Yehuda Warszawer

Separate labels with different values are being merged together in the QC report for `-p sct_label_vertebrae`

13

Hello SCT team, I'm reaching out to suggest an enhancement for the sct_qc that could greatly improve the visualization of multi-label segmentations. When leveraging `-p sct_label_vertebrae` for multiple labeled segmentations...

FileNotFoundError when verifying dataset integrity

3

I encountered a FileNotFoundError when running `nnUNetv2_plan_and_preprocess` with `--verify_dataset_integrity`. in: https://github.com/MIC-DKFZ/nnUNet/blob/5db96042779fe720dc6cef7ba4b32d2f9d127d31/nnunetv2/experiment_planning/verify_dataset_integrity.py#L206C17-L206C66 It seems that the code is trying to join the folder path with `'labelsTr'` and each filename from `labelfiles`....

Upload PAM50 registered labels fot this dataset

4

Hello team, I have PAM50 registered labels currently in a private google drive [data-multi-subject_PAM50_seg.zip](https://drive.google.com/file/d/1Sq38xLHnVxhLr0s1j27ywbeshNUjo3IP) that are used to train the model for [TotalSegmentatorMRI project](https://github.com/neuropoly/totalsegmentator-mri). How can I upload those labels...

nnUNetTrainer_DASegOrd0_NoMirroring error on nnunetv2==2.5.1

1

When attempting to run `nnUNetv2_train` with the `nnUNetTrainer_DASegOrd0_NoMirroring` trainer, the process crashes due to a KeyError in one of the background workers. With the following command: ``` nnUNetv2_train.exe 100 3d_fullres...