Migration to v0.9.1 and newer versions

[wyli]

As of monai v0.9.1, the MetaTensor API is made available and supported across the monai modules. This discussion serves as additional documentation and tracks any frequently asked questions during the migration.

Resources:

• migration dev guide: https://colab.research.google.com/drive/1T4iAys-cC2qL80oJkIbAXAPlWNPwp4H7
• updated tutorials are listed here: tutorial compatibility with v0.9.1 MetaTensor tutorials#819
• transform update metadata demo: https://github.com/Project-MONAI/tutorials/blob/main/modules/transforms_update_meta_data.ipynb

Migration examples:

• Nuclick customized transform Nuclick customized transform doesn't work with MetaTensor tutorials#818
• ToTensor usage Why does get_default_applied_operations for MetaObj only return an empty list? #4754
• Spacing transform does not return affines Spacing transform does not return affines #4779
• Unused affine argument in Spacing transform Unused 'affine' argument in Spacing transform #4791
• BRATS bundle ToTensor Brats bundle compatible issue model-zoo#66
• SaveImaged with resample=False Volume after Compose[CropForegroundd, SaveImaged] has incorrect shape #4894
• Decollate and Invertd Inverting sensitivity map #4936
• Track image resolutions Sequential spacing does not work #4947
• ToTensor and SaveImage transforms Save the results with nii.gz in 3D segmentation：SaveImage Error tutorials#881
• ToTensor and invertd Unable to Perform Inverse Transform when ToTensord is applied #5004