Hi Wayne,
as I can see from the output you are not using a mask image. Did you use
a threshold when reconstructing your tensors/Qballs? This results in
voxels containing only 0, which again results in this issue with the
particle weight estimation. You can either use a mask image to restrict
the weight estimation and tracking to valid voxels or you should
reconstruct the image without the threshold to avoid zero-value voxels.
I recommend using a mask image because the particle weight estimation
will be much better if only performed inside of the brain/WM.
Cheers
Peter
On 05/02/2014 09:05 PM, Wayne Su wrote:
MITK-DT hanging on Gibbs Tracking Hi There,
I found MITK-DT was hanging on Gibbs Tracking whenever I set
“particle_length” “particle_width” or “particle_weight” to “auto” (“0”
for gtp file). Here are messages I got:
[Fri May 2 11:49:28 2014
0.320] In AutoLoadModulesFromPath at
/home/wsu/devel/MITK/Core/CppMicroServices/core/src/util/usUtils.cpp:160
: Auto-loading module /usr/local/MITK/bin/MitkCore/libMitkVtkShaders.so
[0.330] In AutoLoadModulesFromPath at
/home/wsu/devel/MITK/Core/CppMicroServices/core/src/util/usUtils.cpp:160
: Auto-loading module
/usr/local/MITK/bin/MitkCore/libMitkIpPicSupportIO.so
[0.340] In AutoLoadModulesFromPath at
/home/wsu/devel/MITK/Core/CppMicroServices/core/src/util/usUtils.cpp:160
: Auto-loading module /usr/local/MITK/bin/MitkCore/libMitkIOExt.so
[0.340] In AutoLoadModulesFromPath at
/home/wsu/devel/MITK/Core/CppMicroServices/core/src/util/usUtils.cpp:160
: Auto-loading module /usr/local/MITK/bin/MitkCore/libMitkDiffusionIO.so
[0.380] Start GibbsTracking ..
[4.770] Loading qball image ...
[5.290] GibbsTrackingFilter: generating default mask image
[5.290] GibbsTrackingFilter: loading parameter file param.gtp
[5.290] GibbsTrackingFilter: parameter file loaded successfully
[5.290] GibbsTrackingFilter: estimating particle weight
[5.290] SphereInterpolator: loading lookuptables
ParticleGrid: allocated 4mb for 100k particles.
EnergyComputer: 1130496 active voxels found
I guess something wrong with the automatic searching these parameters.
I also got following messages from MitkDIffusion GUI:
[56.780] enabling shader
[56.790] enabling shader
[56.820] enabling shader
#57.870# [VtkError] ERROR: ERROR: In
/home/wsu/devel/MITK-superbuild/VTK-src/Rendering/OpenGL/vtkShader2.cxx,
line 82
vtkShader2 (0x5ffa570): failed at glDeleteShader 1 OpenGL errors detected
0 : (1281) Invalid value
#57.870# [VtkError] ERROR: ERROR: In
/home/wsu/devel/MITK-superbuild/VTK-src/Rendering/OpenGL/vtkShader2.cxx,
line 82
vtkShader2 (0x5fe0fe0): failed at glDeleteShader 1 OpenGL errors detected
0 : (1281) Invalid value
#57.870# [VtkError] ERROR: ERROR: In
/home/wsu/devel/MITK-superbuild/VTK-src/Rendering/OpenGL/vtkShaderProgram2.cxx,
line 103
vtkShaderProgram2 (0x5a80fd0): failed at glDeleteProgram 1 OpenGL
errors detected
0 : (1281) Invalid value
#57.870# [VtkError] ERROR: ERROR: In
/home/wsu/devel/MITK-superbuild/VTK-src/Rendering/OpenGL/vtkShader2.cxx,
line 82
vtkShader2 (0x57609d0): failed at glDeleteShader 1 OpenGL errors detected
0 : (1281) Invalid value
#57.870# [VtkError] ERROR: ERROR: In
/home/wsu/devel/MITK-superbuild/VTK-src/Rendering/OpenGL/vtkShader2.cxx,
line 82
vtkShader2 (0x567ab10): failed at glDeleteShader 1 OpenGL errors detected
0 : (1281) Invalid value
#57.870# [VtkError] ERROR: ERROR: In
/home/wsu/devel/MITK-superbuild/VTK-src/Rendering/OpenGL/vtkShaderProgram2.cxx,
line 103
vtkShaderProgram2 (0x657c8d0): failed at glDeleteProgram 1 OpenGL
errors detected
0 : (1281) Invalid value
I tried the official release and found the same issues.
Wayne
--
Dipl.-Inform. Peter Neher
German Cancer Research Center
(DKFZ, Deutsches Krebsforschungszentrum in der Helmholtz-Gemeinschaft, Stiftung
des öffentlichen Rechts)
Division of Medical and Biological Informatics
Im Neuenheimer Feld 280, D-69120 Heidelberg
Phone: 49-(0)6221-42-3552, Fax: 49-(0)6221-42-2345
E-Mail: [email protected], Web: www.dkfz.de
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