Update monai requirement from <0.9,>=0.8.0 to >=0.9.0,<0.10

[dependabot]

Updates the requirements on monai to permit the latest version.

Release notes

Sourced from monai's releases.

0.9.1

Added

• Support of monai.data.MetaTensor as core data structure across the modules
• Support of inverse in array-based transforms
• monai.apps.TciaDataset APIs for The Cancer Imaging Archive (TCIA) datasets, including a pydicom-backend reader
• Initial release of components for MRI reconstruction in monai.apps.reconstruction, including various FFT utilities
• New metrics and losses, including mean IoU and structural similarity index
• monai.utils.StrEnum class to simplify Enum-based type annotations

Changed

• Base Docker image upgraded to nvcr.io/nvidia/pytorch:22.06-py3 from nvcr.io/nvidia/pytorch:22.04-py3
• Optionally depend on PyTorch-Ignite v0.4.9 instead of v0.4.8

Fixed

• Fixed issue of not skipping post activations in Convolution when input arguments are None
• Fixed issue of ignoring dropout arguments in DynUNet
• Fixed issue of hard-coded non-linear function in ViT classification head
• Fixed issue of in-memory config overriding with monai.bundle.ConfigParser.update
• 2D SwinUNETR incompatible shapes
• Fixed issue with monai.bundle.verify_metadata not raising exceptions
• Fixed issue with monai.transforms.GridPatch returns inconsistent type location when padding
• Wrong generalized Dice score metric when denominator is 0 but prediction is non-empty
• Docker image build error due to NGC CLI upgrade
• Optional default value when parsing id unavailable in a ConfigParser instance
• Immutable data input for the patch-based WSI datasets

Deprecated

• *_transforms and *_meta_dict fields in dictionary-based transforms in favor of MetaTensor
• meta_keys, meta_key_postfix, src_affine arguments in various transforms, in favor of MetaTensor
• AsChannelFirst and AddChannel, in favor of EnsureChannelFirst transform

Changelog

Sourced from monai's changelog.

[0.9.1] - 2022-07-22

Added

• Support of monai.data.MetaTensor as core data structure across the modules
• Support of inverse in array-based transforms
• monai.apps.TciaDataset APIs for The Cancer Imaging Archive (TCIA) datasets, including a pydicom-backend reader
• Initial release of components for MRI reconstruction in monai.apps.reconstruction, including various FFT utilities
• New metrics and losses, including mean IoU and structural similarity index
• monai.utils.StrEnum class to simplify Enum-based type annotations

Changed

• Base Docker image upgraded to nvcr.io/nvidia/pytorch:22.06-py3 from nvcr.io/nvidia/pytorch:22.04-py3
• Optionally depend on PyTorch-Ignite v0.4.9 instead of v0.4.8

Fixed

• Fixed issue of not skipping post activations in Convolution when input arguments are None
• Fixed issue of ignoring dropout arguments in DynUNet
• Fixed issue of hard-coded non-linear function in ViT classification head
• Fixed issue of in-memory config overriding with monai.bundle.ConfigParser.update
• 2D SwinUNETR incompatible shapes
• Fixed issue with monai.bundle.verify_metadata not raising exceptions
• Fixed issue with monai.transforms.GridPatch returns inconsistent type location when padding
• Wrong generalized Dice score metric when denominator is 0 but prediction is non-empty
• Docker image build error due to NGC CLI upgrade
• Optional default value when parsing id unavailable in a ConfigParser instance
• Immutable data input for the patch-based WSI datasets

Deprecated

• *_transforms and *_meta_dict fields in dictionary-based transforms in favor of MetaTensor
• meta_keys, meta_key_postfix, src_affine arguments in various transforms, in favor of MetaTensor
• AsChannelFirst and AddChannel, in favor of EnsureChannelFirst transform

[0.9.0] - 2022-06-08

Added

• monai.bundle primary module with a ConfigParser and command-line interfaces for configuration-based workflows
• Initial release of MONAI bundle specification
• Initial release of volumetric image detection modules including bounding boxes handling, RetinaNet-based architectures
• API preview monai.data.MetaTensor
• Unified monai.data.image_writer to support flexible IO backends including an ITK writer
• Various new network blocks and architectures including SwinUNETR
• DeepEdit interactive training/validation workflow
• NuClick interactive segmentation transforms
• Patch-based readers and datasets for whole-slide imaging
• New losses and metrics including SurfaceDiceMetric, GeneralizedDiceFocalLoss
• New pre-processing transforms including RandIntensityRemap, SpatialResample
• Multi-output and slice-based inference for SlidingWindowInferer
• NrrdReader for NRRD file support
• Torchscript utilities to save models with meta information
• Gradient-based visualization module SmoothGrad
• Automatic regular source code scanning for common vulnerabilities and coding errors

Changed

• Simplified TestTimeAugmentation using de-collate and invertible transforms APIs
• Refactoring monai.apps.pathology modules into monai.handlers and monai.transforms

... (truncated)

Commits

• 356d2d2 4757 update patch merging (#4758)
• 178e973 update changelog for v0.9.1 (#4744)
• 6338ea4 Permanent dataset hashes transforms (#4633)
• 398466c 4747 compatible dtypes for padding (#4749)
• 5e36e23 4741 Support MetaTensor data type in Concatitemd (#4745)
• 9c12cd8 Enhance Spacing and Orientation transforms for MetaTensor (#4748)
• 5e43e2f Add allow missing keys in EnsureChannelFirstd (#4742)
• c45b3f0 Handle immutable data inputs for patch wsi datasets (#4725)
• facc732 update changelog for v0.9.1 (#4739)
• b9d39d4 4720 Add track_meta option to the ToTensor transform (#4733)
• Additional commits viewable in compare view

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