# Support

**URL:** https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=53

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

**Page:** 54

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## [Margin effect has a bug?](https://discourse.slicer.org/t/margin-effect-has-a-bug/41569)

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**Author:** [@cui](https://discourse.slicer.org/u/cui)\
**Replies:** 4\
**Last updated:** [February 9, 2025, 9:17am UTC](https://discourse.slicer.org/t/margin-effect-has-a-bug/41569 "2025-02-09T09:17:26Z")

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Why can’t i click the “apply” button???

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## [PET SUV quantification get blank value sometimes. (with the PET Standard Value Computation module)](https://discourse.slicer.org/t/pet-suv-quantification-get-blank-value-sometimes-with-the-pet-standard-value-computation-module/27923)

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**Author:** [@zhang\_ming](https://discourse.slicer.org/u/zhang_ming)\
**Replies:** 5\
**Last updated:** [February 9, 2025, 7:41am UTC](https://discourse.slicer.org/t/pet-suv-quantification-get-blank-value-sometimes-with-the-pet-standard-value-computation-module/27923 "2025-02-09T07:41:37Z")

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Aim：SUVmax/SUVmean and other relevant parameters were obtained by mapping the 3D ROI (not cross-sectional) of intestinal cross-section through the target area For some reason, the correct SUV value rarely appeared, and …

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## [How to Renumber Segment Labels After Deleting Regions in a Label File?](https://discourse.slicer.org/t/how-to-renumber-segment-labels-after-deleting-regions-in-a-label-file/41280)

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**Author:** [@ebhebh](https://discourse.slicer.org/u/ebhebh)\
**Replies:** 2\
**Last updated:** [February 8, 2025, 8:23am UTC](https://discourse.slicer.org/t/how-to-renumber-segment-labels-after-deleting-regions-in-a-label-file/41280 "2025-02-08T08:23:40Z")

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Dear 3D Slicer Community, I need some assistance with modifying a label file. The file contains five segmented regions, labeled 1, 2, 3, 4, and 5. I would like to delete the segments corresponding to labels 1 and 2, …

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## [Dental Segmentation](https://discourse.slicer.org/t/dental-segmentation/41570)

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**Author:** [@dr\_drcadcam](https://discourse.slicer.org/u/dr_drcadcam)\
**Replies:** 0\
**Last updated:** [February 7, 2025, 10:06pm UTC](https://discourse.slicer.org/t/dental-segmentation/41570 "2025-02-07T22:06:28Z")

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I have Windows 11 and I’m using SLICER 5.8. At the end of the dental segmentation process, this window appears and the segmentation does not end. can anyone help me?

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## [Error when exporting transformation](https://discourse.slicer.org/t/error-when-exporting-transformation/41565)

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**Author:** [@dpvaldes](https://discourse.slicer.org/u/dpvaldes)\
**Replies:** 0\
**Last updated:** [February 7, 2025, 8:13pm UTC](https://discourse.slicer.org/t/error-when-exporting-transformation/41565 "2025-02-07T20:13:16Z")

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Slicer 5.8.0 I created a transformation in the ‘Transform’ module. This is how it is displayed in Slicer GUI: and this is the export: I have checked that the different is not due to the coordinate systems. What …

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## [Changing a single segment 2 different colors](https://discourse.slicer.org/t/changing-a-single-segment-2-different-colors/41562)

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**Author:** [@BDhoth](https://discourse.slicer.org/u/BDhoth)\
**Replies:** 2\
**Last updated:** [February 7, 2025, 6:42pm UTC](https://discourse.slicer.org/t/changing-a-single-segment-2-different-colors/41562 "2025-02-07T18:42:21Z")

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Is it possible to circle an area of a segment and turn it a different color? Ex. I have the ventricles segmented and would like the inferior half to be a different color than the superior portion. Is there a simple way t…

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## [Run Slicer from console (bash)](https://discourse.slicer.org/t/run-slicer-from-console-bash/41557)

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**Author:** [@lbasiuk](https://discourse.slicer.org/u/lbasiuk)\
**Replies:** 1\
**Last updated:** [February 7, 2025, 3:57pm UTC](https://discourse.slicer.org/t/run-slicer-from-console-bash/41557 "2025-02-07T15:57:02Z")

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Hello everyone, I have been a Slicer user for a few years, always from the graphical interface. Thinking about automating some tasks, I was thinking about the possibility of loading medical images, segmenting them and cr…

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## [PET DICOM extension](https://discourse.slicer.org/t/pet-dicom-extension/41521)

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**Author:** [@akmal871026](https://discourse.slicer.org/u/akmal871026)\
**Replies:** 7\
**Last updated:** [February 7, 2025, 2:41pm UTC](https://discourse.slicer.org/t/pet-dicom-extension/41521 "2025-02-07T14:41:05Z")

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Hello, There is no PetDicom Extension in version 5.8.0. I TRIED TO INSTALL FROM FOLDER, BUT error pop up THE EXTENSION CAN DOWNLOADED HERE https://github.com/QIICR/Slicer-PETDICOMExtension

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## [3D model not showing up/not centerable anymore](https://discourse.slicer.org/t/3d-model-not-showing-up-not-centerable-anymore/40494)

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**Author:** [@mitra](https://discourse.slicer.org/u/mitra)\
**Replies:** 6\
**Last updated:** [February 7, 2025, 12:01pm UTC](https://discourse.slicer.org/t/3d-model-not-showing-up-not-centerable-anymore/40494 "2025-02-07T12:01:37Z")

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Hey, I just finished making an awesome 3D model after many hours and then suddenly the 3D image disappeared and now whenever I load up the Project, my 3D section does not work; Initially there is the cube without a 3D m…

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## [Ex-vivo skull bone segmentation](https://discourse.slicer.org/t/ex-vivo-skull-bone-segmentation/41552)

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**Author:** [@Vasudev](https://discourse.slicer.org/u/Vasudev)\
**Replies:** 0\
**Last updated:** [February 7, 2025, 11:57am UTC](https://discourse.slicer.org/t/ex-vivo-skull-bone-segmentation/41552 "2025-02-07T11:57:13Z")

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I would like to know the best method for segmenting different cranial bone regions i.e, Sphenoid bone, Parietal bone, Temporal bone, Occipital bone, Frontal bone, Are there any existing labels for different bone regions …

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## [DICOM image volume loaded as a single slice](https://discourse.slicer.org/t/dicom-image-volume-loaded-as-a-single-slice/3165)

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**Author:** [@Ash\_Alarfaj](https://discourse.slicer.org/u/Ash_Alarfaj)\
**Replies:** 9\
**Last updated:** [June 15, 2018, 3:35pm UTC](https://discourse.slicer.org/t/dicom-image-volume-loaded-as-a-single-slice/3165 "2018-06-15T15:35:17Z")

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Problem report for Slicer 4.9.0-2018-05-09 win-amd64: \[please describe expected and actual behavior\] after I load data and open segment editor, it shows only one slice?! after pressing the thresould

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## [Spherical shape detection on a 3D surface](https://discourse.slicer.org/t/spherical-shape-detection-on-a-3d-surface/41532)

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**Author:** [@MReza](https://discourse.slicer.org/u/MReza)\
**Replies:** 3\
**Last updated:** [February 6, 2025, 6:28pm UTC](https://discourse.slicer.org/t/spherical-shape-detection-on-a-3d-surface/41532 "2025-02-06T18:28:02Z")

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Hello everyone, We are working on a project where we glue spherical markers onto a tissue, and 3D scan both the tissue and the markers to capture the initial position. Then, we apply a force to deform the tissue and per…

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## [Issue with ProjectSemiLM](https://discourse.slicer.org/t/issue-with-projectsemilm/41438)

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**Author:** [@Dlmeyer](https://discourse.slicer.org/u/Dlmeyer)\
**Replies:** 5\
**Last updated:** [February 6, 2025, 6:14pm UTC](https://discourse.slicer.org/t/issue-with-projectsemilm/41438 "2025-02-06T18:14:26Z")

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Hello, I am trying to use the ProjectSemiLM utility to project a field of pseudolandmarks across my dataset of Squamate wrist elements. I have manually placed 6 orientation landmarks on each element, and have selected on…

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## [Converting the physical dose to biologically effective dose (BED)](https://discourse.slicer.org/t/converting-the-physical-dose-to-biologically-effective-dose-bed/41376)

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**Author:** [@azam](https://discourse.slicer.org/u/azam)\
**Replies:** 1\
**Last updated:** [February 6, 2025, 3:29pm UTC](https://discourse.slicer.org/t/converting-the-physical-dose-to-biologically-effective-dose-bed/41376 "2025-02-06T15:29:47Z")

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Hi everyone I have a DICOM RT dose file (It contains physical dose). I want to convert it to Biologically Effective Dose based on the below formula. That is, find the dose of each voxel (di) and put it in the formula an…

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## [New origin after resampling](https://discourse.slicer.org/t/new-origin-after-resampling/40157)

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**Author:** [@sebquetin](https://discourse.slicer.org/u/sebquetin)\
**Replies:** 14\
**Last updated:** [November 15, 2024, 5:56am UTC](https://discourse.slicer.org/t/new-origin-after-resampling/40157 "2024-11-15T05:56:42Z")

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Hello, I would like to ask about 3D slicer coordinate system. I understand from Coordinate systems — 3D Slicer documentation that the origin is in the middle of the first (corner) voxel. However, after resampling, the o…

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## [Listen to IGTLStatus node added](https://discourse.slicer.org/t/listen-to-igtlstatus-node-added/41528)

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**Author:** [@Arber\_Demi](https://discourse.slicer.org/u/Arber_Demi)\
**Replies:** 0\
**Last updated:** [February 6, 2025, 2:20pm UTC](https://discourse.slicer.org/t/listen-to-igtlstatus-node-added/41528 "2025-02-06T14:20:37Z")

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Hello everyone! I am trying to automatically query some data from a medical device immediately after it accepts the connection. I see that an IGTLStatus node appears in the I/O configuration dropdown of the OpenIGTLink…

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## [UKF Tractography extension missing in 3D Slicer 5.8.0](https://discourse.slicer.org/t/ukf-tractography-extension-missing-in-3d-slicer-5-8-0/41516)

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**Author:** [@TinaNant28](https://discourse.slicer.org/u/TinaNant28)\
**Replies:** 1\
**Last updated:** [February 5, 2025, 7:31pm UTC](https://discourse.slicer.org/t/ukf-tractography-extension-missing-in-3d-slicer-5-8-0/41516 "2025-02-05T19:31:33Z")

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Hello, the UKF Tractography extension is not available in the latest version of 3D Slicer 5.8.0. Is there any solution for that? Thank you

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## [Issue with dental segmentation not loading](https://discourse.slicer.org/t/issue-with-dental-segmentation-not-loading/40103)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 5\
**Last updated:** [February 5, 2025, 4:24pm UTC](https://discourse.slicer.org/t/issue-with-dental-segmentation-not-loading/40103 "2025-02-05T16:24:17Z")

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tried multiple times to re do the process but still same error

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## [Warping estimated semilandmarks onto surface](https://discourse.slicer.org/t/warping-estimated-semilandmarks-onto-surface/41354)

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**Author:** [@stineblom](https://discourse.slicer.org/u/stineblom)\
**Replies:** 8\
**Last updated:** [February 5, 2025, 1:47pm UTC](https://discourse.slicer.org/t/warping-estimated-semilandmarks-onto-surface/41354 "2025-02-05T13:47:08Z")

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Hello! Using pseudoLMgenerator and ALPACA, I have produced 499 pseudolandmarks on a sample of scapulae from different species that cover the whole surface/shape. From these, I made an ancestral shape reconstruction (ASR…

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## [Create a simple UI](https://discourse.slicer.org/t/create-a-simple-ui/41460)

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**Author:** [@SANTIAGO\_PENDON\_MING](https://discourse.slicer.org/u/SANTIAGO_PENDON_MING)\
**Replies:** 4\
**Last updated:** [February 5, 2025, 1:28pm UTC](https://discourse.slicer.org/t/create-a-simple-ui/41460 "2025-02-05T13:28:53Z")

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Hi to everyone! version: 5.6.2 OS: windows11 I’m working in create a robust (but also simple) interface for our python module named SegmentTracer. This code contains several classes and create/remove buttons begins t…

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## [Rotate Views Without Rotating Image](https://discourse.slicer.org/t/rotate-views-without-rotating-image/776)

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**Author:** [@\_jmichael](https://discourse.slicer.org/u/_jmichael)\
**Replies:** 6\
**Last updated:** [February 4, 2025, 11:03pm UTC](https://discourse.slicer.org/t/rotate-views-without-rotating-image/776 "2025-02-04T23:03:44Z")

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Hi all, I currently have a micro-CT of a phantom that, when loaded into Slicer, appears upside down (there are some file conversions going on before I get to Slicer, so this behaviour is probably correct from a software…

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## [Elastix doesn't work on windows 11](https://discourse.slicer.org/t/elastix-doesnt-work-on-windows-11/41496)

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**Author:** [@fragosoj](https://discourse.slicer.org/u/fragosoj)\
**Replies:** 0\
**Last updated:** [February 4, 2025, 6:32pm UTC](https://discourse.slicer.org/t/elastix-doesnt-work-on-windows-11/41496 "2025-02-04T18:32:19Z")

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Hello everyone, I have installed the stable release of 3D Slicer 5.8 on Windows 11 and added the Elastix extension. However, when I run it, I get the following error: Command ‘elastix’ returned non-zero exit status 1. …

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## [PyTorch 2.6 seems to break TotalSegmentor ](https://discourse.slicer.org/t/pytorch-2-6-seems-to-break-totalsegmentor/41493)

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**Author:** [@Michael\_Stuart](https://discourse.slicer.org/u/Michael_Stuart)\
**Replies:** 1\
**Last updated:** [February 4, 2025, 4:38pm UTC](https://discourse.slicer.org/t/pytorch-2-6-seems-to-break-totalsegmentor/41493 "2025-02-04T16:38:18Z")

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I was using TotalSegmentor with significant effect for reviewing my spinal fusion surgeries, but the extension stopped working after recent PyTorch 2.6 update. Both on my laptop (fast mode) and Workstation (RTX 3070 GPU)…

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## [No images of tool buttons or menus appear. Completely white screen](https://discourse.slicer.org/t/no-images-of-tool-buttons-or-menus-appear-completely-white-screen/41247)

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**Author:** [@BluTorax](https://discourse.slicer.org/u/BluTorax)\
**Replies:** 3\
**Last updated:** [February 4, 2025, 4:11pm UTC](https://discourse.slicer.org/t/no-images-of-tool-buttons-or-menus-appear-completely-white-screen/41247 "2025-02-04T16:11:32Z")

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Problem report for Slicer 5.7.0-2025-01-20 win-amd64: \[No images of tool buttons or menus appear. Completely white screen\]

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## [Making opacity of a volume dependent on other volumes/objects](https://discourse.slicer.org/t/making-opacity-of-a-volume-dependent-on-other-volumes-objects/41492)

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**Author:** [@Arber\_Demi](https://discourse.slicer.org/u/Arber_Demi)\
**Replies:** 0\
**Last updated:** [February 4, 2025, 3:04pm UTC](https://discourse.slicer.org/t/making-opacity-of-a-volume-dependent-on-other-volumes-objects/41492 "2025-02-04T15:04:16Z")

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Hello everyone. I’m trying to make a sort of “see-through” model/volume (i’ll call it volume C), which I want to use to look through a larger volume (volume A) and be able to see a smaller volume (volume B) inside volum…

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## [Model scalar values created using "Bone Thickness Mapping"](https://discourse.slicer.org/t/model-scalar-values-created-using-bone-thickness-mapping/33591)

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**Author:** [@Gonzalo\_Rojas\_Costa](https://discourse.slicer.org/u/Gonzalo_Rojas_Costa)\
**Replies:** 1\
**Last updated:** [February 4, 2025, 2:48pm UTC](https://discourse.slicer.org/t/model-scalar-values-created-using-bone-thickness-mapping/33591 "2025-02-04T14:48:24Z")

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I need to save the thickness values of some skull regions. Frontal, occipital, temporal, etc. to compare it between two different populations. How can I get those values? An ROI for example?

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## [DCE time series recognised as Scalar volume](https://discourse.slicer.org/t/dce-time-series-recognised-as-scalar-volume/33198)

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**Author:** [@winter](https://discourse.slicer.org/u/winter)\
**Replies:** 4\
**Last updated:** [February 4, 2025, 9:39am UTC](https://discourse.slicer.org/t/dce-time-series-recognised-as-scalar-volume/33198 "2025-02-04T09:39:34Z")

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Operating system: Windows 10 Enterprise 64 bit Slicer version:5.6.0 Expected behavior: load multiframe time series DCE data as multiframe object Actual behavior: recognised as scalar volume Dear Communinty, I want t…

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## [I want to download line profile?](https://discourse.slicer.org/t/i-want-to-download-line-profile/41478)

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**Author:** [@Vikram](https://discourse.slicer.org/u/Vikram)\
**Replies:** 1\
**Last updated:** [February 4, 2025, 3:07am UTC](https://discourse.slicer.org/t/i-want-to-download-line-profile/41478 "2025-02-04T03:07:13Z")

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Hello , i am trying to install line profile , i searched in extension there is no line profile. any one can help me

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## [Saving files. Have to add file name each time](https://discourse.slicer.org/t/saving-files-have-to-add-file-name-each-time/41477)

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**Author:** [@CTuser](https://discourse.slicer.org/u/CTuser)\
**Replies:** 0\
**Last updated:** [February 4, 2025, 12:54am UTC](https://discourse.slicer.org/t/saving-files-have-to-add-file-name-each-time/41477 "2025-02-04T00:54:18Z")

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When performing multiple measurements on multiple files, I find myself saving data frequently. It would be very helpful if the same file is open, if the save name did not revert to the default after each save. In additio…

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## [No extensions are being built for Linux stable (5.8)](https://discourse.slicer.org/t/no-extensions-are-being-built-for-linux-stable-5-8/41357)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 4\
**Last updated:** [February 4, 2025, 12:03am UTC](https://discourse.slicer.org/t/no-extensions-are-being-built-for-linux-stable-5-8/41357 "2025-02-04T00:03:18Z")

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Cdash does not show any Linux extensions for couple days now…

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