# Latest

**URL:** https://discourse.slicer.org/latest.md?page=15

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

**Page:** 16

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## [Tractography and anatomical research](https://discourse.slicer.org/t/tractography-and-anatomical-research/46805)

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**Author:** [@philippepellerin](https://discourse.slicer.org/u/philippepellerin)\
**Replies:** 3\
**Last updated:** [April 27, 2026, 9:27am UTC](https://discourse.slicer.org/t/tractography-and-anatomical-research/46805 "2026-04-27T09:27:46Z")

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Hi, I wonder whether the algorithms used for tractography could be helpful to follow the path of muscle fibres through serial histologic sections

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## [New Scene Snapshot action in Animator](https://discourse.slicer.org/t/new-scene-snapshot-action-in-animator/46821)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 1\
**Last updated:** [April 26, 2026, 2:21am UTC](https://discourse.slicer.org/t/new-scene-snapshot-action-in-animator/46821 "2026-04-26T02:21:38Z")

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I update the Animator module in SlicerMorph to make use of the SceneView architecture. The old volume rendering, rotation and animation actions were too complicated to use. In this one, you specify the duration of the an…

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## [Need advice on Segmentation of CT scanned fossil specimen (lungfish)](https://discourse.slicer.org/t/need-advice-on-segmentation-of-ct-scanned-fossil-specimen-lungfish/46817)

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**Author:** [@sturiones](https://discourse.slicer.org/u/sturiones)\
**Replies:** 5\
**Last updated:** [April 24, 2026, 9:21pm UTC](https://discourse.slicer.org/t/need-advice-on-segmentation-of-ct-scanned-fossil-specimen-lungfish/46817 "2026-04-24T21:21:42Z")

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Hi, folks! I am not an expert in 3D Slicer, I need advice from the community. I have a TM-scanned fossil fish skull with inner structures (canals for nerves and vessels) of rather low contrast (the slice below is after …

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## [Extensions-Manager: Extensions can not be installed](https://discourse.slicer.org/t/extensions-manager-extensions-can-not-be-installed/46824)

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**Author:** [@juliangallaun](https://discourse.slicer.org/u/juliangallaun)\
**Replies:** 2\
**Last updated:** [April 24, 2026, 1:29pm UTC](https://discourse.slicer.org/t/extensions-manager-extensions-can-not-be-installed/46824 "2026-04-24T13:29:09Z")

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Hello, I am unable to install new Extensions. Following message show up. Extensions can not be installed. Failed to load extension page using this URL: @KitwareMedical/slicer-extensions-webapp Check that 3D Slicer is…

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## [Non-orthogonal IJK to RAS Direction Matrix](https://discourse.slicer.org/t/non-orthogonal-ijk-to-ras-direction-matrix/44644)

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**Author:** [@mwirtz](https://discourse.slicer.org/u/mwirtz)\
**Replies:** 8\
**Last updated:** [April 24, 2026, 12:58pm UTC](https://discourse.slicer.org/t/non-orthogonal-ijk-to-ras-direction-matrix/44644 "2026-04-24T12:58:57Z")

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Hey there! I am trying to load CT scans via the DICOM module, which have a non-zero GantryDetectorTilt (not 100% sure it is related) and it seems to cause a non-orthogonal IJK to RAS matrix (see screenshot). Also the ca…

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## [TotalSegmentator keeps returning non-zero exit status 1](https://discourse.slicer.org/t/totalsegmentator-keeps-returning-non-zero-exit-status-1/46820)

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**Author:** [@its-charliem](https://discourse.slicer.org/u/its-charliem)\
**Replies:** 0\
**Last updated:** [April 24, 2026, 1:24am UTC](https://discourse.slicer.org/t/totalsegmentator-keeps-returning-non-zero-exit-status-1/46820 "2026-04-24T01:24:49Z")

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Problem report for 3D Slicer 5.10.0 win-amd64: \[please describe expected and actual behavior\] Command ‘\[‘C:/Users/DiMO 3D 1/AppData/Local/slicer.org/3D Slicer 5.10.0/bin/../bin\\\\PythonSlicer.EXE’, ‘-m’, ‘pip’, ‘install’…

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## [Sharing custom presets](https://discourse.slicer.org/t/sharing-custom-presets/46690)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 7\
**Last updated:** [April 23, 2026, 9:18pm UTC](https://discourse.slicer.org/t/sharing-custom-presets/46690 "2026-04-23T21:18:01Z")

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This is something I wanted for the SlicerMorph project for a while and I bite the bullet and asked copilot to create a github repo to share and add presets. As indicated in the contributing.MD you simply add two items t…

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## [Timestamps in the testing dashboard are inconsistent](https://discourse.slicer.org/t/timestamps-in-the-testing-dashboard-are-inconsistent/46815)

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**Author:** [@MaxHoges](https://discourse.slicer.org/u/MaxHoges)\
**Replies:** 0\
**Last updated:** [April 23, 2026, 11:50am UTC](https://discourse.slicer.org/t/timestamps-in-the-testing-dashboard-are-inconsistent/46815 "2026-04-23T11:50:30Z")

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I was just checking out the testing dashboard and noticed that the timestamps in the build overview table don’t match with the timestamps Ince you click through to more details on the build. For example, here’s the view…

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## [Create new cfg error RadRenderer](https://discourse.slicer.org/t/create-new-cfg-error-radrenderer/46809)

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**Author:** [@Jeffrey\_K\_Spear](https://discourse.slicer.org/u/Jeffrey_K_Spear)\
**Replies:** 2\
**Last updated:** [April 22, 2026, 9:13pm UTC](https://discourse.slicer.org/t/create-new-cfg-error-radrenderer/46809 "2026-04-22T21:13:45Z")

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Hello, I am trying to create a new .cfg file. I launch Autoscoper, click ‘new file’, add the calibration files, radiographs (), and partial volumes. When I click ‘OK’ Autoscoper shuts down and the following error gets s…

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## [CTA vessel segmentation: petrous ICA vs bone overlap problem](https://discourse.slicer.org/t/cta-vessel-segmentation-petrous-ica-vs-bone-overlap-problem/46803)

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**Author:** [@sandcastle](https://discourse.slicer.org/u/sandcastle)\
**Replies:** 2\
**Last updated:** [April 22, 2026, 7:26pm UTC](https://discourse.slicer.org/t/cta-vessel-segmentation-petrous-ica-vs-bone-overlap-problem/46803 "2026-04-22T19:26:03Z")

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Hi all, I’ve been working on segmenting the circle of Willis and proximal carotids from CTA data. This has been straightforward with 3DRA and TOF-MRA, but I’m running into difficulty with the petrous ICA being inseparab…

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## [New extension pull request awaiting approval](https://discourse.slicer.org/t/new-extension-pull-request-awaiting-approval/46780)

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**Author:** [@MaxHoges](https://discourse.slicer.org/u/MaxHoges)\
**Replies:** 4\
**Last updated:** [April 22, 2026, 4:58pm UTC](https://discourse.slicer.org/t/new-extension-pull-request-awaiting-approval/46780 "2026-04-22T16:58:12Z")

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I recently got my BoneMat extension to a useful state and decided to try adding it to the extensions index. My first pull request to the ExtensionsIndex didn’t pass the extension validation test (which was initiated by a…

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## [DICOM 2D cine MRI is imported as Scalar Volume](https://discourse.slicer.org/t/dicom-2d-cine-mri-is-imported-as-scalar-volume/46792)

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**Author:** [@aabrown100-git](https://discourse.slicer.org/u/aabrown100-git)\
**Replies:** 13\
**Last updated:** [April 22, 2026, 5:45am UTC](https://discourse.slicer.org/t/dicom-2d-cine-mri-is-imported-as-scalar-volume/46792 "2026-04-22T05:45:55Z")

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I have a DICOM file containing a cine MRI on a single slice of the heart (4-chamber slice). I want this to load as a Sequence. Instead, it is loaded as a scalar volume, so that each time frame is treated as a different z…

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## [2026.04.21 Weekly Meeting](https://discourse.slicer.org/t/2026-04-21-weekly-meeting/46789)

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**Author:** [@ebrahim](https://discourse.slicer.org/u/ebrahim)\
**Replies:** 5\
**Last updated:** [April 22, 2026, 4:42am UTC](https://discourse.slicer.org/t/2026-04-21-weekly-meeting/46789 "2026-04-22T04:42:38Z")

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Title: 2026.04.21 Weekly Meeting Next Tuesday, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET. Anyone is welcome to join at this link: https://bit.ly/slicer-googlemeet-hosted-by-kitware A…

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## [Inquiry about SlicerAutoscoperM-related Operations for Knee Joint Research and Video Tutorials](https://discourse.slicer.org/t/inquiry-about-slicerautoscoperm-related-operations-for-knee-joint-research-and-video-tutorials/44975)

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**Author:** [@gao](https://discourse.slicer.org/u/gao)\
**Replies:** 2\
**Last updated:** [April 21, 2026, 3:26pm UTC](https://discourse.slicer.org/t/inquiry-about-slicerautoscoperm-related-operations-for-knee-joint-research-and-video-tutorials/44975 "2026-04-21T15:26:56Z")

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As a beginner in SlicerAutoscoperM, I am currently focused on knee joint research. After successfully registering biplane data, I obtained a 4x4 homogeneous matrix. How can I derive the flexion angle, internal-external r…

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## [2026.04.14 Weekly Meeting](https://discourse.slicer.org/t/2026-04-14-weekly-meeting/46731)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 11\
**Last updated:** [April 20, 2026, 5:30pm UTC](https://discourse.slicer.org/t/2026-04-14-weekly-meeting/46731 "2026-04-20T17:30:47Z")

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Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET. Anyone is welcome to join at this link: https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Please post to this thread to …

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## [Generating configuration files in the Autscoper preprocessing module](https://discourse.slicer.org/t/generating-configuration-files-in-the-autscoper-preprocessing-module/36882)

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**Author:** [@Amy\_Morton](https://discourse.slicer.org/u/Amy_Morton)\
**Replies:** 3\
**Last updated:** [April 20, 2026, 5:09pm UTC](https://discourse.slicer.org/t/generating-configuration-files-in-the-autscoper-preprocessing-module/36882 "2026-04-20T17:09:07Z")

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@Jeffrey\_K\_Spear Could you add some details about your data, which you’re trying to prep for use in Autoscoper?

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## [Fiducial Registration Wizard transforms](https://discourse.slicer.org/t/fiducial-registration-wizard-transforms/46770)

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**Author:** [@Zaky\_Alfarizi](https://discourse.slicer.org/u/Zaky_Alfarizi)\
**Replies:** 4\
**Last updated:** [April 20, 2026, 9:59am UTC](https://discourse.slicer.org/t/fiducial-registration-wizard-transforms/46770 "2026-04-20T09:59:06Z")

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I’m a beginner, I already have a calibrated pointer. I have a tracker at my object in real life, the pointer should be relative to the tracker on my real life object/reference, right? So my pointer transform will be calc…

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## [Converting .vtk to .inp file](https://discourse.slicer.org/t/converting-vtk-to-inp-file/46775)

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**Author:** [@Tom\_F-T](https://discourse.slicer.org/u/Tom_F-T)\
**Replies:** 8\
**Last updated:** [April 18, 2026, 5:48pm UTC](https://discourse.slicer.org/t/converting-vtk-to-inp-file/46775 "2026-04-18T17:48:54Z")

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I am trying to make a 3D model of trabecular bone for FEA in Abaqus. I am using slicer to convert the DICOM files of the bone into a 3D model, but when i first did this the .stl file i exported from slicer was only a sur…

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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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## [Multiple Segments into 1 3D print](https://discourse.slicer.org/t/multiple-segments-into-1-3d-print/46771)

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**Author:** [@Riley\_Maurath](https://discourse.slicer.org/u/Riley_Maurath)\
**Replies:** 1\
**Last updated:** [April 18, 2026, 12:11am UTC](https://discourse.slicer.org/t/multiple-segments-into-1-3d-print/46771 "2026-04-18T00:11:25Z")

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I currently have 3 segments created in the 3D slicer and I am wanting to export them to be 3D printed. The issue I am running into are that the models are inside of each other and I am wanting to print them inside of eac…

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## [New feature: Thick slab reconstruction from slice controllers and views](https://discourse.slicer.org/t/new-feature-thick-slab-reconstruction-from-slice-controllers-and-views/32432)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 12\
**Last updated:** [April 17, 2026, 11:18pm UTC](https://discourse.slicer.org/t/new-feature-thick-slab-reconstruction-from-slice-controllers-and-views/32432 "2026-04-17T23:18:51Z")

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Thick slab reconstruction (TSR) can now be enabled and modified from the slice controllers and slice views! Enabling thick slab reconstruction as well as selection of the composite method (min, max, mean or sum) has bee…

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## [Train AI for landmark detection](https://discourse.slicer.org/t/train-ai-for-landmark-detection/46734)

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**Author:** [@mau\_igna\_06](https://discourse.slicer.org/u/mau_igna_06)\
**Replies:** 6\
**Last updated:** [April 17, 2026, 6:16pm UTC](https://discourse.slicer.org/t/train-ai-for-landmark-detection/46734 "2026-04-17T18:16:18Z")

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Hi, I’d like to ask here which are community suggestions about selecting an AI model and setting up training data for a medical landmark detection task. In my use case, I need to detect the superior tip of healthy kidn…

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## [Adaptibility AutoScoper source code](https://discourse.slicer.org/t/adaptibility-autoscoper-source-code/46579)

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**Author:** [@Sebastiaan](https://discourse.slicer.org/u/Sebastiaan)\
**Replies:** 3\
**Last updated:** [April 17, 2026, 3:36pm UTC](https://discourse.slicer.org/t/adaptibility-autoscoper-source-code/46579 "2026-04-17T15:36:16Z")

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Hi all, I am currently working on a MSc Thesis project with mono-planar fluoroscopy images. A current struggle for me is accurate registration of the 3D bone models from MRI or CT to fluoroscopy images. To further optim…

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## [Exporting segmentation to Abaqus](https://discourse.slicer.org/t/exporting-segmentation-to-abaqus/13974)

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**Author:** [@Jeff\_S](https://discourse.slicer.org/u/Jeff_S)\
**Replies:** 13\
**Last updated:** [April 17, 2026, 2:29pm UTC](https://discourse.slicer.org/t/exporting-segmentation-to-abaqus/13974 "2026-04-17T14:29:17Z")

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Dear Andras, as I had troubles with FEBio, I am trying now to use the segmentation of the vertebra (in vtk format) to load into ABAQUS and do the simulation with that program. But it seems, that ABAQUS does not support …

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## [DIEP flap breast reconstructio challenges in post operative imaging and 3D Slicer visualization workflow](https://discourse.slicer.org/t/diep-flap-breast-reconstructio-challenges-in-post-operative-imaging-and-3d-slicer-visualization-workflow/46769)

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**Author:** [@elysac](https://discourse.slicer.org/u/elysac)\
**Replies:** 0\
**Last updated:** [April 17, 2026, 1:51pm UTC](https://discourse.slicer.org/t/diep-flap-breast-reconstructio-challenges-in-post-operative-imaging-and-3d-slicer-visualization-workflow/46769 "2026-04-17T13:51:41Z")

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Hello everyone, I am working on understanding post-operative imaging and 3D visualization workflows related to DIEP flap breast reconstruction cases. In a recent clinical scenario, I observed some challenges in interpr…

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## [TotalSegmentator Error on CT](https://discourse.slicer.org/t/totalsegmentator-error-on-ct/46757)

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**Author:** [@ranahashemi](https://discourse.slicer.org/u/ranahashemi)\
**Replies:** 1\
**Last updated:** [April 16, 2026, 4:44pm UTC](https://discourse.slicer.org/t/totalsegmentator-error-on-ct/46757 "2026-04-16T16:44:46Z")

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Hi everyone, I am using TotalSegmentator for a bone segmentation on CT scan DICOM files which I extracted from Ga68-PSMA PET/CT of our patients, the problem is the extension is working with some patients and then with th…

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## [Change default destination folder in Export to files from segmentations module with python](https://discourse.slicer.org/t/change-default-destination-folder-in-export-to-files-from-segmentations-module-with-python/34697)

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**Author:** [@garridojuan](https://discourse.slicer.org/u/garridojuan)\
**Replies:** 1\
**Last updated:** [April 16, 2026, 10:18am UTC](https://discourse.slicer.org/t/change-default-destination-folder-in-export-to-files-from-segmentations-module-with-python/34697 "2026-04-16T10:18:09Z")

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I am developing a tool that automatically opens a segmentation mask and the image in 3D Slicer so that the user can modify it. I do it by using --python-code option when executing slicer from terminal. I would love to h…

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## [slicer runs out of memory with large  file.](https://discourse.slicer.org/t/slicer-runs-out-of-memory-with-large-file/46720)

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**Author:** [@mhsheikh25](https://discourse.slicer.org/u/mhsheikh25)\
**Replies:** 5\
**Last updated:** [April 15, 2026, 6:31pm UTC](https://discourse.slicer.org/t/slicer-runs-out-of-memory-with-large-file/46720 "2026-04-15T18:31:02Z")

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I have a Dell running 2 Platinum 8160 Xeons and 720GB ecc memory with a Nvidia 3090 24 GB video card and 3D slicer crashes on a large file with 300 Gb of memory remaining - error says that there isn’t enough memory. Is t…

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## [ATLAS - BUILDER producing inverted template meshes?](https://discourse.slicer.org/t/atlas-builder-producing-inverted-template-meshes/46747)

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**Author:** [@raranda22](https://discourse.slicer.org/u/raranda22)\
**Replies:** 2\
**Last updated:** [April 15, 2026, 3:59pm UTC](https://discourse.slicer.org/t/atlas-builder-producing-inverted-template-meshes/46747 "2026-04-15T15:59:12Z")

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Hello, I’ve been attempting to make a template mesh via the BUILDER module of ATLAS. I’ve made several of these with different datasets, but this time it appears the template mesh produced is “inverted”. As you can see,…

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## [Extracting STL from DICOM images to generate Brain Arteries geometry](https://discourse.slicer.org/t/extracting-stl-from-dicom-images-to-generate-brain-arteries-geometry/25215)

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**Author:** [@Behzad\_Vahedi](https://discourse.slicer.org/u/Behzad_Vahedi)\
**Replies:** 13\
**Last updated:** [April 15, 2026, 11:16am UTC](https://discourse.slicer.org/t/extracting-stl-from-dicom-images-to-generate-brain-arteries-geometry/25215 "2026-04-15T11:16:47Z")

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Hi My project is about computational fluid dynamic modeling of blood flow in an intracranial aneurysms. Can I extract the geometry from CT/Angio DICOM images in STL format in 3D Slicer? And if the answer is yes, is the…

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