thanks very much.
the output results is as follows:
Processing started
Writing input file to C:/Users/whu/AppData/Local/Temp/Slicer/__SlicerTemp__2023-04-25_19+22+09.770/total-segmentator-input.nii
Creating segmentations with TotalSegmentator AI…
Total Segmentator arguments: [‘-i’, ‘C:/Users/whu/AppData/Local/Temp/Slicer/__SlicerTemp__2023-04-25_19+22+09.770/total-segmentator-input.nii’, ‘-o’, ‘C:/Users/whu/AppData/Local/Temp/Slicer/__SlicerTemp__2023-04-25_19+22+09.770/segmentation’, ‘–ml’, ‘–task’, ‘total’, ‘–fast’]
Traceback (most recent call last):
File “C:\SlicerInstall\Slicer 5.3.0\lib\Python\Scripts\TotalSegmentator”, line 93, in
main()
File “C:\SlicerInstall\Slicer 5.3.0\lib\Python\Scripts\TotalSegmentator”, line 86, in main
totalsegmentator(args.input, args.output, args.ml, args.nr_thr_resamp, args.nr_thr_saving,
File “C:\SlicerInstall\Slicer 5.3.0\lib\Python\Lib\site-packages\totalsegmentator\python_api.py”, line 173, in totalsegmentator
seg = nnUNet_predict_image(input, output, task_id, model=model, folds=folds,
File “C:\SlicerInstall\Slicer 5.3.0\lib\Python\Lib\site-packages\totalsegmentator\nnunet.py”, line 255, in nnUNet_predict_image
nnUNet_predict(tmp_dir, tmp_dir, task_id, model, folds, trainer, tta)
File “C:\SlicerInstall\Slicer 5.3.0\lib\Python\Lib\site-packages\totalsegmentator\nnunet.py”, line 106, in nnUNet_predict
predict_from_folder(model_folder_name, dir_in, dir_out, folds, save_npz, num_threads_preprocessing,
File “C:\SlicerInstall\Slicer 5.3.0\lib\Python\Lib\site-packages\nnunet\inference\predict.py”, line 616, in predict_from_folder
shutil.copy(join(model, ‘plans.pkl’), output_folder)
File “C:\SlicerInstall\Slicer 5.3.0\lib\Python\Lib\shutil.py”, line 427, in copy
copyfile(src, dst, follow_symlinks=follow_symlinks)
File “C:\SlicerInstall\Slicer 5.3.0\lib\Python\Lib\shutil.py”, line 264, in copyfile
with open(src, ‘rb’) as fsrc:
FileNotFoundError: [Errno 2] No such file or directory: ‘C:\Users\whu\.totalsegmentator\nnunet\results\nnUNet\3d_fullres\Task256_TotalSegmentator_3mm_1139subj\nnUNetTrainerV2_ep8000_nomirror__nnUNetPlansv2.1\plans.pkl’
Exception ignored in: <totalsegmentator.libs.DummyFile object at 0x000001D0B7DD8A00>
AttributeError: ‘DummyFile’ object has no attribute ‘flush’
If you use this tool please cite: [2208.05868] TotalSegmentator: robust segmentation of 104 anatomical structures in CT images
Using ‘fast’ option: resampling to lower resolution (3mm)
Resampling…
Resampled in 0.47s
Predicting…
