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ClearVolume / clearvolume

ClearVolume is a real-time live 3D visualization library designed for high-end volumetric microscopes such as SPIM and DLSM microscopes. With ClearVolume you can see live on your screen the stacks acquired by your microscope instead of waiting for offline post-processing to give you an intuitive and comprehensive view on your data.
http://clearvolume.github.io
GNU Lesser General Public License v3.0
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Fails to run under fiji #43

Closed jimmib78 closed 7 years ago

jimmib78 commented 8 years ago

(Fiji Is Just) ImageJ 2.0.0-rc-44/1.50e; Java 1.8.0_60 [64-bit]; Windows 8.1 6.3; 3693MB of 97973MB (3%)

java.lang.RuntimeException: java.util.concurrent.ExecutionException: java.lang.NoClassDefFoundError: net/imglib2/util/Fraction at net.imagej.legacy.LegacyService.runLegacyCompatibleCommand(LegacyService.java:274) at net.imagej.legacy.DefaultLegacyHooks.interceptRunPlugIn(DefaultLegacyHooks.java:161) at ij.IJ.runPlugIn(IJ.java) at ij.Executer.runCommand(Executer.java:136) at ij.Executer.run(Executer.java:65) at java.lang.Thread.run(Unknown Source) Caused by: java.util.concurrent.ExecutionException: java.lang.NoClassDefFoundError: net/imglib2/util/Fraction at java.util.concurrent.FutureTask.report(Unknown Source) at java.util.concurrent.FutureTask.get(Unknown Source) at net.imagej.legacy.LegacyService.runLegacyCompatibleCommand(LegacyService.java:270) ... 5 more Caused by: java.lang.NoClassDefFoundError: net/imglib2/util/Fraction at de.mpicbg.jug.clearvolume.ClearVolumeUnsignedShortType.getEntitiesPerPixel(ClearVolumeUnsignedShortType.java:54) at de.mpicbg.jug.clearvolume.ClearVolumeUnsignedShortType.createSuitableNativeImg(ClearVolumeUnsignedShortType.java:320) at net.imglib2.img.array.ArrayImgFactory.create(ArrayImgFactory.java:62) at de.mpicbg.jug.clearvolume.ImgLib2ClearVolume.makeClearVolumeUnsignedShortTypeCopy(ImgLib2ClearVolume.java:380) at de.mpicbg.jug.clearvolume.ImgLib2ClearVolume.makeClearVolumeUnsignedShortTypeCopies(ImgLib2ClearVolume.java:354) at de.mpicbg.jug.clearvolume.ImgLib2ClearVolume.initRealImgs(ImgLib2ClearVolume.java:446) at de.mpicbg.jug.clearvolume.gui.ClearVolumeManager.run(ClearVolumeManager.java:182) at de.mpicbg.jug.clearvolume.gui.GenericClearVolumeGui.launchClearVolumeManager(GenericClearVolumeGui.java:303) at de.mpicbg.jug.clearvolume.gui.GenericClearVolumeGui.(GenericClearVolumeGui.java:160) at de.mpicbg.jug.plugins.ClearVolumePlugin.run(ClearVolumePlugin.java:86) at org.scijava.command.CommandModule.run(CommandModule.java:201) at org.scijava.module.ModuleRunner.run(ModuleRunner.java:167) at org.scijava.module.ModuleRunner.call(ModuleRunner.java:126) at org.scijava.module.ModuleRunner.call(ModuleRunner.java:65) at org.scijava.thread.DefaultThreadService$2.call(DefaultThreadService.java:191) at java.util.concurrent.FutureTask.run(Unknown Source) at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) ... 1 more Caused by: java.lang.ClassNotFoundException: net.imglib2.util.Fraction at java.net.URLClassLoader.findClass(Unknown Source) at java.lang.ClassLoader.loadClass(Unknown Source) at sun.misc.Launcher$AppClassLoader.loadClass(Unknown Source) at java.lang.ClassLoader.loadClass(Unknown Source) ... 19 more

skalarproduktraum commented 8 years ago

Hi James,

thanks for the report! I assume your Fiji installation is up-to-date and everything else works? The error itself looks a bit weird to me, as the imglib2.util.Fraction class is included with Fiji.

jimmib78 commented 8 years ago

Hi Ulrik, This was a fresh Fiji install and was updated. The only other thing I am having issues with is the 3D viewer.

Not sure if it relates to ongoing development. A lot of things seem a little unstable at the moment. Could it be related to Java8?

On Mon, Feb 1, 2016 at 10:14 PM, Ulrik Guenther notifications@github.com wrote:

Hi James,

thanks for the report! I assume your Fiji installation is up-to-date and everything else works? The error itself looks a bit weird to me, as the imglib2.util.Fraction class is included with Fiji.

— Reply to this email directly or view it on GitHub https://github.com/ClearVolume/ClearVolume/issues/43#issuecomment-177920115 .

ctrueden commented 8 years ago

I recommend using the _Help :arrowforward: Report a Bug command to generate the information about your installation, including which files are modified, missing, out of date, etc. You don't have to complete the bug report—just copy and paste the generated output regarding your JAR files here.

See also:

skalarproduktraum commented 7 years ago

As this was related to issues not related with ClearVolume, I'm closing the issue.