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<head>
<base href="http://fiji.sc/bugzilla/" />
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<body><table border="1" cellspacing="0" cellpadding="8">
<tr>
<th>Bug ID</th>
<td><a class="bz_bug_link
bz_status_NEW "
title="NEW - Errors during ImageJ launch"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=944">944</a>
</td>
</tr>
<tr>
<th>Summary</th>
<td>Errors during ImageJ launch
</td>
</tr>
<tr>
<th>Product</th>
<td>Fiji
</td>
</tr>
<tr>
<th>Version</th>
<td>unspecified
</td>
</tr>
<tr>
<th>Hardware</th>
<td>Macintosh
</td>
</tr>
<tr>
<th>OS</th>
<td>Mac OS
</td>
</tr>
<tr>
<th>Status</th>
<td>NEW
</td>
</tr>
<tr>
<th>Severity</th>
<td>normal
</td>
</tr>
<tr>
<th>Priority</th>
<td>P4
</td>
</tr>
<tr>
<th>Component</th>
<td>Plugins
</td>
</tr>
<tr>
<th>Assignee</th>
<td>imagej-bugs@imagej.net
</td>
</tr>
<tr>
<th>Reporter</th>
<td>felix.meyenhofer@unifr.ch
</td>
</tr>
<tr>
<th>CC</th>
<td>felix.meyenhofer@unifr.ch
</td>
</tr></table>
<p>
<div>
<pre>I am launching ImageJ from within IntelliJ using the following lines:
final ImageJ ij = net.imagej.Main.launch(args);
ij.command().run(MyPlugin.class, true);
Then it throws
[WARNING] Ignoring non-existent scripts directory:
/Users/turf/Sources/imageJ/ij2/unifr_bioimage/scripts
[ERROR] Exception during event handling:
[Event] org.scijava.module.event.ModulesUpdatedEvent
context = org.scijava.Context@521ba1d9
consumed = false
items[0] = label='About ImageJ...',
iconPath='/icons/commands/information.png', priority=0.0, enabled=true,
pluginType=Command
items[1] = label='Preferences', priority=0.0, enabled=true,
pluginType=Command
items[2] = label='Quit', iconPath='/icons/commands/door_in.png',
priority=0.0, enabled=true, pluginType=Command
[Subscriber] org.scijava.menu.DefaultMenuService [priority = 0.0]
[Method] protected void
org.scijava.menu.DefaultMenuService.onEvent(org.scijava.module.event.ModulesUpdatedEvent)
java.lang.NullPointerException
at org.scijava.menu.ShadowMenu.addChild(ShadowMenu.java:532)
at org.scijava.menu.ShadowMenu.addChild(ShadowMenu.java:529)
at org.scijava.menu.ShadowMenu.addChild(ShadowMenu.java:529)
at org.scijava.menu.ShadowMenu.addChild(ShadowMenu.java:529)
at org.scijava.menu.ShadowMenu.addChild(ShadowMenu.java:529)
at org.scijava.menu.ShadowMenu.addChild(ShadowMenu.java:529)
at org.scijava.menu.ShadowMenu.addChild(ShadowMenu.java:529)
at org.scijava.menu.ShadowMenu.addInternal(ShadowMenu.java:478)
at org.scijava.menu.ShadowMenu.addAll(ShadowMenu.java:351)
at org.scijava.menu.ShadowMenu.<init>(ShadowMenu.java:117)
at
org.scijava.menu.DefaultMenuService.addModules(DefaultMenuService.java:154)
at
org.scijava.menu.DefaultMenuService.rootMenus(DefaultMenuService.java:179)
at org.scijava.menu.DefaultMenuService.onEvent(DefaultMenuService.java:118)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at
org.scijava.event.DefaultEventService$ProxySubscriber.onEvent(DefaultEventService.java:278)
at
org.scijava.event.DefaultEventService$ProxySubscriber.onEvent(DefaultEventService.java:252)
at
org.bushe.swing.event.ThreadSafeEventService.publish(ThreadSafeEventService.java:971)
at org.scijava.event.DefaultEventBus.access$101(DefaultEventBus.java:56)
at org.scijava.event.DefaultEventBus$1.run(DefaultEventBus.java:197)
at
org.scijava.thread.DefaultThreadService$1.run(DefaultThreadService.java:147)
at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:199)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:715)
at java.awt.EventQueue.access$400(EventQueue.java:82)
at java.awt.EventQueue$2.run(EventQueue.java:676)
at java.awt.EventQueue$2.run(EventQueue.java:674)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:86)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:685)
at
java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296)
at
java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211)
at
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
[WARNING] No widget found for input: input
My pom.xml looks like:
<?xml version="1.0" encoding="UTF-8"?>
<project xmlns="<a href="http://maven.apache.org/POM/4.0.0">http://maven.apache.org/POM/4.0.0</a>"
xmlns:xsi="<a href="http://www.w3.org/2001/XMLSchema-instance">http://www.w3.org/2001/XMLSchema-instance</a>"
xsi:schemaLocation="<a href="http://maven.apache.org/POM/4.0.0">http://maven.apache.org/POM/4.0.0</a>
<a href="http://maven.apache.org/xsd/maven-4.0.0.xsd">http://maven.apache.org/xsd/maven-4.0.0.xsd</a>">
<modelVersion>4.0.0</modelVersion>
<parent>
<groupId>net.imagej</groupId>
<artifactId>pom-imagej</artifactId>
<version>2.35</version>
<relativePath />
</parent>
<groupId>unifr-bioimage-ij2</groupId>
<artifactId>sandbox-2</artifactId>
<version>1.0.0-SNAPSHOT</version>
<name>Sandbox (ij2)</name>
<description></description>
<repositories>
<repository>
<id>imagej.public</id>
<url><a href="http://maven.imagej.net/content/groups/public">http://maven.imagej.net/content/groups/public</a></url>
</repository>
</repositories>
<dependencies>
<dependency>
<groupId>net.imagej</groupId>
<artifactId>imagej</artifactId>
</dependency>
</dependencies>
</project>
Information about your version of Java:
os.arch => x86_64
os.name => Mac OS X
os.version => 10.9.5
java.version => 1.6.0_65
java.vendor => Apple Inc.
java.runtime.name => Java(TM) SE Runtime Environment
java.runtime.version => 1.6.0_65-b14-462-11M4609
java.vm.name => Java HotSpot(TM) 64-Bit Server VM
java.vm.version => 20.65-b04-462
java.vm.vendor => Apple Inc.
java.vm.info => mixed mode
java.awt.graphicsenv => apple.awt.CGraphicsEnvironment
java.specification.name => Java Platform API Specification
java.specification.version => 1.6
sun.cpu.endian => little
sun.desktop => null
file.separator => /
The up-to-date check says: REMIND_LATER
Information relevant to JAVA_HOME related problems:
JAVA_HOME is set to: null
imagej.dir => /Users/turf/Applications/Fiji.app
Information about the version of each plugin:
Activated update sites:
ImageJ: <a href="http://update.imagej.net/">http://update.imagej.net/</a> (last check:20140802175300)
Fiji: <a href="http://fiji.sc/update/">http://fiji.sc/update/</a> (last check:20140730210634)
3D ImageJ Suite: <a href="http://sites.imagej.net/Tboudier/">http://sites.imagej.net/Tboudier/</a> (last check:20140604080506)
BigDataViewer: <a href="http://sites.imagej.net/Pietzsch/">http://sites.imagej.net/Pietzsch/</a> (last check:20140619131159)
BioVoxxel: <a href="http://sites.imagej.net/BioVoxxel/">http://sites.imagej.net/BioVoxxel/</a> (last check:20140730101642)
GDSC: <a href="http://sites.imagej.net/GDSC/">http://sites.imagej.net/GDSC/</a> (last check:20140801132211)
LOCI: <a href="http://sites.imagej.net/LOCI/">http://sites.imagej.net/LOCI/</a> (last check:20140401205514)
Morphology: <a href="http://sites.imagej.net/Landini/">http://sites.imagej.net/Landini/</a> (last check:20140723165558)
MOSAIC ToolSuite:
<a href="http://mosaic.mpi-cbg.de/Downloads/update/Fiji/MosaicToolsuite/">http://mosaic.mpi-cbg.de/Downloads/update/Fiji/MosaicToolsuite/</a> (last
check:20140801113045)
OMERO 5.0: <a href="http://sites.imagej.net/OMERO-5.0/">http://sites.imagej.net/OMERO-5.0/</a> (last check:20140606044302)
PHANTAST: <a href="http://sites.imagej.net/Nicjac/">http://sites.imagej.net/Nicjac/</a> (last check:20140224235450)
Files not up-to-date:
ae78ded1 (MODIFIED) 20140707223122 Contents/Info.plist
6a342927 (MODIFIED) 20140925143930 jars/ij-1.49e.jar
f1c0db92 (LOCAL_ONLY) 20140704111856 plugins/Boris_Ratiometrics.jar
1f12fc21 (LOCAL_ONLY) 20140708111023 plugins/IntSeg_3D.jar
5f60d96e (LOCAL_ONLY) 20140708111029 plugins/Watershed_.jar
3814d5a6 (LOCAL_ONLY) 20140704130405 plugins/jars/bij.jar</pre>
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