diff --git a/modules/omniverse/omniverse_integration.ipynb b/modules/omniverse/omniverse_integration.ipynb index 8ba6082f5..ea0059611 100644 --- a/modules/omniverse/omniverse_integration.ipynb +++ b/modules/omniverse/omniverse_integration.ipynb @@ -57,6 +57,7 @@ "outputs": [], "source": [ "!python -c \"import monai\" || pip install -q \"monai-weekly[nibabel]\"\n", + "!python -c \"import skimage\" || pip install -q scikit-image\n", "!python -c \"import vtk\" || pip install -q vtk\n", "!python -c \"import pxr\" || pip install -q usd-core\n", "!python -c \"import trimesh\" || pip install -q trimesh\n", @@ -466,6 +467,11 @@ " print(f\"Saved whole segmentation {all_organ_filename}\")\n", "\n", "\n", + "# if workflow.run() is uncommented and run, an image and a label files will be generated in the output folder\n", + "# for example, file paths are like this:\n", + "# f\"{bundle_root}/output/sample_20250317_065034_415537_image.nii.gz\"\n", + "# f\"{bundle_root}/output/sample_20250317_065034_415537_label.nii.gz\"\n", + "# then you can replace the \"input_nii_path\" below with the generated label file\n", "input_nii_path = f\"{bundle_root}/datasets/IntegrationTest-AbdomenCT.nii.gz\"\n", "output_nii_path = f\"{bundle_root}/datasets/monai/nii\"\n", "output_obj_path = f\"{bundle_root}/datasets/monai/obj\"\n",