kits21: About 'Unable to determine Image IO reader for certain image file'
Hello, I am having problem with just training the dataset with baseline nnUnet. Fabian has kindly written the conversion of dataset python file, and I just used it to convert kits 21 dataset. However following error occurs during preprocessing.
RuntimeError: Exception thrown in SimpleITK ImageFileReader_Execute: /tmp/SimpleITK/Code/IO/src/sitkImageReaderBase.cxx:105:
sitk::ERROR: Unable to determine ImageIO reader for "/home/mchangaf/nnUNetFrame/DATASET/nnUNet_raw/nnUNet_raw_data/
Task135_KiTS2021/imagesTr/case_00038_0000.nii.gz"
On certain files, Exception thrown in SimpleITK ImageFileReader occurs. Should I just ignore these errors and continue training?
About this issue
- Original URL
- State: closed
- Created 3 years ago
- Comments: 17 (11 by maintainers)
Preprocessing is currently always done from scratch. We could change that in the future but unfortunately that’s how it is now. Please use
-tl 2and-tf 1in an attempt to get it working 😃 This needs a lot of RAM, unfortunatelyi would say yes. if you still have the problem with opening the error files separately, please let us and @neheller know.