# Monai Label - Start with Labeled Dataset

**URL:** <https://discourse.slicer.org/t/monai-label-start-with-labeled-dataset/31801>\
**Category:** Support\
**Tags:** segmentation, extensions-manager, monailabel\
**Created:** [September 20, 2023, 11:39am UTC](https://discourse.slicer.org/t/monai-label-start-with-labeled-dataset/31801 "2023-09-20T11:39:25Z")\
**Posts on this page:** 3\
**Page:** 1

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**Author:** ![nasibov\_98](https://avatars.discourse-cdn.com/v4/letter/n/d26b3c/32.png) [@nasibov\_98](https://discourse.slicer.org/u/nasibov_98)\
**Post date:** [September 20, 2023, 11:39am UTC](https://discourse.slicer.org/t/monai-label-start-with-labeled-dataset/31801/1 "2023-09-20T11:39:25Z")

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Hi, I would like to use my own labeled dataset to kickstart monai label training.

Background:  
Followed the youtube installation and scribbler tutorial, i was able to download and view “Task09\_Spleen” in 3D slicer using:

monailabel start\_server --app apps/radiology --studies datasets/Task09\_Spleen/imagesTr --conf models deepedit

Problem:

I have a LABELED dataset “Task013\_Abdomen” set up exactly like example “Task09\_Spleen”. I want to train a new model to detect liver tumours, liver, and kidney. I want to start the training procedure with existing Task013\_abdomen images and labels, and then use the model to iteratively correct and add more segmentations to my model on Slicer 3D.

Specific issues:

- Slicer 3D does not see my dataset. error message “no unlabeled images found”. How do I prime it to expect an already labeled dataset for training?

- What configuration to start monai label server in? I am currently using the following terminal prompt:  
monailabel start\_server --app apps/radiology --studies  
datasets/Task013\_Abdomen/imagesTr --conf models segmentation

- How do I generate the dataset.json and datastore\_v2.json that appears in example “Task09\_Spleen”. I think this is required for slicer to see my MRI images and their respective labels right?

Any help is appreciated, this is taking me a while to set up correctly.

Cheers,

Ulvi

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**Author:** ![Ghazal\_Danaei](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/ghazal_danaei/32/67063_2.png) [@Ghazal\_Danaei](https://discourse.slicer.org/u/Ghazal_Danaei)\
**Post date:** [March 6, 2024, 5:17pm UTC](https://discourse.slicer.org/t/monai-label-start-with-labeled-dataset/31801/2 "2024-03-06T17:17:39Z")

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Hello,  
did you find out why slicer does not see your unlabeled data?

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**Author:** ![magedik](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/magedik/32/79903_2.png) [@magedik](https://discourse.slicer.org/u/magedik)\
**Post date:** [October 20, 2025, 8:10am UTC](https://discourse.slicer.org/t/monai-label-start-with-labeled-dataset/31801/3 "2025-10-20T08:10:24Z")

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Hi. I have the same exact problem. What i did wrong or what is the solution? Any help is appreciated.