# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=20

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

**Page:** 21

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## [Problem Reopening mrml](https://discourse.slicer.org/t/problem-reopening-mrml/45319)

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**Author:** [@acrespo](https://discourse.slicer.org/u/acrespo)\
**Replies:** 2\
**Last updated:** [December 3, 2025, 2:18pm UTC](https://discourse.slicer.org/t/problem-reopening-mrml/45319 "2025-12-03T14:18:38Z")

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Slicer Version: 5.8.1 Macbook Pro with 356 GB available Hello! I am very new to 3DSlicer and forums as a whole. I was hoping for some help as I have run into an issue with reuploading my segmented CT scan. I made sure …

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## [Failed to load the nnUNet segmentation result](https://discourse.slicer.org/t/failed-to-load-the-nnunet-segmentation-result/45350)

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**Author:** [@MoBakri](https://discourse.slicer.org/u/MoBakri)\
**Replies:** 1\
**Last updated:** [December 3, 2025, 1:48pm UTC](https://discourse.slicer.org/t/failed-to-load-the-nnunet-segmentation-result/45350 "2025-12-03T13:48:08Z")

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Dear freineds I got this bellow messege . how can I solve this issue ? Failed to load the segmentation. Something went wrong during the nnUNet processing. Please check the logs for potential errors and contact the libr…

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## [How to make the system use the NVIDIA GPU for Slicer (not the integrated Intel graphics)](https://discourse.slicer.org/t/how-to-make-the-system-use-the-nvidia-gpu-for-slicer-not-the-integrated-intel-graphics/45348)

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**Author:** [@johny723](https://discourse.slicer.org/u/johny723)\
**Replies:** 5\
**Last updated:** [December 1, 2025, 3:42am UTC](https://discourse.slicer.org/t/how-to-make-the-system-use-the-nvidia-gpu-for-slicer-not-the-integrated-intel-graphics/45348 "2025-12-01T03:42:38Z")

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Hi, I have a different problem. My setup: Intel Core i9-13980HX, 64 GB RAM DDR5, GeForce RTX 4090 - 16GB GDDR6 Windows 11 MetaQuest 3 128 I tried 5.8.1, 5.9. and 5.6.2 Slicer versions. I keep getting “incorrect grap…

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## [Shape analysis module](https://discourse.slicer.org/t/shape-analysis-module/45344)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 1\
**Last updated:** [December 3, 2025, 11:40am UTC](https://discourse.slicer.org/t/shape-analysis-module/45344 "2025-12-03T11:40:50Z")

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im wondering about the use of shape analysis module . i did fid documentation about usage . im not sure if i need to download spharm or not . how to run it etc .

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## [Irregular patch areas using VMTK](https://discourse.slicer.org/t/irregular-patch-areas-using-vmtk/45343)

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**Author:** [@svankuijk](https://discourse.slicer.org/u/svankuijk)\
**Replies:** 0\
**Last updated:** [December 3, 2025, 9:05am UTC](https://discourse.slicer.org/t/irregular-patch-areas-using-vmtk/45343 "2025-12-03T09:05:55Z")

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Dear all, I’m experiencing some issues with surface patching in 3D Slicer (using VMTK) during the post-processing of my carotid steady-state CFD simulations. The CFD run itself appears correct; the WSS output is proper…

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## [Morita .Vol import and nhdr conversion - slices out of order](https://discourse.slicer.org/t/morita-vol-import-and-nhdr-conversion-slices-out-of-order/42975)

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**Author:** [@ChrisMak](https://discourse.slicer.org/u/ChrisMak)\
**Replies:** 3\
**Last updated:** [December 2, 2025, 9:45pm UTC](https://discourse.slicer.org/t/morita-vol-import-and-nhdr-conversion-slices-out-of-order/42975 "2025-12-02T21:45:42Z")

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Hello! I am trying to import Morita .vol files into slicer, but I am getting out of order slices. I have followed the instructions found here as best as i can Could somebody help me troubleshoot this? problem - this…

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## [Model visibility in 2D - visible in saggital/coronal/3D but not axial](https://discourse.slicer.org/t/model-visibility-in-2d-visible-in-saggital-coronal-3d-but-not-axial/45333)

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**Author:** [@ckolluru](https://discourse.slicer.org/u/ckolluru)\
**Replies:** 0\
**Last updated:** [December 2, 2025, 5:57pm UTC](https://discourse.slicer.org/t/model-visibility-in-2d-visible-in-saggital-coronal-3d-but-not-axial/45333 "2025-12-02T17:57:40Z")

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I have two image stacks, a raw CT image and a corresponding distance map (same physical space, dimensions and spacing). I want to iteratively run vtkFlyingEdges2D on each slice of the distance map, with an isocontour val…

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## [Extract Centerline computational troubleshooting](https://discourse.slicer.org/t/extract-centerline-computational-troubleshooting/45322)

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**Author:** [@Stephanie\_Baumgart](https://discourse.slicer.org/u/Stephanie_Baumgart)\
**Replies:** 1\
**Last updated:** [December 2, 2025, 5:32pm UTC](https://discourse.slicer.org/t/extract-centerline-computational-troubleshooting/45322 "2025-12-02T17:32:29Z")

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I was trying to use Extract Centerline to generate a centerline tree of what I think is a relatively simple shape (compared to what I want to input later). I’ve got 128gb RAM, 8GB NVIDIA card, 2TB SSD, and Intel i7-14700…

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## [segmenting of mouse CT 3D dataset using a mouse phantom. ](https://discourse.slicer.org/t/segmenting-of-mouse-ct-3d-dataset-using-a-mouse-phantom/45301)

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**Author:** [@Ayman\_Alshehabi](https://discourse.slicer.org/u/Ayman_Alshehabi)\
**Replies:** 1\
**Last updated:** [December 2, 2025, 9:56am UTC](https://discourse.slicer.org/t/segmenting-of-mouse-ct-3d-dataset-using-a-mouse-phantom/45301 "2025-12-02T09:56:28Z")

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Hey you guys, im trying to segment 3D CT mouse data using the phantom developed by Digimouse\_Download - Biomedical Imaging Group" . I am having the difficulty to overlap the segmented phantom that i created with the mou…

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## [Segment Statistics for dynamic (multi frame) PET](https://discourse.slicer.org/t/segment-statistics-for-dynamic-multi-frame-pet/45253)

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**Author:** [@lennart81](https://discourse.slicer.org/u/lennart81)\
**Replies:** 2\
**Last updated:** [December 1, 2025, 7:03pm UTC](https://discourse.slicer.org/t/segment-statistics-for-dynamic-multi-frame-pet/45253 "2025-12-01T19:03:56Z")

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Hi community, I am working with dynamic PET data acquired on a Siemens Quadra PET/CT (30 frames + static CT). I have loaded the data and segmented several VOIs based on the CT. My goal is to extract the mean PET intens…

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## [Configure qMRMLSubjectHierarchyTreeView?](https://discourse.slicer.org/t/configure-qmrmlsubjecthierarchytreeview/45241)

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**Author:** [@mau\_igna\_06](https://discourse.slicer.org/u/mau_igna_06)\
**Replies:** 1\
**Last updated:** [December 1, 2025, 9:42am UTC](https://discourse.slicer.org/t/configure-qmrmlsubjecthierarchytreeview/45241 "2025-12-01T09:42:43Z")

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Hi, Is it possible to hide all empty folders and markupNodes with no control points from a qMRMLSubjectHierarchyTreeView ? Thank you

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## [Nvidia GeForce setting (and relative 3d Slicer setting)](https://discourse.slicer.org/t/nvidia-geforce-setting-and-relative-3d-slicer-setting/42559)

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**Author:** [@Nicola\_Calcabrini](https://discourse.slicer.org/u/Nicola_Calcabrini)\
**Replies:** 2\
**Last updated:** [April 14, 2025, 4:41pm UTC](https://discourse.slicer.org/t/nvidia-geforce-setting-and-relative-3d-slicer-setting/42559 "2025-04-14T16:41:12Z")

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Good morning everyone, I am a young researcher and I have recently started to use 3D slicer for fossil vertebrate reconstruction. I use the following main functions: automatic and manual segmentation ISLAND extension …

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## [ALPACA subsampling](https://discourse.slicer.org/t/alpaca-subsampling/45273)

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**Author:** [@Lucy-create02](https://discourse.slicer.org/u/Lucy-create02)\
**Replies:** 1\
**Last updated:** [November 30, 2025, 6:51am UTC](https://discourse.slicer.org/t/alpaca-subsampling/45273 "2025-11-30T06:51:57Z")

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Hi Slicer Forum, I’m trying out the automatic landmarking module ALPACA/ MALPACA in 3D Slicer. When running ALPACA subsampling the max density value is capped at 2 so I can only achieve a maximum subsampling of around 3…

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## [Volume Rendering not working for MRI](https://discourse.slicer.org/t/volume-rendering-not-working-for-mri/45263)

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**Author:** [@Maleia\_Tye](https://discourse.slicer.org/u/Maleia_Tye)\
**Replies:** 3\
**Last updated:** [November 29, 2025, 8:31pm UTC](https://discourse.slicer.org/t/volume-rendering-not-working-for-mri/45263 "2025-11-29T20:31:03Z")

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As the title says, I’m not getting a 3D Volume rendering with an MRI. Preface: I’m able to get a 3D Volume view for a CT scan, this seems to only be impacting an MRI. Probably additional helpful information: My project…

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## [Can not use volume rendering for MRI data, shows only one slice](https://discourse.slicer.org/t/can-not-use-volume-rendering-for-mri-data-shows-only-one-slice/45271)

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**Author:** [@Felix\_Jannan](https://discourse.slicer.org/u/Felix_Jannan)\
**Replies:** 1\
**Last updated:** [November 29, 2025, 7:31pm UTC](https://discourse.slicer.org/t/can-not-use-volume-rendering-for-mri-data-shows-only-one-slice/45271 "2025-11-29T19:31:36Z")

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Hello, I am quite new to the topic of 3D-reconstruction and imaging but I am trying to learn it for my scientific work. I recently ran into a problem with MRI data, I usually use the program for 3D Models with CT data, …

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## [Lung segmentation problem(Dicom file resolution)](https://discourse.slicer.org/t/lung-segmentation-problem-dicom-file-resolution/45272)

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**Author:** [@Seungho](https://discourse.slicer.org/u/Seungho)\
**Replies:** 0\
**Last updated:** [November 29, 2025, 1:37am UTC](https://discourse.slicer.org/t/lung-segmentation-problem-dicom-file-resolution/45272 "2025-11-29T01:37:29Z")

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I am trying to perform lung segmentation, but the image resolution is too low as shown in the picture. Even after pointing everywhere, the segmentation does not work. Could you please advise me on what to do? Thank you f…

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## [Trouble with the layout of the application](https://discourse.slicer.org/t/trouble-with-the-layout-of-the-application/45262)

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**Author:** [@kathw](https://discourse.slicer.org/u/kathw)\
**Replies:** 5\
**Last updated:** [November 28, 2025, 2:25pm UTC](https://discourse.slicer.org/t/trouble-with-the-layout-of-the-application/45262 "2025-11-28T14:25:00Z")

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Hi all! I just downloaded 3D Slicer on my Laptop, however the formatting is really weird. The icons and font size are huge, also whenever I open the program it is also huge and I have to scroll to reach the “full screen…

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## [3D Slicer for simulating MRI planning](https://discourse.slicer.org/t/3d-slicer-for-simulating-mri-planning/45259)

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**Author:** [@Dave](https://discourse.slicer.org/u/Dave)\
**Replies:** 1\
**Last updated:** [November 28, 2025, 1:29pm UTC](https://discourse.slicer.org/t/3d-slicer-for-simulating-mri-planning/45259 "2025-11-28T13:29:20Z")

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Hello everyone: I’m a mri teacher for technologists who would like to use this software for my lessons. I find it very useful to visualize DICOM data and navigating through organs and different planes. Could it be poss…

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## [slicerTrame module working example](https://discourse.slicer.org/t/slicertrame-module-working-example/45236)

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**Author:** [@bserrano](https://discourse.slicer.org/u/bserrano)\
**Replies:** 5\
**Last updated:** [November 28, 2025, 12:18pm UTC](https://discourse.slicer.org/t/slicertrame-module-working-example/45236 "2025-11-28T12:18:23Z")

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Hi all (particularly @finetjul, since you’ve been active on this topic), I’ve been working with 3D Slicer for a few years now. I recently discovered Trame Slicer, and I think it’s a great tool for bringing Slicer to the…

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## [The Add Data button is not working properly](https://discourse.slicer.org/t/the-add-data-button-is-not-working-properly/44557)

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**Author:** [@Victor\_Wayne](https://discourse.slicer.org/u/Victor_Wayne)\
**Replies:** 3\
**Last updated:** [November 28, 2025, 6:32am UTC](https://discourse.slicer.org/t/the-add-data-button-is-not-working-properly/44557 "2025-11-28T06:32:02Z")

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So, when I click the Add Data button, it opens the file dialog box and I am able to load MRIs perfectly. But if I close the file dialog box without loading any MRML or MRI files and then try to open it again the file dia…

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## [Applying manipulations to all volumes in a study](https://discourse.slicer.org/t/applying-manipulations-to-all-volumes-in-a-study/44479)

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**Author:** [@shai-ikko](https://discourse.slicer.org/u/shai-ikko)\
**Replies:** 3\
**Last updated:** [November 27, 2025, 2:20pm UTC](https://discourse.slicer.org/t/applying-manipulations-to-all-volumes-in-a-study/44479 "2025-11-27T14:20:45Z")

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Hi, We’ve been working on a new modality, and at least for now, we’ve been producing a set of separate volumes in each “study” (a bit like t1 and t2 in MRI). As everything is still experimental and in development, a lot…

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## [3D slicer bogs down and crashes when upscaling segmentation geometry](https://discourse.slicer.org/t/3d-slicer-bogs-down-and-crashes-when-upscaling-segmentation-geometry/45240)

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**Author:** [@msoum](https://discourse.slicer.org/u/msoum)\
**Replies:** 4\
**Last updated:** [November 26, 2025, 7:34pm UTC](https://discourse.slicer.org/t/3d-slicer-bogs-down-and-crashes-when-upscaling-segmentation-geometry/45240 "2025-11-26T19:34:07Z")

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Hi all, I’m new to 3D Slicer, I’m trying to create a high fidelity model of my own post-craniotomy skull and currently in the process of trying to eliminate “stepping” on the model by trying to use the segmentation geom…

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## [Cannot load tif files](https://discourse.slicer.org/t/cannot-load-tif-files/45216)

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**Author:** [@Busra\_Pullu1](https://discourse.slicer.org/u/Busra_Pullu1)\
**Replies:** 4\
**Last updated:** [November 26, 2025, 6:38pm UTC](https://discourse.slicer.org/t/cannot-load-tif-files/45216 "2025-11-26T18:38:50Z")

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I need to upload more than 2500 tiff files. I spent lots of time uploading them, but Slicer keeps crashing. What is the best way to do this? Btw, for some reason I have no image stacks on the modules. I added, like, add …

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## [How to Save All Modified Volume-Rendering Presets in an MRB File](https://discourse.slicer.org/t/how-to-save-all-modified-volume-rendering-presets-in-an-mrb-file/45223)

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**Author:** [@Eva\_Monclus\_Lahoya](https://discourse.slicer.org/u/Eva_Monclus_Lahoya)\
**Replies:** 3\
**Last updated:** [November 26, 2025, 4:20pm UTC](https://discourse.slicer.org/t/how-to-save-all-modified-volume-rendering-presets-in-an-mrb-file/45223 "2025-11-26T16:20:03Z")

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Operating system:Windows Slicer version:5.8.1 Hello everyone, I’m working with a CT volume dataset and experimenting with the volume-rendering presets. I’d like to apply various changes to multiple presets and save all…

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## [Create a plane through markups or control points](https://discourse.slicer.org/t/create-a-plane-through-markups-or-control-points/45238)

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**Author:** [@Catalina\_Balzo](https://discourse.slicer.org/u/Catalina_Balzo)\
**Replies:** 0\
**Last updated:** [November 26, 2025, 3:04pm UTC](https://discourse.slicer.org/t/create-a-plane-through-markups-or-control-points/45238 "2025-11-26T15:04:02Z")

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Hi, I need to create planes from points. Is that possible? If I have two points, I understand that I need a third coordinate to define a plane, so I would like to orient that plane along an X, Y, or Z direction, (for e…

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## [Lookup Table Interpolation](https://discourse.slicer.org/t/lookup-table-interpolation/45226)

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**Author:** [@dpvaldes](https://discourse.slicer.org/u/dpvaldes)\
**Replies:** 0\
**Last updated:** [November 25, 2025, 9:37pm UTC](https://discourse.slicer.org/t/lookup-table-interpolation/45226 "2025-11-25T21:37:11Z")

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I’m generating new Lookup Tables to look at volumes with logarithmic scales. The lookup table I’m creating has a certain number of colors that determine the value resolution in the volumes we are visualizing with this lo…

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## [3D slicer not loading images](https://discourse.slicer.org/t/3d-slicer-not-loading-images/45211)

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**Author:** [@amberlgilbert](https://discourse.slicer.org/u/amberlgilbert)\
**Replies:** 1\
**Last updated:** [November 24, 2025, 3:33pm UTC](https://discourse.slicer.org/t/3d-slicer-not-loading-images/45211 "2025-11-24T15:33:47Z")

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Previously, when loading images this was working, however now the images are not opening and loading, the error displayed is shown below: \[Qt\] Error: \[Qt\] database disk image is malformed Unable to fetch row \[Qt\] SQL …

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## [Volume rendering adjusting precisely](https://discourse.slicer.org/t/volume-rendering-adjusting-precisely/45182)

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**Author:** [@michaelli](https://discourse.slicer.org/u/michaelli)\
**Replies:** 4\
**Last updated:** [November 24, 2025, 2:48pm UTC](https://discourse.slicer.org/t/volume-rendering-adjusting-precisely/45182 "2025-11-24T14:48:01Z")

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In volume rendering, after selecting a preset, I can drag the slider to adjust the ‘shift’ value. But I want to know how to adjust the ‘shift’ precisely?

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## [Version 5.10.0, error in total segmentator](https://discourse.slicer.org/t/version-5-10-0-error-in-total-segmentator/45200)

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**Author:** [@hepato](https://discourse.slicer.org/u/hepato)\
**Replies:** 3\
**Last updated:** [November 24, 2025, 11:16am UTC](https://discourse.slicer.org/t/version-5-10-0-error-in-total-segmentator/45200 "2025-11-24T11:16:33Z")

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processing started Writing input file to /private/var/folders/0c/gpzkc1r575xdc6jdzv6v\_s6h0000gn/T/Slicer-cy/\_\_SlicerTemp\_\_2025-11-24\_06+19+55.287/total-segmentator-input.nii Creating segmentations with TotalSegmentator…

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## [User Discoverability Issues in Slicer 5.10](https://discourse.slicer.org/t/user-discoverability-issues-in-slicer-5-10/45187)

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**Author:** [@alireza](https://discourse.slicer.org/u/alireza)\
**Replies:** 8\
**Last updated:** [November 22, 2025, 3:13am UTC](https://discourse.slicer.org/t/user-discoverability-issues-in-slicer-5-10/45187 "2025-11-22T03:13:37Z")

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Hey everyone, I recently upgraded to Slicer 5.10, and I wanted to share some feedback regarding user discoverability. Specifically, I noticed that some commonly used buttons, such as “New Segmentation” and “New Transfor…

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