[2022-10-12T12:24:36.388Z] Running ./modules/interpretability/class_lung_lesion.ipynb
[2022-10-12T12:24:36.388Z] Checking PEP8 compliance...
[2022-10-12T12:24:36.951Z] Running notebook...
[2022-10-12T12:24:36.951Z] Before:
[2022-10-12T12:24:36.951Z]     "max_epochs = 100\n",
[2022-10-12T12:24:37.207Z] After:
[2022-10-12T12:24:37.207Z]     "max_epochs = 1\n",
[2022-10-12T12:24:37.207Z] Before:
[2022-10-12T12:24:37.207Z]     "val_interval = 1\n",
[2022-10-12T12:24:37.207Z] After:
[2022-10-12T12:24:37.207Z]     "val_interval = 1\n",
[2022-10-12T12:24:41.381Z] MONAI version: 1.0.0+37.g9731823d
[2022-10-12T12:24:41.381Z] Numpy version: 1.22.2
[2022-10-12T12:24:41.381Z] Pytorch version: 1.10.2+cu102
[2022-10-12T12:24:41.381Z] MONAI flags: HAS_EXT = False, USE_COMPILED = False, USE_META_DICT = False
[2022-10-12T12:24:41.381Z] MONAI rev id: 9731823da40ae7835afad601d7d2b601534c80d3
[2022-10-12T12:24:41.381Z] MONAI __file__: /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/__init__.py
[2022-10-12T12:24:41.381Z] 
[2022-10-12T12:24:41.381Z] Optional dependencies:
[2022-10-12T12:24:41.381Z] Pytorch Ignite version: 0.4.10
[2022-10-12T12:24:41.381Z] Nibabel version: 4.0.2
[2022-10-12T12:24:41.381Z] scikit-image version: 0.19.3
[2022-10-12T12:24:41.381Z] Pillow version: 9.0.1
[2022-10-12T12:24:41.381Z] Tensorboard version: 2.10.0
[2022-10-12T12:24:41.381Z] gdown version: 4.5.1
[2022-10-12T12:24:41.381Z] TorchVision version: 0.11.3+cu102
[2022-10-12T12:24:41.381Z] tqdm version: 4.64.1
[2022-10-12T12:24:41.381Z] lmdb version: 1.3.0
[2022-10-12T12:24:41.381Z] psutil version: 5.9.2
[2022-10-12T12:24:41.381Z] pandas version: 1.1.5
[2022-10-12T12:24:41.381Z] einops version: 0.5.0
[2022-10-12T12:24:41.381Z] transformers version: 4.21.3
[2022-10-12T12:24:41.381Z] mlflow version: 1.29.0
[2022-10-12T12:24:41.381Z] pynrrd version: 1.0.0
[2022-10-12T12:24:41.381Z] 
[2022-10-12T12:24:41.381Z] For details about installing the optional dependencies, please visit:
[2022-10-12T12:24:41.381Z]     https://docs.monai.io/en/latest/installation.html#installing-the-recommended-dependencies
[2022-10-12T12:24:41.381Z] 
[2022-10-12T12:24:42.309Z] /opt/conda/lib/python3.8/site-packages/papermill/iorw.py:153: UserWarning: the file is not specified with any extension : -
[2022-10-12T12:24:42.309Z]   warnings.warn(
[2022-10-12T12:33:00.667Z] 
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[2022-10-12T12:33:00.667Z] /opt/conda/lib/python3.8/site-packages/papermill/iorw.py:153: UserWarning: the file is not specified with any extension : -
[2022-10-12T12:33:00.667Z]   warnings.warn(
[2022-10-12T12:33:00.667Z] Traceback (most recent call last):
[2022-10-12T12:33:00.667Z]   File "/opt/conda/bin/papermill", line 8, in <module>
[2022-10-12T12:33:00.667Z]     sys.exit(papermill())
[2022-10-12T12:33:00.667Z]   File "/opt/conda/lib/python3.8/site-packages/click/core.py", line 1130, in __call__
[2022-10-12T12:33:00.667Z]     return self.main(*args, **kwargs)
[2022-10-12T12:33:00.667Z]   File "/opt/conda/lib/python3.8/site-packages/click/core.py", line 1055, in main
[2022-10-12T12:33:00.667Z]     rv = self.invoke(ctx)
[2022-10-12T12:33:00.667Z]   File "/opt/conda/lib/python3.8/site-packages/click/core.py", line 1404, in invoke
[2022-10-12T12:33:00.667Z]     return ctx.invoke(self.callback, **ctx.params)
[2022-10-12T12:33:00.667Z]   File "/opt/conda/lib/python3.8/site-packages/click/core.py", line 760, in invoke
[2022-10-12T12:33:00.667Z]     return __callback(*args, **kwargs)
[2022-10-12T12:33:00.667Z]   File "/opt/conda/lib/python3.8/site-packages/click/decorators.py", line 26, in new_func
[2022-10-12T12:33:00.667Z]     return f(get_current_context(), *args, **kwargs)
[2022-10-12T12:33:00.667Z]   File "/opt/conda/lib/python3.8/site-packages/papermill/cli.py", line 250, in papermill
[2022-10-12T12:33:00.667Z]     execute_notebook(
[2022-10-12T12:33:00.667Z]   File "/opt/conda/lib/python3.8/site-packages/papermill/execute.py", line 128, in execute_notebook
[2022-10-12T12:33:00.667Z]     raise_for_execution_errors(nb, output_path)
[2022-10-12T12:33:00.667Z]   File "/opt/conda/lib/python3.8/site-packages/papermill/execute.py", line 232, in raise_for_execution_errors
[2022-10-12T12:33:00.667Z]     raise error
[2022-10-12T12:33:00.667Z] papermill.exceptions.PapermillExecutionError: 
[2022-10-12T12:33:00.667Z] ---------------------------------------------------------------------------
[2022-10-12T12:33:00.667Z] Exception encountered at "In [12]":
[2022-10-12T12:33:00.667Z] ---------------------------------------------------------------------------
[2022-10-12T12:33:00.667Z] RuntimeError                              Traceback (most recent call last)
[2022-10-12T12:33:00.667Z] Cell In [12], line 34
[2022-10-12T12:33:00.667Z]      31 cam_result = cam_result[..., the_slice]
[2022-10-12T12:33:00.667Z]      33 # run occlusion
[2022-10-12T12:33:00.667Z] ---> 34 occ_result, _ = occ_sens(x=image, b_box=occ_sens_b_box)
[2022-10-12T12:33:00.667Z]      35 occ_result = occ_result[..., pred_label]
[2022-10-12T12:33:00.667Z]      37 for row, (im, title) in enumerate(
[2022-10-12T12:33:00.667Z]      38     zip(
[2022-10-12T12:33:00.667Z]      39         [img, cam_result, occ_result],
[2022-10-12T12:33:00.667Z]      40         [name, "CAM", "Occ. sens."],
[2022-10-12T12:33:00.667Z]      41     )
[2022-10-12T12:33:00.667Z]      42 ):
[2022-10-12T12:33:00.667Z] 
[2022-10-12T12:33:00.667Z] File /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/visualize/occlusion_sensitivity.py:351, in OcclusionSensitivity.__call__(self, x, b_box, **kwargs)
[2022-10-12T12:33:00.667Z]     349     bbox_min = [max(b, 0) for b in b_box[::2]]
[2022-10-12T12:33:00.667Z]     350     bbox_max = [b if b > 0 else s for b, s in zip(b_box[1::2], x.shape[2:])]
[2022-10-12T12:33:00.667Z] --> 351     cropper = SpatialCrop(roi_start=bbox_min, roi_end=bbox_max)
[2022-10-12T12:33:00.667Z]     352     sensitivity_im = cropper(sensitivity_im[0])[None]  # type: ignore
[2022-10-12T12:33:00.667Z]     354 # The most probable class is the max in the classification dimension (1)
[2022-10-12T12:33:00.667Z] 
[2022-10-12T12:33:00.667Z] File /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/transforms/croppad/array.py:497, in SpatialCrop.__init__(self, roi_center, roi_size, roi_start, roi_end, roi_slices)
[2022-10-12T12:33:00.667Z]     479 def __init__(
[2022-10-12T12:33:00.667Z]     480     self,
[2022-10-12T12:33:00.667Z]     481     roi_center: Union[Sequence[int], NdarrayOrTensor, None] = None,
[2022-10-12T12:33:00.667Z]    (...)
[2022-10-12T12:33:00.667Z]     485     roi_slices: Optional[Sequence[slice]] = None,
[2022-10-12T12:33:00.667Z]     486 ) -> None:
[2022-10-12T12:33:00.667Z]     487     """
[2022-10-12T12:33:00.667Z]     488     Args:
[2022-10-12T12:33:00.667Z]     489         roi_center: voxel coordinates for center of the crop ROI.
[2022-10-12T12:33:00.667Z]    (...)
[2022-10-12T12:33:00.667Z]     495         roi_slices: list of slices for each of the spatial dimensions.
[2022-10-12T12:33:00.668Z]     496     """
[2022-10-12T12:33:00.668Z] --> 497     self.slices = self.compute_slices(
[2022-10-12T12:33:00.668Z]     498         roi_center=roi_center, roi_size=roi_size, roi_start=roi_start, roi_end=roi_end, roi_slices=roi_slices
[2022-10-12T12:33:00.668Z]     499     )
[2022-10-12T12:33:00.668Z] 
[2022-10-12T12:33:00.668Z] File /home/jenkins/agent/workspace/Monai-notebooks/MONAI/monai/transforms/croppad/array.py:417, in Crop.compute_slices(roi_center, roi_size, roi_start, roi_end, roi_slices)
[2022-10-12T12:33:00.668Z]     415     roi_start_t = torch.maximum(roi_start_t, torch.zeros_like(roi_start_t))
[2022-10-12T12:33:00.668Z]     416     roi_end_t = convert_to_tensor(data=roi_end, dtype=torch.int16, wrap_sequence=True)
[2022-10-12T12:33:00.668Z] --> 417     roi_end_t = torch.maximum(roi_end_t, roi_start_t)
[2022-10-12T12:33:00.668Z]     418 # convert to slices (accounting for 1d)
[2022-10-12T12:33:00.668Z]     419 if roi_start_t.numel() == 1:
[2022-10-12T12:33:00.668Z] 
[2022-10-12T12:33:00.668Z] RuntimeError: The size of tensor a (3) must match the size of tensor b (4) at non-singleton dimension 0