# \#python

**URL:** https://discourse.slicer.org/tag/python/33.md

[Latest](https://discourse.slicer.org/latest.md) · [Categories](https://discourse.slicer.org/categories.md) · [Tags](https://discourse.slicer.org/tags.md)

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## [Radiomics feature ](https://discourse.slicer.org/t/radiomics-feature/48402)

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**Author:** [@jannat\_jaafrah](https://discourse.slicer.org/u/jannat_jaafrah)\
**Replies:** 0\
**Last updated:** [October 5, 2026, 1:45pm UTC](https://discourse.slicer.org/t/radiomics-feature/48402 "2026-10-05T13:45:15Z")

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Hi everyone, i need help for these choices what is the best for the features?

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## [Measuring per-tooth displacement between serial intraoral scans - which modules?](https://discourse.slicer.org/t/measuring-per-tooth-displacement-between-serial-intraoral-scans-which-modules/47723)

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**Author:** [@Alla\_Belova](https://discourse.slicer.org/u/Alla_Belova)\
**Replies:** 2\
**Last updated:** [July 25, 2026, 4:15pm UTC](https://discourse.slicer.org/t/measuring-per-tooth-displacement-between-serial-intraoral-scans-which-modules/47723 "2026-07-25T16:15:56Z")

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Hi all — I’m a dentist working on a PhD metrology project and I kindly ask for your help to build an efficient protocol for measuring tooth displacement in time. The data: five surface meshes (STL) of the same mandibula…

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## [PyTorch not working on Intel(R) Core(TM) Ultra 7 155H](https://discourse.slicer.org/t/pytorch-not-working-on-intel-r-core-tm-ultra-7-155h/47724)

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**Author:** [@Esteban\_Barreiro](https://discourse.slicer.org/u/Esteban_Barreiro)\
**Replies:** 0\
**Last updated:** [July 23, 2026, 12:48pm UTC](https://discourse.slicer.org/t/pytorch-not-working-on-intel-r-core-tm-ultra-7-155h/47724 "2026-07-23T12:48:39Z")

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Hi community! I can’t run Dental Segmentator on an Intel(R) Core™ Ultra 7 155H, on Slicer v 5.8.1, due to an error on Torch, I have already tried all the troubleshooting and it still not working. Does anyone solve this…

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## [Stereo Off-Axis Projection and Mouse Interactions](https://discourse.slicer.org/t/stereo-off-axis-projection-and-mouse-interactions/47552)

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**Author:** [@LucasP](https://discourse.slicer.org/u/LucasP)\
**Replies:** 4\
**Last updated:** [July 14, 2026, 6:22pm UTC](https://discourse.slicer.org/t/stereo-off-axis-projection-and-mouse-interactions/47552 "2026-07-14T18:22:48Z")

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:robot: This post was written with AI assistance. But I’m still human Hi, I’m new to 3D Slicer and VTK. I am trying to build a “virtual window” effect using a custom stereo display that gives me real-time viewDistanc…

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## [Asking question about GLCM per angle in radiomics](https://discourse.slicer.org/t/asking-question-about-glcm-per-angle-in-radiomics/44967)

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**Author:** [@Nicolas\_hsieh](https://discourse.slicer.org/u/Nicolas_hsieh)\
**Replies:** 16\
**Last updated:** [July 14, 2026, 1:06am UTC](https://discourse.slicer.org/t/asking-question-about-glcm-per-angle-in-radiomics/44967 "2026-07-14T01:06:23Z")

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Hello, I’m new to the Pyradiomics. Recently, I read the document of Pyradiomics. It seems that I can’t use Pyradiomics to calculate GLCM per angle(eg. energy per angles or entropy per angle). Is there any method to calcu…

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## [Workflow for segmenting many lesions as separate segments?](https://discourse.slicer.org/t/workflow-for-segmenting-many-lesions-as-separate-segments/47094)

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**Author:** [@zhousy5310](https://discourse.slicer.org/u/zhousy5310)\
**Replies:** 5\
**Last updated:** [July 8, 2026, 8:56am UTC](https://discourse.slicer.org/t/workflow-for-segmenting-many-lesions-as-separate-segments/47094 "2026-07-08T08:56:49Z")

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Hi all, I’m currently working on NF1 cases using Slicer, and trying to find a better workflow. The main difficulty is not segmenting one lesion, but handling many separate lesions efficiently while keeping them as diff…

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## [Beginner to Slicer, SOFA, etc - Advice?](https://discourse.slicer.org/t/beginner-to-slicer-sofa-etc-advice/47469)

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**Author:** [@KarimA](https://discourse.slicer.org/u/KarimA)\
**Replies:** 1\
**Last updated:** [June 27, 2026, 12:49pm UTC](https://discourse.slicer.org/t/beginner-to-slicer-sofa-etc-advice/47469 "2026-06-27T12:49:38Z")

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Hello everyone, I’m a computer engineering undergrad (senior) new to 3DSlicer and related medical software. I have recently become interested in surgical robotics and have been working on a few research projects regardi…

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## [pyradiomics 3.1.1.dev111+g8ed579383, is it safe?](https://discourse.slicer.org/t/pyradiomics-3-1-1-dev111-g8ed579383-is-it-safe/47416)

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**Author:** [@aujinen](https://discourse.slicer.org/u/aujinen)\
**Replies:** 3\
**Last updated:** [June 26, 2026, 1:50pm UTC](https://discourse.slicer.org/t/pyradiomics-3-1-1-dev111-g8ed579383-is-it-safe/47416 "2026-06-26T13:50:26Z")

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I downloaded PyRadiomics using git clone https://github.com/AIM-Harvard/pyradiomics and installed it using uv sync according to the contents of “pyproject.toml” with C++ build tools of Microsoft “Build Tools for Visual S…

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## [Visualizing 3D bounding boxes in Slicer Markups (Fiducials vs Lines) + JSON format question](https://discourse.slicer.org/t/visualizing-3d-bounding-boxes-in-slicer-markups-fiducials-vs-lines-json-format-question/47419)

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**Author:** [@khorlint](https://discourse.slicer.org/u/khorlint)\
**Replies:** 1\
**Last updated:** [June 22, 2026, 10:30pm UTC](https://discourse.slicer.org/t/visualizing-3d-bounding-boxes-in-slicer-markups-fiducials-vs-lines-json-format-question/47419 "2026-06-22T22:30:00Z")

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Description: I am working with 3D Slicer markups to debug an interactive model that uses prompt-based inputs (3D bounding boxes). My goal is to ensure that the voxel → world coordinate transformation is correct and that…

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## [slicer.modules.SegmentEditorWidget does not exists anymore](https://discourse.slicer.org/t/slicer-modules-segmenteditorwidget-does-not-exists-anymore/47334)

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**Author:** [@joachim](https://discourse.slicer.org/u/joachim)\
**Replies:** 3\
**Last updated:** [June 22, 2026, 8:19am UTC](https://discourse.slicer.org/t/slicer-modules-segmenteditorwidget-does-not-exists-anymore/47334 "2026-06-22T08:19:42Z")

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I haven’t updated Slicer for a while, but now my .slicerrc does not work as usual. I have the line slicer.modules.SegmentEditorWidget.editor.findChild( "QWidget", "EffectsGroupBox" ), but in the newest Slicer version the…

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## [Is there a Python API to get MLC/Jaw position sequences from a VMAT plan?](https://discourse.slicer.org/t/is-there-a-python-api-to-get-mlc-jaw-position-sequences-from-a-vmat-plan/47323)

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**Author:** [@Aki](https://discourse.slicer.org/u/Aki)\
**Replies:** 2\
**Last updated:** [June 16, 2026, 11:16pm UTC](https://discourse.slicer.org/t/is-there-a-python-api-to-get-mlc-jaw-position-sequences-from-a-vmat-plan/47323 "2026-06-16T23:16:47Z")

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Hi, there I would like to get MLC/Jaw position sequences and dose/MU data at each control point from data imported into 3DSlicer. Is there any API to access such data. I would like to make a python script or extension t…

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## [New extension: MuscleMap --  Automated Whole-Body Muscle Segmentation](https://discourse.slicer.org/t/new-extension-musclemap-automated-whole-body-muscle-segmentation/47364)

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**Author:** [@Eddo\_Wesselink](https://discourse.slicer.org/u/Eddo_Wesselink)\
**Replies:** 0\
**Last updated:** [June 16, 2026, 5:51pm UTC](https://discourse.slicer.org/t/new-extension-musclemap-automated-whole-body-muscle-segmentation/47364 "2026-06-16T17:51:22Z")

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New extension: MuscleMap — open-source, community-supported automated whole-body muscle segmentation MuscleMap is a 3D Slicer extension for fully automatic segmentation of skeletal muscle in MRI and CT. It is develop…

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## [ Subtract Segment using python console is not working](https://discourse.slicer.org/t/subtract-segment-using-python-console-is-not-working/47315)

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**Author:** [@Gaia\_Eligio](https://discourse.slicer.org/u/Gaia_Eligio)\
**Replies:** 0\
**Last updated:** [June 11, 2026, 3:10pm UTC](https://discourse.slicer.org/t/subtract-segment-using-python-console-is-not-working/47315 "2026-06-11T15:10:32Z")

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Hi, all. I am working on a Python script to automate the creation of skull, meninges, and CSF with the use of segmentations imported from FreeSurfer and MRI images. This is for a research project on Traumatic Brain Injur…

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## [Clarification on L3 SMA calculations and Pixel Spacing](https://discourse.slicer.org/t/clarification-on-l3-sma-calculations-and-pixel-spacing/47219)

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**Author:** [@merckins](https://discourse.slicer.org/u/merckins)\
**Replies:** 2\
**Last updated:** [June 4, 2026, 7:31am UTC](https://discourse.slicer.org/t/clarification-on-l3-sma-calculations-and-pixel-spacing/47219 "2026-06-04T07:31:29Z")

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Hello, I’m working on calculating CT L3 SMA, but some aspects are still unclear to me. I may be overlooking something, so I would really appreciate any feedback. I have original CT volumes with differing pixel spacings…

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## [trame-slicer v1.9.0 - v1.11.0 highlights](https://discourse.slicer.org/t/trame-slicer-v1-9-0-v1-11-0-highlights/47112)

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**Author:** [@Thibault\_Pelletier](https://discourse.slicer.org/u/Thibault_Pelletier)\
**Replies:** 0\
**Last updated:** [May 21, 2026, 8:30pm UTC](https://discourse.slicer.org/t/trame-slicer-v1-9-0-v1-11-0-highlights/47112 "2026-05-21T20:30:51Z")

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We are pleased to announced a series of recent trame-slicer additions which have added significant improvements to segmentation, application structure and core compatibility. Standalone Version: Trame slicer can now be…

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## [Improved python package installation: slicer.packaging](https://discourse.slicer.org/t/improved-python-package-installation-slicer-packaging/47088)

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**Author:** [@ebrahim](https://discourse.slicer.org/u/ebrahim)\
**Replies:** 0\
**Last updated:** [May 19, 2026, 3:58pm UTC](https://discourse.slicer.org/t/improved-python-package-installation-slicer-packaging/47088 "2026-05-19T15:58:35Z")

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An improved python package installation experience is now available out of the box for extension developers: slicer.packaging. This feature was merged about a month ago and is available in the preview version of Slicer. …

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## [Displace the axes idependently of the plane + navigate in time (4D-flow MRI dataset) + coding preset in python](https://discourse.slicer.org/t/displace-the-axes-idependently-of-the-plane-navigate-in-time-4d-flow-mri-dataset-coding-preset-in-python/47080)

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**Author:** [@jceb](https://discourse.slicer.org/u/jceb)\
**Replies:** 0\
**Last updated:** [May 19, 2026, 12:33pm UTC](https://discourse.slicer.org/t/displace-the-axes-idependently-of-the-plane-navigate-in-time-4d-flow-mri-dataset-coding-preset-in-python/47080 "2026-05-19T12:33:20Z")

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Dear 3D Slicer community First many thanks to developers and maintainers of this incredible software. I am working with 4D flow MRI datasets and have the following questions (if needed I can post separate questions) …

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## [New extension: RadReirradiation for radiotherapy reirradiation analysis and EQD2 dose accumulation](https://discourse.slicer.org/t/new-extension-radreirradiation-for-radiotherapy-reirradiation-analysis-and-eqd2-dose-accumulation/47028)

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**Author:** [@LuisParedesOcampo](https://discourse.slicer.org/u/LuisParedesOcampo)\
**Replies:** 0\
**Last updated:** [May 14, 2026, 2:23pm UTC](https://discourse.slicer.org/t/new-extension-radreirradiation-for-radiotherapy-reirradiation-analysis-and-eqd2-dose-accumulation/47028 "2026-05-14T14:23:00Z")

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Hi everyone, I’d like to introduce RadReirradiation, a new 3D Slicer extension designed to support clinical reirradiation workflows in radiotherapy. The extension provides the following features: • Voxel-by-voxel BED …

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## [How to get the clicked markup node in the 3D view?](https://discourse.slicer.org/t/how-to-get-the-clicked-markup-node-in-the-3d-view/46937)

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**Author:** [@NogginBops](https://discourse.slicer.org/u/NogginBops)\
**Replies:** 4\
**Last updated:** [May 7, 2026, 2:31pm UTC](https://discourse.slicer.org/t/how-to-get-the-clicked-markup-node-in-the-3d-view/46937 "2026-05-07T14:31:35Z")

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Hi, I’m interested in knowing what node is selected/hovered by the mouse when the left mouse button is pressed. I’ve tried using the scene interactor and trying to use the vtk picker, but I’m not really able to get it …

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## [SlicerQR Development](https://discourse.slicer.org/t/slicerqr-development/15954)

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**Author:** [@spycolyf](https://discourse.slicer.org/u/spycolyf)\
**Replies:** 155\
**Last updated:** [April 27, 2026, 9:56am UTC](https://discourse.slicer.org/t/slicerqr-development/15954 "2026-04-27T09:56:37Z")

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@jcfr @pieper @lassoan @superlib Good Morning. I’m starting to think about how to deploy SlicerQR to 25,000 PCs across the Mayo Enterprise. After building the package, it consists of over 7000 files at a total size of o…

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## [Developing a vessel analysis module for 3D Slicer – guidance needed](https://discourse.slicer.org/t/developing-a-vessel-analysis-module-for-3d-slicer-guidance-needed/46762)

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**Author:** [@Benny\_Zamir](https://discourse.slicer.org/u/Benny_Zamir)\
**Replies:** 2\
**Last updated:** [April 18, 2026, 12:34am UTC](https://discourse.slicer.org/t/developing-a-vessel-analysis-module-for-3d-slicer-guidance-needed/46762 "2026-04-18T00:34:24Z")

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Hi, I’ve been working on a Python-based vessel analysis tool and uploaded it here: https://github.com/bz1977/VesselAnalyzer Current status: Branch segmentation and marker placement still need improvement Lesion …

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## [SlicerSeqSeg Extension](https://discourse.slicer.org/t/slicerseqseg-extension/46707)

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**Author:** [@numisveinsson](https://discourse.slicer.org/u/numisveinsson)\
**Replies:** 0\
**Last updated:** [April 10, 2026, 5:29pm UTC](https://discourse.slicer.org/t/slicerseqseg-extension/46707 "2026-04-10T17:29:06Z")

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Hi everyone, I’m sharing SeqSeg, a new 3D Slicer extension for seed-based segmentation of tubular/vascular structures from CT or MR. You place two fiducial seeds and a radius estimate; the module runs the SeqSeg pipelin…

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## [Please help me. I've tried everything i known](https://discourse.slicer.org/t/please-help-me-ive-tried-everything-i-known/46702)

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**Author:** [@Tech-Liuxy](https://discourse.slicer.org/u/Tech-Liuxy)\
**Replies:** 1\
**Last updated:** [April 10, 2026, 1:08am UTC](https://discourse.slicer.org/t/please-help-me-ive-tried-everything-i-known/46702 "2026-04-10T01:08:10Z")

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\##MAC TAHOE26 Processing started Writing input file to /private/var/folders/c2/7ytv4ycx59z72y4bcl8dfplh0000gn/T/Slicer-liuxy/\_\_SlicerTemp\_\_2026-04-09\_14+44+48.430/total-segmentator-input.nii Creating segmentations wit…

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## [Fast Model Align module not working in 3D Slicer 5.10.0](https://discourse.slicer.org/t/fast-model-align-module-not-working-in-3d-slicer-5-10-0/46645)

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**Author:** [@abhijeet2410](https://discourse.slicer.org/u/abhijeet2410)\
**Replies:** 1\
**Last updated:** [April 3, 2026, 4:02am UTC](https://discourse.slicer.org/t/fast-model-align-module-not-working-in-3d-slicer-5-10-0/46645 "2026-04-03T04:02:26Z")

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Hello Team, We installed the SlicerMorph extension successfully (it shows up in Extension Manager), but the Fast Model Align module is not working properly. When we open the module, we only see the Help & Acknowledge…

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## [Publishing a new Slicer Python extension](https://discourse.slicer.org/t/publishing-a-new-slicer-python-extension/46506)

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**Author:** [@MaxHoges](https://discourse.slicer.org/u/MaxHoges)\
**Replies:** 1\
**Last updated:** [March 19, 2026, 9:19pm UTC](https://discourse.slicer.org/t/publishing-a-new-slicer-python-extension/46506 "2026-03-19T21:19:50Z")

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Hi all, I’ve been developing a Slicer extension in Python over the past 6 months to perform material mapping of Young’s modulus onto meshes from CT data, using Dr Elise Pegg’s project to perform the main material mappin…

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## [3D-view segmentation smoothing and stl export](https://discourse.slicer.org/t/3d-view-segmentation-smoothing-and-stl-export/46488)

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**Author:** [@Eva91](https://discourse.slicer.org/u/Eva91)\
**Replies:** 1\
**Last updated:** [March 18, 2026, 10:50am UTC](https://discourse.slicer.org/t/3d-view-segmentation-smoothing-and-stl-export/46488 "2026-03-18T10:50:46Z")

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Hi, I have a working manual workflow in Slicer, where I load a segmentation, then show it in 3D, and increase the surface smoothness via that tiny arrow on the “Show 3D” button. After that, i export the segmentation to …

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## [Color display error on 3D Volume](https://discourse.slicer.org/t/color-display-error-on-3d-volume/46390)

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**Author:** [@Karuruychi](https://discourse.slicer.org/u/Karuruychi)\
**Replies:** 2\
**Last updated:** [March 9, 2026, 3:35am UTC](https://discourse.slicer.org/t/color-display-error-on-3d-volume/46390 "2026-03-09T03:35:56Z")

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Hello everyone I’m developing an application based on Trame-Slicer, specifically a 3D ROI Cropping feature. Trame-Slicer already supports displaying the ROI box, but when I enable it, my 3D block displays incorrect colo…

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## [Aligning a markup plane to world coordinate system, with orthogonal planes](https://discourse.slicer.org/t/aligning-a-markup-plane-to-world-coordinate-system-with-orthogonal-planes/42032)

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**Author:** [@kat\_b](https://discourse.slicer.org/u/kat_b)\
**Replies:** 6\
**Last updated:** [February 23, 2026, 8:50pm UTC](https://discourse.slicer.org/t/aligning-a-markup-plane-to-world-coordinate-system-with-orthogonal-planes/42032 "2026-02-23T20:50:08Z")

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I am relatively new to 3D Slicer, and haven’t programmed in Python for a while, so please bear with me. In my Slicer environment, I have placed a scapular model (“Model”), and a markup plane (“P”) with associated points …

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## [Help total segmentator](https://discourse.slicer.org/t/help-total-segmentator/46244)

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**Author:** [@jimenagonzalezsal](https://discourse.slicer.org/u/jimenagonzalezsal)\
**Replies:** 1\
**Last updated:** [February 23, 2026, 1:56am UTC](https://discourse.slicer.org/t/help-total-segmentator/46244 "2026-02-23T01:56:50Z")

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Hello! Could anyone help me set up total segmentator! thanks!

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## [Elastic Registration](https://discourse.slicer.org/t/elastic-registration/46025)

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**Author:** [@Zah](https://discourse.slicer.org/u/Zah)\
**Replies:** 2\
**Last updated:** [February 22, 2026, 11:19am UTC](https://discourse.slicer.org/t/elastic-registration/46025 "2026-02-22T11:19:06Z")

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Hi 3D Slicer Community, I’m new to 3D Slicer and still learning, and I have a few questions. After performing an elastic registration, should I harden the transformed CBCT using the “Transforms” module, or should thi…

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