ImageJ

FigureJ

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Ramūnas Skaudžius
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FigureJ

Ramūnas Skaudžius
Hi everyone,

I wish to use FigureJ, but each time I try to open an image (SEM picture
.tif or .jpg) I get the Console window with the following text (see below).

I have tried to update Fiji and Plugin, to set the scale, but nothing
helped...

The text:
"Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError:
imagescience/transform/Transform
at utilities.MyImageMath.getPixels(MyImageMath.java:43)
at FigureJ_Tool.transferROIDataToPanel(FigureJ_Tool.java:450)
at FigureJ_Tool.cleanGUIandTransferROI(FigureJ_Tool.java:1983)
at FigureJ_Tool.mousePressed(FigureJ_Tool.java:275)
at ij.gui.ImageCanvas.mousePressed(ImageCanvas.java:1108)
at java.awt.Component.processMouseEvent(Component.java:6532)
at java.awt.Component.processEvent(Component.java:6300)
at java.awt.Component.dispatchEventImpl(Component.java:4891)
at java.awt.Component.dispatchEvent(Component.java:4713)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
at java.awt.EventQueue.access$500(EventQueue.java:97)
at java.awt.EventQueue$3.run(EventQueue.java:709)
at java.awt.EventQueue$3.run(EventQueue.java:703)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:86)
at java.awt.EventQueue$4.run(EventQueue.java:731)
at java.awt.EventQueue$4.run(EventQueue.java:729)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
at
java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
at
java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
at
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
Caused by: java.lang.ClassNotFoundException:
imagescience.transform.Transform
at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:331)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
... 27 more
Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError:
imagescience/transform/Transform
at utilities.MyImageMath.getPixels(MyImageMath.java:43)
at FigureJ_Tool.transferROIDataToPanel(FigureJ_Tool.java:450)
at FigureJ_Tool.cleanGUIandTransferROI(FigureJ_Tool.java:1983)
at FigureJ_Tool.mousePressed(FigureJ_Tool.java:275)
at ij.gui.ImageCanvas.mousePressed(ImageCanvas.java:1108)
at java.awt.Component.processMouseEvent(Component.java:6532)
at java.awt.Component.processEvent(Component.java:6300)
at java.awt.Component.dispatchEventImpl(Component.java:4891)
at java.awt.Component.dispatchEvent(Component.java:4713)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
at java.awt.EventQueue.access$500(EventQueue.java:97)
at java.awt.EventQueue$3.run(EventQueue.java:709)
at java.awt.EventQueue$3.run(EventQueue.java:703)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:86)
at java.awt.EventQueue$4.run(EventQueue.java:731)
at java.awt.EventQueue$4.run(EventQueue.java:729)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
at
java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
at
java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
at
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError:
imagescience/transform/Transform
at utilities.MyImageMath.getPixels(MyImageMath.java:43)
at FigureJ_Tool.transferROIDataToPanel(FigureJ_Tool.java:450)
at FigureJ_Tool.cleanGUIandTransferROI(FigureJ_Tool.java:1983)
at
FigureJ_Tool$FigureControlPanel$22.actionPerformed(FigureJ_Tool.java:1194)
at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:2022)
at
javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2348)
at
javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:402)
at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
at
javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:252)
at java.awt.AWTEventMulticaster.mouseReleased(AWTEventMulticaster.java:289)
at java.awt.Component.processMouseEvent(Component.java:6535)
at javax.swing.JComponent.processMouseEvent(JComponent.java:3324)
at java.awt.Component.processEvent(Component.java:6300)
at java.awt.Container.processEvent(Container.java:2236)
at java.awt.Component.dispatchEventImpl(Component.java:4891)
at java.awt.Container.dispatchEventImpl(Container.java:2294)
at java.awt.Component.dispatchEvent(Component.java:4713)
at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4888)
at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4525)
at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4466)
at java.awt.Container.dispatchEventImpl(Container.java:2280)
at java.awt.Window.dispatchEventImpl(Window.java:2750)
at java.awt.Component.dispatchEvent(Component.java:4713)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
at java.awt.EventQueue.access$500(EventQueue.java:97)
at java.awt.EventQueue$3.run(EventQueue.java:709)
at java.awt.EventQueue$3.run(EventQueue.java:703)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:86)
at java.awt.EventQueue$4.run(EventQueue.java:731)
at java.awt.EventQueue$4.run(EventQueue.java:729)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
at
java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
at
java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
at
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError:
imagescience/transform/Transform
at utilities.MyImageMath.getPixels(MyImageMath.java:43)
at FigureJ_Tool.transferROIDataToPanel(FigureJ_Tool.java:450)
at FigureJ_Tool.cleanGUIandTransferROI(FigureJ_Tool.java:1983)
at FigureJ_Tool.mousePressed(FigureJ_Tool.java:275)
at ij.gui.ImageCanvas.mousePressed(ImageCanvas.java:1108)
at java.awt.Component.processMouseEvent(Component.java:6532)
at java.awt.Component.processEvent(Component.java:6300)
at java.awt.Component.dispatchEventImpl(Component.java:4891)
at java.awt.Component.dispatchEvent(Component.java:4713)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
at java.awt.EventQueue.access$500(EventQueue.java:97)
at java.awt.EventQueue$3.run(EventQueue.java:709)
at java.awt.EventQueue$3.run(EventQueue.java:703)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:86)
at java.awt.EventQueue$4.run(EventQueue.java:731)
at java.awt.EventQueue$4.run(EventQueue.java:729)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
at
java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
at
java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
at
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)"


Thanks in advance.

Regards,
Ramunas

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html
Jerome Mutterer-3
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Re: FigureJ

Jerome Mutterer-3
Hi Ramunas,
please also update the imagescience library to the latest version by
enabling the ImageScience update site.

Jerome.


2017-08-03 11:52 GMT+02:00 Ramūnas Skaudžius <[hidden email]>:

> Hi everyone,
>
> I wish to use FigureJ, but each time I try to open an image (SEM picture
> .tif or .jpg) I get the Console window with the following text (see below).
>
> I have tried to update Fiji and Plugin, to set the scale, but nothing
> helped...
>
> The text:
> "Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError:
> imagescience/transform/Transform
> at utilities.MyImageMath.getPixels(MyImageMath.java:43)
> at FigureJ_Tool.transferROIDataToPanel(FigureJ_Tool.java:450)
> at FigureJ_Tool.cleanGUIandTransferROI(FigureJ_Tool.java:1983)
> at FigureJ_Tool.mousePressed(FigureJ_Tool.java:275)
> at ij.gui.ImageCanvas.mousePressed(ImageCanvas.java:1108)
> at java.awt.Component.processMouseEvent(Component.java:6532)
> at java.awt.Component.processEvent(Component.java:6300)
> at java.awt.Component.dispatchEventImpl(Component.java:4891)
> at java.awt.Component.dispatchEvent(Component.java:4713)
> at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
> at java.awt.EventQueue.access$500(EventQueue.java:97)
> at java.awt.EventQueue$3.run(EventQueue.java:709)
> at java.awt.EventQueue$3.run(EventQueue.java:703)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:76)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:86)
> at java.awt.EventQueue$4.run(EventQueue.java:731)
> at java.awt.EventQueue$4.run(EventQueue.java:729)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:76)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
> at
> java.awt.EventDispatchThread.pumpOneEventForFilters(
> EventDispatchThread.java:201)
> at
> java.awt.EventDispatchThread.pumpEventsForFilter(
> EventDispatchThread.java:116)
> at
> java.awt.EventDispatchThread.pumpEventsForHierarchy(
> EventDispatchThread.java:105)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
> at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
> Caused by: java.lang.ClassNotFoundException:
> imagescience.transform.Transform
> at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
> at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
> at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:331)
> at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
> ... 27 more
> Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError:
> imagescience/transform/Transform
> at utilities.MyImageMath.getPixels(MyImageMath.java:43)
> at FigureJ_Tool.transferROIDataToPanel(FigureJ_Tool.java:450)
> at FigureJ_Tool.cleanGUIandTransferROI(FigureJ_Tool.java:1983)
> at FigureJ_Tool.mousePressed(FigureJ_Tool.java:275)
> at ij.gui.ImageCanvas.mousePressed(ImageCanvas.java:1108)
> at java.awt.Component.processMouseEvent(Component.java:6532)
> at java.awt.Component.processEvent(Component.java:6300)
> at java.awt.Component.dispatchEventImpl(Component.java:4891)
> at java.awt.Component.dispatchEvent(Component.java:4713)
> at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
> at java.awt.EventQueue.access$500(EventQueue.java:97)
> at java.awt.EventQueue$3.run(EventQueue.java:709)
> at java.awt.EventQueue$3.run(EventQueue.java:703)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:76)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:86)
> at java.awt.EventQueue$4.run(EventQueue.java:731)
> at java.awt.EventQueue$4.run(EventQueue.java:729)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:76)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
> at
> java.awt.EventDispatchThread.pumpOneEventForFilters(
> EventDispatchThread.java:201)
> at
> java.awt.EventDispatchThread.pumpEventsForFilter(
> EventDispatchThread.java:116)
> at
> java.awt.EventDispatchThread.pumpEventsForHierarchy(
> EventDispatchThread.java:105)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
> at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
> Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError:
> imagescience/transform/Transform
> at utilities.MyImageMath.getPixels(MyImageMath.java:43)
> at FigureJ_Tool.transferROIDataToPanel(FigureJ_Tool.java:450)
> at FigureJ_Tool.cleanGUIandTransferROI(FigureJ_Tool.java:1983)
> at
> FigureJ_Tool$FigureControlPanel$22.actionPerformed(FigureJ_Tool.java:1194)
> at javax.swing.AbstractButton.fireActionPerformed(
> AbstractButton.java:2022)
> at
> javax.swing.AbstractButton$Handler.actionPerformed(
> AbstractButton.java:2348)
> at
> javax.swing.DefaultButtonModel.fireActionPerformed(
> DefaultButtonModel.java:402)
> at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
> at
> javax.swing.plaf.basic.BasicButtonListener.mouseReleased(
> BasicButtonListener.java:252)
> at java.awt.AWTEventMulticaster.mouseReleased(
> AWTEventMulticaster.java:289)
> at java.awt.Component.processMouseEvent(Component.java:6535)
> at javax.swing.JComponent.processMouseEvent(JComponent.java:3324)
> at java.awt.Component.processEvent(Component.java:6300)
> at java.awt.Container.processEvent(Container.java:2236)
> at java.awt.Component.dispatchEventImpl(Component.java:4891)
> at java.awt.Container.dispatchEventImpl(Container.java:2294)
> at java.awt.Component.dispatchEvent(Component.java:4713)
> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4888)
> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4525)
> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4466)
> at java.awt.Container.dispatchEventImpl(Container.java:2280)
> at java.awt.Window.dispatchEventImpl(Window.java:2750)
> at java.awt.Component.dispatchEvent(Component.java:4713)
> at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
> at java.awt.EventQueue.access$500(EventQueue.java:97)
> at java.awt.EventQueue$3.run(EventQueue.java:709)
> at java.awt.EventQueue$3.run(EventQueue.java:703)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:76)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:86)
> at java.awt.EventQueue$4.run(EventQueue.java:731)
> at java.awt.EventQueue$4.run(EventQueue.java:729)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:76)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
> at
> java.awt.EventDispatchThread.pumpOneEventForFilters(
> EventDispatchThread.java:201)
> at
> java.awt.EventDispatchThread.pumpEventsForFilter(
> EventDispatchThread.java:116)
> at
> java.awt.EventDispatchThread.pumpEventsForHierarchy(
> EventDispatchThread.java:105)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
> at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
> Exception in thread "AWT-EventQueue-0" java.lang.NoClassDefFoundError:
> imagescience/transform/Transform
> at utilities.MyImageMath.getPixels(MyImageMath.java:43)
> at FigureJ_Tool.transferROIDataToPanel(FigureJ_Tool.java:450)
> at FigureJ_Tool.cleanGUIandTransferROI(FigureJ_Tool.java:1983)
> at FigureJ_Tool.mousePressed(FigureJ_Tool.java:275)
> at ij.gui.ImageCanvas.mousePressed(ImageCanvas.java:1108)
> at java.awt.Component.processMouseEvent(Component.java:6532)
> at java.awt.Component.processEvent(Component.java:6300)
> at java.awt.Component.dispatchEventImpl(Component.java:4891)
> at java.awt.Component.dispatchEvent(Component.java:4713)
> at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
> at java.awt.EventQueue.access$500(EventQueue.java:97)
> at java.awt.EventQueue$3.run(EventQueue.java:709)
> at java.awt.EventQueue$3.run(EventQueue.java:703)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:76)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:86)
> at java.awt.EventQueue$4.run(EventQueue.java:731)
> at java.awt.EventQueue$4.run(EventQueue.java:729)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.
> doIntersectionPrivilege(ProtectionDomain.java:76)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
> at
> java.awt.EventDispatchThread.pumpOneEventForFilters(
> EventDispatchThread.java:201)
> at
> java.awt.EventDispatchThread.pumpEventsForFilter(
> EventDispatchThread.java:116)
> at
> java.awt.EventDispatchThread.pumpEventsForHierarchy(
> EventDispatchThread.java:105)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
> at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)"
>
>
> Thanks in advance.
>
> Regards,
> Ramunas
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>



--
Jerome Mutterer
CNRS - Institut de biologie moléculaire des plantes
12, rue du Général Zimmer
67084 Strasbourg Cedex
www.ibmp.cnrs.fr

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