# Community

**URL:** https://discourse.slicer.org/c/community/12.md?no_subcategories=false&page=15

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

**Page:** 16

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## [Running Python tests automatically](https://discourse.slicer.org/t/running-python-tests-automatically/32426)

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**Author:** [@jhlegarreta](https://discourse.slicer.org/u/jhlegarreta)\
**Replies:** 0\
**Last updated:** [October 26, 2023, 4:12pm UTC](https://discourse.slicer.org/t/running-python-tests-automatically/32426 "2023-10-26T16:12:56Z")

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Hi, I am trying to figure out why some of the Python tests in an extension are not being executed following: COMP: Update GHA workflow ensuring Slicer is built with NumPy support by jcfr · Pull Request #179 · SlicerDMR…

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## [Centerline computation problem - straight lines](https://discourse.slicer.org/t/centerline-computation-problem-straight-lines/32397)

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**Author:** [@smoudour](https://discourse.slicer.org/u/smoudour)\
**Replies:** 0\
**Last updated:** [October 24, 2023, 2:39pm UTC](https://discourse.slicer.org/t/centerline-computation-problem-straight-lines/32397 "2023-10-24T14:39:42Z")

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Hi all. I have been working with 3D slicer for a few months now. I am trying to isolate coronary arteries from CCTA scans, get the centerlines and quantify some geometric features I need for further analysis. As far, I…

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## [ How to run VMTK script in PypePad](https://discourse.slicer.org/t/how-to-run-vmtk-script-in-pypepad/32395)

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**Author:** [@Tingchenccmu](https://discourse.slicer.org/u/Tingchenccmu)\
**Replies:** 0\
**Last updated:** [October 24, 2023, 12:35pm UTC](https://discourse.slicer.org/t/how-to-run-vmtk-script-in-pypepad/32395 "2023-10-24T12:35:56Z")

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I want to perform digital aneurysm removal and reconstruct the parent vessel according to the tutorials. And the three python scripts are in my path. But there is something wrong when I run this code “python patchandinte…

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## [2023.10.24 Weekly Meeting](https://discourse.slicer.org/t/2023-10-24-weekly-meeting/32389)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [October 23, 2023, 8:41pm UTC](https://discourse.slicer.org/t/2023-10-24-weekly-meeting/32389 "2023-10-23T20:41:18Z")

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Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard stat…

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## [shape（2D） 3D Slicer  radiomics  slicer radiomics](https://discourse.slicer.org/t/shape-2d-3d-slicer-radiomics-slicer-radiomics/32303)

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**Author:** [@wwww](https://discourse.slicer.org/u/wwww)\
**Replies:** 0\
**Last updated:** [October 18, 2023, 3:48pm UTC](https://discourse.slicer.org/t/shape-2d-3d-slicer-radiomics-slicer-radiomics/32303 "2023-10-18T15:48:18Z")

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After pouring 2D ultrasound images into 3d slicer, segmentation was performed. Enter the radiomics module and enter the volume that cannot be found. Looking for the answer on the Internet, some people can find the volum…

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## [License badge in 3D Slicer and related repositories \`README\` files](https://discourse.slicer.org/t/license-badge-in-3d-slicer-and-related-repositories-readme-files/32280)

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**Author:** [@jhlegarreta](https://discourse.slicer.org/u/jhlegarreta)\
**Replies:** 4\
**Last updated:** [October 18, 2023, 3:13pm UTC](https://discourse.slicer.org/t/license-badge-in-3d-slicer-and-related-repositories-readme-files/32280 "2023-10-18T15:13:44Z")

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Hi, I was about to add a License badge to the README files of some of our 3D Slicer-related repositories that use exactly the same license as 3D Slicer, and was going to do the same for 3D Slicer as I see that the badg…

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## [2023.10.17 Weekly Meeting](https://discourse.slicer.org/t/2023-10-17-weekly-meeting/32257)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 2\
**Last updated:** [October 17, 2023, 9:06am UTC](https://discourse.slicer.org/t/2023-10-17-weekly-meeting/32257 "2023-10-17T09:06:09Z")

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Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard stat…

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## [UKF Tractography fiber orientation function](https://discourse.slicer.org/t/ukf-tractography-fiber-orientation-function/32173)

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**Author:** [@gaunny](https://discourse.slicer.org/u/gaunny)\
**Replies:** 0\
**Last updated:** [October 12, 2023, 3:06am UTC](https://discourse.slicer.org/t/ukf-tractography-fiber-orientation-function/32173 "2023-10-12T03:06:50Z")

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Hi, I meet problem when I read the UKF Tractography paper (Malcolm J G, Shenton M E, Rathi Y. Filtered multitensor tractography\[J\]. IEEE transactions on medical imaging, 2010, 29(9): 1664-1675.) and use it in Slicer. I …

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## [Extract surface of a volumetric region of interest](https://discourse.slicer.org/t/extract-surface-of-a-volumetric-region-of-interest/22196)

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**Author:** [@RICHARD\_HERNAN\_VALLE](https://discourse.slicer.org/u/RICHARD_HERNAN_VALLE)\
**Replies:** 1\
**Last updated:** [October 10, 2023, 7:37am UTC](https://discourse.slicer.org/t/extract-surface-of-a-volumetric-region-of-interest/22196 "2023-10-10T07:37:02Z")

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How can I extract surfaces from a segmented volumetric region of interest in code to extract radiomics from different slices of a volume?

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## [I can not find the "Slicer Radiomics" in 3D Slicer in my mac](https://discourse.slicer.org/t/i-can-not-find-the-slicer-radiomics-in-3d-slicer-in-my-mac/31589)

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**Author:** [@Rez](https://discourse.slicer.org/u/Rez)\
**Replies:** 5\
**Last updated:** [October 10, 2023, 1:10am UTC](https://discourse.slicer.org/t/i-can-not-find-the-slicer-radiomics-in-3d-slicer-in-my-mac/31589 "2023-10-10T01:10:36Z")

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Hello, I just downloaded 3D Slicer on my mac “Ventura 13.2.1”, but I am not able to find “SlicerRadiomics” in extension manager. I downloaded both “stable” and “nightly” versions 5.4.0 and 5.5.0. but still unable to fi…

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## [2023.10.10 Weekly Meeting](https://discourse.slicer.org/t/2023-10-10-weekly-meeting/32125)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [October 9, 2023, 8:56pm UTC](https://discourse.slicer.org/t/2023-10-10-weekly-meeting/32125 "2023-10-09T20:56:45Z")

</div>

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard stat…

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## [How to hide Angle lines in other slices](https://discourse.slicer.org/t/how-to-hide-angle-lines-in-other-slices/32099)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 1\
**Last updated:** [October 8, 2023, 3:41pm UTC](https://discourse.slicer.org/t/how-to-hide-angle-lines-in-other-slices/32099 "2023-10-08T15:41:23Z")

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I placed lines, curves, and angle lines on the same level at the same time, but when I moved the plane, both lines and curves disappeared immediately. Why didn’t the angle lines disappear? I want the angle line to be …

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## [2023.10.03 Weekly Meeting](https://discourse.slicer.org/t/2023-10-03-weekly-meeting/31998)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [October 2, 2023, 7:23pm UTC](https://discourse.slicer.org/t/2023-10-03-weekly-meeting/31998 "2023-10-02T19:23:25Z")

</div>

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard stat…

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## [2023.09.26 Weekly Meeting](https://discourse.slicer.org/t/2023-09-26-weekly-meeting/31894)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 4\
**Last updated:** [September 26, 2023, 1:32pm UTC](https://discourse.slicer.org/t/2023-09-26-weekly-meeting/31894 "2023-09-26T13:32:57Z")

</div>

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard stat…

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## [Measuring Organ Volume](https://discourse.slicer.org/t/measuring-organ-volume/31836)

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**Author:** [@Hannah\_Osland](https://discourse.slicer.org/u/Hannah_Osland)\
**Replies:** 1\
**Last updated:** [September 21, 2023, 9:13pm UTC](https://discourse.slicer.org/t/measuring-organ-volume/31836 "2023-09-21T21:13:48Z")

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I have a bunch of .tif files of the entire body of an organism. I want to measure the volume of an organ in the animal. What steps should I take?

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## [How to show fiber bundles with appropreate brain volume?](https://discourse.slicer.org/t/how-to-show-fiber-bundles-with-appropreate-brain-volume/31798)

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**Author:** [@Fumi](https://discourse.slicer.org/u/Fumi)\
**Replies:** 8\
**Last updated:** [September 21, 2023, 1:06pm UTC](https://discourse.slicer.org/t/how-to-show-fiber-bundles-with-appropreate-brain-volume/31798 "2023-09-21T13:06:33Z")

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Hi, I am using WMA for DTI tractography and have got anatomical tracts. I just wondering how to show fiber bundles with 3D brain image which is anatomically appropriate. I f I use the own case’s 3D-T1 brain image, the lo…

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## [Whole-body image feature extraction](https://discourse.slicer.org/t/whole-body-image-feature-extraction/31795)

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**Author:** [@Jimmy](https://discourse.slicer.org/u/Jimmy)\
**Replies:** 7\
**Last updated:** [September 20, 2023, 12:16am UTC](https://discourse.slicer.org/t/whole-body-image-feature-extraction/31795 "2023-09-20T00:16:47Z")

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Hi, I am extracting radiomics features from whole-body PET/CT using Pyradiomics. My ROI is whole-body fat. Problem is, it got stuck at some point and would not give any output even after running overnight. But when I s…

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## [2023.09.19 Weekly Meeting](https://discourse.slicer.org/t/2023-09-19-weekly-meeting/31776)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [September 18, 2023, 10:39pm UTC](https://discourse.slicer.org/t/2023-09-19-weekly-meeting/31776 "2023-09-18T22:39:34Z")

</div>

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard stat…

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## [2023.09.12 Weekly Meeting](https://discourse.slicer.org/t/2023-09-12-weekly-meeting/31647)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 5\
**Last updated:** [September 12, 2023, 2:58pm UTC](https://discourse.slicer.org/t/2023-09-12-weekly-meeting/31647 "2023-09-12T14:58:36Z")

</div>

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard stat…

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## [Load scene into Slicer with empty vtk errors](https://discourse.slicer.org/t/load-scene-into-slicer-with-empty-vtk-errors/31615)

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**Author:** [@Kening\_Zhang](https://discourse.slicer.org/u/Kening_Zhang)\
**Replies:** 0\
**Last updated:** [September 8, 2023, 7:20am UTC](https://discourse.slicer.org/t/load-scene-into-slicer-with-empty-vtk-errors/31615 "2023-09-08T07:20:56Z")

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Dear developers, When I try to load a scene in Slicer, error happened, VTK may report it as an error when I attempt to read or write an empty file, while it may be normal that a fiber is empty. According to Iasso…

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## [How to plot colormap in 3D SLICER，like use imagesc in matlab](https://discourse.slicer.org/t/how-to-plot-colormap-in-3d-slicer-like-use-imagesc-in-matlab/31551)

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**Author:** [@iwangwangwang](https://discourse.slicer.org/u/iwangwangwang)\
**Replies:** 8\
**Last updated:** [September 6, 2023, 1:53am UTC](https://discourse.slicer.org/t/how-to-plot-colormap-in-3d-slicer-like-use-imagesc-in-matlab/31551 "2023-09-06T01:53:44Z")

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How to plot colormap in 3D SLICER，like use imagesc in matlab, or How to develop the module to Implement the function？

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## [2023.09.05 Weekly Meeting](https://discourse.slicer.org/t/2023-09-05-weekly-meeting/31560)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 5\
**Last updated:** [September 5, 2023, 8:14pm UTC](https://discourse.slicer.org/t/2023-09-05-weekly-meeting/31560 "2023-09-05T20:14:04Z")

</div>

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard stat…

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## [How to render a volume with a new property](https://discourse.slicer.org/t/how-to-render-a-volume-with-a-new-property/31536)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 1\
**Last updated:** [September 5, 2023, 4:48pm UTC](https://discourse.slicer.org/t/how-to-render-a-volume-with-a-new-property/31536 "2023-09-05T16:48:22Z")

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I saved a property file(0.vp), I want to use this property file torender the volume through the script, how to achieve, the following is the code I can complete. volumeNode=getNode("CTChest") volRenLogic = sli…

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## [SPHARM-PDM extension](https://discourse.slicer.org/t/spharm-pdm-extension/31562)

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**Author:** [@Maria2](https://discourse.slicer.org/u/Maria2)\
**Replies:** 0\
**Last updated:** [September 5, 2023, 10:31am UTC](https://discourse.slicer.org/t/spharm-pdm-extension/31562 "2023-09-05T10:31:57Z")

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i installed the extension of (SPHARM-PDM) but i couldnt see and use it, can you help me to solve this problem please?

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## [Discrepancy between image coordinates and seed points centerline extraction](https://discourse.slicer.org/t/discrepancy-between-image-coordinates-and-seed-points-centerline-extraction/31504)

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**Author:** [@IlvaHou55](https://discourse.slicer.org/u/IlvaHou55)\
**Replies:** 5\
**Last updated:** [September 4, 2023, 2:11pm UTC](https://discourse.slicer.org/t/discrepancy-between-image-coordinates-and-seed-points-centerline-extraction/31504 "2023-09-04T14:11:36Z")

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Hello, I am using VMTK to extract the hepatic arteries from contrast-enhanced CT scans. After centerline extraction I need to make the connection between the outlets of the centerlines and the original image. While I wa…

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## [How to stabilize the first view（position/focus/ViewUp）](https://discourse.slicer.org/t/how-to-stabilize-the-first-view-position-focus-viewup/31419)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 2\
**Last updated:** [September 2, 2023, 12:50am UTC](https://discourse.slicer.org/t/how-to-stabilize-the-first-view-position-focus-viewup/31419 "2023-09-02T00:50:24Z")

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I used the Endoscopy module to create a first-view analog navigation, and to demonstrate, I’m using a point as a guide, when I move this point, the 3D view suddenly changes, especially when the position of the point mo…

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## [Slicermorph - How to import external factor table](https://discourse.slicer.org/t/slicermorph-how-to-import-external-factor-table/31451)

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**Author:** [@Ale](https://discourse.slicer.org/u/Ale)\
**Replies:** 1\
**Last updated:** [August 30, 2023, 7:52pm UTC](https://discourse.slicer.org/t/slicermorph-how-to-import-external-factor-table/31451 "2023-08-30T19:52:46Z")

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Hi all, I’m using the GPA module of Slicermorph to visualize shape change in a PCA plot. Is the a way to build externally and import a table with different factors for use with the GPA plot options? I imported a tsv tabl…

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## [2023.08.29 Weekly Meeting](https://discourse.slicer.org/t/2023-08-29-weekly-meeting/31408)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 2\
**Last updated:** [August 29, 2023, 12:56am UTC](https://discourse.slicer.org/t/2023-08-29-weekly-meeting/31408 "2023-08-29T00:56:14Z")

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Next Tuesday, we will be having our next weekly hangout at 10:00 AM ET until 11:00 AM ET Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Extension dashboard …

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## [Office hour sessions](https://discourse.slicer.org/t/office-hour-sessions/31031)

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**Author:** [@jcfr](https://discourse.slicer.org/u/jcfr)\
**Replies:** 3\
**Last updated:** [August 29, 2023, 12:00am UTC](https://discourse.slicer.org/t/office-hour-sessions/31031 "2023-08-29T00:00:14Z")

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We are excited to invite you to participate in the upcoming “Office Hour” sessions for SlicerAutoscoperM! As we strive to build a collaborative community, your input is crucial in shaping the development process. The Of…

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## [Measure Diameter using centerline length and surface](https://discourse.slicer.org/t/measure-diameter-using-centerline-length-and-surface/31382)

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**Author:** [@cams2b](https://discourse.slicer.org/u/cams2b)\
**Replies:** 1\
**Last updated:** [August 26, 2023, 6:25pm UTC](https://discourse.slicer.org/t/measure-diameter-using-centerline-length-and-surface/31382 "2023-08-26T18:25:29Z")

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I am trying to extract the radius at each point on the centerline from my tubular mesh. I am using the vmtk script vmtkDistanceToCenterlines and setting the variable EvaluateCenterlineRadius = True. I was expecting this…

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