# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=31

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

**Page:** 32

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## [DICOM Image Spacing Issue at Z](https://discourse.slicer.org/t/dicom-image-spacing-issue-at-z/44025)

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**Author:** [@txuh](https://discourse.slicer.org/u/txuh)\
**Replies:** 6\
**Last updated:** [August 11, 2025, 2:02pm UTC](https://discourse.slicer.org/t/dicom-image-spacing-issue-at-z/44025 "2025-08-11T14:02:14Z")

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I am writing a single DICOM with multiple frames. After loading the dcm file via 3D Slicer (volume), the x/y image spacing is correct which I set the value (0.0195) at tag “0028,0030” (Pixel Spacing). However, the imag…

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## [Issue hiding shapeNodes in a folder via script](https://discourse.slicer.org/t/issue-hiding-shapenodes-in-a-folder-via-script/44023)

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**Author:** [@bserrano](https://discourse.slicer.org/u/bserrano)\
**Replies:** 8\
**Last updated:** [August 11, 2025, 1:27pm UTC](https://discourse.slicer.org/t/issue-hiding-shapenodes-in-a-folder-via-script/44023 "2025-08-11T13:27:44Z")

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Hi all, I’m working with a script that generates several shape nodes, grouped inside a folder. At a certain point in the execution, I want to hide all cylinders in that folder. I’m using the same code that works fine w…

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## [How to read .bimg file format?](https://discourse.slicer.org/t/how-to-read-bimg-file-format/17931)

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**Author:** [@sulaimanvesal](https://discourse.slicer.org/u/sulaimanvesal)\
**Replies:** 5\
**Last updated:** [August 11, 2025, 11:52am UTC](https://discourse.slicer.org/t/how-to-read-bimg-file-format/17931 "2025-08-11T11:52:36Z")

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Hi, I wanted to ask, if we can read .bimg file format in 3D slicer! I have received some raw ultrasound data stored in \*.bimg file format (I think, it’s a video frames). However, I looked all over the net to find some …

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## [Paint doesnt work. Just disappears from the region I paint.](https://discourse.slicer.org/t/paint-doesnt-work-just-disappears-from-the-region-i-paint/44009)

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**Author:** [@Ramya](https://discourse.slicer.org/u/Ramya)\
**Replies:** 3\
**Last updated:** [August 11, 2025, 6:36am UTC](https://discourse.slicer.org/t/paint-doesnt-work-just-disappears-from-the-region-i-paint/44009 "2025-08-11T06:36:51Z")

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Hi I am new to 3D slicer, I am trying to paint on my CT scan to do a segmentation. After I select the region to paint it doesn’t stay. May I know how to fix this issue.

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## [Latest slicer preview (r33816) does not launch in macos](https://discourse.slicer.org/t/latest-slicer-preview-r33816-does-not-launch-in-macos/43935)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 13\
**Last updated:** [August 9, 2025, 8:28pm UTC](https://discourse.slicer.org/t/latest-slicer-preview-r33816-does-not-launch-in-macos/43935 "2025-08-09T20:28:47Z")

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Tested on two different macs (imac and macbook pro) with Sequoia 15.5. After entering the security exception, Slicer icon continues to bounce for about a minute and then quits. When launched from the terminal window from…

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## [surfaceMarkups extension is failing to build on Preview](https://discourse.slicer.org/t/surfacemarkups-extension-is-failing-to-build-on-preview/44011)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 3\
**Last updated:** [August 9, 2025, 8:28pm UTC](https://discourse.slicer.org/t/surfacemarkups-extension-is-failing-to-build-on-preview/44011 "2025-08-09T20:28:25Z")

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Seems across all the platforms. We do rely on that for a functionality in SlicerMorph, so I wanted to see if this is related to latest python changes. @cpinter

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## [TotalSegmentator error: \`returned non-zero exit status 1\`](https://discourse.slicer.org/t/totalsegmentator-error-returned-non-zero-exit-status-1/43932)

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**Author:** [@era\_888](https://discourse.slicer.org/u/era_888)\
**Replies:** 3\
**Last updated:** [August 9, 2025, 7:40pm UTC](https://discourse.slicer.org/t/totalsegmentator-error-returned-non-zero-exit-status-1/43932 "2025-08-09T19:40:29Z")

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Failed to compute results. Command ‘\[‘E:/Slicer 5.8.1/bin/../bin\\PythonSlicer.EXE’, ‘E:\\Slicer 5.8.1\\lib\\Python\\Scripts\\TotalSegmentator.exe’, ‘-i’, ‘C:/Users/msi/AppData/Local/Temp/Slicer/\_\_SlicerTemp\_\_2025-08-01\_17+24…

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## [Inverse ROI volume crop](https://discourse.slicer.org/t/inverse-roi-volume-crop/44032)

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**Author:** [@JaredAmudeo](https://discourse.slicer.org/u/JaredAmudeo)\
**Replies:** 1\
**Last updated:** [August 9, 2025, 4:39pm UTC](https://discourse.slicer.org/t/inverse-roi-volume-crop/44032 "2025-08-09T16:39:44Z")

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Hi! Is there a simple way to do a volume crop that selects everything outside the ROI, basically erasing everything inside?

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## [Transparent background in screen capture module](https://discourse.slicer.org/t/transparent-background-in-screen-capture-module/44013)

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**Author:** [@JaredAmudeo](https://discourse.slicer.org/u/JaredAmudeo)\
**Replies:** 2\
**Last updated:** [August 9, 2025, 9:08am UTC](https://discourse.slicer.org/t/transparent-background-in-screen-capture-module/44013 "2025-08-09T09:08:05Z")

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Hi! Could someone help me? I’m trying to make a simple rotation video in 3D view, but no matter what background color or video format I choose, the video appears with a background, not the transparent background as ma…

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## [Slicer ignoring command line path with accents](https://discourse.slicer.org/t/slicer-ignoring-command-line-path-with-accents/24569)

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**Author:** [@Ale](https://discourse.slicer.org/u/Ale)\
**Replies:** 2\
**Last updated:** [August 8, 2025, 6:17pm UTC](https://discourse.slicer.org/t/slicer-ignoring-command-line-path-with-accents/24569 "2025-08-08T18:17:10Z")

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Hi all, I’m getting this error when trying to load a file in command line: Slicer /home/mark/Docs/GMM\_Cráneos\_Armadillos/Models/cvi\_24.ply Then, the error below shows strange characters where the “á” was in the path. …

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## [VMTK, Centerline Extraction](https://discourse.slicer.org/t/vmtk-centerline-extraction/44027)

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**Author:** [@Paria.M](https://discourse.slicer.org/u/Paria.M)\
**Replies:** 3\
**Last updated:** [August 8, 2025, 5:05pm UTC](https://discourse.slicer.org/t/vmtk-centerline-extraction/44027 "2025-08-08T17:05:53Z")

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Hi everyone, I want to extract the centerline using VMTK. When I select the Endpoints, the extracted centerline does not cross the points properly, and its far from the Endpoints! Can anyone help me to see what is the p…

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## [Error while installing pytorch](https://discourse.slicer.org/t/error-while-installing-pytorch/26956)

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**Author:** [@Anish\_Raj](https://discourse.slicer.org/u/Anish_Raj)\
**Replies:** 22\
**Last updated:** [August 8, 2025, 3:21pm UTC](https://discourse.slicer.org/t/error-while-installing-pytorch/26956 "2025-08-08T15:21:15Z")

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Hii, I am having trouble applying the module in slicer 5.2.1. When i press apply, it says pytorch will be installed using light-the-torch. After few seconds, i get the error: failed to compute results, no module named t…

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## [Is there a way to use Slicer Virtual Reality with standalone VR headsets like the Magic Leap 2 or Lynx R1?](https://discourse.slicer.org/t/is-there-a-way-to-use-slicer-virtual-reality-with-standalone-vr-headsets-like-the-magic-leap-2-or-lynx-r1/44026)

<div class="topic-metadata">

**Author:** [@tech\_curious](https://discourse.slicer.org/u/tech_curious)\
**Replies:** 0\
**Last updated:** [August 8, 2025, 3:11pm UTC](https://discourse.slicer.org/t/is-there-a-way-to-use-slicer-virtual-reality-with-standalone-vr-headsets-like-the-magic-leap-2-or-lynx-r1/44026 "2025-08-08T15:11:28Z")

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I’m exploring ways to visualize 3D Slicer models in AR using either the Magic Leap 2 or Lynx R1, but I’m unsure about compatibility as they both support OpenXR but with the runtime locally on the device. Is it possible t…

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## [Compare 2 models](https://discourse.slicer.org/t/compare-2-models/44014)

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**Author:** [@michaelli](https://discourse.slicer.org/u/michaelli)\
**Replies:** 4\
**Last updated:** [August 8, 2025, 2:14am UTC](https://discourse.slicer.org/t/compare-2-models/44014 "2025-08-08T02:14:46Z")

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I want to compare two models in two 3D views, so that I can rotate the camera independently for each 3D view. But all the models show in all views, how can I load the first model into the first 3d view window and the se…

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## [Margin Tool Erases Segmentation](https://discourse.slicer.org/t/margin-tool-erases-segmentation/43973)

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**Author:** [@jr2637](https://discourse.slicer.org/u/jr2637)\
**Replies:** 4\
**Last updated:** [August 7, 2025, 3:36pm UTC](https://discourse.slicer.org/t/margin-tool-erases-segmentation/43973 "2025-08-07T15:36:07Z")

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Hi, I am trying to grow my segment using the margin tool, but when I attempt to do so, the segment erases. How can I fix this? Thank you!

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## [SlicerRT built from source cannot start](https://discourse.slicer.org/t/slicerrt-built-from-source-cannot-start/43792)

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**Author:** [@ferhue](https://discourse.slicer.org/u/ferhue)\
**Replies:** 42\
**Last updated:** [August 7, 2025, 2:06pm UTC](https://discourse.slicer.org/t/slicerrt-built-from-source-cannot-start/43792 "2025-08-07T14:06:57Z")

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I’ve built Slicer and then SlicerRT from source several times in the past. I followed the online instructions. In the same computer, I recently updated (via git pull) the Slicer and SlicerRT repositories to master, and …

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## [WebAssembly version](https://discourse.slicer.org/t/webassembly-version/43997)

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**Author:** [@Taron\_Holikyan](https://discourse.slicer.org/u/Taron_Holikyan)\
**Replies:** 1\
**Last updated:** [August 7, 2025, 12:37pm UTC](https://discourse.slicer.org/t/webassembly-version/43997 "2025-08-07T12:37:53Z")

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Hi, I want to know if this library has a WebAssembly version that works with Three.js. If not, would I need to create it myself? And if a WebAssembly version doesn’t exist, how difficult would it be to make one?

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## [Help Needed – Integrating Brodmann Area Overlay & MNI Space Registration Module into Custom Application](https://discourse.slicer.org/t/help-needed-integrating-brodmann-area-overlay-mni-space-registration-module-into-custom-application/44001)

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**Author:** [@salim](https://discourse.slicer.org/u/salim)\
**Replies:** 0\
**Last updated:** [August 7, 2025, 12:36pm UTC](https://discourse.slicer.org/t/help-needed-integrating-brodmann-area-overlay-mni-space-registration-module-into-custom-application/44001 "2025-08-07T12:36:52Z")

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Hi Dear Community, I have developed a module in 3D Slicer for Brodmann Area overlay and MNI space registration. The module builds successfully, but I’m facing an issue integrating it into my custom Slicer-based applicat…

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## [Add all nodes to custom module gui](https://discourse.slicer.org/t/add-all-nodes-to-custom-module-gui/24660)

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**Author:** [@rhodesdante](https://discourse.slicer.org/u/rhodesdante)\
**Replies:** 3\
**Last updated:** [August 7, 2025, 7:41am UTC](https://discourse.slicer.org/t/add-all-nodes-to-custom-module-gui/24660 "2025-08-07T07:41:19Z")

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I would like to enable the user of a custom python module to look at all the volume nodes at once, rather than selecting them using a qMRMLComboBox to select them individually. In addition, I would like to allow them to …

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## [Renaming Segments forces color selection as well](https://discourse.slicer.org/t/renaming-segments-forces-color-selection-as-well/43970)

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**Author:** [@tsehrhardt](https://discourse.slicer.org/u/tsehrhardt)\
**Replies:** 9\
**Last updated:** [August 6, 2025, 2:41pm UTC](https://discourse.slicer.org/t/renaming-segments-forces-color-selection-as-well/43970 "2025-08-06T14:41:08Z")

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I used to be able to double-click a segment name in Segment Editor to change ONLY the name. Now when double-clicking, the box to change color and name both pop up, but requires me to select a color as well or else it wil…

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## [MRI-CT Spine Registration Data](https://discourse.slicer.org/t/mri-ct-spine-registration-data/43985)

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**Author:** [@elisedl1](https://discourse.slicer.org/u/elisedl1)\
**Replies:** 0\
**Last updated:** [August 6, 2025, 2:05pm UTC](https://discourse.slicer.org/t/mri-ct-spine-registration-data/43985 "2025-08-06T14:05:23Z")

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Hi all, It seems as though the SpineWeb Dataset is no longer accessible via its online link (http://spineweb.cigitalimaginggroup.ca/spineweb/index.php?n=Main.Datasets). Would anyone know of any other MRI-CT spine data …

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## [Method on how to remove black background from Brain MRI images](https://discourse.slicer.org/t/method-on-how-to-remove-black-background-from-brain-mri-images/31459)

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**Author:** [@Alvi\_Rahman](https://discourse.slicer.org/u/Alvi_Rahman)\
**Replies:** 1\
**Last updated:** [August 6, 2025, 6:22am UTC](https://discourse.slicer.org/t/method-on-how-to-remove-black-background-from-brain-mri-images/31459 "2025-08-06T06:22:11Z")

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My aim is to remove the black ground from each brain MRI slice. I want to achieve this using Python. I have given my code below: import os import numpy as np import SimpleITK as sitk from PIL import Image from skimage.…

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## [Segmenting arteries and pelvic bone in pelvic CT](https://discourse.slicer.org/t/segmenting-arteries-and-pelvic-bone-in-pelvic-ct/43975)

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**Author:** [@Alanlau434](https://discourse.slicer.org/u/Alanlau434)\
**Replies:** 0\
**Last updated:** [August 5, 2025, 3:40pm UTC](https://discourse.slicer.org/t/segmenting-arteries-and-pelvic-bone-in-pelvic-ct/43975 "2025-08-05T15:40:50Z")

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Hello guys, I’m a novice to 3D slicer, doing a project on pelvic exenteration and I need to isolate pelvic arteries and bones (inc lumbar spine). Is there a way to segment and put the two together on the same 3D plane? T…

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## [I am unable to use 3D slicer through leaddbs](https://discourse.slicer.org/t/i-am-unable-to-use-3d-slicer-through-leaddbs/43974)

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**Author:** [@Reem](https://discourse.slicer.org/u/Reem)\
**Replies:** 0\
**Last updated:** [August 5, 2025, 3:40pm UTC](https://discourse.slicer.org/t/i-am-unable-to-use-3d-slicer-through-leaddbs/43974 "2025-08-05T15:40:47Z")

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Hello, I am trying to view images from leaddbs software through 3D slicer, but I am getting an error that the slicer path is not defined in Matlab. Can you please advise on how to set the path for slicer in leaddbs throu…

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## [CMake Error during PlusLib SuperBuild: "The source does not match..."](https://discourse.slicer.org/t/cmake-error-during-pluslib-superbuild-the-source-does-not-match/43972)

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**Author:** [@Jaeseong](https://discourse.slicer.org/u/Jaeseong)\
**Replies:** 0\
**Last updated:** [August 5, 2025, 3:40pm UTC](https://discourse.slicer.org/t/cmake-error-during-pluslib-superbuild-the-source-does-not-match/43972 "2025-08-05T15:40:36Z")

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Hi everyone, I’m encountering an error during the building of Pluslib, which is a dependency for Slicer on Ubuntu. My goal is to acquire ultrasound images from a Windows machine using the PLUS server. I followed the in…

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## [Scissors Not Working](https://discourse.slicer.org/t/scissors-not-working/21835)

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**Author:** [@Sandy1](https://discourse.slicer.org/u/Sandy1)\
**Replies:** 14\
**Last updated:** [August 5, 2025, 2:39pm UTC](https://discourse.slicer.org/t/scissors-not-working/21835 "2025-08-05T14:39:47Z")

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I am in the segment editor, and I am attempting to remove jewelry and bone from my image. I have selected the erase inside option. Nothing happens once I’ve circled the areas with the scissors that I want to remove. Plea…

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## [hi i want i small CT Knee scan file for 3d slicer and i couldn t find one ](https://discourse.slicer.org/t/hi-i-want-i-small-ct-knee-scan-file-for-3d-slicer-and-i-couldn-t-find-one/43763)

<div class="topic-metadata">

**Author:** [@wsymjlal781](https://discourse.slicer.org/u/wsymjlal781)\
**Replies:** 2\
**Last updated:** [August 5, 2025, 1:32pm UTC](https://discourse.slicer.org/t/hi-i-want-i-small-ct-knee-scan-file-for-3d-slicer-and-i-couldn-t-find-one/43763 "2025-08-05T13:32:27Z")

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hi i want i small CT Knee scan file for 3d slicer and i couldn t find one

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## [DVH variations after Deformable Registration](https://discourse.slicer.org/t/dvh-variations-after-deformable-registration/43936)

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**Author:** [@azam](https://discourse.slicer.org/u/azam)\
**Replies:** 3\
**Last updated:** [August 5, 2025, 11:39am UTC](https://discourse.slicer.org/t/dvh-variations-after-deformable-registration/43936 "2025-08-05T11:39:57Z")

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Hi everyone, I would like to register two DICOM CT images (CT FB, CT DIBH) that I exported from the treatment planning system, and then apply the resulting transformation matrix to the DICOM RT dose and RT structure dat…

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## [Combining registered volumes from different perspectives for improved resolution](https://discourse.slicer.org/t/combining-registered-volumes-from-different-perspectives-for-improved-resolution/43960)

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**Author:** [@sulli419](https://discourse.slicer.org/u/sulli419)\
**Replies:** 2\
**Last updated:** [August 4, 2025, 11:01pm UTC](https://discourse.slicer.org/t/combining-registered-volumes-from-different-perspectives-for-improved-resolution/43960 "2025-08-04T23:01:35Z")

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Say I have two MR volumes of the same brain; one coronal and one sagittal. The axial z resolution is ~5x poorer volume. I imagine there must be some way (after registering the volumes) to create a new “average” volume …

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## [Clipping a model via scripting](https://discourse.slicer.org/t/clipping-a-model-via-scripting/43963)

<div class="topic-metadata">

**Author:** [@chz31](https://discourse.slicer.org/u/chz31)\
**Replies:** 0\
**Last updated:** [August 4, 2025, 10:19pm UTC](https://discourse.slicer.org/t/clipping-a-model-via-scripting/43963 "2025-08-04T22:19:56Z")

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Hi all, I am trying to clipping a model via scripting: if not clipModelsNode: clipModelsNode = slicer.mrmlScene.AddNewNodeByClass( 'vtkMRMLClipModelsNode', 'ClipModels') # Get model node to clip modelNode …

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