Hello. Is there a way to insert unique module into the Pipeline Creator extension? Specifically, I would like to add Volume Clip With Model as a custom step in a pipeline. Thanks.

Terrific! Thanks so much for your reply.

A good example is probably how we added the Surface Toolbox pipeline steps . To be able to add a new step you need to Write a function that executes your functionality add the @slicerpipelines decorator See also the Pipelines Documentation you could even do this in the Python Console. Any pipeli…

Hi! sorry for hijacking this thread, I work in the medical field and have limited coding experience, is it possible to add the Model Maker module as a new pipeline step in the way you explained?

Hi Lorenzo, yes it should be, you would need to put the functionality you need from Model Maker into a python function. I don’t know enough about Model Maker to be a good resource here. In most cases it’s calling some function of the modules logic(). Although it looks like the Model Maker is a CLI …

hi Herald, thank you for your answer, I will read through the python FAQ and see if I can do something myself. The goal would be to have a pipeline step that takes a labelmap and exports .stl files of that segment with the desired amount of smoothing applied (this value would be chosen in the creat…

We talked a bit internally and it seems that the Model Maker module as it’s a CLI module doesn’t quite follow the pattern of the currently implemented modules. We’re currently looking into whether we can set up an example using the the Model Maker module, this might take a bit though As an option t…

Hi, I think it would be only possible from the model maker module but let me briefly explain what I need to do so you can confirm that there isn’t another way to do this. I need two different segments from a head CT scan, one including all the solid parts and one including only the air around the f…

I would recommend using segmentations for converting labelmap to closed surface. It uses Windows sinc smoothing, as Laplacian smoothing shrinks volumes. Model Maker uses mini-scenes, which is a special method for importing a large set of models, which is not used anywhere else and therefore not wel…

Hi, thank you for your answer. Correct me if I’m wrong but are you saying that if I create a segment in the “Segment editor” module with the smoothing switched on (lets say with the value of 0.10) and then export it through the “Segmentations” module “Export to files” function in STL format I would…

Inserting a unique Module to Pipeline Creator

Support

ebrahim (Ebrahim Ebrahim) September 20, 2023, 5:32pm 2

A timely question – check out the Slicer Pipelines update announcement just posted.

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Inserting a unique Module to Pipeline Creator

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