issue with segment editor

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issue with segment editor

tarun14110
I am getting error while using `grow from seeds` algorithm in segment editor.
I marks different segment, and when I tries to run `grow from seeds` algorithm, it displays a pop-up saying "Slicer has caught an internal error."

Below are the logs. What may be the issue?


`[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Session start time .......: 2017-04-19 12:06:43
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Slicer version ...........: 4.7.0-2017-04-15 (revision 25933) linux-amd64 - installed
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Operating system .........: Linux / 4.4.0-71-generic / #92~14.04.1-Ubuntu SMP Fri Mar 24 15:22:50 UTC 2017 - 64-bit
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Memory ...................: 7887 MB physical, 8094 MB virtual
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - CPU ......................: GenuineIntel Intel(R) Core(TM) i7-4510U CPU @ 2.00GHz, 1 cores, 4 logical processors
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Developer mode enabled ...: yes
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Prefer executable CLI ....: yes
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Additional module paths ..: (none)
[DEBUG][Python] 19.04.2017 12:06:57 [Python] (/home/mafia/Downloads/Slicer-4.7.0-2017-04-15-linux-amd64/lib/Slicer-4.7/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: Annotations
[DEBUG][Python] 19.04.2017 12:06:57 [Python] (/home/mafia/Downloads/Slicer-4.7.0-2017-04-15-linux-amd64/lib/Slicer-4.7/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: SegmentEditor
[DEBUG][Python] 19.04.2017 12:06:57 [Python] (/home/mafia/Downloads/Slicer-4.7.0-2017-04-15-linux-amd64/lib/Slicer-4.7/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: SegmentStatistics
[DEBUG][Qt] 19.04.2017 12:06:48 [] (unknown:0) - Number of registered modules: 140
[DEBUG][Qt] 19.04.2017 12:06:53 [] (unknown:0) - Number of instantiated modules: 140
[WARNING][Qt] 19.04.2017 12:06:57 [] (unknown:0) - When loading module  "CLIEventTest" , the dependency "CLI4Test" failed to be loaded.
[INFO][Stream] 19.04.2017 12:06:57 [] (unknown:0) - Initializing terminology mapping for map file /home/mafia/Downloads/Slicer-4.7.0-2017-04-15-linux-amd64/share/Slicer-4.7/ColorFiles/Terminology//GenericAnatomyColors-SNOMED.csv
[INFO][Stream] 19.04.2017 12:06:57 [] (unknown:0) - 288 terms were read for Slicer LUT GenericAnatomyColors
[WARNING][Qt] 19.04.2017 12:06:58 [] (unknown:0) - When loading module  "TwoCLIsInARowTest" , the dependency "CLI4Test" failed to be loaded.
[WARNING][Qt] 19.04.2017 12:06:58 [] (unknown:0) - When loading module  "TwoCLIsInParallelTest" , the dependency "CLI4Test" failed to be loaded.
[DEBUG][Qt] 19.04.2017 12:06:58 [] (unknown:0) - Number of loaded modules: 137
[DEBUG][Qt] 19.04.2017 12:06:58 [] (unknown:0) - Switch to module:  "Welcome"
[ERROR][VTK] 19.04.2017 12:07:25 [vtkITKArchetypeDiffusionTensorImageReaderFile (0x579ade0)] (/home/kitware/Dashboards/Nightly/Slicer-0/Libs/vtkITK/vtkITKArchetypeDiffusionTensorImageReaderFile.cxx:169) - There is more than one file, use the vtkITKArchetypeImageSeriesReader instead
[INFO][VTK] 19.04.2017 12:08:27 [vtkMRMLVolumeArchetypeStorageNode (0xf1ab7a0)] (/home/kitware/Dashboards/Nightly/Slicer-0/Libs/MRML/Core/vtkMRMLVolumeArchetypeStorageNode.cxx:452) - Loaded volume from file: /home/mafia/Documents/VolumeDatasets/OBELIX/Specials 1_COMBI_CORONARY_SMH/WholeBody  2.0  B20f/IM-0001-0001.dcm. Dimensions: 512x512x1559. Number of components: 1. Pixel type: short.
[DEBUG][Qt] 19.04.2017 12:08:27 [] (unknown:0) - "Volume" Reader has successfully read the file "/home/mafia/Documents/VolumeDatasets/OBELIX/Specials 1_COMBI_CORONARY_SMH/WholeBody  2.0  B20f/IM-0001-0001.dcm" "[78.18s]"
[DEBUG][Qt] 19.04.2017 12:08:36 [] (unknown:0) - Switch to module:  "SegmentEditor"
[CRITICAL][Qt] 19.04.2017 12:17:01 [] (unknown:0) - "Slicer has caught an internal error.

You may be able to continue from this point, but results are undefined.

Suggested action is to save your work and restart.

If you have a repeatable sequence of steps that causes this message, please report the issue following instructions available at http://slicer.org


The message detail is:

Exception thrown in event: std::bad_alloc"
`

--
Regards,
Tarun kumar yadav
B.Tech 3rd year (CSE)

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Re: issue with segment editor

Steve Pieper-2
Hi Tarun - 

The 'std::bad_alloc' event means the program ran out of memory.  You can try downsampling or cropping your data before segmenting.

Hope that helps,
Steve

On Wed, Apr 19, 2017 at 2:52 AM, Tarun Kumar Yadav <[hidden email]> wrote:
I am getting error while using `grow from seeds` algorithm in segment editor.
I marks different segment, and when I tries to run `grow from seeds` algorithm, it displays a pop-up saying "Slicer has caught an internal error."

Below are the logs. What may be the issue?


`[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Session start time .......: 2017-04-19 12:06:43
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Slicer version ...........: 4.7.0-2017-04-15 (revision 25933) linux-amd64 - installed
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Operating system .........: Linux / 4.4.0-71-generic / #92~14.04.1-Ubuntu SMP Fri Mar 24 15:22:50 UTC 2017 - 64-bit
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Memory ...................: 7887 MB physical, 8094 MB virtual
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - CPU ......................: GenuineIntel Intel(R) Core(TM) i7-4510U CPU @ 2.00GHz, 1 cores, 4 logical processors
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Developer mode enabled ...: yes
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Prefer executable CLI ....: yes
[DEBUG][Qt] 19.04.2017 12:06:43 [] (unknown:0) - Additional module paths ..: (none)
[DEBUG][Python] 19.04.2017 12:06:57 [Python] (/home/mafia/Downloads/Slicer-4.7.0-2017-04-15-linux-amd64/lib/Slicer-4.7/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: Annotations
[DEBUG][Python] 19.04.2017 12:06:57 [Python] (/home/mafia/Downloads/Slicer-4.7.0-2017-04-15-linux-amd64/lib/Slicer-4.7/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: SegmentEditor
[DEBUG][Python] 19.04.2017 12:06:57 [Python] (/home/mafia/Downloads/Slicer-4.7.0-2017-04-15-linux-amd64/lib/Slicer-4.7/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:36) - Scripted subject hierarchy plugin registered: SegmentStatistics
[DEBUG][Qt] 19.04.2017 12:06:48 [] (unknown:0) - Number of registered modules: 140
[DEBUG][Qt] 19.04.2017 12:06:53 [] (unknown:0) - Number of instantiated modules: 140
[WARNING][Qt] 19.04.2017 12:06:57 [] (unknown:0) - When loading module  "CLIEventTest" , the dependency "CLI4Test" failed to be loaded.
[INFO][Stream] 19.04.2017 12:06:57 [] (unknown:0) - Initializing terminology mapping for map file /home/mafia/Downloads/Slicer-4.7.0-2017-04-15-linux-amd64/share/Slicer-4.7/ColorFiles/Terminology//GenericAnatomyColors-SNOMED.csv
[INFO][Stream] 19.04.2017 12:06:57 [] (unknown:0) - 288 terms were read for Slicer LUT GenericAnatomyColors
[WARNING][Qt] 19.04.2017 12:06:58 [] (unknown:0) - When loading module  "TwoCLIsInARowTest" , the dependency "CLI4Test" failed to be loaded.
[WARNING][Qt] 19.04.2017 12:06:58 [] (unknown:0) - When loading module  "TwoCLIsInParallelTest" , the dependency "CLI4Test" failed to be loaded.
[DEBUG][Qt] 19.04.2017 12:06:58 [] (unknown:0) - Number of loaded modules: 137
[DEBUG][Qt] 19.04.2017 12:06:58 [] (unknown:0) - Switch to module:  "Welcome"
[ERROR][VTK] 19.04.2017 12:07:25 [vtkITKArchetypeDiffusionTensorImageReaderFile (0x579ade0)] (/home/kitware/Dashboards/Nightly/Slicer-0/Libs/vtkITK/vtkITKArchetypeDiffusionTensorImageReaderFile.cxx:169) - There is more than one file, use the vtkITKArchetypeImageSeriesReader instead
[INFO][VTK] 19.04.2017 12:08:27 [vtkMRMLVolumeArchetypeStorageNode (0xf1ab7a0)] (/home/kitware/Dashboards/Nightly/Slicer-0/Libs/MRML/Core/vtkMRMLVolumeArchetypeStorageNode.cxx:452) - Loaded volume from file: /home/mafia/Documents/VolumeDatasets/OBELIX/Specials 1_COMBI_CORONARY_SMH/WholeBody  2.0  B20f/IM-0001-0001.dcm. Dimensions: 512x512x1559. Number of components: 1. Pixel type: short.
[DEBUG][Qt] 19.04.2017 12:08:27 [] (unknown:0) - "Volume" Reader has successfully read the file "/home/mafia/Documents/VolumeDatasets/OBELIX/Specials 1_COMBI_CORONARY_SMH/WholeBody  2.0  B20f/IM-0001-0001.dcm" "[78.18s]"
[DEBUG][Qt] 19.04.2017 12:08:36 [] (unknown:0) - Switch to module:  "SegmentEditor"
[CRITICAL][Qt] 19.04.2017 12:17:01 [] (unknown:0) - "Slicer has caught an internal error.

You may be able to continue from this point, but results are undefined.

Suggested action is to save your work and restart.

If you have a repeatable sequence of steps that causes this message, please report the issue following instructions available at http://slicer.org


The message detail is:

Exception thrown in event: std::bad_alloc"
`

--
Regards,
Tarun kumar yadav
B.Tech 3rd year (CSE)

_______________________________________________
slicer-users mailing list
[hidden email]
http://massmail.spl.harvard.edu/mailman/listinfo/slicer-users
To unsubscribe: send email to [hidden email] with unsubscribe as the subject
http://www.slicer.org/slicerWiki/index.php/Documentation/4.3/FAQ


_______________________________________________
slicer-users mailing list
[hidden email]
http://massmail.spl.harvard.edu/mailman/listinfo/slicer-users
To unsubscribe: send email to [hidden email] with unsubscribe as the subject
http://www.slicer.org/slicerWiki/index.php/Documentation/4.3/FAQ