MONet Bundle Integration into MONAI Deploy#543

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SimoneBendazzoli93 wants to merge 222 commits intoProject-MONAI:mainfrom

SimoneBendazzoli93:main

Commits on Jul 17, 2025

Bump version: 0.3.0 → 0.4.0

MMelQin
authored and
SimoneBendazzoli93
committed
Update release notes for v0.4.0

MMelQin
authored and
SimoneBendazzoli93
committed
Add the newly introduced example to readme.md (#313)

MMelQin
authored and
SimoneBendazzoli93
committed
DOC: Use upstream/downstream instead of source/destination (#316)

Leengit
authored and
SimoneBendazzoli93
committed
Implement highdicom seg operator (#327)

authored and
SimoneBendazzoli93
committed
Fix the setting of init state in its own PR, instead of rolled into others

MMelQin
authored and
SimoneBendazzoli93
committed
Add highdicom license to the Third Party Notices (#334)

MMelQin
authored and
SimoneBendazzoli93
committed
Improve STL operator so the enclosing app obj can run repetitively (#337)

MMelQin
authored and
SimoneBendazzoli93
committed
Added support of matching instance level tags, and update liver seg (#345)

MMelQin
authored and
SimoneBendazzoli93
committed
Nuance PIN MONAI Integration Example App (#328)

aihsani
authored and
SimoneBendazzoli93
committed
minor adjustment for proper result alignment (#354)

aihsani
authored and
SimoneBendazzoli93
committed
Nuance pin integration minor adjustments (#355)

aihsani
authored and
SimoneBendazzoli93
committed
Enhance some attributes in the text SR writer (#346)

MMelQin
authored and
SimoneBendazzoli93
committed
Update executor path to new version (#135)

KavinKrishnan
authored and
SimoneBendazzoli93
committed
App SDK updated to be compatible with monai 1.0.0 and its MetaTensor (#360)

MMelQin
authored and
SimoneBendazzoli93
committed
Minor typo in property method

diazandr3s
authored and
SimoneBendazzoli93
committed
Update method name

diazandr3s
authored and
SimoneBendazzoli93
committed
Add DICOM PDF Writer and split dicom_utils common module out of Text SR Writer (#366)

MMelQin
authored and
SimoneBendazzoli93
committed
Add the missing python package, PyPDF2 (#372)

MMelQin
authored and
SimoneBendazzoli93
committed
Enhanced multi-value DateElement parsing (#370)

MMelQin
authored and
SimoneBendazzoli93
committed
Doc changes for addressing issues and for releasing App SDK v0.5 (#373)

MMelQin
authored and
SimoneBendazzoli93
committed
Add missed change (#374)

MMelQin
authored and
SimoneBendazzoli93
committed
Update notebook output after retest (#375)

MMelQin
authored and
SimoneBendazzoli93
committed
Various fixes to PIN integration example

Christopher Bridge
authored and
SimoneBendazzoli93
committed
Fix style errors

Christopher Bridge
authored and
SimoneBendazzoli93
committed
Fix f-strings

Christopher Bridge
authored and
SimoneBendazzoli93
committed
Tweak to README

Christopher Bridge
authored and
SimoneBendazzoli93
committed
Release v0.5.0 (#376)

authored and
SimoneBendazzoli93
committed
Enhanced code to extract and parse specific config files from TorchScript archive (#378)

MMelQin
authored and
SimoneBendazzoli93
committed
Deprecate the MIS as it does not serve intended purpose (#379)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix app requirements to working version (#380)

authored and
SimoneBendazzoli93
committed
Merge Nuance Updates (#377)

authored and
SimoneBendazzoli93
committed
Add Pancreas Seg app, multi-model app, and Jupyter Notebook tutorial (#315)

MMelQin
authored and
SimoneBendazzoli93
committed
Added breast density classifier app

gupta
authored and
SimoneBendazzoli93
committed
Fied formatting and readme

gupta
authored and
SimoneBendazzoli93
committed
Fixed typo

gupta
authored and
SimoneBendazzoli93
committed
Added a Nifti data loader for issue #270

gupta
authored and
SimoneBendazzoli93
committed
Quick fix to avoid package not found error by use optional import (#386)

MMelQin
authored and
SimoneBendazzoli93
committed
ENH: Versions as strings, not numbers, so that 3.1 != 3.10, etc. (#385)

Leengit
authored and
SimoneBendazzoli93
committed
Enhance Packager to make the MAP more secure, easier to use, and based on new version of PyTorch image for newer CUDA versions. (#381)

MMelQin
authored and
SimoneBendazzoli93
committed
Make app.py's __main__ to init and run the app, as this is how MAP is run (#387)

MMelQin
authored and
SimoneBendazzoli93
committed
Update README.md

dbericat
authored and
SimoneBendazzoli93
committed
changed name from integrations to platforms (#390)

dbericat
authored and
SimoneBendazzoli93
committed
Create Enhancement

MMelQin
authored and
SimoneBendazzoli93
committed
Update and rename Enhancement to enhancement_request.md

MMelQin
authored and
SimoneBendazzoli93
committed
Create aide

dbericat
authored and
SimoneBendazzoli93
committed
Create mayo_cai_viewer

dbericat
authored and
SimoneBendazzoli93
committed
Rename aide to london_aicentre_aide

dbericat
authored and
SimoneBendazzoli93
committed
Make the output DICOM SR instance part of the original study

MMelQin
authored and
SimoneBendazzoli93
committed
Use simple series selection rule on modality and image type

MMelQin
authored and
SimoneBendazzoli93
committed
Delete london_aicentre_aide

hshuaib90
authored and
SimoneBendazzoli93
committed
Create README.md

hshuaib90
authored and
SimoneBendazzoli93
committed
Add new image and update text

hshuaib90
authored and
SimoneBendazzoli93
committed
Expose option to omit empty frames

Chris Bridge
authored and
SimoneBendazzoli93
committed
Fix issue 410 where the latest typeguard version 3.x is incompatible (#411)

MMelQin
authored and
SimoneBendazzoli93
committed
Update enhancement_request.md

MMelQin
authored and
SimoneBendazzoli93
committed
enable AMD GPU (#406)

vickytsang
authored and
SimoneBendazzoli93
committed
Fix broken links in Readme (#432)

MMelQin
authored and
SimoneBendazzoli93
committed
Update importutil.py (#436)

filipmu
authored and
SimoneBendazzoli93
committed
Added option for SimpleInferer (#428)

authored and
SimoneBendazzoli93
committed
Updated the mednist notebooks adding the dependencies of pydicom and highdicom (#435)

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update SDK to support typeguard v3.0 and above, which has a breaking change in its API, and updated notebooks (#438)

MMelQin
authored and
SimoneBendazzoli93
committed
Update Read The Docs configuration to support Python 3.8 (#439)

gigony
authored and
SimoneBendazzoli93
committed
Bump version: 0.5.0 → 0.5.1

MMelQin
authored and
SimoneBendazzoli93
committed
Create aws_healthimaging.md (#449)

authored and
SimoneBendazzoli93
committed
App SDK Migration (to depend on Holoscan SDK) (#441)

MMelQin
authored and
SimoneBendazzoli93
committed
Merge V0.6 release notes to main (#452)

MMelQin
authored and
SimoneBendazzoli93
committed
test build

MMelQin
authored and
SimoneBendazzoli93
committed
Address a removed monai function, fix CUDA 11 runtime lib, and resurrect option to omit or not DICOM SEG empty frame (#471)

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml to pip install cuda12 runtime

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Updating the SDK to use newer and updated dependencies, namely Holoscan SDK (#481)

MMelQin
authored and
SimoneBendazzoli93
committed
Releasing and tagging V1.0 (#482)

MMelQin
authored and
SimoneBendazzoli93
committed
test out the minimal set of reqs

MMelQin
authored and
SimoneBendazzoli93
committed
Update readthedocs configuration

gigony
authored and
SimoneBendazzoli93
committed
removed the commented out reqs

MMelQin
authored and
SimoneBendazzoli93
committed
Fix package and LD_LIBRARY_PATH issues for readthedocs

gigony
authored and
SimoneBendazzoli93
committed
Update pr.yml to set LD_LIBRARY_PATH consistently with Holoscan SDK 2.0

MMelQin
authored and
SimoneBendazzoli93
committed
Update to release v2.0 that is dependent on HSDK v2 (#485)

MMelQin
authored and
SimoneBendazzoli93
committed
V2.0 (#487)

MMelQin
authored and
SimoneBendazzoli93
committed
Changes to v2 release did not get saved (#488)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix breast density example application to make it work with SDK v0.6+ (#491)

MMelQin
authored and
SimoneBendazzoli93
committed
Adding missed step for setting input env var to fix the doc issue (#496)

MMelQin
authored and
SimoneBendazzoli93
committed
Update example apps' test data path, patch hsdk in local env, and ensure correct MD SDK is used in dev env (#516)

MMelQin
authored and
SimoneBendazzoli93
committed
DICOM Seg Writer operater: Fix for case where input image is already a numpy array (#515)

authored and
SimoneBendazzoli93
committed
Update tutorials after testing with holoscan v2.9.0 (#522)

MMelQin
authored and
SimoneBendazzoli93
committed
Update README.md (#499)

vikashg
authored and
SimoneBendazzoli93
committed
DICOMSeriesSelectorOperator Enhancements (#501)

bluna301
authored and
SimoneBendazzoli93
committed
Added a sample integration for LLM models in huggingface (#494)

authored and
SimoneBendazzoli93
committed
Editorial changes to correct typos, rename parameters, and add comments (#526)

MMelQin
authored and
SimoneBendazzoli93
committed
slice removal fix (#527)

bluna301
authored and
SimoneBendazzoli93
committed
Add nnUNet segmentation application and dependencies
SimoneBendazzoli93
committed
CCHMC Ped Abd CT Seg Example App (#525)

bluna301
authored and
SimoneBendazzoli93
committed
Fix meta_data handling in MonaiBundleInferenceOperator to ensure it defaults to an empty dict
SimoneBendazzoli93
committed
Update requirements and fix data shape handling in Monai nUNet Bundle Inference Operator
SimoneBendazzoli93
committed
Add NiftiDataWriter operator and update NiftiDataLoader to return SimpleITK image
SimoneBendazzoli93
committed
Add nvflare to requirements for ai_spleen_nnunet_seg_app
SimoneBendazzoli93
committed
duplicate ipps non-loaded (#535)

bluna301
authored and
SimoneBendazzoli93
committed
ModelInfo arg added to DICOMSegWriterOp (#533)

bluna301
authored and
SimoneBendazzoli93
committed
Support remote inference on Triton Inference Server with ease of use (#536)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix DICOMSeriesToVolumeOperator casting bug (#529)

authored and
SimoneBendazzoli93
committed
Formatting changes and tag value for unsigned int is 0 (#537)

MMelQin
authored and
SimoneBendazzoli93
committed
Prepared changes for releasing v3 (#538)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix _version.py and various version-related issues (#539)

MMelQin
authored and
SimoneBendazzoli93
committed
Bump version: 2.0.0 → 3.0.0 (#540)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix NiftiDataWriter spacing handling for 1mm pixel dimensions
SimoneBendazzoli93
committed
Refactor nnUNet bundle inference operator to MONetBundleInferenceOperator and add implementation
SimoneBendazzoli93
committed
Update documentation to reflect changes from nnUNet to MONet Bundle inference operator
SimoneBendazzoli93
committed
Refactor import statements in app.py and monet_bundle_inference_operator.py for clarity
SimoneBendazzoli93
committed
Update application title and fix operator name in imports for MONet Bundle
SimoneBendazzoli93
committed
Refactor NiftiDataLoader to return transposed numpy array from NIfTI image
SimoneBendazzoli93
committed
Remove NiftiDataWriter operator and clean up imports in __init__.py
SimoneBendazzoli93
committed
Remove SimpleITK image handling from MonaiBundleInferenceOperator
SimoneBendazzoli93
committed
Fix import statement for MONetBundleInferenceOperator to use the correct module path
SimoneBendazzoli93
committed
Fix _version.py and various version-related issues (#539)

MMelQin
authored and
SimoneBendazzoli93
committed
Bump version: 2.0.0 → 3.0.0 (#540)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix formatting in docstring and remove unused import statements in MONetBundleInferenceOperator
SimoneBendazzoli93
committed
Enhance predict method to support multimodal data concatenation and update docstring
SimoneBendazzoli93
committed
Add NiftiDataWriter operator and update NiftiDataLoader to return SimpleITK image
SimoneBendazzoli93
committed
Fix _version.py and various version-related issues (#539)

MMelQin
authored and
SimoneBendazzoli93
committed
Bump version: 2.0.0 → 3.0.0 (#540)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix NiftiDataWriter spacing handling for 1mm pixel dimensions
SimoneBendazzoli93
committed
Update application title and fix operator name in imports for MONet Bundle
SimoneBendazzoli93
committed
Refactor NiftiDataLoader to return transposed numpy array from NIfTI image
SimoneBendazzoli93
committed
Remove NiftiDataWriter operator and clean up imports in __init__.py
SimoneBendazzoli93
committed
Remove SimpleITK image handling from MonaiBundleInferenceOperator
SimoneBendazzoli93
committed
Fix _version.py and various version-related issues (#539)

MMelQin
authored and
SimoneBendazzoli93
committed
Bump version: 2.0.0 → 3.0.0 (#540)

MMelQin
authored and
SimoneBendazzoli93
committed
test build

MMelQin
authored and
SimoneBendazzoli93
committed
Address a removed monai function, fix CUDA 11 runtime lib, and resurrect option to omit or not DICOM SEG empty frame (#471)

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml to pip install cuda12 runtime

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Update pr.yml

MMelQin
authored and
SimoneBendazzoli93
committed
Updating the SDK to use newer and updated dependencies, namely Holoscan SDK (#481)

MMelQin
authored and
SimoneBendazzoli93
committed
Releasing and tagging V1.0 (#482)

MMelQin
authored and
SimoneBendazzoli93
committed
test out the minimal set of reqs

MMelQin
authored and
SimoneBendazzoli93
committed
Update readthedocs configuration

gigony
authored and
SimoneBendazzoli93
committed
removed the commented out reqs

MMelQin
authored and
SimoneBendazzoli93
committed
Fix package and LD_LIBRARY_PATH issues for readthedocs

gigony
authored and
SimoneBendazzoli93
committed
Update pr.yml to set LD_LIBRARY_PATH consistently with Holoscan SDK 2.0

MMelQin
authored and
SimoneBendazzoli93
committed
Update to release v2.0 that is dependent on HSDK v2 (#485)

MMelQin
authored and
SimoneBendazzoli93
committed
V2.0 (#487)

MMelQin
authored and
SimoneBendazzoli93
committed
Changes to v2 release did not get saved (#488)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix breast density example application to make it work with SDK v0.6+ (#491)

MMelQin
authored and
SimoneBendazzoli93
committed
Adding missed step for setting input env var to fix the doc issue (#496)

MMelQin
authored and
SimoneBendazzoli93
committed
Update example apps' test data path, patch hsdk in local env, and ensure correct MD SDK is used in dev env (#516)

MMelQin
authored and
SimoneBendazzoli93
committed
DICOM Seg Writer operater: Fix for case where input image is already a numpy array (#515)

authored and
SimoneBendazzoli93
committed
Update tutorials after testing with holoscan v2.9.0 (#522)

MMelQin
authored and
SimoneBendazzoli93
committed
Update README.md (#499)

vikashg
authored and
SimoneBendazzoli93
committed
Added a sample integration for LLM models in huggingface (#494)

authored and
SimoneBendazzoli93
committed
Editorial changes to correct typos, rename parameters, and add comments (#526)

MMelQin
authored and
SimoneBendazzoli93
committed
Add nnUNet segmentation application and dependencies
SimoneBendazzoli93
committed
CCHMC Ped Abd CT Seg Example App (#525)

bluna301
authored and
SimoneBendazzoli93
committed
Update requirements and fix data shape handling in Monai nUNet Bundle Inference Operator
SimoneBendazzoli93
committed
Add NiftiDataWriter operator and update NiftiDataLoader to return SimpleITK image
SimoneBendazzoli93
committed
Add nvflare to requirements for ai_spleen_nnunet_seg_app
SimoneBendazzoli93
committed
duplicate ipps non-loaded (#535)

bluna301
authored and
SimoneBendazzoli93
committed
ModelInfo arg added to DICOMSegWriterOp (#533)

bluna301
authored and
SimoneBendazzoli93
committed
Support remote inference on Triton Inference Server with ease of use (#536)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix DICOMSeriesToVolumeOperator casting bug (#529)

authored and
SimoneBendazzoli93
committed
Formatting changes and tag value for unsigned int is 0 (#537)

MMelQin
authored and
SimoneBendazzoli93
committed
Prepared changes for releasing v3 (#538)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix _version.py and various version-related issues (#539)

MMelQin
authored and
SimoneBendazzoli93
committed
Bump version: 2.0.0 → 3.0.0 (#540)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix NiftiDataWriter spacing handling for 1mm pixel dimensions
SimoneBendazzoli93
committed
Refactor nnUNet bundle inference operator to MONetBundleInferenceOperator and add implementation
SimoneBendazzoli93
committed
Update documentation to reflect changes from nnUNet to MONet Bundle inference operator
SimoneBendazzoli93
committed
Refactor import statements in app.py and monet_bundle_inference_operator.py for clarity
SimoneBendazzoli93
committed
Update application title and fix operator name in imports for MONet Bundle
SimoneBendazzoli93
committed
Refactor NiftiDataLoader to return transposed numpy array from NIfTI image
SimoneBendazzoli93
committed
Remove NiftiDataWriter operator and clean up imports in __init__.py
SimoneBendazzoli93
committed
Remove SimpleITK image handling from MonaiBundleInferenceOperator
SimoneBendazzoli93
committed
Fix import statement for MONetBundleInferenceOperator to use the correct module path
SimoneBendazzoli93
committed
Fix _version.py and various version-related issues (#539)

MMelQin
authored and
SimoneBendazzoli93
committed
Bump version: 2.0.0 → 3.0.0 (#540)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix formatting in docstring and remove unused import statements in MONetBundleInferenceOperator
SimoneBendazzoli93
committed
Enhance predict method to support multimodal data concatenation and update docstring
SimoneBendazzoli93
committed
Add nnUNet segmentation application and dependencies
SimoneBendazzoli93
committed
CCHMC Ped Abd CT Seg Example App (#525)

bluna301
authored and
SimoneBendazzoli93
committed
Update requirements and fix data shape handling in Monai nUNet Bundle Inference Operator
SimoneBendazzoli93
committed
Add NiftiDataWriter operator and update NiftiDataLoader to return SimpleITK image
SimoneBendazzoli93
committed
Add nvflare to requirements for ai_spleen_nnunet_seg_app
SimoneBendazzoli93
committed
Support remote inference on Triton Inference Server with ease of use (#536)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix DICOMSeriesToVolumeOperator casting bug (#529)

authored and
SimoneBendazzoli93
committed
Formatting changes and tag value for unsigned int is 0 (#537)

MMelQin
authored and
SimoneBendazzoli93
committed
Prepared changes for releasing v3 (#538)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix _version.py and various version-related issues (#539)

MMelQin
authored and
SimoneBendazzoli93
committed
Bump version: 2.0.0 → 3.0.0 (#540)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix NiftiDataWriter spacing handling for 1mm pixel dimensions
SimoneBendazzoli93
committed
Refactor nnUNet bundle inference operator to MONetBundleInferenceOperator and add implementation
SimoneBendazzoli93
committed
Update documentation to reflect changes from nnUNet to MONet Bundle inference operator
SimoneBendazzoli93
committed
Refactor import statements in app.py and monet_bundle_inference_operator.py for clarity
SimoneBendazzoli93
committed
Update application title and fix operator name in imports for MONet Bundle
SimoneBendazzoli93
committed
Refactor NiftiDataLoader to return transposed numpy array from NIfTI image
SimoneBendazzoli93
committed
Remove NiftiDataWriter operator and clean up imports in __init__.py
SimoneBendazzoli93
committed
Remove SimpleITK image handling from MonaiBundleInferenceOperator
SimoneBendazzoli93
committed
Fix import statement for MONetBundleInferenceOperator to use the correct module path
SimoneBendazzoli93
committed
CCHMC Ped Abd CT Seg Example App (#525)

bluna301
authored and
SimoneBendazzoli93
committed
Support remote inference on Triton Inference Server with ease of use (#536)

MMelQin
authored and
SimoneBendazzoli93
committed
Prepared changes for releasing v3 (#538)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix _version.py and various version-related issues (#539)

MMelQin
authored and
SimoneBendazzoli93
committed
Bump version: 2.0.0 → 3.0.0 (#540)

MMelQin
authored and
SimoneBendazzoli93
committed
Fix formatting in docstring and remove unused import statements in MONetBundleInferenceOperator
SimoneBendazzoli93
committed
Enhance predict method to support multimodal data concatenation and update docstring
SimoneBendazzoli93
committed
DICOMSeriesSelectorOperator Improvements (#542)

bluna301
authored and
SimoneBendazzoli93
committed
Regression tests with HSDK 3.4 and CLI 3.4.1 (#545)

MMelQin
authored and
SimoneBendazzoli93
committed
Merge branch 'main' into main
SimoneBendazzoli93
authored
Remove unused import
SimoneBendazzoli93
committed
Add method to set model network for nnUNet predictor and validate input type
SimoneBendazzoli93
committed

Commits on Aug 8, 2025

Merge branch 'Project-MONAI:main' into main
SimoneBendazzoli93
authored

Commits on Sep 2, 2025

Merge branch 'Project-MONAI:main' into main
SimoneBendazzoli93
authored

Commits on Oct 1, 2025

Commits on Oct 2, 2025

Fix model network assignment in MONetBundleInferenceOperator and update type check for model_network
SimoneBendazzoli93
committed