Project-MONAI / Project-MONAI/tutorials

new warning messages from notebooks

未关闭
#910 0 条评论 0 个 reaction 已指派 0 人 在 GitHub 查看

还没有人认领这个 Issue。

主要语言
Jupyter Notebook
星标
2.5k
派生
803
平均合并
6 天 22 小时
30 天内合并 PR
3

描述

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.

贡献指南

打开贡献指南

从这里开始

  1. 先读完整个 Issue,再读项目的贡献指南。
  2. 在 Issue 下留言说明你要接手 —— 这能避免两个人做同样的事。
  3. Fork 仓库,在一个分支上完成修改。
  4. 提交 Pull Request,并在描述里引用这个 Issue 编号。

调研方向

从 3d_segmentation/unet_segmentation_3d_ignite.ipynb 开始,使用报告中显示的依赖版本重现其 papermill 执行。检查哪些消息来自 notebook 执行,哪些消息来自 TensorFlow 和 CUDA 环境;该 issue 没有定义应移除哪些警告,也没有定义完成后的行为应是什么。

由索引模型根据 Issue 内容生成。

评估

技术栈
jupyter-notebook, python, pytorch
领域
machine-learning, testing-qa
Issue 类型
缺陷
难度
4/5
预计耗时
3-5 天
活跃度
停滞
描述清晰度
需要澄清
新手友好度
25/100

把新 issue 发到你的邮箱

精选适合新手参与的 GitHub issue 摘要。