# Community

**URL:** https://discourse.slicer.org/c/community/12.md?no_subcategories=false&page=28

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

**Page:** 29

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## [vmtkimagefeatures](https://discourse.slicer.org/t/vmtkimagefeatures/20652)

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**Author:** [@biplabketan](https://discourse.slicer.org/u/biplabketan)\
**Replies:** 0\
**Last updated:** [November 17, 2021, 5:39am UTC](https://discourse.slicer.org/t/vmtkimagefeatures/20652 "2021-11-17T05:39:56Z")

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Please let me know the correct parameter settings for vmtkimagefeatures for coronary artery segmentation from dicom.

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## [Morphological changes analysis](https://discourse.slicer.org/t/morphological-changes-analysis/20624)

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**Author:** [@SPoloni](https://discourse.slicer.org/u/SPoloni)\
**Replies:** 5\
**Last updated:** [November 16, 2021, 9:20pm UTC](https://discourse.slicer.org/t/morphological-changes-analysis/20624 "2021-11-16T21:20:34Z")

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Hi all! I want to study the morphological changes on 2 models of the same vascular district acquired in time. After the registration and the computation of the distances between the two models, give a point on the centr…

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## [2021.11.16 Weekly Meeting](https://discourse.slicer.org/t/2021-11-16-weekly-meeting/20626)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [November 15, 2021, 6:52pm UTC](https://discourse.slicer.org/t/2021-11-16-weekly-meeting/20626 "2021-11-15T18:52:55Z")

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Tomorrow, we will be having our next weekly hangout at 11:00 AM ET until 12 PM ET, immediately after the Project Week meeting. We will be using the same Zoom link as the project week meeting. Anyone is welcome to join …

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## [Reminder: Project Week 36 prep meeting tomorrow (2021.11.16)](https://discourse.slicer.org/t/reminder-project-week-36-prep-meeting-tomorrow-2021-11-16/20627)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [November 15, 2021, 7:29pm UTC](https://discourse.slicer.org/t/reminder-project-week-36-prep-meeting-tomorrow-2021-11-16/20627 "2021-11-15T19:29:08Z")

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Dear members of the Project Week community, Please join us for our second Project Week 36 preparation meeting tomorrow Nov 16th (10 am Boston time, EDT) on Zoom. We will start the meeting with a discussion on the theme …

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## [Project Week 36 prep meeting next Tuesday](https://discourse.slicer.org/t/project-week-36-prep-meeting-next-tuesday/20605)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [November 12, 2021, 7:33pm UTC](https://discourse.slicer.org/t/project-week-36-prep-meeting-next-tuesday/20605 "2021-11-12T19:33:12Z")

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Dear members of the Project Week community, Please join us for our second Project Week 36 preparation meeting next Tuesday Nov 16th (10 am Boston time, EDT) on Zoom. We will start the meeting with a discussion on the th…

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## [complex value for shape feature elongation and flatness which involves two PCA components ](https://discourse.slicer.org/t/complex-value-for-shape-feature-elongation-and-flatness-which-involves-two-pca-components/20601)

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**Author:** [@gyy](https://discourse.slicer.org/u/gyy)\
**Replies:** 0\
**Last updated:** [November 12, 2021, 1:37pm UTC](https://discourse.slicer.org/t/complex-value-for-shape-feature-elongation-and-flatness-which-involves-two-pca-components/20601 "2021-11-12T13:37:44Z")

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Operating system: OS Slicer version: not about slicer Expected behavior: Actual behavior: I extracted from some dcm slices and corresponding masks via pyradiomics package, the puzzle is that I got some complex values…

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## [Radiomics for entire image- not only on segmentation](https://discourse.slicer.org/t/radiomics-for-entire-image-not-only-on-segmentation/13344)

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**Author:** [@KLH](https://discourse.slicer.org/u/KLH)\
**Replies:** 2\
**Last updated:** [November 11, 2021, 6:11am UTC](https://discourse.slicer.org/t/radiomics-for-entire-image-not-only-on-segmentation/13344 "2021-11-11T06:11:22Z")

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Operating system:Windows 10 Slicer version:4.10.2 Expected behavior: Features extracted from whole image Actual behavior: Need segmentation I am using radiomics to analyze grayscale confocal microscopy images and I d…

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## [Extra or missing triangle with vmtksurfaceendclipper script](https://discourse.slicer.org/t/extra-or-missing-triangle-with-vmtksurfaceendclipper-script/20530)

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**Author:** [@Antoine\_Mathieu](https://discourse.slicer.org/u/Antoine_Mathieu)\
**Replies:** 3\
**Last updated:** [November 10, 2021, 4:52pm UTC](https://discourse.slicer.org/t/extra-or-missing-triangle-with-vmtksurfaceendclipper-script/20530 "2021-11-10T16:52:59Z")

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Dear all, I am using the vmtksurfaceendclipper script to clip the extremities of a segmentation and the output surface often contains either an extra or missing triangle part: vmtksurfaceendclipper -ifile "C:/temp/debu…

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## [Mean radius per branch + plot radius along branch](https://discourse.slicer.org/t/mean-radius-per-branch-plot-radius-along-branch/20399)

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**Author:** [@ames](https://discourse.slicer.org/u/ames)\
**Replies:** 2\
**Last updated:** [November 10, 2021, 3:23pm UTC](https://discourse.slicer.org/t/mean-radius-per-branch-plot-radius-along-branch/20399 "2021-11-10T15:23:09Z")

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Dear all, I am processing a surface model of the LIMA-LAD bypass in VMTK. I managed to split the domain in separate regions using VMTKBranchExtractor and VMTKBranchClipper, as shown in the figure. For each branch I want…

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## [Centerline bifurcations for multiple inlets](https://discourse.slicer.org/t/centerline-bifurcations-for-multiple-inlets/20444)

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**Author:** [@som1197](https://discourse.slicer.org/u/som1197)\
**Replies:** 10\
**Last updated:** [November 8, 2021, 10:40pm UTC](https://discourse.slicer.org/t/centerline-bifurcations-for-multiple-inlets/20444 "2021-11-08T22:40:33Z")

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Hello, I had some issues with the blanking array which is not generated correctly when multiple inlet branches are present. Consider the following example: I have 2 inputs coming from the left and right vertebral arter…

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## [2021.11.09 Weekly Meeting - No meeting this week](https://discourse.slicer.org/t/2021-11-09-weekly-meeting-no-meeting-this-week/20535)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [November 8, 2021, 6:13pm UTC](https://discourse.slicer.org/t/2021-11-09-weekly-meeting-no-meeting-this-week/20535 "2021-11-08T18:13:45Z")

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Hi all, There will be no meeting tomorrow, as it is the first Project Week meeting for the upcoming winter project week: Reminder: Project Week 36 prep meetings start tomorrow (Nov 9th) During the project week meeting …

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## [Reminder: Project Week 36 prep meetings start tomorrow (Nov 9th)](https://discourse.slicer.org/t/reminder-project-week-36-prep-meetings-start-tomorrow-nov-9th/20534)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [November 8, 2021, 5:30pm UTC](https://discourse.slicer.org/t/reminder-project-week-36-prep-meetings-start-tomorrow-nov-9th/20534 "2021-11-08T17:30:16Z")

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Dear members of the Project Week community, We are happy to announce the beginning of preparation meetings for the next project week (Jan 17-21, 2022). Weekly meetings will start on Nov 9th, 2021 (10 am Boston time, EDT…

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## [Vmtkflowextensions](https://discourse.slicer.org/t/vmtkflowextensions/19656)

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**Author:** [@ames](https://discourse.slicer.org/u/ames)\
**Replies:** 1\
**Last updated:** [November 4, 2021, 9:10pm UTC](https://discourse.slicer.org/t/vmtkflowextensions/19656 "2021-11-04T21:10:04Z")

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I am using vmtkflowextensions to add short flow extensions to the inlet and outlets of my 3D model. In the attached screencapture it can be seen that the flow extension does not fit nicely to the domain. vmtksurfacer…

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## [2021.11.02 Weekly Meeting](https://discourse.slicer.org/t/2021-11-02-weekly-meeting/20436)

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**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Replies:** 5\
**Last updated:** [November 2, 2021, 1:45pm UTC](https://discourse.slicer.org/t/2021-11-02-weekly-meeting/20436 "2021-11-02T13:45:37Z")

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Hello, I am planning to attend tomorrow to discuss the topic of “Add intuitive volume presets” as referenced here which resulted in a PR here.

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## [Convert VTK model to STL while maintaining GroupIds](https://discourse.slicer.org/t/convert-vtk-model-to-stl-while-maintaining-groupids/20380)

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**Author:** [@ames](https://discourse.slicer.org/u/ames)\
**Replies:** 2\
**Last updated:** [October 27, 2021, 4:42pm UTC](https://discourse.slicer.org/t/convert-vtk-model-to-stl-while-maintaining-groupids/20380 "2021-10-27T16:42:19Z")

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Dear all, I am processing a surface model of the LIMA-LAD bypass in VMTK. I managed to split the domain in separate regions using VMTKBranchExtractor and VMTKBranchClipper, as shown in the figure. In the VTK file format…

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## [sitk error. Input for "LabelStatisticsImageFilter" does not match the primary input's size](https://discourse.slicer.org/t/sitk-error-input-for-labelstatisticsimagefilter-does-not-match-the-primary-inputs-size/20326)

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**Author:** [@Fabio\_Nunes](https://discourse.slicer.org/u/Fabio_Nunes)\
**Replies:** 1\
**Last updated:** [October 26, 2021, 3:03am UTC](https://discourse.slicer.org/t/sitk-error-input-for-labelstatisticsimagefilter-does-not-match-the-primary-inputs-size/20326 "2021-10-26T03:03:29Z")

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Hello dear members, I’ve been working with pyradiomics to try to analyse a segment of pericardial fat. I will replicate the code bellow. Unfortunatly I cannot attach the files here as the upload option does not allow fo…

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## [Pyradiomics feature extraction for bin-width 255](https://discourse.slicer.org/t/pyradiomics-feature-extraction-for-bin-width-255/20347)

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**Author:** [@Sovan\_Mukherjee](https://discourse.slicer.org/u/Sovan_Mukherjee)\
**Replies:** 0\
**Last updated:** [October 25, 2021, 11:01pm UTC](https://discourse.slicer.org/t/pyradiomics-feature-extraction-for-bin-width-255/20347 "2021-10-25T23:01:15Z")

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Hi, I was extracting radiomics features from a CT dataset using PyRadiomics at various bin-widths for a comparison study (25, 32, 255 etc). I was comparing individual gray level features between bin-width 25 and 255. M…

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## [2021.10.26 Weekly Meeting](https://discourse.slicer.org/t/2021-10-26-weekly-meeting/20337)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 1\
**Last updated:** [October 25, 2021, 3:53pm UTC](https://discourse.slicer.org/t/2021-10-26-weekly-meeting/20337 "2021-10-25T15:53:11Z")

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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 Feel free to post…

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## [vmtkcenterlinesections doesn't work sometime](https://discourse.slicer.org/t/vmtkcenterlinesections-doesnt-work-sometime/18729)

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**Author:** [@Dongwei](https://discourse.slicer.org/u/Dongwei)\
**Replies:** 3\
**Last updated:** [October 22, 2021, 5:56am UTC](https://discourse.slicer.org/t/vmtkcenterlinesections-doesnt-work-sometime/18729 "2021-10-22T05:56:41Z")

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Hi, I am using vmtkcenterlinesections to calculate the cross-sectional area of my vessel. But sometimes the function brokes for certain vessel geometry… It says ‘executing vmtkcenterlinesections’, then directly exit wit…

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## [2021.10.19 Weekly Meeting](https://discourse.slicer.org/t/2021-10-19-weekly-meeting/20218)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 3\
**Last updated:** [October 19, 2021, 4:25pm UTC](https://discourse.slicer.org/t/2021-10-19-weekly-meeting/20218 "2021-10-19T16:25:51Z")

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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 Feel free to post…

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## [2021.10.12 Weekly Meeting](https://discourse.slicer.org/t/2021-10-12-weekly-meeting/20103)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 0\
**Last updated:** [October 11, 2021, 5:58pm UTC](https://discourse.slicer.org/t/2021-10-12-weekly-meeting/20103 "2021-10-11T17:58:07Z")

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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 SlicerPipelineCre…

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## [2021.10.05 Weekly Meeting](https://discourse.slicer.org/t/2021-10-05-weekly-meeting/20004)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 1\
**Last updated:** [October 5, 2021, 10:54am UTC](https://discourse.slicer.org/t/2021-10-05-weekly-meeting/20004 "2021-10-05T10:54:09Z")

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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 5.0 Feel free to po…

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## [Fill model cut with 2D image](https://discourse.slicer.org/t/fill-model-cut-with-2d-image/19965)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 1\
**Last updated:** [October 2, 2021, 2:42pm UTC](https://discourse.slicer.org/t/fill-model-cut-with-2d-image/19965 "2021-10-02T14:42:54Z")

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Dear experts Just like the first picture, how to achieve this effect in slicer, the cross-section of the model is displayed as a 2D image，not the pitcture 2

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## [brain white matter tissue probability map as mask - behaviour of pyradiomics](https://discourse.slicer.org/t/brain-white-matter-tissue-probability-map-as-mask-behaviour-of-pyradiomics/19969)

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**Author:** [@nhaliasos](https://discourse.slicer.org/u/nhaliasos)\
**Replies:** 0\
**Last updated:** [October 2, 2021, 2:16pm UTC](https://discourse.slicer.org/t/brain-white-matter-tissue-probability-map-as-mask-behaviour-of-pyradiomics/19969 "2021-10-02T14:16:54Z")

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greetings to community, i have a doubt: when i use spm12 to produce a brain white matter segmentation from a T1 MRI scan the image produced by spm has various intensities from 0 to 1 especially at the edges between the…

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## [2021.09.28 Weekly Meeting](https://discourse.slicer.org/t/2021-09-28-weekly-meeting/19885)

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**Author:** [@jcfr](https://discourse.slicer.org/u/jcfr)\
**Replies:** 10\
**Last updated:** [September 28, 2021, 8:49pm UTC](https://discourse.slicer.org/t/2021-09-28-weekly-meeting/19885 "2021-09-28T20:49:35Z")

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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: PR#5887: ENH: Improve icon…

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## [Correspondent Point Calculations](https://discourse.slicer.org/t/correspondent-point-calculations/19872)

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**Author:** [@Daniel1](https://discourse.slicer.org/u/Daniel1)\
**Replies:** 0\
**Last updated:** [September 26, 2021, 4:32pm UTC](https://discourse.slicer.org/t/correspondent-point-calculations/19872 "2021-09-26T16:32:57Z")

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Hey guys, I’ve got two models. They have been registered on 3D Slicer with CMFReg. A SPHARM mesh has been generated for each using SlicerSalt. So far so good. How do I go about automatically identifying corresponding…

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## [SlicerMorph: about values in sliders for PCA deformation](https://discourse.slicer.org/t/slicermorph-about-values-in-sliders-for-pca-deformation/19858)

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**Author:** [@Ale](https://discourse.slicer.org/u/Ale)\
**Replies:** 1\
**Last updated:** [September 26, 2021, 4:57am UTC](https://discourse.slicer.org/t/slicermorph-about-values-in-sliders-for-pca-deformation/19858 "2021-09-26T04:57:29Z")

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Dear Slicer community. I’m playing with GPA module, specially deforming the mean shape along principal axes. My question is if the values in the slider represent the position in percentage of the target shape? I guess t…

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## [Is there any way to get SPHARM-PDM output when running from cmd?](https://discourse.slicer.org/t/is-there-any-way-to-get-spharm-pdm-output-when-running-from-cmd/19853)

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**Author:** [@Robert\_Michael\_Sharp](https://discourse.slicer.org/u/Robert_Michael_Sharp)\
**Replies:** 1\
**Last updated:** [September 25, 2021, 5:01pm UTC](https://discourse.slicer.org/t/is-there-any-way-to-get-spharm-pdm-output-when-running-from-cmd/19853 "2021-09-25T17:01:27Z")

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I’m having a problem where I have created a mac application that calls SPHARM-PDM and informs the user as files are created by reading the terminal output and searching for “CASE completed”, however, when trying to port …

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## [VMTK compatibility in mac m1](https://discourse.slicer.org/t/vmtk-compatibility-in-mac-m1/19683)

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**Author:** [@Weiqiang\_Liu](https://discourse.slicer.org/u/Weiqiang_Liu)\
**Replies:** 2\
**Last updated:** [September 21, 2021, 9:43pm UTC](https://discourse.slicer.org/t/vmtk-compatibility-in-mac-m1/19683 "2021-09-21T21:43:49Z")

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I use 3D slicer extension VMTK to extract the centerline and do diameter analysis. I use my own STL file and follow the guidelines in youtube. But I got: Failed to compute results: VMTK library is not found. I also trie…

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## [2021.09.21 Weekly Meeting](https://discourse.slicer.org/t/2021-09-21-weekly-meeting/19773)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 2\
**Last updated:** [September 21, 2021, 4:05pm UTC](https://discourse.slicer.org/t/2021-09-21-weekly-meeting/19773 "2021-09-21T16:05:26Z")

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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 status Feel free …

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