Hi
The simple "select 25 /1 " command manages to freeze Jmol when used as
an application.
A couple of things need to come together to cause this:
- the evalString needs to be called before a structure is being loaded
- a particular group and model needs to be selected
- the stack in Eval then has entries of null and that's where the
thread gets stuck...
here some example code:
JmolViewer viewer = jmolPanel.getViewer();
viewer.evalString("select 25 /1 ");
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);
viewer.evalString("select * ; wireframe on;");
Eval gets stuck with the following exception:
java.lang.NullPointerException
at org.jmol.viewer.Eval.expression(Eval.java:836)
at org.jmol.viewer.Eval.select(Eval.java:2875)
at org.jmol.viewer.Eval.instructionDispatchLoop(Eval.java:478)
at org.jmol.viewer.Eval.runEval(Eval.java:105)
at org.jmol.viewer.Viewer.evalStringWaitStatus(Viewer.java:2246)
at org.jmol.viewer.ScriptManager.runScript(ScriptManager.java:130)
at org.jmol.viewer.ScriptManager.runNextScript(ScriptManager.java:119)
at
org.jmol.viewer.ScriptManager$ScriptQueueRunnable.run(ScriptManager.java
:146)
at java.lang.Thread.run(Thread.java:552)
Regards,
Andreas
-----------------------------------------------------------------------
Andreas Prlic Wellcome Trust Sanger Institute
Hinxton, Cambridge CB10 1SA, UK
+44 (0) 1223 49 6891
-------------------------------------------------------------------------
Take Surveys. Earn Cash. Influence the Future of IT
Join SourceForge.net's Techsay panel and you'll get the chance to share your
opinions on IT & business topics through brief surveys -- and earn cash
http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV
_______________________________________________
Jmol-developers mailing list
[email protected]
https://lists.sourceforge.net/lists/listinfo/jmol-developers
