Bugs item #2901257, was opened at 2009-11-20 16:54
Message generated for change (Comment added) made by dirkwalter
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Category: None
Group: v11
Status: Open
Resolution: None
Priority: 5
Private: No
Submitted By: Dirk Walter (dirkwalter)
Assigned to: Nobody/Anonymous (nobody)
Summary: Random NullPointerException
Initial Comment:
I occasionally randomly get a nullpointer exception, I think it is a threading
issue since it ussualy happens if I change the molecule I am showing before it
finishes displaying another one. I am using jmol 11.8.9.
Stacktrace:
java.lang.NullPointerException
at org.jmol.viewer.Viewer.getModelFileNumber(Unknown Source)
at org.jmol.viewer.Viewer.setStatusFrameChanged(Unknown Source)
at org.jmol.viewer.AnimationManager.setStatusFrameChanged(Unknown
Source)
at org.jmol.viewer.AnimationManager.setAnimationOff(Unknown Source)
at org.jmol.viewer.AnimationManager.setAnimationOn(Unknown Source)
at org.jmol.viewer.AnimationManager.clearAnimation(Unknown Source)
at org.jmol.viewer.AnimationManager.clear(Unknown Source)
at org.jmol.viewer.Viewer.zap(Unknown Source)
at org.jmol.viewer.Viewer.zap(Unknown Source)
at org.jmol.viewer.Viewer.createModelSetAndReturnError(Unknown Source)
at org.jmol.viewer.Viewer.createModelSetInline(Unknown Source)
at org.jmol.viewer.Viewer.openStringInline(Unknown Source)
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>Comment By: Dirk Walter (dirkwalter)
Date: 2009-11-23 17:37
Message:
I am following it with another command, so that would be the source of the
problem.
We have 2 types of molecules we are showing and we have different display
scripts for each, so I do a openStringInline followed by a evalString to
set the display properties, I made sure the commands are done in the Event
dispatch thread and called in that order. I will try the data command and
see if it solves the problem, unless there is a better way?
----------------------------------------------------------------------
Comment By: Bob Hanson (hansonr)
Date: 2009-11-23 13:20
Message:
Dirk, openStringInline should work fine provided that is all you are doing
and not following it up with some other command. The alternative is a DATA
command within a script. I'm still puzzling over why the ZAP command from
that is finding no model set. The only think I can think of is that you are
issuing two commands in a row, first a jmolViewer.script() or
jmolViewer.evalString() command, which gets queued and executed by an
independent thread, and then this openStringInline command.
Bob
----------------------------------------------------------------------
Comment By: Dirk Walter (dirkwalter)
Date: 2009-11-23 12:06
Message:
if openStringInline is not the way to do it how would I do this better?
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Comment By: Bob Hanson (hansonr)
Date: 2009-11-22 19:27
Message:
I believe this is a bug that goes WAY back to the origins of Jmol. I have
checked in fixes for Jmol 11.9.11 and Jmol 11.8.10. The problem arises from
the repaint renderer thread continuing during the zap command. Possibly...
----------------------------------------------------------------------
Comment By: Bob Hanson (hansonr)
Date: 2009-11-20 18:59
Message:
hmm, the zap is only being called from createModelSetAndReturnError because
there was an error in the data so that an atom set was not created. It's
trying to clear the (already cleared) model with a zap. That could be the
problem.
----------------------------------------------------------------------
Comment By: Bob Hanson (hansonr)
Date: 2009-11-20 18:54
Message:
I see you are using openStringInline. That's not queued, and it could be
causing the problem. I'll look into that. It would be nice to get this to
be reproducible.
----------------------------------------------------------------------
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