# Failed to use the sample dataset (sample\_ct.nii )

**URL:** <https://discourse.slicer.org/t/failed-to-use-the-sample-dataset-sample-ct-nii/40156>\
**Category:** Support\
**Created:** [November 12, 2024, 6:35pm UTC](https://discourse.slicer.org/t/failed-to-use-the-sample-dataset-sample-ct-nii/40156 "2024-11-12T18:35:15Z")\
**Posts on this page:** 3\
**Page:** 1

<div class="post-metadata">

**Author:** ![bkasmai](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/bkasmai/32/78363_2.png) [@bkasmai](https://discourse.slicer.org/u/bkasmai)\
**Post date:** [November 12, 2024, 6:35pm UTC](https://discourse.slicer.org/t/failed-to-use-the-sample-dataset-sample-ct-nii/40156/1 "2024-11-12T18:35:15Z")

</div>

Loaded a sample ct niftii dataset (example\_ct), clicked on Apply and selected Fast(~2 minutes). I get the following error:

```auto
Traceback (most recent call last):
  File "C:\Users\Bahman\AppData\Local\slicer.org\Slicer 5.6.2\bin\Python\slicer\util.py", line 3255, in tryWithErrorDisplay
    yield
  File "C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/slicer.org/Extensions-32448/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py", line 307, in onApplyButton
    self.logic.process(self.ui.inputVolumeSelector.currentNode(), self.ui.outputSegmentationSelector.currentNode(),
  File "C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/slicer.org/Extensions-32448/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py", line 1002, in process
    self.processVolume(inputFile, inputVolume,
  File "C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/slicer.org/Extensions-32448/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py", line 1076, in processVolume
    self.logProcessOutput(proc)
  File "C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/slicer.org/Extensions-32448/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py", line 848, in logProcessOutput
    raise CalledProcessError(retcode, proc.args, output=proc.stdout, stderr=proc.stderr)
subprocess.CalledProcessError: Command '['C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/bin/../bin\\PythonSlicer.EXE', 'C:\\Users\\Bahman\\AppData\\Local\\slicer.org\\Slicer 5.6.2\\lib\\Python\\Scripts\\TotalSegmentator.exe', '-i', 'C:/Users/Bahman/AppData/Local/Temp/Slicer/ __SlicerTemp__ 2024-11-12_18+27+58.379/total-segmentator-input.nii', '-o', 'C:/Users/Bahman/AppData/Local/Temp/Slicer/ __SlicerTemp__ 2024-11-12_18+27+58.379/segmentation', '--ml', '--task', 'total', '--fast']' returned non-zero exit status 1.

```

and in the console:

```auto
Requirement already satisfied: pillow<10.1 in c:\users\bahman\appdata\local\slicer.org\slicer 5.6.2\lib\python\lib\site-packages (10.0.1)
[Python] Failed to compute results.
[Python] Command '['C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/bin/../bin\\PythonSlicer.EXE', 'C:\\Users\\Bahman\\AppData\\Local\\slicer.org\\Slicer 5.6.2\\lib\\Python\\Scripts\\TotalSegmentator.exe', '-i', 'C:/Users/Bahman/AppData/Local/Temp/Slicer/ __SlicerTemp__ 2024-11-12_18+27+58.379/total-segmentator-input.nii', '-o', 'C:/Users/Bahman/AppData/Local/Temp/Slicer/ __SlicerTemp__ 2024-11-12_18+27+58.379/segmentation', '--ml', '--task', 'total', '--fast']' returned non-zero exit status 1.
Traceback (most recent call last):
  File "C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/slicer.org/Extensions-32448/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py", line 307, in onApplyButton
    self.logic.process(self.ui.inputVolumeSelector.currentNode(), self.ui.outputSegmentationSelector.currentNode(),
  File "C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/slicer.org/Extensions-32448/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py", line 1002, in process
    self.processVolume(inputFile, inputVolume,
  File "C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/slicer.org/Extensions-32448/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py", line 1076, in processVolume
    self.logProcessOutput(proc)
  File "C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/slicer.org/Extensions-32448/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py", line 848, in logProcessOutput
    raise CalledProcessError(retcode, proc.args, output=proc.stdout, stderr=proc.stderr)
subprocess.CalledProcessError: Command '['C:/Users/Bahman/AppData/Local/slicer.org/Slicer 5.6.2/bin/../bin\\PythonSlicer.EXE', 'C:\\Users\\Bahman\\AppData\\Local\\slicer.org\\Slicer 5.6.2\\lib\\Python\\Scripts\\TotalSegmentator.exe', '-i', 'C:/Users/Bahman/AppData/Local/Temp/Slicer/ __SlicerTemp__ 2024-11-12_18+27+58.379/total-segmentator-input.nii', '-o', 'C:/Users/Bahman/AppData/Local/Temp/Slicer/ __SlicerTemp__ 2024-11-12_18+27+58.379/segmentation', '--ml', '--task', 'total', '--fast']' returned non-zero exit status 1.

```

---

<div class="post-metadata">

**Author:** ![lassoan](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/lassoan/32/13_2.png) [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Post date:** [November 12, 2024, 6:51pm UTC](https://discourse.slicer.org/t/failed-to-use-the-sample-dataset-sample-ct-nii/40156/2 "2024-11-12T18:51:27Z")

</div>

A regression was introduced in one of the nnunet packages a few days ago ([TotalSegmentator Failed to compute results....returned non-zero exit status 1 - #9 by lassoan](https://discourse.slicer.org/t/totalsegmentator-failed-to-compute-results-returned-non-zero-exit-status-1/38142/9)). You can update or reinstall TotalSegmentator extension to fix the issue.

---

<div class="post-metadata">

**Author:** ![bkasmai](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/bkasmai/32/78363_2.png) [@bkasmai](https://discourse.slicer.org/u/bkasmai)\
**Post date:** [November 12, 2024, 6:58pm UTC](https://discourse.slicer.org/t/failed-to-use-the-sample-dataset-sample-ct-nii/40156/3 "2024-11-12T18:58:32Z")

</div>

Thanks so much. All ok now. I spent hours trying to find a solution.