Failed to run inference on inference in MONAI Label Server

e.baldelomar · April 8, 2025, 8:09pm

Hello,

I’ve been trying to get acquainted with MONAI Label. I got it installed and running. I’m trying to test out the case 2 example in the Quickstart documentation (Quickstart — MONAI Label 0.8.5 Documentation).

I’m apparently able to connect; load the test data up to the server; and select the specific model/bundle (renalStructures_UNEST_segmentation). When I click ‘Run’ I get an error of

‘Failed to run inference in MONAI Label Server. Message: Status: 500; Response: Internal Server Error’

Below are1) details from the error and 2) Log. Any help is greatly appreciated!

Traceback (most recent call last):
File “/bmrc-homes/nmrgrp/nmr141/Slicer-5.8.1-linux-amd64/slicer.org/Extensions-33241/MONAILabel/lib/Slicer-5.8/qt-scripted-modules/MONAILabel.py”, line 1565, in onClickSegmentation
result_file, params = self.logic.infer(model, image_file, params, session_id=self.getSessionId())
File “/bmrc-homes/nmrgrp/nmr141/Slicer-5.8.1-linux-amd64/slicer.org/Extensions-33241/MONAILabel/lib/Slicer-5.8/qt-scripted-modules/MONAILabel.py”, line 2397, in infer
result_file, params = client.infer(model, image_in, params, label_in, file, session_id)
File “/bmrc-homes/nmrgrp/nmr141/Slicer-5.8.1-linux-amd64/slicer.org/Extensions-33241/MONAILabel/lib/Slicer-5.8/qt-scripted-modules/MONAILabelLib/client.py”, line 344, in infer
raise MONAILabelClientException(
MONAILabelLib.client.MONAILabelClientException: (1, ‘Status: 500; Response: Internal Server Error’)

[nmr141@bmrs117 ~]$ monailabel start_server --app monaibundle --studies Task09_Spleen/imagesTr --conf models renalStructures_UNEST_segmentation
Using PYTHONPATH=/bmr207/nmrgrp/nmr141:

/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/ignite/handlers/checkpoint.py:17: DeprecationWarning: TorchScript support for functional optimizers is deprecated and will be removed in a future PyTorch release. Consider using the torch.compile optimizer instead.
from torch.distributed.optim import ZeroRedundancyOptimizer
[2025-04-08 14:35:32,524] [2026107] [MainThread] [INFO] (main:285) - USING:: version = False
[2025-04-08 14:35:32,524] [2026107] [MainThread] [INFO] (main:285) - USING:: app = /bmrc-homes/nmrgrp/nmr141/monaibundle
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: studies = /bmrc-homes/nmrgrp/nmr141/Task09_Spleen/imagesTr
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: verbose = INFO
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: conf = [[‘models’, ‘renalStructures_UNEST_segmentation’]]
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: host = 0.0.0.0
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: port = 8000
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: uvicorn_app = monailabel.app:app
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: ssl_keyfile = None
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: ssl_certfile = None
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: ssl_keyfile_password = None
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: ssl_ca_certs = None
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: workers = None
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: limit_concurrency = None
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: access_log = False
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: root_path = /
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: log_level = info
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: log_config = None
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: dryrun = False
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:285) - USING:: action = start_server
[2025-04-08 14:35:32,525] [2026107] [MainThread] [INFO] (main:296) -
Allow Origins: [‘‘]
[2025-04-08 14:35:33,599] [2026107] [MainThread] [INFO] (uvicorn.error:82) - Started server process [2026107]
[2025-04-08 14:35:33,599] [2026107] [MainThread] [INFO] (uvicorn.error:48) - Waiting for application startup.
[2025-04-08 14:35:33,599] [2026107] [MainThread] [INFO] (monailabel.interfaces.utils.app:37) - Initializing App from: /bmrc-homes/nmrgrp/nmr141/monaibundle; studies: /bmrc-homes/nmrgrp/nmr141/Task09_Spleen/imagesTr; conf: {‘models’: ‘renalStructures_UNEST_segmentation’}
[2025-04-08 14:35:33,656] [2026107] [MainThread] [INFO] (monailabel.utils.others.class_utils:57) - Subclass for MONAILabelApp Found: <class ‘main.MyApp’>
[2025-04-08 14:36:35,828] [2026107] [MainThread] [INFO] (monailabel.utils.others.generic:315) - +++ Adding Bundle from Zoo: renalStructures_UNEST_segmentation => /bmrc-homes/nmrgrp/nmr141/monaibundle/model/renalStructures_UNEST_segmentation
[2025-04-08 14:36:35,829] [2026107] [MainThread] [INFO] (monailabel.utils.others.generic:375) - +++ Using Bundle Models: [‘renalStructures_UNEST_segmentation’]
[2025-04-08 14:36:35,829] [2026107] [MainThread] [INFO] (monailabel.interfaces.app:135) - Init Datastore for: /bmrc-homes/nmrgrp/nmr141/Task09_Spleen/imagesTr
[2025-04-08 14:36:35,829] [2026107] [MainThread] [INFO] (monailabel.datastore.local:130) - Auto Reload: True; Extensions: [’.nii.gz’, ‘.nii’, '.nrrd’, ‘.jpg’, '.png’, ‘.tif’, '.svs’, ‘*.xml’]
[2025-04-08 14:36:35,837] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_56 => spleen_56.nii.gz
[2025-04-08 14:36:35,837] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_6 => spleen_6.nii.gz
[2025-04-08 14:36:35,837] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_62 => spleen_62.nii.gz
[2025-04-08 14:36:35,837] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_2 => spleen_2.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_3 => spleen_3.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_31 => spleen_31.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_24 => spleen_24.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_13 => spleen_13.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_14 => spleen_14.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_44 => spleen_44.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_27 => spleen_27.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_52 => spleen_52.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_17 => spleen_17.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_46 => spleen_46.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_26 => spleen_26.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_9 => spleen_9.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_16 => spleen_16.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_21 => spleen_21.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_49 => spleen_49.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_22 => spleen_22.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_41 => spleen_41.nii.gz
[2025-04-08 14:36:35,838] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_40 => spleen_40.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_29 => spleen_29.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_38 => spleen_38.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_32 => spleen_32.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_28 => spleen_28.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_60 => spleen_60.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_45 => spleen_45.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_10 => spleen_10.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_33 => spleen_33.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_19 => spleen_19.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_25 => spleen_25.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_61 => spleen_61.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_53 => spleen_53.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_20 => spleen_20.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_12 => spleen_12.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_47 => spleen_47.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_18 => spleen_18.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_8 => spleen_8.nii.gz
[2025-04-08 14:36:35,839] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_63 => spleen_63.nii.gz
[2025-04-08 14:36:35,840] [2026107] [MainThread] [INFO] (monailabel.datastore.local:594) - Adding New Image: spleen_59 => spleen_59.nii.gz
[2025-04-08 14:36:35,844] [2026107] [MainThread] [INFO] (monailabel.datastore.local:577) - Invalidate count: 41
[2025-04-08 14:36:35,848] [2026107] [MainThread] [INFO] (monailabel.datastore.local:151) - Start observing external modifications on datastore (AUTO RELOAD)
[2025-04-08 14:36:39,154] [2026107] [MainThread] [INFO] (main:63) - +++ Adding Inferer:: renalStructures_UNEST_segmentation => <monailabel.tasks.infer.bundle.BundleInferTask object at 0x7f8ba763fe50>
[2025-04-08 14:36:39,155] [2026107] [MainThread] [INFO] (main:77) - +++ Adding Trainer:: renalStructures_UNEST_segmentation => <monailabel.tasks.train.bundle.BundleTrainTask object at 0x7f8ba7ab65b0>
[2025-04-08 14:36:39,155] [2026107] [MainThread] [INFO] (main:87) - Active Learning Strategies:: [‘random’, ‘first’]
[2025-04-08 14:36:39,155] [2026107] [MainThread] [INFO] (monailabel.utils.sessions:51) - Session Path: /bmr207/nmrgrp/nmr141/.cache/monailabel/sessions
[2025-04-08 14:36:39,156] [2026107] [MainThread] [INFO] (monailabel.utils.sessions:52) - Session Expiry (max): 3600
[2025-04-08 14:36:39,156] [2026107] [MainThread] [INFO] (monailabel.interfaces.app:469) - App Init - completed
[2025-04-08 14:36:39,156] [timeloop] [INFO] Starting Timeloop..
[2025-04-08 14:36:39,156] [2026107] [MainThread] [INFO] (timeloop:60) - Starting Timeloop..
[2025-04-08 14:36:39,157] [timeloop] [INFO] Registered job <function MONAILabelApp.on_init_complete..run_scheduler at 0x7f8ba5f35a60>
[2025-04-08 14:36:39,157] [2026107] [MainThread] [INFO] (timeloop:42) - Registered job <function MONAILabelApp.on_init_complete..run_scheduler at 0x7f8ba5f35a60>
[2025-04-08 14:36:39,157] [timeloop] [INFO] Timeloop now started. Jobs will run based on the interval set
[2025-04-08 14:36:39,157] [2026107] [MainThread] [INFO] (timeloop:63) - Timeloop now started. Jobs will run based on the interval set
[2025-04-08 14:36:39,157] [2026107] [MainThread] [INFO] (uvicorn.error:62) - Application startup complete.
[2025-04-08 14:36:39,157] [2026107] [MainThread] [INFO] (uvicorn.error:214) - Uvicorn running on http://0.0.0.0:8000 (Press CTRL+C to quit)
Switch to module: “MONAILabel”
“Volume” Reader has successfully read the file “/bmrc-homes/nmrgrp/nmr141/Task09_Spleen/imagesTr/spleen_10.nii.gz” “[0.65s]”
“Text file” Reader has successfully read the file “/bmrc-homes/nmrgrp/nmr141/Task09_Spleen/imagesTr/datastore_v2.json” “[0.00s]”
[2025-04-08 14:39:32,205] [2026107] [MainThread] [INFO] (monailabel.endpoints.datastore:68) - Image: spleen_10; File: UploadFile(filename=‘/tmp/Slicer-nmr141/slicer-monai-label2025-04-08_14+38+59.980/tmp4i5jkyde.nii.gz’, size=15682060, headers=Headers({‘content-disposition’: ‘form-data; name=“file”; filename=“/tmp/Slicer-nmr141/slicer-monai-label2025-04-08_14+38+59.980/tmp4i5jkyde.nii.gz”’, ‘content-type’: ‘application/octet-stream’})); params: {“client_id”: “user-xyz”}
[2025-04-08 14:39:32,217] [2026107] [MainThread] [INFO] (monailabel.datastore.local:439) - Adding Image: spleen_10 => /tmp/tmp8j3am7z9.nii.gz
[2025-04-08 14:39:41,855] [2026107] [MainThread] [INFO] (monailabel.endpoints.infer:161) - Infer Request: {‘model’: ‘renalStructures_UNEST_segmentation’, ‘image’: ‘spleen_10’, ‘device’: ‘Tesla V100S-PCIE-32GB:0’, ‘model_filename’: ‘model.pt’, ‘result_extension’: ‘.nrrd’, ‘result_dtype’: ‘uint8’, ‘client_id’: ‘user-xyz’}
[2025-04-08 14:39:41,856] [2026107] [MainThread] [INFO] (monailabel.tasks.infer.basic_infer:277) - Infer Request (final): {‘device’: ‘cuda:0’, ‘model_filename’: ‘model.pt’, ‘model’: ‘renalStructures_UNEST_segmentation’, ‘image’: ‘/bmrc-homes/nmrgrp/nmr141/Task09_Spleen/imagesTr/spleen_10.nii.gz’, ‘result_extension’: ‘.nrrd’, ‘result_dtype’: ‘uint8’, ‘client_id’: ‘user-xyz’, ‘description’: ‘A transformer-based model for renal segmentation from CT image’}
[2025-04-08 14:39:41,861] [2026107] [MainThread] [INFO] (monailabel.utils.others.class_utils:33) - Remove/Reload previous Modules: [‘scripts’, ‘scripts.networks’, ‘scripts.networks.nest’, ‘scripts.networks.nest.utils’, ‘scripts.networks.nest_transformer_3D’, ‘scripts.networks.patchEmbed3D’, ‘scripts.networks.unest’, ‘scripts.networks.unest_block’]
[2025-04-08 14:39:41,862] [2026107] [MainThread] [ERROR] (uvicorn.error:412) - Exception in ASGI application
Traceback (most recent call last):
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/uvicorn/protocols/http/h11_impl.py”, line 407, in run_asgi
result = await app( # type: ignore[func-returns-value]
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/uvicorn/middleware/proxy_headers.py”, line 69, in call
return await self.app(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/fastapi/applications.py”, line 1054, in call
await super().call(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/applications.py”, line 123, in call
await self.middleware_stack(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/middleware/errors.py”, line 186, in call
raise exc
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/middleware/errors.py”, line 164, in call
await self.app(scope, receive, _send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/middleware/cors.py”, line 85, in call
await self.app(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/middleware/exceptions.py”, line 65, in call
await wrap_app_handling_exceptions(self.app, conn)(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/_exception_handler.py”, line 64, in wrapped_app
raise exc
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/_exception_handler.py”, line 53, in wrapped_app
await app(scope, receive, sender)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/routing.py”, line 756, in call
await self.middleware_stack(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/routing.py”, line 776, in app
await route.handle(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/routing.py”, line 297, in handle
await self.app(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/routing.py”, line 77, in app
await wrap_app_handling_exceptions(app, request)(scope, receive, send)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/_exception_handler.py”, line 64, in wrapped_app
raise exc
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/_exception_handler.py”, line 53, in wrapped_app
await app(scope, receive, sender)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/starlette/routing.py”, line 72, in app
response = await func(request)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/fastapi/routing.py”, line 278, in app
raw_response = await run_endpoint_function(
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/fastapi/routing.py”, line 191, in run_endpoint_function
return await dependant.call(**values)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monailabel/endpoints/infer.py”, line 180, in api_run_inference
return run_inference(background_tasks, model, image, session_id, params, file, label, output)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monailabel/endpoints/infer.py”, line 162, in run_inference
result = instance.infer(request)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monailabel/interfaces/app.py”, line 307, in infer
result_file_name, result_json = task(request)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monailabel/tasks/infer/basic_infer.py”, line 294, in call
pre_transforms = self.pre_transforms(data)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monailabel/tasks/infer/bundle.py”, line 193, in pre_transforms
c = self.bundle_config.get_parsed_content(k, instantiate=True)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monai/bundle/config_parser.py”, line 290, in get_parsed_content
return self.ref_resolver.get_resolved_content(id=id, **kwargs)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monai/bundle/reference_resolver.py”, line 193, in get_resolved_content
return self._resolve_one_item(id=id, **kwargs)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monai/bundle/reference_resolver.py”, line 163, in _resolve_one_item
self._resolve_one_item(id=d, waiting_list=waiting_list, **kwargs)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monai/bundle/reference_resolver.py”, line 171, in _resolve_one_item
self.resolved_content[id] = item.instantiate() if kwargs.get(“instantiate”, True) else item
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monai/bundle/config_item.py”, line 292, in instantiate
return instantiate(modname, mode, **args)
File “/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monai/utils/module.py”, line 251, in instantiate
raise ModuleNotFoundError(f"Cannot locate class or function path: ‘{__path}’.")
ModuleNotFoundError: Cannot locate class or function path: ‘AddChanneld’.

e.baldelomar · April 9, 2025, 2:40pm

Since I have searched both the monai/ and monailabel/ folders for ‘AddChanneld’ and only things I find are commented. So I’m really lost on how to get this up and running.

grep --include=*.{py} -rnw ‘/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/’ -e “AddChanneld”

/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monailabel/tasks/infer/basic_infer.py:171: monai.transforms.AddChanneld(keys=‘image’),
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monailabel/tasks/infer/basic_infer.py:211: monai.transforms.AddChanneld(keys=‘pred’),
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/tests/unit/deepedit/test_deepedit_transforms.py:16:from monai.transforms import AddChanneld
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/tests/unit/deepedit/test_deepedit_transforms.py:184: add_ch = AddChanneld(keys=[“image”, “label”])(input_data)
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/tests/unit/deepedit/test_deepedit_transforms.py:193: add_ch = AddChanneld(keys=[“image”, “label”])(input_data)
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/tests/unit/deepedit/test_deepedit_transforms.py:202: add_ch = AddChanneld(keys=[“image”, “label”])(input_data)
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/tests/unit/deepedit/test_deepedit_transforms.py:211: add_ch = AddChanneld(keys=[“image”, “label”])(input_data)
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/tests/unit/activelearning/test_epistemic.py:24: AddChanneld,
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/tests/unit/activelearning/test_epistemic.py:73: AddChanneld(keys),
/bmr207/nmrgrp/nmr141/.local/lib/python3.8/site-packages/monai/transforms/transform.py:443: except for example: AddChanneld expects (spatial_dim_1[, spatial_dim_2, …])

The only two files that actually use ‘AddChanneld’ (not commented out) are:

tests/unit/activelearning/test_epistemic.py:73
tests/unit/deepedit/test_deepedit_transforms.py

I found this thread (module 'monai.transforms' has no attribute 'AddChannel' · Project-MONAI/tutorials · Discussion #1686 · GitHub) that talked about this AddChannel issue before but it’s not clear to me how one goes about properly editing it.

When checking version of things using:

python -c “import monai; monai.config.print_config()”

I get the following output if helpful:

MONAI version: 1.3.2
Numpy version: 1.23.4
Pytorch version: 2.4.1+cu121
MONAI flags: HAS_EXT = False, USE_COMPILED = False, USE_META_DICT = False
MONAI rev id: 59a7211070538586369afd4a01eca0a7fe2e742e
MONAI file: /bmr207/nmrgrp//.local/lib/python3.8/site-packages/monai/init.py

Optional dependencies:
Pytorch Ignite version: 0.4.11
ITK version: 5.4.3
Nibabel version: 4.0.2
scikit-image version: 0.21.0
scipy version: 1.10.1
Pillow version: 9.3.0
Tensorboard version: 2.14.0
gdown version: 5.2.0
TorchVision version: 0.19.1+cu121
tqdm version: 4.64.1
lmdb version: 1.6.2
psutil version: 7.0.0
pandas version: 1.5.1
einops version: 0.7.0
transformers version: NOT INSTALLED or UNKNOWN VERSION.
mlflow version: 2.17.2
pynrrd version: 1.0.0
clearml version: NOT INSTALLED or UNKNOWN VERSION.

(A separate question I had was that, even though I just installed this week, I thought the most stable release would be version 1.4? I’m using the ‘pip install monai’)

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