# Community **URL:** https://discourse.slicer.org/c/community/12.md?no_subcategories=false&page=34 [Latest](https://discourse.slicer.org/latest.md) · [Categories](https://discourse.slicer.org/categories.md) · [Tags](https://discourse.slicer.org/tags.md) **Page:** 35 --- ## [2021.02.09 Hangout](https://discourse.slicer.org/t/2021-02-09-hangout/15911)

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 0\ **Last updated:** [February 8, 2021, 11:05pm UTC](https://discourse.slicer.org/t/2021-02-09-hangout/15911 "2021-02-08T23:05:13Z")

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11 AM ET. Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Slicer 5 / VTK 9 Feel free… --- ## [Problems with the SPHARM-PDM on Slicer-4.8.0-linux-amd64 (Command-Line Tool, the step GenParaMesh)](https://discourse.slicer.org/t/problems-with-the-spharm-pdm-on-slicer-4-8-0-linux-amd64-command-line-tool-the-step-genparamesh/15877)

**Author:** [@Daisy\_Xiong](https://discourse.slicer.org/u/Daisy_Xiong)\ **Replies:** 0\ **Last updated:** [February 7, 2021, 4:31am UTC](https://discourse.slicer.org/t/problems-with-the-spharm-pdm-on-slicer-4-8-0-linux-amd64-command-line-tool-the-step-genparamesh/15877 "2021-02-07T04:31:43Z")

Hello, everyone, I tried to utilize the software Slicer(Slicer-4.8.0-linux-amd64) and the method SPHARM-PDM to get the some SPHARM Mesh ( such as the output files \*para.vtk and \*SPHARM\_Ellalign.vtk). If I use the main … --- ## [Endless possibilities, top notch support](https://discourse.slicer.org/t/endless-possibilities-top-notch-support/15809)

**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\ **Replies:** 0\ **Last updated:** [February 3, 2021, 10:14am UTC](https://discourse.slicer.org/t/endless-possibilities-top-notch-support/15809 "2021-02-03T10:14:39Z")

We discovered 3D Slicer during our search for a versatile tool for 3D reconstructions of lung CT scans. 3D Slicer proved very helpful for teaching and planning lung surgery as well as during scientific data analysis. Th… --- ## [Failed to establish point to point coreposndence](https://discourse.slicer.org/t/failed-to-establish-point-to-point-coreposndence/15735)

**Author:** [@Maxibers](https://discourse.slicer.org/u/Maxibers)\ **Replies:** 2\ **Last updated:** [February 1, 2021, 9:20pm UTC](https://discourse.slicer.org/t/failed-to-establish-point-to-point-coreposndence/15735 "2021-02-01T21:20:27Z")

I’m having trouble in establishing point to point corespondence. Long story short i’m trying to analyze tmj condyle heads remodeling. So after the SPHARM-PDM process on some, but not all, the condyle heads i cannot get … --- ## [How to adjust the ROI](https://discourse.slicer.org/t/how-to-adjust-the-roi/15713)

**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\ **Replies:** 7\ **Last updated:** [February 1, 2021, 5:11pm UTC](https://discourse.slicer.org/t/how-to-adjust-the-roi/15713 "2021-02-01T17:11:25Z")

As this picture shows, the ROI is a cube, and sometimes it may be better to change it to a sphere. Of course, this function PRISM rendering can be implemented, but it will be more convenient if you can directly adjust th… --- ## [2021.02.02 Hangout](https://discourse.slicer.org/t/2021-02-02-hangout/15775)

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 0\ **Last updated:** [February 1, 2021, 4:43pm UTC](https://discourse.slicer.org/t/2021-02-02-hangout/15775 "2021-02-01T16:43:33Z")

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11 AM ET. Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Slicer 5 / VTK9 Feel free … --- ## [Wrong face normals after Mesh conversion (OpenFOAM)](https://discourse.slicer.org/t/wrong-face-normals-after-mesh-conversion-openfoam/15738)

**Author:** [@haontaler](https://discourse.slicer.org/u/haontaler)\ **Replies:** 3\ **Last updated:** [January 30, 2021, 5:58pm UTC](https://discourse.slicer.org/t/wrong-face-normals-after-mesh-conversion-openfoam/15738 "2021-01-30T17:58:30Z")

Hello everyone, I am not sure if this is the correct forum to post questions about VMTK mesh generation and conversion as it is not available in Slicer directly afaik. But I hope that you can still give me a hint to sol… --- ## [Landmarking Surface Model - File Formats](https://discourse.slicer.org/t/landmarking-surface-model-file-formats/15722)

**Author:** [@EGlynne](https://discourse.slicer.org/u/EGlynne)\ **Replies:** 3\ **Last updated:** [January 28, 2021, 7:20pm UTC](https://discourse.slicer.org/t/landmarking-surface-model-file-formats/15722 "2021-01-28T19:20:54Z")

I am currently using photogrammetry methods to create a model in Meshroom. I then take that model and clean it in MeshLab, where I then export it as an stl file and bring that into 3DSlicer to try and landmark. I first… --- ## [2021.01.26 Hangout](https://discourse.slicer.org/t/2021-01-26-hangout/15658)

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 4\ **Last updated:** [January 26, 2021, 3:07pm UTC](https://discourse.slicer.org/t/2021-01-26-hangout/15658 "2021-01-26T15:07:30Z")

**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\ **Replies:** 3\ **Last updated:** [January 21, 2021, 1:06am UTC](https://discourse.slicer.org/t/how-to-cut-polygons/15608 "2021-01-21T01:06:23Z")

The scissor tool in the segment editor can be set to circle, square, and any shape. However, when cutting any shape, the edge is an irregular curve. Is there a way to set it as the linear shape between two points? I capt… --- ## [Smoothing factor?](https://discourse.slicer.org/t/smoothing-factor/15574)

**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\ **Replies:** 4\ **Last updated:** [January 18, 2021, 7:15am UTC](https://discourse.slicer.org/t/smoothing-factor/15574 "2021-01-18T07:15:30Z")

This tool can smooth the surface of the model, but I want to know if it changes the shape of the original model, such as the accuracy of the original model. This smoothing effect can indeed export the model, not just … --- ## [How to split the segmentation into two](https://discourse.slicer.org/t/how-to-split-the-segmentation-into-two/15566)

**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\ **Replies:** 1\ **Last updated:** [January 17, 2021, 2:04pm UTC](https://discourse.slicer.org/t/how-to-split-the-segmentation-into-two/15566 "2021-01-17T14:04:29Z")

In the Segment Editor, there is a scissors tool, and the scissors can cut and delete the segmentation. How to cut the segmentation into two,instead of deleting it .I know the Logical operater can help , but it is complex… --- ## [How to make a cuboid tube between two points](https://discourse.slicer.org/t/how-to-make-a-cuboid-tube-between-two-points/15555)

**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\ **Replies:** 5\ **Last updated:** [January 16, 2021, 4:28pm UTC](https://discourse.slicer.org/t/how-to-make-a-cuboid-tube-between-two-points/15555 "2021-01-16T16:28:18Z")

When I use Segment Editor, I can make a tube through Draw tube, but what should I do if I need to make a cuboid tube between two points? --- ## [Mesh Parameterization](https://discourse.slicer.org/t/mesh-parameterization/15486)

**Author:** [@Shion\_Matsumoto](https://discourse.slicer.org/u/Shion_Matsumoto)\ **Replies:** 0\ **Last updated:** [January 12, 2021, 10:45pm UTC](https://discourse.slicer.org/t/mesh-parameterization/15486 "2021-01-12T22:45:25Z")

Hi, When parameterizing a mesh as in the Mapping and Patching tutorial, how is the orientation of the circumferential axis chosen? I would like to compare parameterized meshes of various vessels and would like it such … --- ## [2021.01.12 Hangout](https://discourse.slicer.org/t/2021-01-12-hangout/15453)

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 0\ **Last updated:** [January 11, 2021, 2:29pm UTC](https://discourse.slicer.org/t/2021-01-12-hangout/15453 "2021-01-11T14:29:31Z")

Tomorrow, we will be having our next weekly hangout at 10:00 AM ET until 11 AM ET. Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Slicer 5 and VTK9 Feel fre… --- ## [VMTK Centerline Add-on for Blender](https://discourse.slicer.org/t/vmtk-centerline-add-on-for-blender/15405)

**Author:** [@ajorstad](https://discourse.slicer.org/u/ajorstad)\ **Replies:** 4\ **Last updated:** [January 8, 2021, 4:08pm UTC](https://discourse.slicer.org/t/vmtk-centerline-add-on-for-blender/15405 "2021-01-08T16:08:51Z")

My team has developed an add-on for Blender that loads centerlines generated by VMTK into Blender, and writes meshes from Blender so that they can be easily read by VMTK. The add-on has now been updated for the stable l… --- ## [2021.01.05 Hangout](https://discourse.slicer.org/t/2021-01-05-hangout/15335)

**Author:** [@jcfr](https://discourse.slicer.org/u/jcfr)\ **Replies:** 7\ **Last updated:** [January 6, 2021, 3:48pm UTC](https://discourse.slicer.org/t/2021-01-05-hangout/15335 "2021-01-06T15:48:14Z")

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 2\ **Last updated:** [December 22, 2020, 2:42pm UTC](https://discourse.slicer.org/t/2020-12-21-hangout/15172 "2020-12-22T14:42:49Z")

Tomorrow, we will be having our next weekly hangout at 10 AM ET. Anyone is welcome to join to ask questions at https://bit.ly/slicer-googlemeet-hosted-by-kitware Agenda: Slicer 5 and VTK 9 Progress Feel free to pos… --- ## [Project Week 34 Survey!](https://discourse.slicer.org/t/project-week-34-survey/15136)

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 2\ **Last updated:** [December 19, 2020, 3:29pm UTC](https://discourse.slicer.org/t/project-week-34-survey/15136 "2020-12-19T15:29:23Z")

Dear Project Week participants, This first online edition of Project Week is soon coming to an end and has far surpassed our expectations. Before we all go back to our respective projects, we would like to know a little… --- ## [Texture analysis on an image with cysts taken out](https://discourse.slicer.org/t/texture-analysis-on-an-image-with-cysts-taken-out/15098)

**Author:** [@lekremer](https://discourse.slicer.org/u/lekremer)\ **Replies:** 1\ **Last updated:** [December 17, 2020, 12:49pm UTC](https://discourse.slicer.org/t/texture-analysis-on-an-image-with-cysts-taken-out/15098 "2020-12-17T12:49:20Z")

Hello, I am looking at texture within a kidney, but removing all cysts to look only at healthy tissue. I was wondering how this would affect GLCM and other features, because there will now be pixels of 0 value within th… --- ## [Higher order features on kidney segmentation ](https://discourse.slicer.org/t/higher-order-features-on-kidney-segmentation/15000)

**Author:** [@lekremer](https://discourse.slicer.org/u/lekremer)\ **Replies:** 1\ **Last updated:** [December 17, 2020, 12:48pm UTC](https://discourse.slicer.org/t/higher-order-features-on-kidney-segmentation/15000 "2020-12-17T12:48:32Z")

I am using pyradiomics to look at the texture of segmented kidney images with many cysts masked out, therefore the value being 0 anywhere in the kidney that we deem are cysts. How will this affect the GLCM and features t… --- ## [Project Week 34 : MONAI tutorial WILL be held at 2.30PM EST today](https://discourse.slicer.org/t/project-week-34-monai-tutorial-will-be-held-at-2-30pm-est-today/15101)

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 0\ **Last updated:** [December 16, 2020, 6:51pm UTC](https://discourse.slicer.org/t/project-week-34-monai-tutorial-will-be-held-at-2-30pm-est-today/15101 "2020-12-16T18:51:50Z")

Project week attendees: MONAI tutorial WILL be held at 2.30PM EST today. --- ## [Project Week Starts Tomorrow!](https://discourse.slicer.org/t/project-week-starts-tomorrow/15040)

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 0\ **Last updated:** [December 14, 2020, 3:11am UTC](https://discourse.slicer.org/t/project-week-starts-tomorrow/15040 "2020-12-14T03:11:46Z")

From the NA-MIC Project Week mailing list Dear members of the Project Week community, The first virtual edition of Project Week starts on Monday at 12pm EST (GMT-5). If you are receiving this email, you have already re… --- ## [Fixed Bin Width / Fixed Bin Count + Resegmentation](https://discourse.slicer.org/t/fixed-bin-width-fixed-bin-count-resegmentation/15038)

**Author:** [@mcastro](https://discourse.slicer.org/u/mcastro)\ **Replies:** 0\ **Last updated:** [December 14, 2020, 1:00am UTC](https://discourse.slicer.org/t/fixed-bin-width-fixed-bin-count-resegmentation/15038 "2020-12-14T01:00:54Z")

I am running 3D Slicer + Radiomics using Parameter Files. In my application, I need to compare a set of CT images that have the same minimum HU but varying maximum HU. Using resegmentation, I thought that I would be abl… --- ## [Extract centerlines with radius variation for coronary stenosis](https://discourse.slicer.org/t/extract-centerlines-with-radius-variation-for-coronary-stenosis/15037)

**Author:** [@sajedaekram](https://discourse.slicer.org/u/sajedaekram)\ **Replies:** 0\ **Last updated:** [December 13, 2020, 5:32pm UTC](https://discourse.slicer.org/t/extract-centerlines-with-radius-variation-for-coronary-stenosis/15037 "2020-12-13T17:32:16Z")

Dear all, I would like to know about the vmtk for centerline extraction. Is it possible to extract centerlines with radius variation for coronary stenosis? I want to simulate blood flow for pressure loss in oneD simul… --- ## [I have lots of questions. Can I write you an email?](https://discourse.slicer.org/t/i-have-lots-of-questions-can-i-write-you-an-email/15025)

**Author:** [@Luis\_Espino](https://discourse.slicer.org/u/Luis_Espino)\ **Replies:** 4\ **Last updated:** [December 13, 2020, 2:30pm UTC](https://discourse.slicer.org/t/i-have-lots-of-questions-can-i-write-you-an-email/15025 "2020-12-13T14:30:59Z")

Hi, i am from mexico, i have lots of questions do you have a email? --- ## [vmtk-Annotation](https://discourse.slicer.org/t/vmtk-annotation/15027)

**Author:** [@safieh\_poor\_shaigan](https://discourse.slicer.org/u/safieh_poor_shaigan)\ **Replies:** 1\ **Last updated:** [December 12, 2020, 9:40pm UTC](https://discourse.slicer.org/t/vmtk-annotation/15027 "2020-12-12T21:40:18Z")

Hello How can Annotation be done in VMTK? For the Annotation of Vascular? Or Annotation the centerline path? Or For liver tissue… Annotation With the help of locational description and shape features, vessel annot… --- ## [vmtkparticletracer](https://discourse.slicer.org/t/vmtkparticletracer/14990)

**Author:** [@SPoloni](https://discourse.slicer.org/u/SPoloni)\ **Replies:** 1\ **Last updated:** [December 12, 2020, 5:48pm UTC](https://discourse.slicer.org/t/vmtkparticletracer/14990 "2020-12-12T17:48:17Z")

Hello! I have a problem with the command “vmtkparticletracer”. Putting as input the files (-ifile merge.vtu -sfile source.vtp) I obtain an empty output (traces.vtp). The command line is “vmtkparticletracer -ifile merge.… --- ## [Project week 34 - Registration and project pages - Next week, register now!](https://discourse.slicer.org/t/project-week-34-registration-and-project-pages-next-week-register-now/14966)

**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\ **Replies:** 0\ **Last updated:** [December 9, 2020, 2:54pm UTC](https://discourse.slicer.org/t/project-week-34-registration-and-project-pages-next-week-register-now/14966 "2020-12-09T14:54:32Z")

From the NA-MIC Project Week mailing list Dear members of the Project Week community, Please register now if you plan on attending Project Week 34 (Dec 14th to 18th). For those who haven’t attended the preparation mee… --- ## [How can I set absolute bound](https://discourse.slicer.org/t/how-can-i-set-absolute-bound/11263)

**Author:** [@codecrazer](https://discourse.slicer.org/u/codecrazer)\ **Replies:** 5\ **Last updated:** [December 9, 2020, 4:01am UTC](https://discourse.slicer.org/t/how-can-i-set-absolute-bound/11263 "2020-12-09T04:01:11Z")

Dear all, due to some of CT will have maximum Housefield units value more than 3000. Is it possible for me to absolute bound HU before binwith resampling in pyradiomics batch parameter file? Thanks for your help! [Previous page](https://discourse.slicer.org/c/community/12.md?no_subcategories=false&page=33) [Next page](https://discourse.slicer.org/c/community/12.md?no_subcategories=false&page=35)