# Support

**URL:** https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=58

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

**Page:** 59

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## ['LandmarkRegistrationWidget' object has no attribute 'landmarksWidget'](https://discourse.slicer.org/t/landmarkregistrationwidget-object-has-no-attribute-landmarkswidget/35333)

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**Author:** [@chaowang](https://discourse.slicer.org/u/chaowang)\
**Replies:** 2\
**Last updated:** [January 6, 2025, 7:02pm UTC](https://discourse.slicer.org/t/landmarkregistrationwidget-object-has-no-attribute-landmarkswidget/35333 "2025-01-06T19:02:16Z")

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Problem report for Slicer 5.6.2 win-amd64: \[please describe expected and actual behavior\] ‘LandmarkRegistrationWidget’ object has no attribute ‘landmarksWidget’ \[CRITICAL\]\[FD\] 07.04.2024 18:00:56 (unknown:0) - libpng …

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## [How to get mass density from DICOM CT?](https://discourse.slicer.org/t/how-to-get-mass-density-from-dicom-ct/29549)

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**Author:** [@labixin](https://discourse.slicer.org/u/labixin)\
**Replies:** 1\
**Last updated:** [January 6, 2025, 5:54pm UTC](https://discourse.slicer.org/t/how-to-get-mass-density-from-dicom-ct/29549 "2025-01-06T17:54:28Z")

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Hi all, I have found that the CT value (in Hounsfield units) provided in Slicer (shown in the data probe when moving the mouse pointer to the point of interest) was different from the Pinnacle treatment planning system …

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## [Need help on Slice Interaction](https://discourse.slicer.org/t/need-help-on-slice-interaction/40967)

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**Author:** [@alientex](https://discourse.slicer.org/u/alientex)\
**Replies:** 1\
**Last updated:** [January 6, 2025, 2:06pm UTC](https://discourse.slicer.org/t/need-help-on-slice-interaction/40967 "2025-01-06T14:06:46Z")

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Hello everyone, I was experimenting with different parameters in the Slice Display section, as shown below: I’ve been trying to locate the code responsible for creating and displaying these lines (or should I say co…

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## [What is the proper way of including a GPL licensed code in an extension](https://discourse.slicer.org/t/what-is-the-proper-way-of-including-a-gpl-licensed-code-in-an-extension/40946)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 2\
**Last updated:** [January 6, 2025, 8:18am UTC](https://discourse.slicer.org/t/what-is-the-proper-way-of-including-a-gpl-licensed-code-in-an-extension/40946 "2025-01-06T08:18:36Z")

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We need to use code from this repository GitHub - zsiki/Find-GCP: Find ArUco markers in digital photos for the photogrammetry extension we are building. This code is licensed under GPL2. My understanding is historical G…

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## [Failed to upgrade TotalSegmentator](https://discourse.slicer.org/t/failed-to-upgrade-totalsegmentator/40954)

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**Author:** [@Young](https://discourse.slicer.org/u/Young)\
**Replies:** 0\
**Last updated:** [January 5, 2025, 3:37am UTC](https://discourse.slicer.org/t/failed-to-upgrade-totalsegmentator/40954 "2025-01-05T03:37:39Z")

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I installed the TotalSegmentator extension using 3Dslicer version 5.6.2. The first time I used it, I was unable to update TotalSegmentator when installing the python package. The following is the error code displayed. Ho…

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## [Dental Segmentator not working on Mac](https://discourse.slicer.org/t/dental-segmentator-not-working-on-mac/40920)

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**Author:** [@nguyetun](https://discourse.slicer.org/u/nguyetun)\
**Replies:** 5\
**Last updated:** [January 5, 2025, 1:40am UTC](https://discourse.slicer.org/t/dental-segmentator-not-working-on-mac/40920 "2025-01-05T01:40:12Z")

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Dental Segmentator was working on Slicer 5.7 May or June 2024 build but on the latest 12.31.2024 build, it stalls. Any help would be appreciated. Could some one also direct me to where I can download the old versions o…

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## [How to use local threshold](https://discourse.slicer.org/t/how-to-use-local-threshold/40909)

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**Author:** [@Dan\_Cheng](https://discourse.slicer.org/u/Dan_Cheng)\
**Replies:** 3\
**Last updated:** [January 3, 2025, 10:49pm UTC](https://discourse.slicer.org/t/how-to-use-local-threshold/40909 "2025-01-03T22:49:23Z")

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Hi I am trying to using local threshold in 5.6.2. When I press cmd + left click, there is no segment at all. Can anyone help me? Many thanks!

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## [Incorrect skull segmentation from a CT scan, with flattening distortion](https://discourse.slicer.org/t/incorrect-skull-segmentation-from-a-ct-scan-with-flattening-distortion/40945)

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**Author:** [@JuMaLe](https://discourse.slicer.org/u/JuMaLe)\
**Replies:** 1\
**Last updated:** [January 3, 2025, 5:45pm UTC](https://discourse.slicer.org/t/incorrect-skull-segmentation-from-a-ct-scan-with-flattening-distortion/40945 "2025-01-03T17:45:27Z")

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Hello! I obtained this serie, which lacks information about slice thickness, and I obtained the following flattened segmentation. What could be the issues? What metadata information could allow me to anticipate this out…

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## [Importing STL files](https://discourse.slicer.org/t/importing-stl-files/3209)

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**Author:** [@bnathasingh](https://discourse.slicer.org/u/bnathasingh)\
**Replies:** 1\
**Last updated:** [June 17, 2018, 7:57pm UTC](https://discourse.slicer.org/t/importing-stl-files/3209 "2018-06-17T19:57:56Z")

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Hi, I am trying to import STL files into 3D slicer with the hope of merging an STL version of a CT and an STL version of an MRI to create a 3D rendering of the entire head (skull, blood vessels, tumor, etc…) From what …

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## [Airway analysis, computing cross-sectional area](https://discourse.slicer.org/t/airway-analysis-computing-cross-sectional-area/40940)

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**Author:** [@dcg494](https://discourse.slicer.org/u/dcg494)\
**Replies:** 1\
**Last updated:** [January 3, 2025, 9:27am UTC](https://discourse.slicer.org/t/airway-analysis-computing-cross-sectional-area/40940 "2025-01-03T09:27:45Z")

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Hi everyone, i would like to be able to replicate what another programme can do to analyze the airways in terms of cross-sectional area, including pinpointing the minimum cross-sectional airway, for the upper airway (see…

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## [install extension from Slicer GUI](https://discourse.slicer.org/t/install-extension-from-slicer-gui/40907)

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**Author:** [@danieldeidda](https://discourse.slicer.org/u/danieldeidda)\
**Replies:** 2\
**Last updated:** [January 2, 2025, 4:11pm UTC](https://discourse.slicer.org/t/install-extension-from-slicer-gui/40907 "2025-01-02T16:11:09Z")

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Hi, I would like to use Slicer for brain segmentation of MR images I have installed Slicer stable version following the guidance. I run slicer GUI from Ubuntu 22 and click on “install extensions” I have tried many exten…

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## [Segmentation the hippocampus automatically](https://discourse.slicer.org/t/segmentation-the-hippocampus-automatically/40929)

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**Author:** [@mtekeli](https://discourse.slicer.org/u/mtekeli)\
**Replies:** 1\
**Last updated:** [January 2, 2025, 2:59pm UTC](https://discourse.slicer.org/t/segmentation-the-hippocampus-automatically/40929 "2025-01-02T14:59:46Z")

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greetings to everyone i am working on segmentation the hippocampus automatically. i tried a few plugins like Raidionics, Slicerneuro but i couldn’t do it. is there a method you can suggest?

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## [Reformat mode in 2D views when loadind a head mri](https://discourse.slicer.org/t/reformat-mode-in-2d-views-when-loadind-a-head-mri/40928)

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**Author:** [@sarafv](https://discourse.slicer.org/u/sarafv)\
**Replies:** 0\
**Last updated:** [January 2, 2025, 2:17pm UTC](https://discourse.slicer.org/t/reformat-mode-in-2d-views-when-loadind-a-head-mri/40928 "2025-01-02T14:17:17Z")

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Hello, I noticed that since version 5.6.1, when I load any nifti image (mri sequence of the head) the 2D views are no longer in axial/coronal and sagittal mode, but in reformat mode. Someone knows why ? Thanks Sara

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## [Visualisation of spectroscopy data in 3dslicer](https://discourse.slicer.org/t/visualisation-of-spectroscopy-data-in-3dslicer/21404)

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**Author:** [@Haytham](https://discourse.slicer.org/u/Haytham)\
**Replies:** 4\
**Last updated:** [January 2, 2025, 9:55am UTC](https://discourse.slicer.org/t/visualisation-of-spectroscopy-data-in-3dslicer/21404 "2025-01-02T09:55:23Z")

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Operating system: window Hello everyone, I am a medical researcher, and my current project is about the visualisation of spectroscopy image data in 3Dslicer. I need to represent for every voxel, the spectrum. i want …

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## [Population analysis](https://discourse.slicer.org/t/population-analysis/40923)

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**Author:** [@lili-yu22](https://discourse.slicer.org/u/lili-yu22)\
**Replies:** 0\
**Last updated:** [January 2, 2025, 5:32am UTC](https://discourse.slicer.org/t/population-analysis/40923 "2025-01-02T05:32:22Z")

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I use the population analysis module in slicersalt5.0.0.I get the PCA mean of the group 1,but the color is always black,no matter I change it to become white .how can I do

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## [Missing image loading in dicom files](https://discourse.slicer.org/t/missing-image-loading-in-dicom-files/40889)

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**Author:** [@Mehmet\_Maruf\_Aydin](https://discourse.slicer.org/u/Mehmet_Maruf_Aydin)\
**Replies:** 1\
**Last updated:** [December 31, 2024, 4:12pm UTC](https://discourse.slicer.org/t/missing-image-loading-in-dicom-files/40889 "2024-12-31T16:12:55Z")

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Hello everyone After uploading my dicom files to 3d slicer, I saw that all the images in the file content were not loaded, when I upload the same folder to Radiant, I can see complete images. When I examined a little, I…

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## [Error: Image Slices Are Not Equally Spaced When Loading DICOM Files in 3D Slicer](https://discourse.slicer.org/t/error-image-slices-are-not-equally-spaced-when-loading-dicom-files-in-3d-slicer/40900)

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**Author:** [@dslee313](https://discourse.slicer.org/u/dslee313)\
**Replies:** 1\
**Last updated:** [December 31, 2024, 4:09pm UTC](https://discourse.slicer.org/t/error-image-slices-are-not-equally-spaced-when-loading-dicom-files-in-3d-slicer/40900 "2024-12-31T16:09:20Z")

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Hi, I am trying to load a DICOM dataset into 3D Slicer, but I am encountering the following error message This dataset works perfectly in other software like InVesalius and Mimics without any issues, but in 3D Sli…

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## [Is there a tool to fill a 2D contour?](https://discourse.slicer.org/t/is-there-a-tool-to-fill-a-2d-contour/40903)

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**Author:** [@Xiaojie\_Guo](https://discourse.slicer.org/u/Xiaojie_Guo)\
**Replies:** 2\
**Last updated:** [December 31, 2024, 1:19am UTC](https://discourse.slicer.org/t/is-there-a-tool-to-fill-a-2d-contour/40903 "2024-12-31T01:19:55Z")

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Hi, all. I have a segmentation result like this: I want to fill this 2D mask with the 2D contour. Is there any way to finish that?

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## [Surface Toolbox of 3D Slicer do not work in Windows](https://discourse.slicer.org/t/surface-toolbox-of-3d-slicer-do-not-work-in-windows/40717)

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**Author:** [@Puja\_Ghosh](https://discourse.slicer.org/u/Puja_Ghosh)\
**Replies:** 5\
**Last updated:** [December 30, 2024, 11:34pm UTC](https://discourse.slicer.org/t/surface-toolbox-of-3d-slicer-do-not-work-in-windows/40717 "2024-12-30T23:34:01Z")

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How to use surface toolbox in 3d slicer in Windows? why it keeps giving this error: C:\\Users\\AppData\\Local\\slicer.org\\Slicer 5.6.2\\bin\\Python\\slicer\\util.py:2786: UserWarning: does not have observer warn(“does not have …

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## [Issues with DentalSegmentator](https://discourse.slicer.org/t/issues-with-dentalsegmentator/40905)

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**Author:** [@JuMaLe](https://discourse.slicer.org/u/JuMaLe)\
**Replies:** 1\
**Last updated:** [December 30, 2024, 4:18pm UTC](https://discourse.slicer.org/t/issues-with-dentalsegmentator/40905 "2024-12-30T16:18:04Z")

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Hello to everybody! I tried to use DentalSegmentator but when I click on “Apply” the process get stock at the very beginning. what I’m missing here?

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## [My Kernel keeps dying - Slicer 4.11 - Jupyter](https://discourse.slicer.org/t/my-kernel-keeps-dying-slicer-4-11-jupyter/40902)

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**Author:** [@Saladi](https://discourse.slicer.org/u/Saladi)\
**Replies:** 2\
**Last updated:** [December 30, 2024, 9:15am UTC](https://discourse.slicer.org/t/my-kernel-keeps-dying-slicer-4-11-jupyter/40902 "2024-12-30T09:15:55Z")

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Hi all, I am using Slicer 4.11 rn. I am trying to run the juypter server. But i keep getting this error: " Building wheel for pywinpty (PEP 517): started WARNING: Subprocess output does not appear to be encoded as …

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## [Jupyter notebook and Slicer](https://discourse.slicer.org/t/jupyter-notebook-and-slicer/36770)

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**Author:** [@Sharada](https://discourse.slicer.org/u/Sharada)\
**Replies:** 1\
**Last updated:** [December 30, 2024, 8:28am UTC](https://discourse.slicer.org/t/jupyter-notebook-and-slicer/36770 "2024-12-30T08:28:14Z")

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Hello, I’m posting on behalf on another user. This is about trying to use Slicer through jupyter notebook. The version they are using is 4.11.20210226. They were able to install the ‘SlicerJupyter’ module without any er…

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## [Segmenting upper airway, difficulty with thresholding](https://discourse.slicer.org/t/segmenting-upper-airway-difficulty-with-thresholding/40637)

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**Author:** [@dcg494](https://discourse.slicer.org/u/dcg494)\
**Replies:** 9\
**Last updated:** [December 29, 2024, 2:52pm UTC](https://discourse.slicer.org/t/segmenting-upper-airway-difficulty-with-thresholding/40637 "2024-12-29T14:52:18Z")

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Hi all, I’m trying to segment the upper airway but having difficulties as the thresholds I’ve been trying out either a) don’t capture all the air (as in the picture of the nasal cavity in green), or b) capture too much …

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## [How to get hepatic vein and portal vein in different color or in different segment?](https://discourse.slicer.org/t/how-to-get-hepatic-vein-and-portal-vein-in-different-color-or-in-different-segment/40868)

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**Author:** [@hepato](https://discourse.slicer.org/u/hepato)\
**Replies:** 2\
**Last updated:** [December 29, 2024, 1:01am UTC](https://discourse.slicer.org/t/how-to-get-hepatic-vein-and-portal-vein-in-different-color-or-in-different-segment/40868 "2024-12-29T01:01:19Z")

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I use function of “ theshold ” to get the vessel of liver ,including hepatic vein and portal vein. And then the color of hepatic vein is same with portal vein in same segment. My question is How to get hepatic vein and p…

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## [Windows font scaling issue on laptop screens](https://discourse.slicer.org/t/windows-font-scaling-issue-on-laptop-screens/40883)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 2\
**Last updated:** [December 28, 2024, 11:49pm UTC](https://discourse.slicer.org/t/windows-font-scaling-issue-on-laptop-screens/40883 "2024-12-28T23:49:02Z")

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During our latest SlicerMorph short course, students used their laptops most of which were 14" screen and typical 1920x1080 resolution. In certain situations (often when Slicer application window is maximized), when use…

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## [VMTK Extract Centerline with python console](https://discourse.slicer.org/t/vmtk-extract-centerline-with-python-console/31596)

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**Author:** [@wesselk](https://discourse.slicer.org/u/wesselk)\
**Replies:** 16\
**Last updated:** [December 28, 2024, 2:29pm UTC](https://discourse.slicer.org/t/vmtk-extract-centerline-with-python-console/31596 "2024-12-28T14:29:52Z")

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Hello, I am looking to utilize the vmtk module for the ‘Extract Centerline’ and ‘Cross-section Analysis’ features with a purely scripted method, similar to this issue which had a lot of great information. A brief summar…

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## [How to troubleshoot measurement error ](https://discourse.slicer.org/t/how-to-troubleshoot-measurement-error/40874)

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**Author:** [@PitaChib](https://discourse.slicer.org/u/PitaChib)\
**Replies:** 3\
**Last updated:** [December 27, 2024, 11:54pm UTC](https://discourse.slicer.org/t/how-to-troubleshoot-measurement-error/40874 "2024-12-27T23:54:42Z")

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So I’m measuring a bunch of basic measurements for a group of skulls, and I always follow the same protocol of getting an volume from imageStack. One of the current one I’m doing (resolution is 29.99 um), I exported fro…

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## [Edit segmentation sequence](https://discourse.slicer.org/t/edit-segmentation-sequence/27682)

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**Author:** [@Deep\_Learning](https://discourse.slicer.org/u/Deep_Learning)\
**Replies:** 3\
**Last updated:** [December 27, 2024, 2:05pm UTC](https://discourse.slicer.org/t/edit-segmentation-sequence/27682 "2024-12-27T14:05:46Z")

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Once a segmentation sequence is created, is it possible to apply a threshold or other segmentation effects to all frames. Not frame by frame…

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## [How to convert stl to nii](https://discourse.slicer.org/t/how-to-convert-stl-to-nii/37282)

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**Author:** [@pc666nice](https://discourse.slicer.org/u/pc666nice)\
**Replies:** 2\
**Last updated:** [December 27, 2024, 8:57am UTC](https://discourse.slicer.org/t/how-to-convert-stl-to-nii/37282 "2024-12-27T08:57:47Z")

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Dear all: I’m trying to convert stl file to nii for the medical image segmentation, however, when I use the method in the link : \[Converting .stl files to binary label maps in .nii format using Python - Support - 3D S…

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## [Equalizing the number of slices of volumes](https://discourse.slicer.org/t/equalizing-the-number-of-slices-of-volumes/40852)

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**Author:** [@OmerAfsin](https://discourse.slicer.org/u/OmerAfsin)\
**Replies:** 3\
**Last updated:** [December 27, 2024, 1:49am UTC](https://discourse.slicer.org/t/equalizing-the-number-of-slices-of-volumes/40852 "2024-12-27T01:49:49Z")

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Hi everyone, I have some issue with interpolation. I am working on a project which aims to automatic segmentation of Aorta and Pulmonary. I got 20 different volumes from hospital but these volumes consist of different n…

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