test error dice_loss_metric_notes

[wyli]

01:38:06  Running ./modules/dice_loss_metric_notes.ipynb
01:38:06  Checking PEP8 compliance...
01:38:07  Running notebook...
01:38:11  MONAI version: 1.0.0+10.gba670c9b
01:38:11  Numpy version: 1.22.4
01:38:11  Pytorch version: 1.10.2+cu102
01:38:11  MONAI flags: HAS_EXT = False, USE_COMPILED = False, USE_META_DICT = False
01:38:11  MONAI rev id: ba670c9ba78f9f4d76eb12b4d33f245b5774d462
01:38:11  MONAI __file__: /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/__init__.py
01:38:11  
01:38:11  Optional dependencies:
01:38:11  Pytorch Ignite version: 0.4.10
01:38:11  Nibabel version: 4.0.2
01:38:11  scikit-image version: 0.19.3
01:38:11  Pillow version: 9.0.1
01:38:11  Tensorboard version: 2.9.1
01:38:11  gdown version: 4.5.1
01:38:11  TorchVision version: 0.11.3+cu102
01:38:11  tqdm version: 4.64.0
01:38:11  lmdb version: 1.3.0
01:38:11  psutil version: 5.9.1
01:38:11  pandas version: 1.1.5
01:38:11  einops version: 0.4.1
01:38:11  transformers version: 4.21.3
01:38:11  mlflow version: 1.29.0
01:38:11  pynrrd version: 0.4.3
01:38:11  
01:38:11  For details about installing the optional dependencies, please visit:
01:38:11      https://docs.monai.io/en/latest/installation.html#installing-the-recommended-dependencies
01:38:11  
01:38:12  /opt/conda/lib/python3.8/site-packages/papermill/iorw.py:153: UserWarning: the file is not specified with any extension : -
01:38:12    warnings.warn(
01:38:19  
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01:38:19  /opt/conda/lib/python3.8/site-packages/papermill/iorw.py:153: UserWarning: the file is not specified with any extension : -
01:38:19    warnings.warn(
01:38:19  Traceback (most recent call last):
01:38:19    File "/opt/conda/bin/papermill", line 8, in <module>
01:38:19      sys.exit(papermill())
01:38:19    File "/opt/conda/lib/python3.8/site-packages/click/core.py", line 1128, in __call__
01:38:19      return self.main(*args, **kwargs)
01:38:19    File "/opt/conda/lib/python3.8/site-packages/click/core.py", line 1053, in main
01:38:19      rv = self.invoke(ctx)
01:38:19    File "/opt/conda/lib/python3.8/site-packages/click/core.py", line 1395, in invoke
01:38:19      return ctx.invoke(self.callback, **ctx.params)
01:38:19    File "/opt/conda/lib/python3.8/site-packages/click/core.py", line 754, in invoke
01:38:19      return __callback(*args, **kwargs)
01:38:19    File "/opt/conda/lib/python3.8/site-packages/click/decorators.py", line 26, in new_func
01:38:19      return f(get_current_context(), *args, **kwargs)
01:38:19    File "/opt/conda/lib/python3.8/site-packages/papermill/cli.py", line 250, in papermill
01:38:19      execute_notebook(
01:38:19    File "/opt/conda/lib/python3.8/site-packages/papermill/execute.py", line 128, in execute_notebook
01:38:19      raise_for_execution_errors(nb, output_path)
01:38:19    File "/opt/conda/lib/python3.8/site-packages/papermill/execute.py", line 232, in raise_for_execution_errors
01:38:19      raise error
01:38:19  papermill.exceptions.PapermillExecutionError: 
01:38:19  ---------------------------------------------------------------------------
01:38:19  Exception encountered at "In [4]":
01:38:19  ---------------------------------------------------------------------------
01:38:19  ValueError                                Traceback (most recent call last)
01:38:19  File /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/transforms/transform.py:91, in apply_transform(transform, data, map_items, unpack_items, log_stats)
01:38:19       90         return [_apply_transform(transform, item, unpack_items) for item in data]
01:38:19  ---> 91     return _apply_transform(transform, data, unpack_items)
01:38:19       92 except Exception as e:
01:38:19       93     # if in debug mode, don't swallow exception so that the breakpoint
01:38:19       94     # appears where the exception was raised.
01:38:19  
01:38:19  File /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/transforms/transform.py:55, in _apply_transform(transform, parameters, unpack_parameters)
01:38:19       53     return transform(*parameters)
01:38:19  ---> 55 return transform(parameters)
01:38:19  
01:38:19  File /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/transforms/utility/array.py:248, in EnsureChannelFirst.__call__(self, img, meta_dict)
01:38:19      247 if self.strict_check:
01:38:19  --> 248     raise ValueError(msg)
01:38:19      249 warnings.warn(msg)
01:38:19  
01:38:19  ValueError: Unknown original_channel_dim in the MetaTensor meta dict or `meta_dict` or `channel_dim`.
01:38:19  
01:38:19  The above exception was the direct cause of the following exception:
01:38:19  
01:38:19  RuntimeError                              Traceback (most recent call last)
01:38:19  Input In [4], in <cell line: 4>()
01:38:19        1 # make one hot and add batch dimension
01:38:19        2 make_2_class = Compose([AsDiscrete(to_onehot=2), EnsureChannelFirst()])
01:38:19  ----> 4 grnd2 = make_2_class(grnd)
01:38:19        5 pred2 = make_2_class(pred)
01:38:19  
01:38:19  File /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/transforms/compose.py:173, in Compose.__call__(self, input_)
01:38:19      171 def __call__(self, input_):
01:38:19      172     for _transform in self.transforms:
01:38:19  --> 173         input_ = apply_transform(_transform, input_, self.map_items, self.unpack_items, self.log_stats)
01:38:19      174     return input_
01:38:19  
01:38:19  File /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/transforms/transform.py:118, in apply_transform(transform, data, map_items, unpack_items, log_stats)
01:38:19      116     else:
01:38:19      117         _log_stats(data=data)
01:38:19  --> 118 raise RuntimeError(f"applying transform {transform}") from e
01:38:19  
01:38:19  RuntimeError: applying transform <monai.transforms.utility.array.EnsureChannelFirst object at 0x7fa200de4730>