Operating system:Windows 10
Slicer version:4.11
Expected behavior: All the segmentation should be visible
Hi, all,
I changed my script to have some logging information during looping over all the subjects. After this change, each time when I using loadsegmentation, the segmentations are not visible. I need to select each of them manually. I do not know what happens.
I also check the slicer.ini and the log files. Could you help me with this?
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Session start time …: 2021-04-20 22:41:40
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Slicer version …: 4.11.20210226 (revision 29738 / 7a593c8) win-amd64 - installed release
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Operating system …: Windows / Professional / (Build 19042, Code Page 65001) - 64-bit
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Memory …: 130939 MB physical, 217805 MB virtual
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - CPU …: GenuineIntel , 24 cores, 24 logical processors
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - VTK configuration …: OpenGL2 rendering, TBB threading
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Qt configuration …: version 5.15.1, with SSL, requested OpenGL 3.2 (compatibility profile)
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Developer mode enabled …: no
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Prefer executable CLI …: yes
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Application path …: D:/GeTang/Slicer 4.11.20210226/bin
[DEBUG][Qt] 20.04.2021 22:41:40 (unknown:0) - Additional module paths …: NA-MIC/Extensions-29738/SlicerVMTK/lib/Slicer-4.11/qt-loadable-modules, NA-MIC/Extensions-29738/SlicerVMTK/lib/Slicer-4.11/qt-scripted-modules
[DEBUG][Python] 20.04.2021 22:41:42 [Python] (D:\GeTang\Slicer 4.11.20210226\lib\Python\Lib\site-packages\pydicom\datadict.py:432) - Reversing DICOM dictionary so can look up tag from a keyword…
[CRITICAL][Qt] 20.04.2021 22:41:42 (unknown:0) - Error(s):
CLI executable: D:/GeTang/Slicer 4.11.20210226/NA-MIC/Extensions-29738/SlicerVMTK/lib/Slicer-4.11/qt-loadable-modules/vtkvmtk.py
The process failed to start. Either the invoked program is missing, or you may have insufficient permissions to invoke the program.
[CRITICAL][Qt] 20.04.2021 22:41:42 (unknown:0) - Fail to instantiate module “vtkvmtk”
[CRITICAL][Qt] 20.04.2021 22:41:42 (unknown:0) - The following modules failed to be instantiated:
[CRITICAL][Qt] 20.04.2021 22:41:42 (unknown:0) - vtkvmtk
[DEBUG][Python] 20.04.2021 22:41:42 [Python] (D:\GeTang\Slicer 4.11.20210226\lib\Slicer-4.11\qt-scripted-modules\SubjectHierarchyPlugins\AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: Annotations
[DEBUG][Python] 20.04.2021 22:41:43 [Python] (D:\GeTang\Slicer 4.11.20210226\lib\Slicer-4.11\qt-scripted-modules\SubjectHierarchyPlugins\AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: SegmentEditor
[DEBUG][Python] 20.04.2021 22:41:43 [Python] (D:\GeTang\Slicer 4.11.20210226\lib\Slicer-4.11\qt-scripted-modules\SubjectHierarchyPlugins\AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: SegmentStatistics
[DEBUG][Qt] 20.04.2021 22:41:43 (unknown:0) - Switch to module: “Welcome”
[INFO][VTK] 20.04.2021 22:41:43 [vtkMRMLVolumeArchetypeStorageNode (00000230BE9D09A0)] (D:\D\S\Slicer-1\Libs\MRML\Core\vtkMRMLVolumeArchetypeStorageNode.cxx:509) - Loaded volume from file: D:/GeTang/Slicer 4.11.20210226/NA-MIC/Extensions-29738/SlicerVMTK/lib/Slicer-4.11/qt-scripted-modules/Resources/Vesselness.png. Dimensions: 65x50x1. Number of components: 3. Pixel type: unsigned char.
[INFO][Stream] 20.04.2021 22:41:44 (unknown:0) - Loading Slicer RC file [C:/Users/Ge Tang/.slicerrc.py]
[DEBUG][Qt] 20.04.2021 22:42:07 (unknown:0) - Python console user input: loadNodeFromFile(‘D:/GeTang/SANS/Segmented_data/Seg_Cosmo02mm.seg.nrrd’, ‘SegmentationFile’, {}, returnNode=False)
[ERROR][VTK] 20.04.2021 22:42:14 [vtkSegmentationConverter (00000230BE389920)] (D:\D\S\Slicer-1\Libs\vtkSegmentationCore\vtkSegmentationConverter.cxx:267) - SetConversionParameter: Conversion parameter ‘Default slice thickness’ not found in converter rules!
[ERROR][VTK] 20.04.2021 22:42:14 [vtkSegmentationConverter (00000230BE389920)] (D:\D\S\Slicer-1\Libs\vtkSegmentationCore\vtkSegmentationConverter.cxx:267) - SetConversionParameter: Conversion parameter ‘End capping’ not found in converter rules!
[DEBUG][Qt] 20.04.2021 22:42:15 (unknown:0) - “Segmentation” Reader has successfully read the file “D:/GeTang/SANS/Segmented_data/Seg_Cosmo02mm.seg.nrrd” “[8.77s]”
[INFO][Stream] 20.04.2021 22:42:16 (unknown:0) - (MRMLCorePython.vtkMRMLSegmentationNode)00000230C3023648
