TotalSegmentator
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wasserth
Total segmentator stuck on tissue types
Using Slicer 5.6 with Total Segmentator 2.0.5 on Ubuntu 22.04
When selecting tissue types it gets stuck after Saving segmentations:
[INFO][Python] 29.11.2023 13:35:55 [Python] (/opt/slicer/slicer.org/Extensions-32390/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py:544) - Saving segmentations...
[INFO][Python] 29.11.2023 13:35:55 [Python] (/opt/slicer/slicer.org/Extensions-32390/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py:544) -
[INFO][Python] 29.11.2023 13:36:20 [Python] (/opt/slicer/slicer.org/Extensions-32390/TotalSegmentator/lib/Slicer-5.6/qt-scripted-modules/TotalSegmentator.py:544) - 0%| | 0/117 [00:00<?, ?it/s]
# nvidia-smi
Wed Nov 29 13:40:13 2023
+---------------------------------------------------------------------------------------+
| NVIDIA-SMI 535.129.03 Driver Version: 535.129.03 CUDA Version: 12.2 |
|-----------------------------------------+----------------------+----------------------+
| GPU Name Persistence-M | Bus-Id Disp.A | Volatile Uncorr. ECC |
| Fan Temp Perf Pwr:Usage/Cap | Memory-Usage | GPU-Util Compute M. |
| | | MIG M. |
|=========================================+======================+======================|
| 0 Tesla P40 Off | 00000000:01:00.0 Off | Off |
| N/A 34C P0 51W / 250W | 1406MiB / 24576MiB | 0% Default |
| | | N/A |
+-----------------------------------------+----------------------+----------------------+
+---------------------------------------------------------------------------------------+
| Processes: |
| GPU GI CI PID Type Process name GPU Memory |
| ID ID Usage |
|=======================================================================================|
| 0 N/A N/A 38108 C /opt/slicer/bin/./python-real 1404MiB |
+---------------------------------------------------------------------------------------+
Processes seem to be dead:
PID USER PR NI VIRT RES SHR S %CPU %MEM TIME+ COMMAND
38108 daniel 39 19 19.4g 2.2g 132228 S 0.0 15.1 0:29.82 /opt/slicer/bin/./python-real /opt/slicer/lib/Python/bin/TotalSegmentator -i /tmp/Slicer-daniel/__SlicerTemp__2023-11-29_13+35+22.380/total-segmentator-input.nii -o /tmp/Slicer-daniel/__SlicerTemp+
38794 daniel 39 19 19.4g 2.2g 108196 S 0.0 15.0 0:50.36 /opt/slicer/bin/./python-real /opt/slicer/lib/Python/bin/TotalSegmentator -i /tmp/Slicer-daniel/__SlicerTemp__2023-11-29_13+35+22.380/total-segmentator-input.nii -o /tmp/Slicer-daniel/__SlicerTemp+
38596 daniel 39 19 19.4g 2.2g 106312 S 0.0 14.9 0:53.07 /opt/slicer/bin/./python-real /opt/slicer/lib/Python/bin/TotalSegmentator -i /tmp/Slicer-daniel/__SlicerTemp__2023-11-29_13+35+22.380/total-segmentator-input.nii -o /tmp/Slicer-daniel/__SlicerTemp+
38593 daniel 39 19 19.4g 2.2g 106340 S 0.0 14.9 0:53.42 /opt/slicer/bin/./python-real /opt/slicer/lib/Python/bin/TotalSegmentator -i /tmp/Slicer-daniel/__SlicerTemp__2023-11-29_13+35+22.380/total-segmentator-input.nii -o /tmp/Slicer-daniel/__SlicerTemp+
38597 daniel 39 19 19.4g 2.2g 106332 S 0.0 14.9 0:54.31 /opt/slicer/bin/./python-real /opt/slicer/lib/Python/bin/TotalSegmentator -i /tmp/Slicer-daniel/__SlicerTemp__2023-11-29_13+35+22.380/total-segmentator-input.nii -o /tmp/Slicer-daniel/__SlicerTemp+
38595 daniel 39 19 19.4g 2.2g 106280 S 0.0 14.9 0:53.90 /opt/slicer/bin/./python-real /opt/slicer/lib/Python/bin/TotalSegmentator -i /tmp/Slicer-daniel/__SlicerTemp__2023-11-29_13+35+22.380/total-segmentator-input.nii -o /tmp/Slicer-daniel/__SlicerTemp+
38592 daniel 39 19 19.4g 2.2g 106340 S 0.0 14.9 0:53.57 /opt/slicer/bin/./python-real /opt/slicer/lib/Python/bin/TotalSegmentator -i /tmp/Slicer-daniel/__SlicerTemp__2023-11-29_13+35+22.380/total-segmentator-input.nii -o /tmp/Slicer-daniel/__SlicerTemp+
I've added the licence.
