Closed KumoLiu closed 7 months ago
2024-03-16 04:11:18,952 - INFO - Setting logging properties based on config: ./endoscopic_tool_segmentation/configs/logging.conf. monai.bundle.workflows ConfigWorkflow.__init__:workflow: Argument `workflow` has been deprecated since version 1.2. It will be removed in version 1.5. please use `workflow_type` instead. Ending Cell 16----------------------------------------- Traceback (most recent call last): File "/usr/local/bin/papermill", line 8, in <module> sys.exit(papermill()) File "/usr/local/lib/python3.10/dist-packages/click/core.py", line 1130, in __call__ return self.main(*args, **kwargs) File "/usr/local/lib/python3.10/dist-packages/click/core.py", line 1055, in main rv = self.invoke(ctx) File "/usr/local/lib/python3.10/dist-packages/click/core.py", line 1404, in invoke return ctx.invoke(self.callback, **ctx.params) File "/usr/local/lib/python3.10/dist-packages/click/core.py", line 760, in invoke return __callback(*args, **kwargs) File "/usr/local/lib/python3.10/dist-packages/click/decorators.py", line 26, in new_func return f(get_current_context(), *args, **kwargs) File "/usr/local/lib/python3.10/dist-packages/papermill/cli.py", line 254, in papermill execute_notebook( File "/usr/local/lib/python3.10/dist-packages/papermill/execute.py", line 134, in execute_notebook raise_for_execution_errors(nb, output_path) File "/usr/local/lib/python3.10/dist-packages/papermill/execute.py", line 241, in raise_for_execution_errors raise error papermill.exceptions.PapermillExecutionError: --------------------------------------------------------------------------- Exception encountered at "In [7]": --------------------------------------------------------------------------- FileNotFoundError Traceback (most recent call last) File /usr/local/lib/python3.10/dist-packages/monai/bundle/config_item.py:377, in ConfigExpression.evaluate(self, globals, locals) 376 try: --> 377 return eval(value[len(self.prefix) :], globals_, locals) 378 except Exception as e: File <string>:1 File /usr/local/lib/python3.10/dist-packages/monai/handlers/checkpoint_loader.py:126, in CheckpointLoader.__call__(self, engine) 122 ' 123 Args: 124 engine: Ignite Engine, it can be a trainer, validator or evaluator. 125 ' --> 126 checkpoint = torch.load(self.load_path, map_location=self.map_location) 128 k, _ = list(self.load_dict.items())[0] File /usr/local/lib/python3.10/dist-packages/torch/serialization.py:997, in load(f, map_location, pickle_module, weights_only, mmap, **pickle_load_args) 995 pickle_load_args['encoding'] = 'utf-8' --> 997 with _open_file_like(f, 'rb') as opened_file: 998 if _is_zipfile(opened_file): 999 # The zipfile reader is going to advance the current file position. 1000 # If we want to actually tail call to torch.jit.load, we need to 1001 # reset back to the original position. File /usr/local/lib/python3.10/dist-packages/torch/serialization.py:444, in _open_file_like(name_or_buffer, mode) 443 if _is_path(name_or_buffer): --> 444 return _open_file(name_or_buffer, mode) 445 else: File /usr/local/lib/python3.10/dist-packages/torch/serialization.py:425, in _open_file.__init__(self, name, mode) 424 def __init__(self, name, mode): --> 425 super().__init__(open(name, mode)) FileNotFoundError: [Errno 2] No such file or directory: './models/model.pt' The above exception was the direct cause of the following exception: RuntimeError Traceback (most recent call last) Cell In[7], line 14 5 trt_fp16_model_path = os.path.join(bundle_path, "models", "model_trt_fp16.ts") 7 workflow = monai.bundle.ConfigWorkflow( 8 workflow="infer", 9 config_file=inference_config, 10 meta_file=meta_config, 11 logging_file=os.path.join(bundle_path, "configs", "logging.conf"), 12 ) ---> 14 workflow.initialize() 15 device = workflow.device 16 spatial_shape = (1, 3, 736, 480) File /usr/local/lib/python3.10/dist-packages/monai/bundle/workflows.py:296, in ConfigWorkflow.initialize(self) 294 self.parser.parse(reset=True) 295 self._is_initialized = True --> 296 return self._run_expr(id=self.init_id) File /usr/local/lib/python3.10/dist-packages/monai/bundle/workflows.py:344, in ConfigWorkflow._run_expr(self, id, **kwargs) 343 def _run_expr(self, id: str, **kwargs: dict) -> Any: --> 344 return self.parser.get_parsed_content(id, **kwargs) if id in self.parser else None File /usr/local/lib/python3.10/dist-packages/monai/bundle/config_parser.py:290, in ConfigParser.get_parsed_content(self, id, **kwargs) 288 elif not kwargs.get("lazy", True): 289 self.parse(reset=not kwargs.get("lazy", True)) --> 290 return self.ref_resolver.get_resolved_content(id=id, **kwargs) File /usr/local/lib/python3.10/dist-packages/monai/bundle/reference_resolver.py:193, in ReferenceResolver.get_resolved_content(self, id, **kwargs) 181 def get_resolved_content(self, id: str, **kwargs: Any) -> ConfigExpression | str | Any | None: 182 ' 183 Get the resolved ``ConfigItem`` by id. 184 (...) 191 192 ' --> 193 return self._resolve_one_item(id=id, **kwargs) File /usr/local/lib/python3.10/dist-packages/monai/bundle/reference_resolver.py:163, in ReferenceResolver._resolve_one_item(self, id, waiting_list, **kwargs) 161 continue 162 # recursively resolve the reference first --> 163 self._resolve_one_item(id=d, waiting_list=waiting_list, **kwargs) 164 waiting_list.discard(d) 166 # all references are resolved, then try to resolve current config item File /usr/local/lib/python3.10/dist-packages/monai/bundle/reference_resolver.py:175, in ReferenceResolver._resolve_one_item(self, id, waiting_list, **kwargs) 172 elif isinstance(item, ConfigExpression): 173 run_eval = kwargs.get("eval_expr", True) 174 self.resolved_content[id] = ( --> 175 item.evaluate(globals={f"{self._vars}": self.resolved_content}) if run_eval else item 176 ) 177 else: 178 self.resolved_content[id] = new_config File /usr/local/lib/python3.10/dist-packages/monai/bundle/config_item.py:379, in ConfigExpression.evaluate(self, globals, locals) 377 return eval(value[len(self.prefix) :], globals_, locals) 378 except Exception as e: --> 379 raise RuntimeError(f"Failed to evaluate {self}") from e 380 warnings.warn( 381 f" pdb: value={value} " 382 f"See also Debugger commands documentation: https://docs.python.org/3/library/pdb.html " 383 ) 384 import pdb RuntimeError: Failed to evaluate ConfigExpression:
KumoLiu
commented
7 months ago KumoLiu
commented
7 months ago