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#505 isosurface CAVITY NullPointerException in 12.1.41

closed
nobody
None
5
2011-04-19
2011-04-19
No

load =3dqb;
isosurface CAVITY;

Queue[1][1] scripts; running: select protein; isosurface CAVITY## EDITOR_IGNORE ##
isosurface CAVITY;
-->>-------------1 null null org.jmol.script.ScriptContext@51887dd5
-->>-------------2 null null org.jmol.script.ScriptContext@38c83cfd
-->>-------------3 null null org.jmol.script.ScriptContext@621c232a
--<<-------------2 null null org.jmol.script.ScriptContext@38c83cfd
-->>-------------3 null null org.jmol.script.ScriptContext@2548ccb8
--<<-------------2 null null org.jmol.script.ScriptContext@38c83cfd
-->>-------------3 null null org.jmol.script.ScriptContext@4e785727
--<<-------------2 null null org.jmol.script.ScriptContext@38c83cfd
-->>-------------3 null null org.jmol.script.ScriptContext@3ea1e9b0
--<<-------------2 null null org.jmol.script.ScriptContext@38c83cfd
--<<-------------1 null null org.jmol.script.ScriptContext@51887dd5
--<<-------------0 null null
solvent-accessible surface with radius 0.0
2691 atoms will be used in the surface calculation
isosurface resolution for axis 1 set to 0.7355509 points/Angstrom; 60 voxels
isosurface resolution for axis 2 set to 1.1599787 points/Angstrom; 60 voxels
isosurface resolution for axis 3 set to 1.3601049 points/Angstrom; 60 voxels
java.lang.NullPointerException
at org.jmol.jvxl.readers.IsoSolventReader.markSphereVoxels(Unknown Source)
at org.jmol.jvxl.readers.IsoSolventReader.generateCube(Unknown Source)
at org.jmol.jvxl.readers.VolumeDataReader.readSurfaceData(Unknown Source)
at org.jmol.jvxl.readers.VolumeDataReader.readVolumeData(Unknown Source)
at org.jmol.jvxl.readers.SurfaceReader.createIsosurface(Unknown Source)
at org.jmol.jvxl.readers.SurfaceGenerator.generateSurface(Unknown Source)
at org.jmol.jvxl.readers.SurfaceGenerator.processState(Unknown Source)
at org.jmol.jvxl.readers.SurfaceGenerator.setParameter(Unknown Source)
at org.jmol.shapesurface.Isosurface.setProperty(Unknown Source)
at org.jmol.shape.Shape.setShapeProperty(Unknown Source)
at org.jmol.shape.Shape.setProperty(Unknown Source)
at org.jmol.shape.MeshCollection.setProperty(Unknown Source)
at org.jmol.shapesurface.Isosurface.setPropertySuper(Unknown Source)
at org.jmol.shapesurface.Isosurface.setProperty(Unknown Source)
at org.jmol.shape.Shape.setShapeProperty(Unknown Source)
at org.jmol.viewer.ShapeManager.setShapeProperty(Unknown Source)
at org.jmol.script.ScriptEvaluator.setShapeProperty(Unknown Source)
at org.jmol.script.ScriptEvaluator.isosurface(Unknown Source)
at org.jmol.script.ScriptEvaluator.processShapeCommand(Unknown Source)
at org.jmol.script.ScriptEvaluator.instructionDispatchLoop(Unknown Source)
at org.jmol.script.ScriptEvaluator.evaluateCompiledScript(Unknown Source)
at org.jmol.viewer.Viewer.evalStringWaitStatus(Unknown Source)
at org.jmol.viewer.ScriptManager$ScriptQueueRunnable.runScript(Unknown Source)
at org.jmol.viewer.ScriptManager$ScriptQueueRunnable.runNextScript(Unknown Source)
at org.jmol.viewer.ScriptManager$ScriptQueueRunnable.run(Unknown Source)
at java.lang.Thread.run(Thread.java:662)
Could not create isosurface
isosurface1 created with cutoff=NaN min=0.0 max=0.0; isosurface count: 0

Discussion

  • Bob Hanson

    Bob Hanson - 2011-04-19
    • status: open --> closed
     

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