Project-MONAI / Project-MONAI/tutorials

new warning messages from notebooks

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Lenguaje dominante
Jupyter Notebook
Estrellas
2.5k
Forks
803
Merge medio
6 d 22 h
PR fusionados (30 d)
3

Descripción

Describe the bug

02:28:58  Running ./3d_segmentation/unet_segmentation_3d_ignite.ipynb
02:28:58  Checking PEP8 compliance...
02:28:59  Running notebook...
02:28:59  Before:
02:28:59      "max_epochs = 10\n",
02:28:59  After:
02:28:59      "max_epochs = 1\n",
02:29:03  MONAI version: 1.0.0rc1+9.ge98226dd
02:29:03  Numpy version: 1.22.4
02:29:03  Pytorch version: 1.10.2+cu102
02:29:03  MONAI flags: HAS_EXT = False, USE_COMPILED = False, USE_META_DICT = False
02:29:03  MONAI rev id: e98226dd6d0fb56ff344bc9122c68f9c8a3af96e
02:29:03  MONAI __file__: /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/__init__.py
02:29:03  
02:29:03  Optional dependencies:
02:29:03  Pytorch Ignite version: 0.4.10
02:29:03  Nibabel version: 4.0.2
02:29:03  scikit-image version: 0.19.3
02:29:03  Pillow version: 7.0.0
02:29:03  Tensorboard version: 2.10.0
02:29:03  gdown version: 4.5.1
02:29:03  TorchVision version: 0.11.3+cu102
02:29:03  tqdm version: 4.64.0
02:29:03  lmdb version: 1.3.0
02:29:03  psutil version: 5.9.1
02:29:03  pandas version: 1.1.5
02:29:03  einops version: 0.4.1
02:29:03  transformers version: 4.21.3
02:29:03  mlflow version: 1.28.0
02:29:03  pynrrd version: 0.4.3
02:29:03  
02:29:03  For details about installing the optional dependencies, please visit:
02:29:03      https://docs.monai.io/en/latest/installation.html#installing-the-recommended-dependencies
02:29:03  
02:29:04  /opt/conda/lib/python3.8/site-packages/papermill/iorw.py:153: UserWarning: the file is not specified with any extension : -
02:29:04    warnings.warn(
02:29:25  
Executing:   0%|          | 0/29 [00:00<?, ?cell/s]
Executing:   3%|▎         | 1/29 [00:01<00:36,  1.32s/cell]
Executing:  10%|█         | 3/29 [00:05<00:52,  2.01s/cell]
Executing:  17%|█▋        | 5/29 [00:09<00:44,  1.84s/cell]
Executing:  38%|███▊      | 11/29 [00:16<00:26,  1.45s/cell]
Executing:  45%|████▍     | 13/29 [00:21<00:25,  1.62s/cell]
Executing:  52%|█████▏    | 15/29 [00:21<00:17,  1.22s/cell]2022-09-09 01:29:25.282097: I tensorflow/core/platform/cpu_feature_guard.cc:193] This TensorFlow binary is optimized with oneAPI Deep Neural Network Library (oneDNN) to use the following CPU instructions in performance-critical operations:  AVX2 AVX512F AVX512_VNNI FMA
02:29:25  To enable them in other operations, rebuild TensorFlow with the appropriate compiler flags.
02:29:25  2022-09-09 01:29:25.450820: I tensorflow/core/util/util.cc:169] oneDNN custom operations are on. You may see slightly different numerical results due to floating-point round-off errors from different computation orders. To turn them off, set the environment variable `TF_ENABLE_ONEDNN_OPTS=0`.
02:29:25  2022-09-09 01:29:25.490201: E tensorflow/stream_executor/cuda/cuda_blas.cc:2981] Unable to register cuBLAS factory: Attempting to register factory for plugin cuBLAS when one has already been registered
02:29:26  2022-09-09 01:29:26.138841: W tensorflow/stream_executor/platform/default/dso_loader.cc:64] Could not load dynamic library 'libnvinfer.so.7'; dlerror: libnvinfer.so.7: cannot open shared object file: No such file or directory; LD_LIBRARY_PATH: /usr/lib/x86_64-linux-gnu:/opt/conda/lib/python3.8/site-packages/torch/lib:/opt/conda/lib/python3.8/site-packages/torch_tensorrt/lib:/usr/local/cuda/compat/lib:/usr/local/nvidia/lib:/usr/local/nvidia/lib64
02:29:26  2022-09-09 01:29:26.138936: W tensorflow/stream_executor/platform/default/dso_loader.cc:64] Could not load dynamic library 'libnvinfer_plugin.so.7'; dlerror: libnvinfer_plugin.so.7: cannot open shared object file: No such file or directory; LD_LIBRARY_PATH: /usr/lib/x86_64-linux-gnu:/opt/conda/lib/python3.8/site-packages/torch/lib:/opt/conda/lib/python3.8/site-packages/torch_tensorrt/lib:/usr/local/cuda/compat/lib:/usr/local/nvidia/lib:/usr/local/nvidia/lib64
02:29:26  2022-09-09 01:29:26.138944: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Cannot dlopen some TensorRT libraries. If you would like to use Nvidia GPU with TensorRT, please make sure the missing libraries mentioned above are installed properly.

Guía de contribución

Abrir la guía de contribución

Primeros pasos

  1. Lee el issue completo y luego la guía de contribución del proyecto.
  2. Comenta en el issue que vas a ocuparte — evita que dos personas hagan lo mismo.
  3. Haz un fork del repositorio y trabaja en una rama.
  4. Abre un pull request que haga referencia al número del issue.

Línea de trabajo

Comience con 3d_segmentation/unet_segmentation_3d_ignite.ipynb y reproduzca su ejecución con papermill utilizando las versiones de las dependencias indicadas en el informe. Inspeccione qué mensajes proceden de la ejecución del notebook frente al entorno de TensorFlow y CUDA; el issue no define qué advertencias deben eliminarse ni cuál debería ser el comportamiento una vez completado.

Escrito por el modelo de indexación a partir del texto del issue.

Evaluación

Stack tecnológico
jupyter-notebook, python, pytorch
Área
machine-learning, testing-qa
Tipo de issue
Error
Dificultad
4/5
Tiempo estimado
3-5 días
Estado de actividad
Estancado
Claridad
Necesita aclaración
Aptitud para principiantes
25/100

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