Open BdCyril opened 6 years ago
Hi Cyril,
could you please give us some more details? Such as, what operating system you are using, and what graphics card, and if there's any output in the console window.
Thanks!
Dear,
Thank you very much for your reply. I am using Windows 10, Processor I7, 3.40 GHz, 32 GB RAM, 64 bits. For the Graphic card it is Nvidia NVS 310. Yes once I run ClearVolume, I got the message reported below.
Thank you for your support. Kind regards, Cyril
'
ClearGLWindow: GLProfile[GL4bc/GL4bc.hw]
1.0
1.0
1.0
WindowsException in thread "SciJava-392a04e7-Thread-5-FPSAWTAnimator#01-Timer1" com.jogamp.opengl.util.AnimatorBase$UncaughtAnimatorException: com.jogamp.opengl.GLException: Caught NoClassDefFoundError: Could not initialize class clearcl.backend.jocl.ClearCLBackendJOCL on thread SciJava-392a04e7-Thread-5-FPSAWTAnimator#01-Timer1
at com.jogamp.opengl.util.AWTAnimatorImpl.display(AWTAnimatorImpl.java:92)
at com.jogamp.opengl.util.AnimatorBase.display(AnimatorBase.java:452)
at com.jogamp.opengl.util.FPSAnimator$MainTask.run(FPSAnimator.java:178)
at java.util.TimerThread.mainLoop(Timer.java:555)
at java.util.TimerThread.run(Timer.java:505)
Caused by: com.jogamp.opengl.GLException: Caught NoClassDefFoundError: Could not initialize class clearcl.backend.jocl.ClearCLBackendJOCL on thread SciJava-392a04e7-Thread-5-FPSAWTAnimator#01-Timer1
at com.jogamp.opengl.GLException.newGLException(GLException.java:76)
at jogamp.opengl.GLDrawableHelper.invokeGLImpl(GLDrawableHelper.java:1327)
at jogamp.opengl.GLDrawableHelper.invokeGL(GLDrawableHelper.java:1147)
at com.jogamp.newt.opengl.GLWindow.display(GLWindow.java:759)
at com.jogamp.opengl.util.AWTAnimatorImpl.display(AWTAnimatorImpl.java:81)
... 4 more
Caused by: java.lang.NoClassDefFoundError: Could not initialize class clearcl.backend.jocl.ClearCLBackendJOCL
at clearcl.backend.ClearCLBackends.getBackendList(ClearCLBackends.java:30)
at clearcl.backend.ClearCLBackends.getFunctionalBackend(ClearCLBackends.java:65)
at clearcl.backend.ClearCLBackends.getBestBackend(ClearCLBackends.java:99)
at clearvolume.renderer.opencl.OpenCLDevice.initCL(OpenCLDevice.java:48)
at clearvolume.renderer.opencl.OpenCLVolumeRenderer.initVolumeRenderer(OpenCLVolumeRenderer.java:130)
at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.init(ClearGLVolumeRenderer.java:818)
at jogamp.opengl.GLDrawableHelper.init(GLDrawableHelper.java:644)
at jogamp.opengl.GLDrawableHelper.init(GLDrawableHelper.java:667)
at jogamp.opengl.GLAutoDrawableBase$1.run(GLAutoDrawableBase.java:431)
at jogamp.opengl.GLDrawableHelper.invokeGLImpl(GLDrawableHelper.java:1291)
... 7 more
java.lang.NullPointerException
at cleargl.GLTexture.
Try this: get new fresh version of Fiji, install clearvolume but do not install anything else in particular the 3D viewer (incompatibility of the jogl libraries could be a culprit)
Sent from my iPhone
On Jul 27, 2018, at 16:27, BdCyril notifications@github.com wrote:
Dear,
Thank you very much for your reply. I am using Windows 10, Processor I7, 3.40 GHz, 32 GB RAM, 64 bits. For the Graphic card it is Nvidia NVS 310. Yes once I run ClearVolume, I got the message reported below.
Thank you for your support. Kind regards, Cyril
' ClearGLWindow: GLProfile[GL4bc/GL4bc.hw] 1.0 1.0 1.0 WindowsException in thread "SciJava-392a04e7-Thread-5-FPSAWTAnimator#01-Timer1" com.jogamp.opengl.util.AnimatorBase$UncaughtAnimatorException: com.jogamp.opengl.GLException: Caught NoClassDefFoundError: Could not initialize class clearcl.backend.jocl.ClearCLBackendJOCL on thread SciJava-392a04e7-Thread-5-FPSAWTAnimator#01-Timer1 at com.jogamp.opengl.util.AWTAnimatorImpl.display(AWTAnimatorImpl.java:92) at com.jogamp.opengl.util.AnimatorBase.display(AnimatorBase.java:452) at com.jogamp.opengl.util.FPSAnimator$MainTask.run(FPSAnimator.java:178) at java.util.TimerThread.mainLoop(Timer.java:555) at java.util.TimerThread.run(Timer.java:505) Caused by: com.jogamp.opengl.GLException: Caught NoClassDefFoundError: Could not initialize class clearcl.backend.jocl.ClearCLBackendJOCL on thread SciJava-392a04e7-Thread-5-FPSAWTAnimator#01-Timer1 at com.jogamp.opengl.GLException.newGLException(GLException.java:76) at jogamp.opengl.GLDrawableHelper.invokeGLImpl(GLDrawableHelper.java:1327) at jogamp.opengl.GLDrawableHelper.invokeGL(GLDrawableHelper.java:1147) at com.jogamp.newt.opengl.GLWindow.display(GLWindow.java:759) at com.jogamp.opengl.util.AWTAnimatorImpl.display(AWTAnimatorImpl.java:81) ... 4 more Caused by: java.lang.NoClassDefFoundError: Could not initialize class clearcl.backend.jocl.ClearCLBackendJOCL at clearcl.backend.ClearCLBackends.getBackendList(ClearCLBackends.java:30) at clearcl.backend.ClearCLBackends.getFunctionalBackend(ClearCLBackends.java:65) at clearcl.backend.ClearCLBackends.getBestBackend(ClearCLBackends.java:99) at clearvolume.renderer.opencl.OpenCLDevice.initCL(OpenCLDevice.java:48) at clearvolume.renderer.opencl.OpenCLVolumeRenderer.initVolumeRenderer(OpenCLVolumeRenderer.java:130) at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.init(ClearGLVolumeRenderer.java:818) at jogamp.opengl.GLDrawableHelper.init(GLDrawableHelper.java:644) at jogamp.opengl.GLDrawableHelper.init(GLDrawableHelper.java:667) at jogamp.opengl.GLAutoDrawableBase$1.run(GLAutoDrawableBase.java:431) at jogamp.opengl.GLDrawableHelper.invokeGLImpl(GLDrawableHelper.java:1291) ... 7 more java.lang.NullPointerException at cleargl.GLTexture.(GLTexture.java:141) at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.ensureTextureAllocated(ClearGLVolumeRenderer.java:630) at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.displayInternal(ClearGLVolumeRenderer.java:508) at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.display(ClearGLVolumeRenderer.java:490) at jogamp.opengl.GLDrawableHelper.displayImpl(GLDrawableHelper.java:692) at jogamp.opengl.GLDrawableHelper.display(GLDrawableHelper.java:674) at jogamp.opengl.GLAutoDrawableBase$2.run(GLAutoDrawableBase.java:443) at jogamp.opengl.GLDrawableHelper.invokeGLImpl(GLDrawableHelper.java:1293) at jogamp.opengl.GLDrawableHelper.invokeGL(GLDrawableHelper.java:1147) at com.jogamp.newt.opengl.GLWindow.display(GLWindow.java:759) at jogamp.opengl.GLAutoDrawableBase.defaultWindowRepaintOp(GLAutoDrawableBase.java:215) at com.jogamp.newt.opengl.GLWindow.access$100(GLWindow.java:119) at com.jogamp.newt.opengl.GLWindow$2.windowRepaint(GLWindow.java:136) at jogamp.newt.WindowImpl.consumeWindowEvent(WindowImpl.java:4401) at jogamp.newt.WindowImpl.consumeEvent(WindowImpl.java:3372) at jogamp.newt.WindowImpl.doEvent(WindowImpl.java:3318) at jogamp.newt.WindowImpl.windowRepaint(WindowImpl.java:4715) at jogamp.newt.driver.windows.DisplayDriver.DispatchMessages0(Native Method) at jogamp.newt.driver.windows.DisplayDriver.dispatchMessagesNative(DisplayDriver.java:124) at jogamp.newt.DisplayImpl.dispatchMessages(DisplayImpl.java:753) at jogamp.newt.DisplayImpl$7.run(DisplayImpl.java:672) at jogamp.newt.DefaultEDTUtil$NEDT.run(DefaultEDTUtil.java:347) java.lang.NullPointerException at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.displayInternal(ClearGLVolumeRenderer.java:571) at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.display(ClearGLVolumeRenderer.java:490) at jogamp.opengl.GLDrawableHelper.displayImpl(GLDrawableHelper.java:692) at jogamp.opengl.GLDrawableHelper.display(GLDrawableHelper.java:674) at jogamp.opengl.GLAutoDrawableBase$2.run(GLAutoDrawableBase.java:443) at jogamp.opengl.GLDrawableHelper.invokeGLImpl(GLDrawableHelper.java:1293) at jogamp.opengl.GLDrawableHelper.invokeGL(GLDrawableHelper.java:1147) at com.jogamp.newt.opengl.GLWindow.display(GLWindow.java:759) at jogamp.opengl.GLAutoDrawableBase.defaultWindowRepaintOp(GLAutoDrawableBase.java:215) at com.jogamp.newt.opengl.GLWindow.access$100(GLWindow.java:119) at com.jogamp.newt.opengl.GLWindow$2.windowRepaint(GLWindow.java:136) at jogamp.newt.WindowImpl.consumeWindowEvent(WindowImpl.java:4401) at jogamp.newt.WindowImpl.consumeEvent(WindowImpl.java:3372) at jogamp.newt.WindowImpl.doEvent(WindowImpl.java:3318) at jogamp.newt.WindowImpl.windowRepaint(WindowImpl.java:4715) at jogamp.newt.WindowImpl.windowRepaint(WindowImpl.java:4694) at com.jogamp.newt.opengl.GLWindow.windowRepaint(GLWindow.java:810) at com.jogamp.newt.awt.NewtCanvasAWT.paint(NewtCanvasAWT.java:732) at sun.awt.RepaintArea.paintComponent(RepaintArea.java:264) at sun.awt.RepaintArea.paint(RepaintArea.java:240) at sun.awt.windows.WComponentPeer.handleEvent(WComponentPeer.java:358) at java.awt.Component.dispatchEventImpl(Component.java:4965) at java.awt.Component.dispatchEvent(Component.java:4711) at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:760) 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:74) at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:84) at java.awt.EventQueue$4.run(EventQueue.java:733) at java.awt.EventQueue$4.run(EventQueue.java:731) at java.security.AccessController.doPrivileged(Native Method) at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:74) at java.awt.EventQueue.dispatchEvent(EventQueue.java:730) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:205) 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) java.lang.NullPointerException at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.displayInternal(ClearGLVolumeRenderer.java:571) at clearvolume.renderer.cleargl.ClearGLVolumeRenderer.display(ClearGLVolumeRenderer.java:490) at jogamp.opengl.GLDrawableHelper.displayImpl(GLDrawableHelper.java:692) at jogamp.opengl.GLDrawableHelper.display(GLDrawableHelper.java:674) at jogamp.opengl.GLAutoDrawableBase$2.run(GLAutoDrawableBase.java:443) at jogamp.opengl.GLDrawableHelper.invokeGLImpl(GLDrawableHelper.java:1293) at jogamp.opengl.GLDrawableHelper.invokeGL(GLDrawableHelper.java:1147) at com.jogamp.newt.opengl.GLWindow.display(GLWindow.java:759) at jogamp.opengl.GLAutoDrawableBase.defaultWindowRepaintOp(GLAutoDrawableBase.java:215) at com.jogamp.newt.opengl.GLWindow.access$100(GLWindow.java:119) at com.jogamp.newt.opengl.GLWindow$2.windowRepaint(GLWindow.java:136) at jogamp.newt.WindowImpl.consumeWindowEvent(WindowImpl.java:4401) at jogamp.newt.WindowImpl.consumeEvent(WindowImpl.java:3372) at jogamp.newt.WindowImpl.doEvent(WindowImpl.java:3318) at jogamp.newt.WindowImpl.windowRepaint(WindowImpl.java:4715) at jogamp.newt.WindowImpl.windowRepaint(WindowImpl.java:4694) at com.jogamp.newt.opengl.GLWindow.windowRepaint(GLWindow.java:810) at com.jogamp.newt.awt.NewtCanvasAWT.paint(NewtCanvasAWT.java:732) at sun.awt.RepaintArea.paintComponent(RepaintArea.java:264) at sun.awt.RepaintArea.paint(RepaintArea.java:240) at sun.awt.windows.WComponentPeer.handleEvent(WComponentPeer.java:358) at java.awt.Component.dispatchEventImpl(Component.java:4965) at java.awt.Component.dispatchEvent(Component.java:4711) at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:760) 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:74) at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:84) at java.awt.EventQueue$4.run(EventQueue.java:733) at java.awt.EventQueue$4.run(EventQueue.java:731) at java.security.AccessController.doPrivileged(Native Method) at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:74) at java.awt.EventQueue.dispatchEvent(EventQueue.java:730) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:205) 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) '
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Dear,
Thank you for the answer. I tried to install Fiji as you advised, ClearVolume and I removed 3D viewer plugin, but I still have the same issue.
Thank you for your support. Kind regards, Cyril
null
ClearGLWindow: GLProfile[GL4bc/GL4bc.hw]
1.0
1.0
1.0
WindowsException in thread "SciJava-5b022357-Thread-1-FPSAWTAnimator#00-Timer0" com.jogamp.opengl.util.AnimatorBase$UncaughtAnimatorException: com.jogamp.opengl.GLException: Caught UnsatisfiedLinkError: Could not initialize native OpenCL library. Implementation library could not be loaded on thread SciJava-5b022357-Thread-1-FPSAWTAnimator#00-Timer0
at com.jogamp.opengl.util.AWTAnimatorImpl.display(AWTAnimatorImpl.java:92)
at com.jogamp.opengl.util.AnimatorBase.display(AnimatorBase.java:452)
at com.jogamp.opengl.util.FPSAnimator$MainTask.run(FPSAnimator.java:178)
at java.util.TimerThread.mainLoop(Timer.java:555)
at java.util.TimerThread.run(Timer.java:505)
Caused by: com.jogamp.opengl.GLException: Caught UnsatisfiedLinkError: Could not initialize native OpenCL library. Implementation library could not be loaded on thread SciJava-5b022357-Thread-1-FPSAWTAnimator#00-Timer0
at com.jogamp.opengl.GLException.newGLException(GLException.java:76)
at jogamp.opengl.GLDrawableHelper.invokeGLImpl(GLDrawableHelper.java:1327)
at jogamp.opengl.GLDrawableHelper.invokeGL(GLDrawableHelper.java:1147)
at com.jogamp.newt.opengl.GLWindow.display(GLWindow.java:759)
at com.jogamp.opengl.util.AWTAnimatorImpl.display(AWTAnimatorImpl.java:81)
... 4 more
Caused by: java.lang.UnsatisfiedLinkError: Could not initialize native OpenCL library. Implementation library could not be loaded
at org.jocl.LibInitializer.initNativeLibrary(LibInitializer.java:74)
at org.jocl.CL.loadNativeLibrary(CL.java:66)
at org.jocl.CL.
Dear,
I installed ClearVolume using the uptades from Fiji. After importing the 8-bits Tiff images as a sequence, once I loaded ClearVolume, I saw the software which started but no image. I got 3D viewer and Java8 installed.
Thank you for your support. Kind regards, Cyril