Posted by
SarahBerlin on
Feb 12, 2016; 6:35pm
URL: http://imagej.273.s1.nabble.com/AnalyzeSkeleton-in-JavaScript-Exception-in-thread-AWT-EventQueue-0-java-lang-NullPointerException-tp5015617.html
Hello.
I want to use AnalyzeSkeleton in a JavaScript. But it produces java.lang.NullPointerException. What happens here? How can I avoid that?
Thank you
Sarah
A code sniplet looks like that (cp.
http://fiji.sc/AnalyzeSkeleton#Using_silent_mode_from_scripts):
importPackage(Packages.ij);
importPackage(Packages.ij.plugin);
importPackage(Packages.ij.process );
importPackage(Packages.ij.measure );
importPackage(Packages.sc.fiji.analyzeSkeleton);
importClass(Packages.ij.plugin.frame.RoiManager);
imp = IJ.getImage();
IJ.run(imp, "Skeletonize (2D/3D)", "");
//ROIs
roi_manager = RoiManager.getInstance();
roi_list = roi_manager.getRoisAsArray();
for (var roi = 0; roi < roi_list.length; roi++) {
ip = imp.getProcessor();
imp.setRoi(roi_list[roi]); // set current ROI
// Initialize AnalyzeSkeleton_
var skel = new AnalyzeSkeleton_(); // works w/o error message
// each of the following produces error messages
var skelResult = skel.run(AnalyzeSkeleton_.NONE, false, true, null, true, false);
skel.calculateShortestPath = true;
skel.setup("", imp);
}
Error messages:
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
at javax.swing.JComponent._paintImmediately(JComponent.java:5087)
at javax.swing.JComponent.paintImmediately(JComponent.java:4882)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:785)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:713)
at javax.swing.RepaintManager.seqPaintDirtyRegions(RepaintManager.java:693)
at javax.swing.SystemEventQueueUtilities$ComponentWorkRequest.run(SystemEventQueueUtilities.java:125)
at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:642)
at java.awt.EventQueue.access$000(EventQueue.java:85)
at java.awt.EventQueue$1.run(EventQueue.java:603)
at java.awt.EventQueue$1.run(EventQueue.java:601)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:612)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
at javax.swing.JComponent._paintImmediately(JComponent.java:5087)
at javax.swing.JComponent.paintImmediately(JComponent.java:4882)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:785)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:713)
at javax.swing.RepaintManager.seqPaintDirtyRegions(RepaintManager.java:693)
at javax.swing.SystemEventQueueUtilities$ComponentWorkRequest.run(SystemEventQueueUtilities.java:125)
at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:642)
at java.awt.EventQueue.access$000(EventQueue.java:85)
at java.awt.EventQueue$1.run(EventQueue.java:603)
at java.awt.EventQueue$1.run(EventQueue.java:601)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:612)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
at javax.swing.JComponent._paintImmediately(JComponent.java:5087)
at javax.swing.JComponent.paintImmediately(JComponent.java:4882)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:785)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:713)
at javax.swing.RepaintManager.seqPaintDirtyRegions(RepaintManager.java:693)
at javax.swing.SystemEventQueueUtilities$ComponentWorkRequest.run(SystemEventQueueUtilities.java:125)
at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:642)
at java.awt.EventQueue.access$000(EventQueue.java:85)
at java.awt.EventQueue$1.run(EventQueue.java:603)
at java.awt.EventQueue$1.run(EventQueue.java:601)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:612)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
at javax.swing.JComponent._paintImmediately(JComponent.java:5087)
at javax.swing.JComponent.paintImmediately(JComponent.java:4882)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:785)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:713)
at javax.swing.RepaintManager.seqPaintDirtyRegions(RepaintManager.java:693)
at javax.swing.SystemEventQueueUtilities$ComponentWorkRequest.run(SystemEventQueueUtilities.java:125)
at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:642)
at java.awt.EventQueue.access$000(EventQueue.java:85)
at java.awt.EventQueue$1.run(EventQueue.java:603)
at java.awt.EventQueue$1.run(EventQueue.java:601)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:612)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
at javax.swing.JComponent._paintImmediately(JComponent.java:5087)
at javax.swing.JComponent.paintImmediately(JComponent.java:4882)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:785)
at javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:713)
at javax.swing.RepaintManager.seqPaintDirtyRegions(RepaintManager.java:693)
at javax.swing.SystemEventQueueUtilities$ComponentWorkRequest.run(SystemEventQueueUtilities.java:125)
at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:642)
at java.awt.EventQueue.access$000(EventQueue.java:85)
at java.awt.EventQueue$1.run(EventQueue.java:603)
at java.awt.EventQueue$1.run(EventQueue.java:601)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:612)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "Run$_AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "Run$_AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "Run$_AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "Run$_AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
[WARNING] Ignoring unsupported output: result [java.lang.Integer]
[WARNING] Ignoring unsupported output: result [java.lang.Integer]
[WARNING] Ignoring unsupported output: result [java.lang.Integer]
[WARNING] Ignoring unsupported output: result [java.lang.Double]
[WARNING] Ignoring unsupported output: result [java.lang.Boolean]
[WARNING] Ignoring unsupported output: result [java.lang.Boolean]
[WARNING] Ignoring unsupported output: result [java.lang.Integer]
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException