# Support

**URL:** https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=62

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

**Page:** 63

---

## [Model is very distant from purple frame and impossible to work with. ](https://discourse.slicer.org/t/model-is-very-distant-from-purple-frame-and-impossible-to-work-with/1676)

<div class="topic-metadata">

**Author:** [@spatolab](https://discourse.slicer.org/u/spatolab)\
**Replies:** 4\
**Last updated:** [December 5, 2024, 4:39am UTC](https://discourse.slicer.org/t/model-is-very-distant-from-purple-frame-and-impossible-to-work-with/1676 "2024-12-05T04:39:26Z")

</div>

Operating system: Win 10 Slicer version: 4.8.0 Expected behavior: Loaded model would be within or at least close to purple frame in 3d view Actual behavior: The model is very distant from the purple frame and impossib…

---

## [Struggling with Multi-Phase DCE-MRI Segmentation: Issues with 3D Slicer Viewing and DICOM Reconstruction](https://discourse.slicer.org/t/struggling-with-multi-phase-dce-mri-segmentation-issues-with-3d-slicer-viewing-and-dicom-reconstruction/39792)

<div class="topic-metadata">

**Author:** [@Luo\_Dr](https://discourse.slicer.org/u/Luo_Dr)\
**Replies:** 2\
**Last updated:** [December 4, 2024, 9:48pm UTC](https://discourse.slicer.org/t/struggling-with-multi-phase-dce-mri-segmentation-issues-with-3d-slicer-viewing-and-dicom-reconstruction/39792 "2024-12-04T21:48:09Z")

</div>

Issue Summary: I’m working with a dynamic contrast-enhanced abdominal MRI dataset, with 320 slices divided into 4 phases (non-contrast, arterial, portal venous, delayed). The goal is to separate these phases and generat…

---

## [Show FieldData in Models](https://discourse.slicer.org/t/show-fielddata-in-models/40515)

<div class="topic-metadata">

**Author:** [@phcerdan](https://discourse.slicer.org/u/phcerdan)\
**Replies:** 0\
**Last updated:** [December 4, 2024, 9:27pm UTC](https://discourse.slicer.org/t/show-fielddata-in-models/40515 "2024-12-04T21:27:21Z")

</div>

The only way to pass metadata along a pipeline in VTK is with FieldData. FieldData is not associated to vertices or edges on the Mesh. Slicer has no way, up to my knowledge to show the FieldData of a vtk file. Paravie…

---

## [Feedback on the shadows control in 3D view](https://discourse.slicer.org/t/feedback-on-the-shadows-control-in-3d-view/40502)

<div class="topic-metadata">

**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 1\
**Last updated:** [December 4, 2024, 7:48pm UTC](https://discourse.slicer.org/t/feedback-on-the-shadows-control-in-3d-view/40502 "2024-12-04T19:48:26Z")

</div>

During our workshop, a common request/consensus has emerged. The newly introduced shadows features in 3D viewer is nice. However, it does need a few additional features to be more functional. A way to reset the option…

---

## [3D Similarity Clustering](https://discourse.slicer.org/t/3d-similarity-clustering/40510)

<div class="topic-metadata">

**Author:** [@robert-m-muench](https://discourse.slicer.org/u/robert-m-muench)\
**Replies:** 2\
**Last updated:** [December 4, 2024, 6:43pm UTC](https://discourse.slicer.org/t/3d-similarity-clustering/40510 "2024-12-04T18:43:13Z")

</div>

Hi, maybe 3D-slicer with some extensions is the right tool, but I don’t know. I’m searching for input, hints, guidance, or other solutions to the following problem. I have several thousand (possibly a couple hundred tho…

---

## [ExplodeModels Action in Animator Creates no effect, and Python code does not run an error message](https://discourse.slicer.org/t/explodemodels-action-in-animator-creates-no-effect-and-python-code-does-not-run-an-error-message/40509)

<div class="topic-metadata">

**Author:** [@ibehar](https://discourse.slicer.org/u/ibehar)\
**Replies:** 1\
**Last updated:** [December 4, 2024, 3:20pm UTC](https://discourse.slicer.org/t/explodemodels-action-in-animator-creates-no-effect-and-python-code-does-not-run-an-error-message/40509 "2024-12-04T15:20:53Z")

</div>

I am learning how to use the Animator module in SlicerMorph for a class assignment and none of the inputted segments seem to respond to the ExplodeModels action. Other actions (like rotation) seem to function fine, but I…

---

## [Dice scoring for mandibular canal tracings](https://discourse.slicer.org/t/dice-scoring-for-mandibular-canal-tracings/40470)

<div class="topic-metadata">

**Author:** [@Swarna\_Yerebairapura](https://discourse.slicer.org/u/Swarna_Yerebairapura)\
**Replies:** 6\
**Last updated:** [December 4, 2024, 3:08pm UTC](https://discourse.slicer.org/t/dice-scoring-for-mandibular-canal-tracings/40470 "2024-12-04T15:08:52Z")

</div>

I would like to perform Dice scoring for mandibular canal tracings created using the InVivo CBCT software. However, these tracings are only visible in the 2D panoramic reconstruction view and are not displayed in the MPR…

---

## [How to perform US MRI/CT registration?](https://discourse.slicer.org/t/how-to-perform-us-mri-ct-registration/35776)

<div class="topic-metadata">

**Author:** [@jay1987](https://discourse.slicer.org/u/jay1987)\
**Replies:** 4\
**Last updated:** [December 4, 2024, 12:20pm UTC](https://discourse.slicer.org/t/how-to-perform-us-mri-ct-registration/35776 "2024-12-04T12:20:54Z")

</div>

I want to perform registration from US to CT or MRI. The ants, elastix, and brains algorithms can perform registration from 3D to 3D. But if I want to perform registration from 2D US to 3D CT/MRI, is there any way in Sli…

---

## [Segmentation as dicom format](https://discourse.slicer.org/t/segmentation-as-dicom-format/40465)

<div class="topic-metadata">

**Author:** [@Nicolo\_Tombini](https://discourse.slicer.org/u/Nicolo_Tombini)\
**Replies:** 2\
**Last updated:** [December 3, 2024, 9:10pm UTC](https://discourse.slicer.org/t/segmentation-as-dicom-format/40465 "2024-12-03T21:10:58Z")

</div>

Good evening everyone. I’m using data from https://www.cancerimagingarchive.net and I’m having trouble using the data. I notice that I have a single file for the segmentations in dicom format and when I import it into Py…

---

## [Restoring sceneviews breaks subject hierarchy and volume rendering presets not changing](https://discourse.slicer.org/t/restoring-sceneviews-breaks-subject-hierarchy-and-volume-rendering-presets-not-changing/40500)

<div class="topic-metadata">

**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 1\
**Last updated:** [December 3, 2024, 6:09pm UTC](https://discourse.slicer.org/t/restoring-sceneviews-breaks-subject-hierarchy-and-volume-rendering-presets-not-changing/40500 "2024-12-03T18:09:14Z")

</div>

We have discovered these issues in the preview (from two days ago), and I don’t have time time report it on github as I am about to go into the workshop: Scene view breaks subkect hierarcy: Load MRHead, set some visua…

---

## [Additional tabs in browser column](https://discourse.slicer.org/t/additional-tabs-in-browser-column/40485)

<div class="topic-metadata">

**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 1\
**Last updated:** [December 3, 2024, 6:07pm UTC](https://discourse.slicer.org/t/additional-tabs-in-browser-column/40485 "2024-12-03T18:07:33Z")

</div>

it would be great if additional tabs added for example segmentations , models , markups in many cases i ended up having big mess of segmentation and models etc . it would be awesome if i can only work wharver i need w…

---

## [Hardening image caused blurry orientation](https://discourse.slicer.org/t/hardening-image-caused-blurry-orientation/40490)

<div class="topic-metadata">

**Author:** [@Dimitri\_Gouvoussis](https://discourse.slicer.org/u/Dimitri_Gouvoussis)\
**Replies:** 1\
**Last updated:** [December 3, 2024, 3:54pm UTC](https://discourse.slicer.org/t/hardening-image-caused-blurry-orientation/40490 "2024-12-03T15:54:20Z")

</div>

Hello, I am trying to measure the density of my images and am having an issue geeting them to load properly. I am using CT scans capatured with a Bruker Skyscan 1276 micro-CT. When I load the files into 3d slicer the axi…

---

## [pyTorch warning/error about torchvision](https://discourse.slicer.org/t/pytorch-warning-error-about-torchvision/40476)

<div class="topic-metadata">

**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 9\
**Last updated:** [December 3, 2024, 3:49pm UTC](https://discourse.slicer.org/t/pytorch-warning-error-about-torchvision/40476 "2024-12-03T15:49:46Z")

</div>

Not sure whether this breaks anything, but there is this error/warning message about setup tools replacing distools: Installing collected packages: mpmath, sympy, nvidia-nvtx-cu11, nvidia-nccl-cu11, nvidia-cusparse-cu11…

---

## [Failed to upgrade TotalSegmentator at first run on WIN10](https://discourse.slicer.org/t/failed-to-upgrade-totalsegmentator-at-first-run-on-win10/40495)

<div class="topic-metadata">

**Author:** [@sfcwefvwr](https://discourse.slicer.org/u/sfcwefvwr)\
**Replies:** 0\
**Last updated:** [December 3, 2024, 3:04pm UTC](https://discourse.slicer.org/t/failed-to-upgrade-totalsegmentator-at-first-run-on-win10/40495 "2024-12-03T15:04:34Z")

</div>

\[Python\] Failed to upgrade TotalSegmentator \[Python\] Command ‘\[‘D:/YYC/software/slicer/Slicer 5.7.0-2024-11-29/bin/…/bin\\PythonSlicer.EXE’, ‘-m’, ‘pip’, ‘install’, ‘black;extra’, ‘==’, ‘dev’\]’ returned non-zero exit sta…

---

## [Slicer Preview crashes on slicer.util.resetSliceViews()](https://discourse.slicer.org/t/slicer-preview-crashes-on-slicer-util-resetsliceviews/40488)

<div class="topic-metadata">

**Author:** [@koeglfryderyk](https://discourse.slicer.org/u/koeglfryderyk)\
**Replies:** 4\
**Last updated:** [December 3, 2024, 1:29pm UTC](https://discourse.slicer.org/t/slicer-preview-crashes-on-slicer-util-resetsliceviews/40488 "2024-12-03T13:29:48Z")

</div>

Slicer preview version: Slicer-5.7.0-2024-11-29-linux-amd64 OS: Ubuntu 22.04.4 LTS Slicer crashes ungracefully after calling slicer.util.resetSliceViews() Here is the log: Python console user input: slicer.util.reset…

---

## [Slicer closes when opening (already known) datasets with "Raw Image Guess" Module](https://discourse.slicer.org/t/slicer-closes-when-opening-already-known-datasets-with-raw-image-guess-module/40041)

<div class="topic-metadata">

**Author:** [@Marek57](https://discourse.slicer.org/u/Marek57)\
**Replies:** 6\
**Last updated:** [December 3, 2024, 10:56am UTC](https://discourse.slicer.org/t/slicer-closes-when-opening-already-known-datasets-with-raw-image-guess-module/40041 "2024-12-03T10:56:34Z")

</div>

Dear Community, I am new in this forum. I have been successfully using Slicer for a few weeks only, but it suddenly stopped working a few days ago. I open generic datasets (files), containing stacks of equally sized bi…

---

## [Question on Markup](https://discourse.slicer.org/t/question-on-markup/40472)

<div class="topic-metadata">

**Author:** [@alientex](https://discourse.slicer.org/u/alientex)\
**Replies:** 0\
**Last updated:** [December 2, 2024, 9:26am UTC](https://discourse.slicer.org/t/question-on-markup/40472 "2024-12-02T09:26:14Z")

</div>

Hello, Where can I find in the code which event/observer is fired when renaming a markup node?

---

## [Stitching adjacent but not overlapping CT volumes](https://discourse.slicer.org/t/stitching-adjacent-but-not-overlapping-ct-volumes/31613)

<div class="topic-metadata">

**Author:** [@phiro753](https://discourse.slicer.org/u/phiro753)\
**Replies:** 7\
**Last updated:** [December 1, 2024, 9:28pm UTC](https://discourse.slicer.org/t/stitching-adjacent-but-not-overlapping-ct-volumes/31613 "2024-12-01T21:28:38Z")

</div>

Operating system: Windows 10 Pro Slicer version: 5.2 Hi Slicer3D community, I am pursing a PhD looking into histology to radiology registration process for sarcomas. Enough to say there are multiple considerations tha…

---

## [Send Rendering Information via OpenIGTLinkIF](https://discourse.slicer.org/t/send-rendering-information-via-openigtlinkif/40392)

<div class="topic-metadata">

**Author:** [@Filippo\_Parronchi](https://discourse.slicer.org/u/Filippo_Parronchi)\
**Replies:** 2\
**Last updated:** [December 1, 2024, 1:37pm UTC](https://discourse.slicer.org/t/send-rendering-information-via-openigtlinkif/40392 "2024-12-01T13:37:50Z")

</div>

Hello everyone! After loading a volume into the scene, I send it to a receiving client (Unity script) via the OpenIGTLinkIF protocol, and thanks to an implemented plugin, I can perform volume rendering. However, throug…

---

## [Haemostatic clips](https://discourse.slicer.org/t/haemostatic-clips/40420)

<div class="topic-metadata">

**Author:** [@Dimitar\_Velev](https://discourse.slicer.org/u/Dimitar_Velev)\
**Replies:** 1\
**Last updated:** [November 30, 2024, 3:33pm UTC](https://discourse.slicer.org/t/haemostatic-clips/40420 "2024-11-30T15:33:39Z")

</div>

Hello! I want to put haemostatic clips on renal artery of my 3d image. Is there any gallery of 3d imges that I can use?

---

## [Working only with pyl files and need to compare model volumes](https://discourse.slicer.org/t/working-only-with-pyl-files-and-need-to-compare-model-volumes/40452)

<div class="topic-metadata">

**Author:** [@CDio](https://discourse.slicer.org/u/CDio)\
**Replies:** 0\
**Last updated:** [November 30, 2024, 5:30am UTC](https://discourse.slicer.org/t/working-only-with-pyl-files-and-need-to-compare-model-volumes/40452 "2024-11-30T05:30:27Z")

</div>

Hello! I am a complete beginner for 3D Slicer, so sorry if my post is redundant or you have already treated this topic. I have experience with other softwares for cellular imaging but it is the first time I need to work …

---

## [Registration for CT data and stl data couldnt finish](https://discourse.slicer.org/t/registration-for-ct-data-and-stl-data-couldnt-finish/40451)

<div class="topic-metadata">

**Author:** [@JamesMengFly](https://discourse.slicer.org/u/JamesMengFly)\
**Replies:** 0\
**Last updated:** [November 30, 2024, 5:28am UTC](https://discourse.slicer.org/t/registration-for-ct-data-and-stl-data-couldnt-finish/40451 "2024-11-30T05:28:44Z")

</div>

When I use 3D Slicer to registration for CT data and .stl data，Fixed Image Volume is CT data ,why I couldnt choose .stl data for Moving Image Volume?

---

## [If I install the jupyter exension in 3D Slicer, After closing the software, it crashes when reopened.](https://discourse.slicer.org/t/if-i-install-the-jupyter-exension-in-3d-slicer-after-closing-the-software-it-crashes-when-reopened/40450)

<div class="topic-metadata">

**Author:** [@Wentao\_Zhang](https://discourse.slicer.org/u/Wentao_Zhang)\
**Replies:** 0\
**Last updated:** [November 30, 2024, 5:28am UTC](https://discourse.slicer.org/t/if-i-install-the-jupyter-exension-in-3d-slicer-after-closing-the-software-it-crashes-when-reopened/40450 "2024-11-30T05:28:09Z")

</div>

My machine is 2020 macos m1(16g), I have tried installing both version 5.40 and 5.62, and they both exhibit the same issue. As soon as I install the Jupyter plugin in 3D Slicer, the software crashes when reopening.

---

## [Handling Missing Slice Data in RT Structures: How Does SlicerRT Interpolate Missing RT Data?](https://discourse.slicer.org/t/handling-missing-slice-data-in-rt-structures-how-does-slicerrt-interpolate-missing-rt-data/40431)

<div class="topic-metadata">

**Author:** [@tamerWagih](https://discourse.slicer.org/u/tamerWagih)\
**Replies:** 2\
**Last updated:** [November 29, 2024, 12:38pm UTC](https://discourse.slicer.org/t/handling-missing-slice-data-in-rt-structures-how-does-slicerrt-interpolate-missing-rt-data/40431 "2024-11-29T12:38:24Z")

</div>

Hello Slicer Community, I’m currently working with RT structure sets (RTSS), and I’ve encountered an interesting issue when using Plastimatch’s convert command to extract RT structures as label images. The issue is that…

---

## [Raidionics-Slicer extension not working](https://discourse.slicer.org/t/raidionics-slicer-extension-not-working/40435)

<div class="topic-metadata">

**Author:** [@anuragp2018](https://discourse.slicer.org/u/anuragp2018)\
**Replies:** 0\
**Last updated:** [November 29, 2024, 6:06am UTC](https://discourse.slicer.org/t/raidionics-slicer-extension-not-working/40435 "2024-11-29T06:06:33Z")

</div>

I tried running the Neuro LGG PreOp segmentation model in Raidionics slicer extension, but when clicking on Run the segmentation, the method never finishes and the following error shows in the python console: \[Python\] T…

---

## [ALPACA stops at certain # of specimens](https://discourse.slicer.org/t/alpaca-stops-at-certain-of-specimens/40380)

<div class="topic-metadata">

**Author:** [@stineblom](https://discourse.slicer.org/u/stineblom)\
**Replies:** 2\
**Last updated:** [November 28, 2024, 5:19pm UTC](https://discourse.slicer.org/t/alpaca-stops-at-certain-of-specimens/40380 "2024-11-28T17:19:53Z")

</div>

Hi all! I hope you can help me - I am using ALPACA to produce semilandmark datasets for scapulae of 6 species, but I am experiencing a weird problem. All scapulae are mesh .ply and prepared in the same way. The first ti…

---

## [TCIA Browser isn't working](https://discourse.slicer.org/t/tcia-browser-isnt-working/40406)

<div class="topic-metadata">

**Author:** [@Isabel\_Dewine](https://discourse.slicer.org/u/Isabel_Dewine)\
**Replies:** 2\
**Last updated:** [November 28, 2024, 4:22pm UTC](https://discourse.slicer.org/t/tcia-browser-isnt-working/40406 "2024-11-28T16:22:33Z")

</div>

Hi, TCIA Browser isn’t working for me and I don’t know why.

---

## [Modules:BRAINSDemonWarp](https://discourse.slicer.org/t/modules-brainsdemonwarp/25039)

<div class="topic-metadata">

**Author:** [@Chuan](https://discourse.slicer.org/u/Chuan)\
**Replies:** 6\
**Last updated:** [November 28, 2024, 3:08pm UTC](https://discourse.slicer.org/t/modules-brainsdemonwarp/25039 "2024-11-28T15:08:29Z")

</div>

Hi, Does 3d slicer reomove the module of BRAINSDemonWarp in the high version? I can use V4.10.2 to do the DemonRegistration but I cannot find it in V5.0.3. Best regards, Chuan

---

## [Implementing the Demons Algorithm Registration](https://discourse.slicer.org/t/implementing-the-demons-algorithm-registration/16054)

<div class="topic-metadata">

**Author:** [@toyama](https://discourse.slicer.org/u/toyama)\
**Replies:** 3\
**Last updated:** [November 28, 2024, 8:02am UTC](https://discourse.slicer.org/t/implementing-the-demons-algorithm-registration/16054 "2024-11-28T08:02:35Z")

</div>

I would like to implement DIR using the demon algorithm. I am including SlicerRT and Elastix to do the DIR. Is it possible to do DIR using demon algorithm with these two?

---

## [Saving segmentation as dicom file to reuse](https://discourse.slicer.org/t/saving-segmentation-as-dicom-file-to-reuse/40419)

<div class="topic-metadata">

**Author:** [@Ouassim](https://discourse.slicer.org/u/Ouassim)\
**Replies:** 0\
**Last updated:** [November 28, 2024, 12:25am UTC](https://discourse.slicer.org/t/saving-segmentation-as-dicom-file-to-reuse/40419 "2024-11-28T00:25:55Z")

</div>

Hello Comunity, I want to save my segmentation into a DICOM file. I have 128 slices of h,w = 128. I am using 3D slicer to segment and select my VOI, my objective is to save the selected regions into a DICOM files so th…

[Previous page](https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=61)

[Next page](https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=63)