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Minor doc update
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Signed-off-by: M Q <[email protected]>
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MMelQin committed Jul 31, 2024
1 parent 78ac9b8 commit 84e8e42
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3 changes: 1 addition & 2 deletions applications/imaging_ai_segmentator/README.md
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Expand Up @@ -24,7 +24,7 @@ One such data set, a CT Abdomen series described as `ABD/PANC_3.0_B31f`, is copi

This application only has Python implementation depending on a set of Python packages from [Pypi](https://pypi.org).

The `PYTHONPATH` environment variable must be set to locate the necessary Holohub medical imaging operators. Furthermore, the AI model as well as input DICOM files must be located via application specific environment variables, namely `HOLOSCAN_MODEL_PATH` and `HOLOSCAN_INPUT_PATH` respectively.
The `PYTHONPATH` environment variable must be set to locate the necessary Holohub medical imaging operators. Furthermore, the AI model as well as input DICOM files need be located via application specific environment variables, namely `HOLOSCAN_MODEL_PATH` and `HOLOSCAN_INPUT_PATH` respectively, otherwise defaults are used.

The application output folder can be defined by the environment variable `HOLOSCAN_OUTPUT_PATH`, which defaults to `output`.

Expand Down Expand Up @@ -89,4 +89,3 @@ applications/imaging_ai_segmentator/output
├── 1.3.6.1.4.1.14519.5.2.1.7085.2626.nii
└── 1.3.6.1.4.1.14519.5.2.1.7085.2626_seg.nii
```

72 changes: 51 additions & 21 deletions applications/imaging_ai_segmentator/metadata.json
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@@ -1,6 +1,6 @@
{
"application": {
"name": "Imaging AI",
"name": "Imaging AI Whole Body Segmentation",
"authors": [
{
"name": "Ming Qin",
Expand All @@ -13,8 +13,9 @@
"1.0": "Initial Release"
},
"holoscan_sdk": {
"minimum_required_version": "2.0.0",
"minimum_required_version": "1.0.0",
"tested_versions": [
"1.0.0",
"2.0.0"
]
},
Expand All @@ -23,36 +24,65 @@
],
"tags": [
"Radiology Imaging",
"DICOM",
"DICOM SEG",
"Segmentation by AI",
"Total segmentator",
"MONAI"
"MONAI",
"MONAI Model Zoo"
],
"ranking": 1,
"dependencies": {
"python-packages": {
"requests": {
"version": "2.31.0",
"license-url": "https://github.com/opentracing-contrib/python-requests/blob/master/LICENSE"
"holoscan": {
"version": "1.0.3",
"license-url": "https://github.com/nvidia-holoscan/holoscan-sdk/blob/main/LICENSE.txt"
},
"pyaudio": {
"version": "0.2.13",
"license-url": "https://github.com/CristiFati/pyaudio/blob/master/LICENSE.txt"
"highdicom": {
"version": "0.18.2",
"license-url": "https://github.com/ImagingDataCommons/highdicom/blob/master/LICENSE"
},
"pynput": {
"version": "0.2.13",
"license-url": "https://github.com/moses-palmer/pynput/blob/master/COPYING.LGPL"
}
},
"OSS" : {
"llama.cpp": {
"commit": "cf9b08485c4c2d4d945c6e74fe20f273a38b6104",
"license-url": "https://github.com/ggerganov/llama.cpp/blob/master/LICENSE"
"monai": {
"version": "1.0.0",
"license-url": "https://github.com/Project-MONAI/MONAI/blob/dev/LICENSE"
},
"nibabel": {
"version": "3.2.1",
"license-url": "https://nipy.org/nibabel/legal.html"
},
"numpy": {
"version": "1.21.6",
"license-url": "https://github.com/numpy/numpy/blob/main/LICENSE.txt"
},
"Pillow": {
"version": "8.0.0",
"license-url": "https://github.com/python-pillow/Pillow/blob/main/LICENSE"
},
"pydicom": {
"version": "2.3.0",
"license-url": "https://github.com/pydicom/pydicom/blob/main/LICENSE"
},
"SimpleITK": {
"version": "2.0.0",
"license-url": "https://github.com/SimpleITK/SimpleITK/blob/master/LICENSE"
},
"scikit-image": {
"version": "0.17.2",
"license-url": "https://github.com/scikit-image/scikit-image/blob/main/LICENSE.txt"
},
"torch": {
"version": "1.2.0",
"license-url": "https://github.com/pytorch/pytorch/blob/main/LICENSE"
},
"typeguard": {
"version": "3.0.0",
"license-url": "https://github.com/agronholm/typeguard/blob/master/LICENSE"
}
}
}
},
"run": {
"command": "python3 app.py ",
"workdir": "holohub_app_source"
"command": "python3 <holohub_app_source>/app.py",
"workdir": "holohub_app_bin"
}
}
}

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