# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=306

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

**Page:** 307

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## [Volume rendering hangs Slicer](https://discourse.slicer.org/t/volume-rendering-hangs-slicer/15085)

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**Author:** [@manjula](https://discourse.slicer.org/u/manjula)\
**Replies:** 1\
**Last updated:** [December 16, 2020, 10:05am UTC](https://discourse.slicer.org/t/volume-rendering-hangs-slicer/15085 "2020-12-16T10:05:27Z")

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System - Manjaro Linux Slicer versions - Current stable and current preview release \[DEBUG\]\[Qt\] 16.12.2020 09:53:44 (unknown:0) - Switch to module: “VolumeRendering” \[WARNING\]\[VTK\] 16.12.2020 09:56:05 \[vtkObject (0…

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## [Display vertical ruler](https://discourse.slicer.org/t/display-vertical-ruler/15005)

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**Author:** [@Hamid](https://discourse.slicer.org/u/Hamid)\
**Replies:** 1\
**Last updated:** [December 11, 2020, 2:50pm UTC](https://discourse.slicer.org/t/display-vertical-ruler/15005 "2020-12-11T14:50:45Z")

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The Ruler shows up at the bottom and in horizontal position. Is there any way to rotate the ruler e.g to the vertical position?

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## [Teeth Segmentation](https://discourse.slicer.org/t/teeth-segmentation/9775)

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**Author:** [@manjula](https://discourse.slicer.org/u/manjula)\
**Replies:** 20\
**Last updated:** [December 15, 2020, 8:22pm UTC](https://discourse.slicer.org/t/teeth-segmentation/9775 "2020-12-15T20:22:09Z")

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Is there a easier way of segmenting multiple teeth easily like shown here from a CBCT ? I tried thresholding and grow from seed, fill between slices and filling holes and applying smoothes. While we can …

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## [MatlabBridge, MatlabCommander problems](https://discourse.slicer.org/t/matlabbridge-matlabcommander-problems/15074)

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**Author:** [@DimaLat](https://discourse.slicer.org/u/DimaLat)\
**Replies:** 0\
**Last updated:** [December 15, 2020, 2:05pm UTC](https://discourse.slicer.org/t/matlabbridge-matlabcommander-problems/15074 "2020-12-15T14:05:33Z")

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Operating system: Windows Slicer version: 4.11 Expected behavior: My Matlab module is woking and giving a Matlab files Actual behavior: My Matlab module is not working and not saving files, its just openinig one more …

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## [Is there a way to getCurrentVolumeNode?](https://discourse.slicer.org/t/is-there-a-way-to-getcurrentvolumenode/15060)

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**Author:** [@Justin](https://discourse.slicer.org/u/Justin)\
**Replies:** 2\
**Last updated:** [December 15, 2020, 10:36am UTC](https://discourse.slicer.org/t/is-there-a-way-to-getcurrentvolumenode/15060 "2020-12-15T10:36:18Z")

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Dear all, I’ve been using Slicer for a time now and am really happy with it. However, there is one thing I have not found out. When I’m using a script right now, I manually change the volumeNode name to a certain name…

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## [Automatic c-MRI heart segmentation](https://discourse.slicer.org/t/automatic-c-mri-heart-segmentation/15047)

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**Author:** [@Jonathan](https://discourse.slicer.org/u/Jonathan)\
**Replies:** 2\
**Last updated:** [December 15, 2020, 5:59am UTC](https://discourse.slicer.org/t/automatic-c-mri-heart-segmentation/15047 "2020-12-15T05:59:04Z")

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Hello, I have cardiac short axis scans which I would like to segment at specific phases of the cardiac cycle : at peak-systole and at peak-diatole. So far, I manually detected the relevant slices and then copied the IM…

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## [STL from DICOM Files Samsung HS50](https://discourse.slicer.org/t/stl-from-dicom-files-samsung-hs50/14979)

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**Author:** [@tdkmatt](https://discourse.slicer.org/u/tdkmatt)\
**Replies:** 3\
**Last updated:** [December 15, 2020, 4:56am UTC](https://discourse.slicer.org/t/stl-from-dicom-files-samsung-hs50/14979 "2020-12-15T04:56:55Z")

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Hello I’m new to DICOM universe so please be patient :slight\_smile: i’m trying to help a company generate STLS from a 4D ultrasound machine (Samsung HS50) - They have the license to export 3D volume from via DICOM, ive…

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## [Exporting MATLAB data for gel dosimetry](https://discourse.slicer.org/t/exporting-matlab-data-for-gel-dosimetry/14573)

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**Author:** [@SmHoop](https://discourse.slicer.org/u/SmHoop)\
**Replies:** 4\
**Last updated:** [December 14, 2020, 6:40pm UTC](https://discourse.slicer.org/t/exporting-matlab-data-for-gel-dosimetry/14573 "2020-12-14T18:40:21Z")

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Hi there, I am running an in-house MATLAB program to reconstruct optical CT files. The only options this program has to save the reconstructions are “save as type: All MATLAB files” or “export cube” which generates a .r…

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## [Problem with paint option and does not save segments of specific files](https://discourse.slicer.org/t/problem-with-paint-option-and-does-not-save-segments-of-specific-files/14986)

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**Author:** [@einav](https://discourse.slicer.org/u/einav)\
**Replies:** 2\
**Last updated:** [December 14, 2020, 5:35pm UTC](https://discourse.slicer.org/t/problem-with-paint-option-and-does-not-save-segments-of-specific-files/14986 "2020-12-14T17:35:25Z")

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Hello, I have problems when I want to paint and save. When I use paint function on specific files it’s unresponsive. It happens in files: 346\_CINE.MR.PHILIP\_PIG\_HEART.0011.0025.2018.09.21.12.51.56.134255.48874629.IMA …

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## [General registration not importing dicom or nrrd file](https://discourse.slicer.org/t/general-registration-not-importing-dicom-or-nrrd-file/14993)

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**Author:** [@reem\_alzafiri](https://discourse.slicer.org/u/reem_alzafiri)\
**Replies:** 3\
**Last updated:** [December 14, 2020, 4:44pm UTC](https://discourse.slicer.org/t/general-registration-not-importing-dicom-or-nrrd-file/14993 "2020-12-14T16:44:00Z")

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Hi all, Im using the latest version 4.11 and have downloaded slicerRT(latest version). I have practiced with the sample data working on general registration(brains), however, when i tried to use my own ultrasound images…

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## [How to get vessels from this kind of MRI T2](https://discourse.slicer.org/t/how-to-get-vessels-from-this-kind-of-mri-t2/14983)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 5\
**Last updated:** [December 14, 2020, 11:55am UTC](https://discourse.slicer.org/t/how-to-get-vessels-from-this-kind-of-mri-t2/14983 "2020-12-14T11:55:43Z")

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As you can see in this image, we can clearly see the many blood vessels inside, the black ones wrapped in white, I want to know how to get the black blood vessels from the white ones. I used a threshold, but it will c…

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## [Display Issue with Volume Node Created Programmatically](https://discourse.slicer.org/t/display-issue-with-volume-node-created-programmatically/2346)

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**Author:** [@zjx1805](https://discourse.slicer.org/u/zjx1805)\
**Replies:** 12\
**Last updated:** [December 14, 2020, 6:38am UTC](https://discourse.slicer.org/t/display-issue-with-volume-node-created-programmatically/2346 "2020-12-14T06:38:44Z")

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I am doing vesselness analysis on some dataset that requires performing all the tasks from the python interpreter. The steps so far are: Splitting the 3D data volume into smaller 3D blocks (In the attached python code …

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## [Prevent occlusion of model inside volume rendered image](https://discourse.slicer.org/t/prevent-occlusion-of-model-inside-volume-rendered-image/14730)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 3\
**Last updated:** [December 14, 2020, 4:38am UTC](https://discourse.slicer.org/t/prevent-occlusion-of-model-inside-volume-rendered-image/14730 "2020-12-14T04:38:25Z")

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How to not mediate the transparency of the head, so that the model is fully displayed. i mean let the model be displayed on the top layer.No matter what angle

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## [Affine Registration of CT to Optical Volumes](https://discourse.slicer.org/t/affine-registration-of-ct-to-optical-volumes/15010)

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**Author:** [@Matteo\_Bonsignore](https://discourse.slicer.org/u/Matteo_Bonsignore)\
**Replies:** 4\
**Last updated:** [December 14, 2020, 4:23am UTC](https://discourse.slicer.org/t/affine-registration-of-ct-to-optical-volumes/15010 "2020-12-14T04:23:38Z")

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Hello all, I have just started using 3D slicer this month, I am new to image processing. I am trying to register the CT of a 3d-printed (Powder Bed Fusion) metal cylinder (very simple geometry, diameter = 2mm, with inde…

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## [GUI trouble at first installation - green stripes on the application screen](https://discourse.slicer.org/t/gui-trouble-at-first-installation-green-stripes-on-the-application-screen/14870)

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**Author:** [@NktAts](https://discourse.slicer.org/u/NktAts)\
**Replies:** 5\
**Last updated:** [December 13, 2020, 11:35pm UTC](https://discourse.slicer.org/t/gui-trouble-at-first-installation-green-stripes-on-the-application-screen/14870 "2020-12-13T23:35:28Z")

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Excuse me , please help me from the installation trouble. I’m sorry I can’t write English well I installed 3D Slicer to Windows 64bit PC. But when I started 3D Slicer , I get a lot of black and green lines in my appli…

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## [Folders in subject hierarchy](https://discourse.slicer.org/t/folders-in-subject-hierarchy/15035)

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**Author:** [@NoobForSlicer](https://discourse.slicer.org/u/NoobForSlicer)\
**Replies:** 1\
**Last updated:** [December 13, 2020, 2:27pm UTC](https://discourse.slicer.org/t/folders-in-subject-hierarchy/15035 "2020-12-13T14:27:54Z")

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So what if we have groups of segmentations on some volume. Is there anyway to put them in 1 folder or group them somewhere easily? I figured out I can place them inside of transformation and apply no changes to transfo…

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## [In slicer, how to obtain the coordinates of points on the intersection line between the plane and the STL model](https://discourse.slicer.org/t/in-slicer-how-to-obtain-the-coordinates-of-points-on-the-intersection-line-between-the-plane-and-the-stl-model/15034)

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**Author:** [@user\_ghost](https://discourse.slicer.org/u/user_ghost)\
**Replies:** 0\
**Last updated:** [December 13, 2020, 6:19am UTC](https://discourse.slicer.org/t/in-slicer-how-to-obtain-the-coordinates-of-points-on-the-intersection-line-between-the-plane-and-the-stl-model/15034 "2020-12-13T06:19:15Z")

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In slicer, how to obtain the coordinates of points on the intersection line between the plane and the STL model

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## [3d print fetus issue](https://discourse.slicer.org/t/3d-print-fetus-issue/15028)

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**Author:** [@Luis\_Espino](https://discourse.slicer.org/u/Luis_Espino)\
**Replies:** 2\
**Last updated:** [December 13, 2020, 5:56am UTC](https://discourse.slicer.org/t/3d-print-fetus-issue/15028 "2020-12-13T05:56:23Z")

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I have a question regarding volumen rendering I dont know how I can create a good stl file with just the face of the baby, I used ROI but still conserve the cubic form… then I Went to segment editor and try to use s…

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## [vmtk-Annotation](https://discourse.slicer.org/t/vmtk-annotation/15026)

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**Author:** [@safieh\_poor\_shaigan](https://discourse.slicer.org/u/safieh_poor_shaigan)\
**Replies:** 0\
**Last updated:** [December 12, 2020, 9:40pm UTC](https://discourse.slicer.org/t/vmtk-annotation/15026 "2020-12-12T21:40:15Z")

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How can Annotation be done in VMTK for Annotation the centerline path?

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## [Deviation between segmentation - 3D Slicer vs Mimics](https://discourse.slicer.org/t/deviation-between-segmentation-3d-slicer-vs-mimics/14978)

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**Author:** [@LLacombe](https://discourse.slicer.org/u/LLacombe)\
**Replies:** 6\
**Last updated:** [December 12, 2020, 1:19pm UTC](https://discourse.slicer.org/t/deviation-between-segmentation-3d-slicer-vs-mimics/14978 "2020-12-12T13:19:06Z")

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Hi, I really like to work with 3D Slicer and i was curious about making a comparison between the segmentation made in 3D Slicer and Mimics. When comparing the same DICOM file segmented in both softwares, i get a dimensi…

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## [3D Slicer for virtual reality using Oculus Quest](https://discourse.slicer.org/t/3d-slicer-for-virtual-reality-using-oculus-quest/8653)

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**Author:** [@dingi](https://discourse.slicer.org/u/dingi)\
**Replies:** 5\
**Last updated:** [December 11, 2020, 2:03pm UTC](https://discourse.slicer.org/t/3d-slicer-for-virtual-reality-using-oculus-quest/8653 "2020-12-11T14:03:04Z")

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Hi, I’m just started using 3D Slicer. My question is how do I use 3D Slicer with Oculus Quest? Should I import a plugin in unity? I’ve looked at https://github.com/KitwareMedical/SlicerVirtualReality but seems like it s…

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## [Change Display Lookup Table from Grey to Some Other Colour by Default](https://discourse.slicer.org/t/change-display-lookup-table-from-grey-to-some-other-colour-by-default/14969)

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**Author:** [@Jonathan\_Lesage](https://discourse.slicer.org/u/Jonathan_Lesage)\
**Replies:** 11\
**Last updated:** [December 11, 2020, 7:17pm UTC](https://discourse.slicer.org/t/change-display-lookup-table-from-grey-to-some-other-colour-by-default/14969 "2020-12-11T19:17:55Z")

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Hi There, I need to use a specific colour map to view data meaning that whenever I open 3d Slicer I have to first go and change the Lookup Table from the default Grey to a colour table I’ve added called NDT. This isn’t …

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## [Using draw tube to connect segments](https://discourse.slicer.org/t/using-draw-tube-to-connect-segments/14982)

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**Author:** [@Deepa](https://discourse.slicer.org/u/Deepa)\
**Replies:** 2\
**Last updated:** [December 11, 2020, 2:05pm UTC](https://discourse.slicer.org/t/using-draw-tube-to-connect-segments/14982 "2020-12-11T14:05:36Z")

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Hi All, I’d like to connect two segments displayed in the image below. I tried using Draw Tube in segment editor extra effects. Unfortunately, I am not able to place the fiducial marker on the surface of the segment and…

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## [Crop volume in 4.11. where it is?](https://discourse.slicer.org/t/crop-volume-in-4-11-where-it-is/14995)

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**Author:** [@norus](https://discourse.slicer.org/u/norus)\
**Replies:** 2\
**Last updated:** [December 11, 2020, 8:15am UTC](https://discourse.slicer.org/t/crop-volume-in-4-11-where-it-is/14995 "2020-12-11T08:15:19Z")

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Operating system: win 10 Slicer version: 4.11.20200930 Expected behavior: it appears like Volume Rendering Actual behavior: missing crop volume, I search it and use it, but I think there is an easier way, I am to stup…

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## [Slicer and jupyter kernel dies repeatedly, problem with connection.](https://discourse.slicer.org/t/slicer-and-jupyter-kernel-dies-repeatedly-problem-with-connection/14965)

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**Author:** [@coconutattitude](https://discourse.slicer.org/u/coconutattitude)\
**Replies:** 22\
**Last updated:** [December 10, 2020, 7:56pm UTC](https://discourse.slicer.org/t/slicer-and-jupyter-kernel-dies-repeatedly-problem-with-connection/14965 "2020-12-10T19:56:33Z")

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When I install SlicerJupyter and run it, it tries to connect and the dies. The messsage ist: “The kernel appears to have died. It will restart automatically.” It then restarts and dies again. This happens both when I’m …

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## [General Registration(brains) not importing dicom or nrrd files ](https://discourse.slicer.org/t/general-registration-brains-not-importing-dicom-or-nrrd-files/14994)

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**Author:** [@reem\_alzafiri](https://discourse.slicer.org/u/reem_alzafiri)\
**Replies:** 0\
**Last updated:** [December 10, 2020, 7:32pm UTC](https://discourse.slicer.org/t/general-registration-brains-not-importing-dicom-or-nrrd-files/14994 "2020-12-10T19:32:46Z")

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Hi everyone, I need help registering my ultrasound images. I used the sample data to practice registration, but when I try to do the same with my imported dicom files it wouldn’t allow me to import any of the images. I …

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## [Planar contour to binary labelmap or model](https://discourse.slicer.org/t/planar-contour-to-binary-labelmap-or-model/14828)

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**Author:** [@Aaron](https://discourse.slicer.org/u/Aaron)\
**Replies:** 15\
**Last updated:** [December 10, 2020, 9:06am UTC](https://discourse.slicer.org/t/planar-contour-to-binary-labelmap-or-model/14828 "2020-12-10T09:06:56Z")

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Hi, I have planar contours that turn into this when I select “Export visible segments to models”: i.e. the contours are not connected. I think this is because the distance between planes is too large as a result of …

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## [Markup copy/paste functionality broken](https://discourse.slicer.org/t/markup-copy-paste-functionality-broken/14973)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 0\
**Last updated:** [December 9, 2020, 9:32pm UTC](https://discourse.slicer.org/t/markup-copy-paste-functionality-broken/14973 "2020-12-09T21:32:55Z")

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I want to highlight a selection of control points and paste it into a new fiducial node. That used to work fine, but seems broken in the current nightly and stable. For clarification, pasting the values to a text editor …

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## [Automated Segmentation of Kidneys](https://discourse.slicer.org/t/automated-segmentation-of-kidneys/1048)

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**Author:** [@stevenagl12](https://discourse.slicer.org/u/stevenagl12)\
**Replies:** 1\
**Last updated:** [December 9, 2020, 5:10pm UTC](https://discourse.slicer.org/t/automated-segmentation-of-kidneys/1048 "2020-12-09T17:10:11Z")

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I just wanted to double check with everyone out there, is there any automated or semi-automated kidney segmentation modules that exist as I’ve noticed not all modules are evident in the nightly build? In addition, does a…

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## [Loading StealthStation archive](https://discourse.slicer.org/t/loading-stealthstation-archive/2771)

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**Author:** [@banderies](https://discourse.slicer.org/u/banderies)\
**Replies:** 1\
**Last updated:** [December 9, 2020, 5:07pm UTC](https://discourse.slicer.org/t/loading-stealthstation-archive/2771 "2020-12-09T17:07:35Z")

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I am trying to process targets created by a StealthStation S7. These targets are collected in the operating room while taking stereotactic biopsies. I have the full stealth archive, including all of the analyze format im…

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