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Get Started Free →nvidia/nv-segment-ct-finetune
Used for smoke or dataset finetuning of NV-Segment-CT VISTA3D on CT NIfTI labels. Not for clinical validation.
Passed 19 of 20 test cases with the skill, and 6 of 20 without it.
and 18 more in the full report
14 fixed7 passed either way1 still failing0 broke
Tokens, turns and time describe resource use, not a dollar price.
One of 13 test cases the skill fixed. Same model, same prompt, with and without the skill.
Provide the exact pip installation command needed to set up a clean environment for running the VISTA3D fine-tuning wrapper.
| Checked | Without skill | With skill |
|---|---|---|
| Includes monai==1.4.0 in the pip install command | Missed | Passed |
| Includes numpy<2 in the pip install command | Missed | Passed |
The instructions your model reads when the skill loads.
dataset_dir, datalist, target_anatomy, label_mapping, smoke, sanity, auto_seg, and skip_formal_eval.finetuned_ckpt and schema-checked result_json.scripts/run_finetune.py; do not patch files under bundle/ or upstream checkouts during normal skill use.rm or cleanup commands in generated invocations.run_script, use run_script("scripts/run_finetune.py", args=[...]); otherwise run from the repo root.--smoke; for MSD Task06 Lung Tumor reproduction, use --sanity.references/task06-and-results.md only when you need Task06 reference details, output-field definitions, or manual bundle setup notes.| Script | Purpose | Arguments |
|---|---|---|
scripts/run_finetune.py | Primary entrypoint declared by skill_manifest.yaml; stages configs, runs MONAI, and writes output.json. | [FIXTURE_OR_DATASET] --output-dir OUT_DIR [--smoke] [--sanity] [--auto-seg] [--dataset-dir DIR] [--datalist JSON] [--target-anatomy TEXT] [--label-mapping JSON] [--patch-size JSON] |
skill_manifest.yaml, especially monai==1.4.0, numpy<2, nibabel, scipy, typer, PyYAML, fire, pytorch-ignite, einops, and huggingface_hub.CUDA_VISIBLE_DEVICES restricts visible GPUs; NPROC_PER_NODE overrides GPU count and values >=2 select multi-GPU mode for non-sanity runs.skills/nv-segment-ct-finetune/bundle/configs/, including skills/nv-segment-ct-finetune/bundle/configs/auto_override.json, skills/nv-segment-ct-finetune/bundle/configs/train_continual_task06_lung.json, and skills/nv-segment-ct-finetune/bundle/configs/dfw_no_logging.json; writes checkpoints/evidence under --output-dir, may cache model assets under ~/.cache/huggingface/, and may contact https://huggingface.co or https://raw.githubusercontent.com.Fresh environment setup:
python -m pip install "monai==1.4.0" "numpy<2" pytorch-ignite einops nibabel scipy typer PyYAML fire huggingface_hub
Known upstream compatibility constraints:
3.10.16, MONAI 1.4.0, Torch 2.7.0+cu126.test cases passed, vs 6 / 20 without
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