Unable to conduct segmentation

[dentistfrankchen]

Hi guys, I got a log that looks like this:

I am using Amazon linux 2.
The cuda configuration has no problem.

2025/01/29 12:38:20.345 :: nnUNet is already installed (2.5.1) and compatible with requested version (nnunetv2).
2025/01/29 12:38:21.201 :: Transferring volume to nnUNet in /tmp/Slicer-IehaBL
2025/01/29 12:38:45.418 :: Starting nnUNet with the following parameters:
2025/01/29 12:38:45.418 ::
2025/01/29 12:38:45.418 :: /home/ec2-user/Slicer-5.7.0-2024-10-01-linux-amd64/lib/Python/bin/nnUNetv2_predict -i /tmp/Slicer-IehaBL/input -o /tmp/Slicer-IehaBL/output -d Dataset111_453CT -tr nnUNetTrainer -p nnUNetPlans -c 3d_fullres -f 0 -npp 1 -nps 1 -step_size 0.5 -device cuda -chk checkpoint_final.pth --disable_tta
2025/01/29 12:38:45.418 ::
2025/01/29 12:38:45.418 :: JSON parameters :
2025/01/29 12:38:45.418 :: {
2025/01/29 12:38:45.418 :: "folds": "0",
2025/01/29 12:38:45.418 :: "device": "cuda",
2025/01/29 12:38:45.418 :: "stepSize": 0.5,
2025/01/29 12:38:45.418 :: "disableTta": true,
2025/01/29 12:38:45.418 :: "nProcessPreprocessing": 1,
2025/01/29 12:38:45.418 :: "nProcessSegmentationExport": 1,
2025/01/29 12:38:45.418 :: "checkPointName": "",
2025/01/29 12:38:45.418 :: "modelPath": {
2025/01/29 12:38:45.418 :: "_path": "/home/ec2-user/Slicer-5.7.0-2024-10-01-linux-amd64/slicer.org/Extensions-33042/DentalSegmentator/lib/Slicer-5.7/qt-scripted-modules/Resources/ML"
2025/01/29 12:38:45.418 :: }
2025/01/29 12:38:45.418 :: }
2025/01/29 12:38:45.441 :: nnUNet preprocessing...
2025/01/29 12:38:46.784 :: Traceback (most recent call last):
2025/01/29 12:38:46.784 :: File "/home/ec2-user/Slicer-5.7.0-2024-10-01-linux-amd64/lib/Python/bin/nnUNetv2_predict", line 5, in
2025/01/29 12:38:46.784 :: from nnunetv2.inference.predict_from_raw_data import predict_entry_point
2025/01/29 12:38:46.784 :: File "/home/ec2-user/Slicer-5.7.0-2024-10-01-linux-amd64/lib/Python/lib/python3.9/site-packages/nnunetv2/inference/predict_from_raw_data.py", line 16, in
2025/01/29 12:38:47.780 :: Loading inference results...
2025/01/29 12:38:51.427 :: Error loading results :
2025/01/29 12:38:51.427 :: Failed to load the segmentation.
2025/01/29 12:38:51.427 :: Something went wrong during the nnUNet processing.
2025/01/29 12:38:51.427 :: Please check the logs for potential errors and contact the library maintainers.

Why it does not work?

[Thibault-Pelletier]

Hi @dentistfrankchen,

Unfortunately, the important part of the logs seems to have been truncated (traceback is incomplete and doesn't inform on what when wrong in the predict_from_raw_data.py module.

Do you have a way to launch 3D Slicer using the main window and getting the full stack trace from 3D Slicer's console so that we can help you further?