# Support

**URL:** https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=63

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

**Page:** 64

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## [JPEG Files for mandibular canal tracings](https://discourse.slicer.org/t/jpeg-files-for-mandibular-canal-tracings/40418)

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**Author:** [@Swarna\_Yerebairapura](https://discourse.slicer.org/u/Swarna_Yerebairapura)\
**Replies:** 0\
**Last updated:** [November 28, 2024, 12:23am UTC](https://discourse.slicer.org/t/jpeg-files-for-mandibular-canal-tracings/40418 "2024-11-28T00:23:42Z")

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Could I upload JPEG pictures of 2d reconstruction panoramic view with traced mandibular canals into 3D Slicer to do the DICE scores and verify that the mandibular canals overlap?

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## [Segment color bug](https://discourse.slicer.org/t/segment-color-bug/40416)

<div class="topic-metadata">

**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 0\
**Last updated:** [November 28, 2024, 12:00am UTC](https://discourse.slicer.org/t/segment-color-bug/40416 "2024-11-28T00:00:32Z")

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Looks like there is a bug with segment color display in the last preview. I opened an issue:

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## [Extension for 2D x-ray bone segmentation?](https://discourse.slicer.org/t/extension-for-2d-x-ray-bone-segmentation/40412)

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**Author:** [@FelixBoenke](https://discourse.slicer.org/u/FelixBoenke)\
**Replies:** 1\
**Last updated:** [November 27, 2024, 7:15pm UTC](https://discourse.slicer.org/t/extension-for-2d-x-ray-bone-segmentation/40412 "2024-11-27T19:15:22Z")

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I am currently working on a 2D X-ray segmentation task for long-leg radiographs using 3D Slicer. To optimize my workflow and reduce the manual segmentation workload, I explored interactive segmentation models based on S…

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## [Cold start of Slicer after installing takes long time](https://discourse.slicer.org/t/cold-start-of-slicer-after-installing-takes-long-time/40410)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 1\
**Last updated:** [November 27, 2024, 4:58pm UTC](https://discourse.slicer.org/t/cold-start-of-slicer-after-installing-takes-long-time/40410 "2024-11-27T16:58:00Z")

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I have been testing the preview builds lately on my Mac. After unpacking the slicer DMG file on the desktop, the first time launch of slicer almost take a minute. There are no extension or anything. Is this normal? The…

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## [How to get disp field from General Registration (BRAINS)](https://discourse.slicer.org/t/how-to-get-disp-field-from-general-registration-brains/40407)

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**Author:** [@Chuan](https://discourse.slicer.org/u/Chuan)\
**Replies:** 0\
**Last updated:** [November 27, 2024, 1:26pm UTC](https://discourse.slicer.org/t/how-to-get-disp-field-from-general-registration-brains/40407 "2024-11-27T13:26:08Z")

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Hi all, I am confused by the output settings in General Registration (BRAINS). There are two different transform (Slicer Linear Transform, and Slicer BSpline Transform) apart from the output image volume that we can cho…

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## [Calculate fdg uptake?](https://discourse.slicer.org/t/calculate-fdg-uptake/40405)

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**Author:** [@Vikram](https://discourse.slicer.org/u/Vikram)\
**Replies:** 0\
**Last updated:** [November 27, 2024, 1:10pm UTC](https://discourse.slicer.org/t/calculate-fdg-uptake/40405 "2024-11-27T13:10:50Z")

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i have dicom pet image , i want to calculate the fdg uptake from different region (cubic have 4 different region). any one help me , how i can calculate fdg uptake.

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## [Navigation in 3D slicer](https://discourse.slicer.org/t/navigation-in-3d-slicer/40404)

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**Author:** [@mayaambar](https://discourse.slicer.org/u/mayaambar)\
**Replies:** 0\
**Last updated:** [November 27, 2024, 12:54pm UTC](https://discourse.slicer.org/t/navigation-in-3d-slicer/40404 "2024-11-27T12:54:00Z")

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Hello, I’m trying for weeks to do registration to a heart model… and its never seems to be accurate enough. here is the process in which Im doing the registration: Im making a pivot and spin caliberation, usually Im n…

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## [Slicing a STL file](https://discourse.slicer.org/t/slicing-a-stl-file/40403)

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**Author:** [@mayaambar](https://discourse.slicer.org/u/mayaambar)\
**Replies:** 2\
**Last updated:** [November 27, 2024, 12:13pm UTC](https://discourse.slicer.org/t/slicing-a-stl-file/40403 "2024-11-27T12:13:12Z")

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Hello I’m navigating in a heart model with a cathether and I’m using a STL file of the heart model in 3d slicer. right now im using a low opacity of the model to see what im doing, and I wanted to know if there is a wa…

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## [SlicerIGT pivot calibration](https://discourse.slicer.org/t/slicerigt-pivot-calibration/39881)

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**Author:** [@mayaambar](https://discourse.slicer.org/u/mayaambar)\
**Replies:** 3\
**Last updated:** [November 27, 2024, 12:07pm UTC](https://discourse.slicer.org/t/slicerigt-pivot-calibration/39881 "2024-11-27T12:07:53Z")

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Hello I’m trying to use the pivot and the spin caliberation in the igt model, at first it worked fine but now it stopped working, do you have any idea what am I doing wrong? I’m working with a needle model and a NDI au…

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## [Transformations and reference point](https://discourse.slicer.org/t/transformations-and-reference-point/37629)

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**Author:** [@mayaambar](https://discourse.slicer.org/u/mayaambar)\
**Replies:** 3\
**Last updated:** [November 27, 2024, 9:59am UTC](https://discourse.slicer.org/t/transformations-and-reference-point/37629 "2024-11-27T09:59:39Z")

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Hello Im working with 3d slicer and aurora sensor via plus. Im trying to understand if it is possible to get the information from the sensor in reference to a point in my model, meaning to determine the (0 0 0) point i…

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## [Human airway model](https://discourse.slicer.org/t/human-airway-model/34195)

<div class="topic-metadata">

**Author:** [@D\_Dand](https://discourse.slicer.org/u/D_Dand)\
**Replies:** 14\
**Last updated:** [November 26, 2024, 5:54pm UTC](https://discourse.slicer.org/t/human-airway-model/34195 "2024-11-26T17:54:45Z")

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Hello everyone, I am a new member of our community and have a question that I would like to discuss with you. Does anyone try to build the entire human airway (upper and lower airway) from bronchi to nasal/oral cavity …

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## [The segmentation image from 3D slicer does not match the main image in itk snap](https://discourse.slicer.org/t/the-segmentation-image-from-3d-slicer-does-not-match-the-main-image-in-itk-snap/6673)

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**Author:** [@Shawn](https://discourse.slicer.org/u/Shawn)\
**Replies:** 8\
**Last updated:** [November 26, 2024, 3:17pm UTC](https://discourse.slicer.org/t/the-segmentation-image-from-3d-slicer-does-not-match-the-main-image-in-itk-snap/6673 "2024-11-26T15:17:44Z")

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Operating system: win 10 Slicer version: Slicer 4.11 Hi Everyone, The segmentation image saved from 3D slicer does not match the main image in itk snap, but based on the same dicom images. How to fix it? i need the se…

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## [Auto3DSeg with model trained using MONAILabel](https://discourse.slicer.org/t/auto3dseg-with-model-trained-using-monailabel/39927)

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**Author:** [@h\_z1](https://discourse.slicer.org/u/h_z1)\
**Replies:** 1\
**Last updated:** [November 26, 2024, 3:02pm UTC](https://discourse.slicer.org/t/auto3dseg-with-model-trained-using-monailabel/39927 "2024-11-26T15:02:06Z")

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Hi, I came across this discussion post that referenced another post in SlicerMONAIAuto3DSeg about using inference only, which is what I am currently interested in. So, I was wondering if it was possible to use a model t…

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## [Extension Manager install/download error (not finding extension id)](https://discourse.slicer.org/t/extension-manager-install-download-error-not-finding-extension-id/40384)

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**Author:** [@acsenrafilho](https://discourse.slicer.org/u/acsenrafilho)\
**Replies:** 0\
**Last updated:** [November 26, 2024, 2:55pm UTC](https://discourse.slicer.org/t/extension-manager-install-download-error-not-finding-extension-id/40384 "2024-11-26T14:55:43Z")

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Hi Slicers, I have updated the Slicer Extension Index to contain the support for 5.6 extension version. My extension is: https://slicer.cdash.org/builds/3603576 (for Linux build) I checked that the CDash report have b…

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## [Methods for thin skull bone segmentation](https://discourse.slicer.org/t/methods-for-thin-skull-bone-segmentation/36367)

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**Author:** [@ThomasVanParys](https://discourse.slicer.org/u/ThomasVanParys)\
**Replies:** 9\
**Last updated:** [November 26, 2024, 2:08pm UTC](https://discourse.slicer.org/t/methods-for-thin-skull-bone-segmentation/36367 "2024-11-26T14:08:59Z")

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Hello, I would like to know the best method of capturing fine/thin bone elements in the occipital/craniofacial region of a segmented skull model. I have a whole-body DICOM CT scan (from the NMDID), which I have cropped…

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## [GLCM in pyradiomics](https://discourse.slicer.org/t/glcm-in-pyradiomics/40374)

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**Author:** [@sajad\_amiri](https://discourse.slicer.org/u/sajad_amiri)\
**Replies:** 0\
**Last updated:** [November 25, 2024, 9:16pm UTC](https://discourse.slicer.org/t/glcm-in-pyradiomics/40374 "2024-11-25T21:16:57Z")

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I think this GLCM matrix calculated wrong based on distance 1 and angle degree =0

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## [Slice view does not fit to background on loading a volume](https://discourse.slicer.org/t/slice-view-does-not-fit-to-background-on-loading-a-volume/40230)

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**Author:** [@chir.set](https://discourse.slicer.org/u/chir.set)\
**Replies:** 6\
**Last updated:** [November 25, 2024, 5:54pm UTC](https://discourse.slicer.org/t/slice-view-does-not-fit-to-background-on-loading-a-volume/40230 "2024-11-25T17:54:32Z")

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Usually, and in Slicer stable, when loading a volume of any dimension, the slice views would fit the extent of the volume nicely. That’s no longer the case since recently. The image below shows the effect when a small v…

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## [DICOM MRI error](https://discourse.slicer.org/t/dicom-mri-error/40350)

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**Author:** [@supalaplic](https://discourse.slicer.org/u/supalaplic)\
**Replies:** 3\
**Last updated:** [November 25, 2024, 5:16pm UTC](https://discourse.slicer.org/t/dicom-mri-error/40350 "2024-11-25T17:16:27Z")

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I recently had a cerebral MRI scan, and I’m trying to open and process the DICOM files. However, I encountered the following error: 99: PhoenixZIPReport \[Scalar Volume\]: Reference image in series does not contain geomet…

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## [Is it possible to read the displacement field?](https://discourse.slicer.org/t/is-it-possible-to-read-the-displacement-field/40356)

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**Author:** [@Chuan](https://discourse.slicer.org/u/Chuan)\
**Replies:** 1\
**Last updated:** [November 25, 2024, 2:51pm UTC](https://discourse.slicer.org/t/is-it-possible-to-read-the-displacement-field/40356 "2024-11-25T14:51:08Z")

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Hi all, Multiple registration methods integrated in Slicer3D allow the generation of displacement fields. However, the output is typically in binary formats such as .nii or .mhd, with the core displacement data stored i…

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## [How to do and negative brain segmentation](https://discourse.slicer.org/t/how-to-do-and-negative-brain-segmentation/40366)

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**Author:** [@Victor\_Hugo\_Figueire](https://discourse.slicer.org/u/Victor_Hugo_Figueire)\
**Replies:** 0\
**Last updated:** [November 25, 2024, 2:27pm UTC](https://discourse.slicer.org/t/how-to-do-and-negative-brain-segmentation/40366 "2024-11-25T14:27:24Z")

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Hello!, I am trying to find and easy way to do this structure : a block with the brain volume on negative , similar to this article approach .

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## [Improve total segmentator lung lobes masks](https://discourse.slicer.org/t/improve-total-segmentator-lung-lobes-masks/40358)

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**Author:** [@mau\_igna\_06](https://discourse.slicer.org/u/mau_igna_06)\
**Replies:** 1\
**Last updated:** [November 25, 2024, 2:08pm UTC](https://discourse.slicer.org/t/improve-total-segmentator-lung-lobes-masks/40358 "2024-11-25T14:08:18Z")

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Hi In the picture below, there are a CT slice (on the left) and its lung lobes segmentation from TotalSegmentator (on the right) The picture shows that, on the right lung, the lobes segments border does not lie over…

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## [Copy images from an icon near reset images](https://discourse.slicer.org/t/copy-images-from-an-icon-near-reset-images/40341)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 6\
**Last updated:** [November 25, 2024, 5:46am UTC](https://discourse.slicer.org/t/copy-images-from-an-icon-near-reset-images/40341 "2024-11-25T05:46:41Z")

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would be great if i can copy an image from an icon instead of right click and navigation to copy . i do lots of copying for case studies . if for example a copy image icon is put near the slice bar where the reset view…

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## [2D - 3D side by side](https://discourse.slicer.org/t/2d-3d-side-by-side/1425)

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**Author:** [@dcantor](https://discourse.slicer.org/u/dcantor)\
**Replies:** 10\
**Last updated:** [November 25, 2024, 5:45am UTC](https://discourse.slicer.org/t/2d-3d-side-by-side/1425 "2024-11-25T05:45:34Z")

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Hi Slicers, I am doing some segmentations in 2D and checking the result in 3D as I move from slice to slice. Wouldn’t it be nice to be able to do a side by side between the slice you are segmenting and the 3D view? the o…

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## [Vmtk centerlines/network metrics](https://discourse.slicer.org/t/vmtk-centerlines-network-metrics/40362)

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**Author:** [@LB95](https://discourse.slicer.org/u/LB95)\
**Replies:** 0\
**Last updated:** [November 24, 2024, 11:59pm UTC](https://discourse.slicer.org/t/vmtk-centerlines-network-metrics/40362 "2024-11-24T23:59:17Z")

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Hi, I’ve been doing a lot of reading on these forums and managed to piece together a lot, however I’m still having some difficulty solving my problem. My aim is to extract the centerline of a vessel tree in order to com…

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## [Segment lungs, airways, pulmonary vessels](https://discourse.slicer.org/t/segment-lungs-airways-pulmonary-vessels/34570)

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**Author:** [@Giulia\_Gamberini](https://discourse.slicer.org/u/Giulia_Gamberini)\
**Replies:** 3\
**Last updated:** [November 24, 2024, 9:15pm UTC](https://discourse.slicer.org/t/segment-lungs-airways-pulmonary-vessels/34570 "2024-11-24T21:15:00Z")

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Dear all, I am trying to segment lungs, airways and both pulmonary vein and artery. Could you please list the procedure you follow to obtain this results? Many thanks

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## [Additional GUI to specify custom view layout](https://discourse.slicer.org/t/additional-gui-to-specify-custom-view-layout/40342)

<div class="topic-metadata">

**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 2\
**Last updated:** [November 24, 2024, 1:17pm UTC](https://discourse.slicer.org/t/additional-gui-to-specify-custom-view-layout/40342 "2024-11-24T13:17:45Z")

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it would be great if additoinal view are implenmented in slicer . my wishes are the following TMJ view : this is done with a control axial view and multi section coronal and sagittla . it is a standard now in all cbct…

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## [Curve Tool Not Producing Measurements](https://discourse.slicer.org/t/curve-tool-not-producing-measurements/39884)

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**Author:** [@milbelle](https://discourse.slicer.org/u/milbelle)\
**Replies:** 8\
**Last updated:** [November 24, 2024, 1:04pm UTC](https://discourse.slicer.org/t/curve-tool-not-producing-measurements/39884 "2024-11-24T13:04:04Z")

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Hello! I’m quite new to Slicer so please be patient with me! I’m attempting to measure sulcal length on an endocast with the curve tool, however no measurements pop up. Is there something I’m doing wrong? In my attempts…

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## [Set center of rotation for transform in 3D model](https://discourse.slicer.org/t/set-center-of-rotation-for-transform-in-3d-model/21467)

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**Author:** [@Marta\_Fernandez](https://discourse.slicer.org/u/Marta_Fernandez)\
**Replies:** 8\
**Last updated:** [November 24, 2024, 1:01pm UTC](https://discourse.slicer.org/t/set-center-of-rotation-for-transform-in-3d-model/21467 "2024-11-24T13:01:27Z")

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Hello. I want to change the center of rotation of a 3d model(stl). I would like to rotate it in his own center of rotation (In the middle of the object). Because now I only can rotate it with a rotation around the 0.0 a…

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## [What is the best way to segment renal arteries to an interlobar level?](https://discourse.slicer.org/t/what-is-the-best-way-to-segment-renal-arteries-to-an-interlobar-level/40209)

<div class="topic-metadata">

**Author:** [@ntzvetkov](https://discourse.slicer.org/u/ntzvetkov)\
**Replies:** 7\
**Last updated:** [November 23, 2024, 7:47pm UTC](https://discourse.slicer.org/t/what-is-the-best-way-to-segment-renal-arteries-to-an-interlobar-level/40209 "2024-11-23T19:47:28Z")

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I’ve been struggling with the segmentation of the renal artery branches for so long. From what I have read VMTK would be a good tool to do a proper segmentation, but I just can’t figure out how to apply it. There is an m…

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## [Lung CT analyzer - error message](https://discourse.slicer.org/t/lung-ct-analyzer-error-message/40348)

<div class="topic-metadata">

**Author:** [@sira](https://discourse.slicer.org/u/sira)\
**Replies:** 1\
**Last updated:** [November 23, 2024, 6:17pm UTC](https://discourse.slicer.org/t/lung-ct-analyzer-error-message/40348 "2024-11-23T18:17:48Z")

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please help to solve this message!

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