FrameRenderer.render(FrameRenderer.java:63)
> at org.jmol.viewer.RepaintManager.render(RepaintManager.java:155)
> at org.jmol.viewer.Viewer.getImage(Viewer.java:1953)
> at org.jmol.viewer.Viewer.renderScreenImage(Viewer.java:1937)
> at JmolTest$JmolPanel.paint(JmolTest.java:144)
> at javax.swing.JComponent._paintImmediately(JComponent.java:4707)
> at javax.swing.JComponent.paintImmediately(JComponent.java:4489)
> at
>javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:436)
> at
>javax.swing.SystemEventQueueUtilities$ComponentWorkRequest.run(SystemEve
>ntQueueUtilities.java:117)
> at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:189)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:478)
> at
>java.awt.EventDispatchThread.pumpOneEventForHierarchy(EventDispatchThrea
>d.java:234)
> at
>java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.
>java:184)
> at
>java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:178)
> at
>java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:170)
> at java.awt.EventDispatchThread.run(EventDispatchThread.java:100)
>
>and the application freezes.
>I know it is not possible to do cartoons for CA-only,
>but I think it should not crash and do some sort of
>error message via JmolStatusListener ...
>Can you have a look?
>
>Andreas
>
>-----------------------------------------------------------------------
>
>Andreas Prlic Wellcome Trust Sanger Institute
> Hinxton, Cambridge CB10 1SA, UK
> +44 (0) 1223 49 6891
>
>
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