unexpected keyword argument 'meta_key_postfix' in tests/unit/endpoints/test_infer_v2.py

[KumoLiu]

tests/unit/endpoints/test_infer_v2.py::TestDetectionBundleInferTask::test_lung_nodule_detector_infer 
-------------------------------- live log call ---------------------------------
[ThreadPoolExecutor-40_0] [INFO] (monailabel.interfaces.utils.app:37) Initializing App from: /tmp/MONAILabel/sample-apps/monaibundle; studies: /tmp/MONAILabel/tests/data/detection; conf: {'heuristic_planner': 'false', 'server_mode': 'true', 'auto_update_scoring': 'false', 'debug': 'true', 'models': 'lung_nodule_ct_detection', 'tracking': False}
[ThreadPoolExecutor-40_0] [INFO] (monailabel.utils.others.class_utils:57) Subclass for MONAILabelApp Found: <class 'main.MyApp'>
[ThreadPoolExecutor-40_0] [INFO] (monailabel.utils.others.generic:351) +++ Adding Bundle from NGC: lung_nodule_ct_detection => /tmp/MONAILabel/sample-apps/monaibundle/model/lung_nodule_ct_detection
[ThreadPoolExecutor-40_0] [INFO] (monailabel.utils.others.generic:364) +++ Using Bundle Models: ['lung_nodule_ct_detection']
[ThreadPoolExecutor-40_0] [INFO] (monailabel.interfaces.app:135) Init Datastore for: /tmp/MONAILabel/tests/data/detection
[ThreadPoolExecutor-40_0] [INFO] (monailabel.datastore.local:130) Auto Reload: False; Extensions: ['*.nii.gz', '*.nii', '*.nrrd', '*.jpg', '*.png', '*.tif', '*.svs', '*.xml']
[ThreadPoolExecutor-40_0] [INFO] (monailabel.datastore.local:577) Invalidate count: 0
[ThreadPoolExecutor-40_0] [INFO] (main:74) +++ Adding Inferer:: lung_nodule_ct_detection => <monailabel.tasks.infer.bundle.BundleInferTask object at 0x7fd9290d94e0>
[ThreadPoolExecutor-40_0] [INFO] (main:89) +++ Adding Trainer:: lung_nodule_ct_detection => <monailabel.tasks.train.bundle.BundleTrainTask object at 0x7fd885769780>
[ThreadPoolExecutor-40_0] [INFO] (main:99) Active Learning Strategies:: ['random', 'first']
[ThreadPoolExecutor-40_0] [INFO] (monailabel.utils.sessions:51) Session Path: /tmp/MONAILabel/tests/data/sessions
[ThreadPoolExecutor-40_0] [INFO] (monailabel.utils.sessions:52) Session Expiry (max): 3600
[ThreadPoolExecutor-40_0] [INFO] (monailabel.endpoints.infer:171) Infer Request: {'model': 'lung_nodule_ct_detection', 'image': '1.3.6.1.4.1.14519.5.2.1.6279.6001.188385286346390202873004762827'}
[ThreadPoolExecutor-40_0] [INFO] (monailabel.tasks.infer.basic_infer:280) Infer Request (final): {'device': 'cuda:0', 'model_filename': ['model.pt'], 'model': 'lung_nodule_ct_detection', 'image': '/tmp/MONAILabel/tests/data/detection/1.3.6.1.4.1.14519.5.2.1.6279.6001.188385286346390202873004762827.nii.gz', 'description': 'A pre-trained model for volumetric (3D) detection of the lung lesion from CT image on LUNA16 dataset'}
FAILED                                                                   [ 43%]

=================================== FAILURES ===================================
_________ TestDetectionBundleInferTask.test_lung_nodule_detector_infer _________

__path = 'monai.transforms.utility.dictionary.EnsureChannelFirstd'
__mode = default, kwargs = {'keys': 'image', 'meta_key_postfix': 'meta_dict'}
CompInitMode = <enum 'CompInitMode'>
component = <class 'monai.transforms.utility.dictionary.EnsureChannelFirstd'>
m = default

    def instantiate(__path: str, __mode: str, **kwargs: Any) -> Any:
        """
        Create an object instance or call a callable object from a class or function represented by ``_path``.
        `kwargs` will be part of the input arguments to the class constructor or function.
        The target component must be a class or a function, if not, return the component directly.
    
        Args:
            __path: if a string is provided, it's interpreted as the full path of the target class or function component.
                If a callable is provided, ``__path(**kwargs)`` will be invoked and returned for ``__mode="default"``.
                For ``__mode="callable"``, the callable will be returned as ``__path`` or, if ``kwargs`` are provided,
                as ``functools.partial(__path, **kwargs)`` for future invoking.
    
            __mode: the operating mode for invoking the (callable) ``component`` represented by ``__path``:
    
                - ``"default"``: returns ``component(**kwargs)``
                - ``"callable"``: returns ``component`` or, if ``kwargs`` are provided, ``functools.partial(component, **kwargs)``
                - ``"debug"``: returns ``pdb.runcall(component, **kwargs)``
    
            kwargs: keyword arguments to the callable represented by ``__path``.
    
        """
        from monai.utils.enums import CompInitMode
    
        component = locate(__path) if isinstance(__path, str) else __path
        if component is None:
            raise ModuleNotFoundError(f"Cannot locate class or function path: '{__path}'.")
        m = look_up_option(__mode, CompInitMode)
        try:
            if kwargs.pop("_debug_", False) or run_debug:
                warnings.warn(
                    f"\n\npdb: instantiating component={component}, mode={m}\n"
                    f"See also Debugger commands documentation: https://docs.python.org/3/library/pdb.html\n"
                )
                breakpoint()
            if not callable(component):
                warnings.warn(f"Component {component} is not callable when mode={m}.")
                return component
            if m == CompInitMode.DEFAULT:
>               return component(**kwargs)
E               TypeError: EnsureChannelFirstd.__init__() got an unexpected keyword argument 'meta_key_postfix'

/usr/local/lib/python3.10/dist-packages/monai/utils/module.py:264: TypeError

The above exception was the direct cause of the following exception:

self = <tests.unit.endpoints.test_infer_v2.TestDetectionBundleInferTask testMethod=test_lung_nodule_detector_infer>

    def test_lung_nodule_detector_infer(self):
        if not torch.cuda.is_available():
            return
    
        model = "lung_nodule_ct_detection"
        image = "1.3.6.1.4.1.14519.5.2.1.6279.6001.188385286346390202873004762827"
    
>       response = self.client.post(f"/infer/{model}?image={image}")

tests/unit/endpoints/test_infer_v2.py:67: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
/usr/local/lib/python3.10/dist-packages/starlette/testclient.py:633: in post
    return super().post(
/usr/local/lib/python3.10/dist-packages/httpx/_client.py:1145: in post
    return self.request(
/usr/local/lib/python3.10/dist-packages/starlette/testclient.py:516: in request
    return super().request(
/usr/local/lib/python3.10/dist-packages/httpx/_client.py:827: in request
    return self.send(request, auth=auth, follow_redirects=follow_redirects)
/usr/local/lib/python3.10/dist-packages/httpx/_client.py:914: in send
    response = self._send_handling_auth(
/usr/local/lib/python3.10/dist-packages/httpx/_client.py:942: in _send_handling_auth
    response = self._send_handling_redirects(
/usr/local/lib/python3.10/dist-packages/httpx/_client.py:979: in _send_handling_redirects
    response = self._send_single_request(request)
/usr/local/lib/python3.10/dist-packages/httpx/_client.py:1015: in _send_single_request
    response = transport.handle_request(request)
/usr/local/lib/python3.10/dist-packages/starlette/testclient.py:398: in handle_request
    raise exc
/usr/local/lib/python3.10/dist-packages/starlette/testclient.py:395: in handle_request
    portal.call(self.app, scope, receive, send)
/usr/local/lib/python3.10/dist-packages/anyio/from_thread.py:288: in call
    return cast(T_Retval, self.start_task_soon(func, *args).result())
/usr/lib/python3.10/concurrent/futures/_base.py:458: in result
    return self.__get_result()
/usr/lib/python3.10/concurrent/futures/_base.py:403: in __get_result
    raise self._exception
/usr/local/lib/python3.10/dist-packages/anyio/from_thread.py:217: in _call_func
    retval = await retval_or_awaitable
/usr/local/lib/python3.10/dist-packages/fastapi/applications.py:1054: in __call__
    await super().__call__(scope, receive, send)
/usr/local/lib/python3.10/dist-packages/starlette/applications.py:123: in __call__
    await self.middleware_stack(scope, receive, send)
/usr/local/lib/python3.10/dist-packages/starlette/middleware/errors.py:186: in __call__
    raise exc
/usr/local/lib/python3.10/dist-packages/starlette/middleware/errors.py:164: in __call__
    await self.app(scope, receive, _send)
/usr/local/lib/python3.10/dist-packages/starlette/middleware/cors.py:85: in __call__
    await self.app(scope, receive, send)
/usr/local/lib/python3.10/dist-packages/starlette/middleware/exceptions.py:65: in __call__
    await wrap_app_handling_exceptions(self.app, conn)(scope, receive, send)
/usr/local/lib/python3.10/dist-packages/starlette/_exception_handler.py:64: in wrapped_app
    raise exc
/usr/local/lib/python3.10/dist-packages/starlette/_exception_handler.py:53: in wrapped_app
    await app(scope, receive, sender)
/usr/local/lib/python3.10/dist-packages/starlette/routing.py:756: in __call__
    await self.middleware_stack(scope, receive, send)
/usr/local/lib/python3.10/dist-packages/starlette/routing.py:776: in app
    await route.handle(scope, receive, send)
/usr/local/lib/python3.10/dist-packages/starlette/routing.py:297: in handle
    await self.app(scope, receive, send)
/usr/local/lib/python3.10/dist-packages/starlette/routing.py:77: in app
    await wrap_app_handling_exceptions(app, request)(scope, receive, send)
/usr/local/lib/python3.10/dist-packages/starlette/_exception_handler.py:64: in wrapped_app
    raise exc
/usr/local/lib/python3.10/dist-packages/starlette/_exception_handler.py:53: in wrapped_app
    await app(scope, receive, sender)
/usr/local/lib/python3.10/dist-packages/starlette/routing.py:72: in app
    response = await func(request)
/usr/local/lib/python3.10/dist-packages/fastapi/routing.py:278: in app
    raw_response = await run_endpoint_function(
/usr/local/lib/python3.10/dist-packages/fastapi/routing.py:191: in run_endpoint_function
    return await dependant.call(**values)
monailabel/endpoints/infer.py:206: in api_run_inference
    return run_inference(background_tasks, model, image, session_id, params, file, label, output)
monailabel/endpoints/infer.py:172: in run_inference
    result = instance.infer(request)
monailabel/interfaces/app.py:307: in infer
    result_file_name, result_json = task(request)
monailabel/tasks/infer/basic_infer.py:297: in __call__
    pre_transforms = self.pre_transforms(data)
monailabel/tasks/infer/bundle.py:201: in pre_transforms
    c = self.bundle_config.get_parsed_content(k, instantiate=True)
/usr/local/lib/python3.10/dist-packages/monai/bundle/config_parser.py:290: in get_parsed_content
    return self.ref_resolver.get_resolved_content(id=id, **kwargs)
/usr/local/lib/python3.10/dist-packages/monai/bundle/reference_resolver.py:193: in get_resolved_content
    return self._resolve_one_item(id=id, **kwargs)
/usr/local/lib/python3.10/dist-packages/monai/bundle/reference_resolver.py:163: in _resolve_one_item
    self._resolve_one_item(id=d, waiting_list=waiting_list, **kwargs)
/usr/local/lib/python3.10/dist-packages/monai/bundle/reference_resolver.py:171: in _resolve_one_item
    self.resolved_content[id] = item.instantiate() if kwargs.get("instantiate", True) else item
/usr/local/lib/python3.10/dist-packages/monai/bundle/config_item.py:292: in instantiate
    return instantiate(modname, mode, **args)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

__path = 'monai.transforms.utility.dictionary.EnsureChannelFirstd'
__mode = default, kwargs = {'keys': 'image', 'meta_key_postfix': 'meta_dict'}
CompInitMode = <enum 'CompInitMode'>
component = <class 'monai.transforms.utility.dictionary.EnsureChannelFirstd'>
m = default

    def instantiate(__path: str, __mode: str, **kwargs: Any) -> Any:
        """
        Create an object instance or call a callable object from a class or function represented by ``_path``.
        `kwargs` will be part of the input arguments to the class constructor or function.
        The target component must be a class or a function, if not, return the component directly.
    
        Args:
            __path: if a string is provided, it's interpreted as the full path of the target class or function component.
                If a callable is provided, ``__path(**kwargs)`` will be invoked and returned for ``__mode="default"``.
                For ``__mode="callable"``, the callable will be returned as ``__path`` or, if ``kwargs`` are provided,
                as ``functools.partial(__path, **kwargs)`` for future invoking.
    
            __mode: the operating mode for invoking the (callable) ``component`` represented by ``__path``:
    
                - ``"default"``: returns ``component(**kwargs)``
                - ``"callable"``: returns ``component`` or, if ``kwargs`` are provided, ``functools.partial(component, **kwargs)``
                - ``"debug"``: returns ``pdb.runcall(component, **kwargs)``
    
            kwargs: keyword arguments to the callable represented by ``__path``.
    
        """
        from monai.utils.enums import CompInitMode
    
        component = locate(__path) if isinstance(__path, str) else __path
        if component is None:
            raise ModuleNotFoundError(f"Cannot locate class or function path: '{__path}'.")
        m = look_up_option(__mode, CompInitMode)
        try:
            if kwargs.pop("_debug_", False) or run_debug:
                warnings.warn(
                    f"\n\npdb: instantiating component={component}, mode={m}\n"
                    f"See also Debugger commands documentation: https://docs.python.org/3/library/pdb.html\n"
                )
                breakpoint()
            if not callable(component):
                warnings.warn(f"Component {component} is not callable when mode={m}.")
                return component
            if m == CompInitMode.DEFAULT:
                return component(**kwargs)
            if m == CompInitMode.CALLABLE:
                return partial(component, **kwargs) if kwargs else component
            if m == CompInitMode.DEBUG:
                warnings.warn(
                    f"\n\npdb: instantiating component={component}, mode={m}\n"
                    f"See also Debugger commands documentation: https://docs.python.org/3/library/pdb.html\n"
                )
                return pdb.runcall(component, **kwargs)
        except Exception as e:
>           raise RuntimeError(
                f"Failed to instantiate component '{__path}' with keywords: {','.join(kwargs.keys())}"
                f"\n set '_mode_={CompInitMode.DEBUG}' to enter the debugging mode."
            ) from e
E           RuntimeError: Failed to instantiate component 'monai.transforms.utility.dictionary.EnsureChannelFirstd' with keywords: keys,meta_key_postfix
E            set '_mode_=debug' to enter the debugging mode.

/usr/local/lib/python3.10/dist-packages/monai/utils/module.py:274: RuntimeError

[SachidanandAlle]

Latest code solves this issue. It doesn't exist anymore