# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=317

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

**Page:** 318

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## [Perform "threshold" and "fill between slices" directly in python](https://discourse.slicer.org/t/perform-threshold-and-fill-between-slices-directly-in-python/13998)

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**Author:** [@fredrik](https://discourse.slicer.org/u/fredrik)\
**Replies:** 2\
**Last updated:** [October 13, 2020, 12:06pm UTC](https://discourse.slicer.org/t/perform-threshold-and-fill-between-slices-directly-in-python/13998 "2020-10-13T12:06:36Z")

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Hi, I have a binary image where slices are already labeled, and want to generate a volume by interpolating between slices. I was able to do this easily in the 3D-slicer GUI by performing 1) a threshold segmentation and t…

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## [A few problems with Slicer 4.13](https://discourse.slicer.org/t/a-few-problems-with-slicer-4-13/13973)

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**Author:** [@chir.set](https://discourse.slicer.org/u/chir.set)\
**Replies:** 12\
**Last updated:** [October 13, 2020, 8:55am UTC](https://discourse.slicer.org/t/a-few-problems-with-slicer-4-13/13973 "2020-10-13T08:55:27Z")

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I know you are in a big process of upgrading Slicer with VTK9 in particular, and some runtime problems can be expected. Just reporting what I found so far on Arch Linux / Qt 5.15.1. Factory built Slicer Only Slicer a…

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## [Vertebral artery segmentation](https://discourse.slicer.org/t/vertebral-artery-segmentation/14001)

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**Author:** [@sarvpriya1985](https://discourse.slicer.org/u/sarvpriya1985)\
**Replies:** 3\
**Last updated:** [October 13, 2020, 4:40am UTC](https://discourse.slicer.org/t/vertebral-artery-segmentation/14001 "2020-10-13T04:40:04Z")

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Operating system:Windows 4.11 stable release Hi, I am trying to segment vertebral arteries. After cropping volume, I used threshold to segment vertebral vessels. However, since these vessels cross within vertebral fora…

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## [How can I convert NIFTI files to NRRD files in command lines?](https://discourse.slicer.org/t/how-can-i-convert-nifti-files-to-nrrd-files-in-command-lines/3631)

<div class="topic-metadata">

**Author:** [@Kyu\_Sung\_Choi](https://discourse.slicer.org/u/Kyu_Sung_Choi)\
**Replies:** 13\
**Last updated:** [October 12, 2020, 10:15pm UTC](https://discourse.slicer.org/t/how-can-i-convert-nifti-files-to-nrrd-files-in-command-lines/3631 "2020-10-12T22:15:35Z")

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Hello, I have 4D dynamic susceptibility contrast (DSC) dicom images (T2\* with contrast agent) to analyze. I’ve noticed that I can convert NIFTI files to NRRD files, just by click “Save” in Slicer. However, I want to c…

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## [Calculate harmonic energy of displacement vector field (DVF)](https://discourse.slicer.org/t/calculate-harmonic-energy-of-displacement-vector-field-dvf/5211)

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**Author:** [@11118](https://discourse.slicer.org/u/11118)\
**Replies:** 15\
**Last updated:** [October 12, 2020, 2:50pm UTC](https://discourse.slicer.org/t/calculate-harmonic-energy-of-displacement-vector-field-dvf/5211 "2020-10-12T14:50:42Z")

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After registration produces DVF, how to use 3Dslicer to calculate its jacobian and harmonic energy.Just like the evaluation framework in this article:A framework for deformable image registration validation in radiothera…

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## [difficulty importing DICOM and volume rendering](https://discourse.slicer.org/t/difficulty-importing-dicom-and-volume-rendering/13990)

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**Author:** [@Sz368](https://discourse.slicer.org/u/Sz368)\
**Replies:** 4\
**Last updated:** [October 12, 2020, 1:28pm UTC](https://discourse.slicer.org/t/difficulty-importing-dicom-and-volume-rendering/13990 "2020-10-12T13:28:33Z")

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Operating system: Windows 10 Slicer version: 4.11.20200930 Expected behavior: when i drag and drop the DICOM provided in the troubleshoot page (QIN-HEADNECK-01-0024-CT) or my own DICOM volume render might work Actual…

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## [Use 3D slicer with VR for teaching](https://discourse.slicer.org/t/use-3d-slicer-with-vr-for-teaching/13890)

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**Author:** [@sebstax](https://discourse.slicer.org/u/sebstax)\
**Replies:** 10\
**Last updated:** [October 12, 2020, 8:16am UTC](https://discourse.slicer.org/t/use-3d-slicer-with-vr-for-teaching/13890 "2020-10-12T08:16:38Z")

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Dear all, Have you ever used 3D slicer with virtual reality to teach? Is there a way to build pedagogical content with 3D slicer such as, locate the appropriate part, annotate the correct part? I’ll be interested in g…

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## [Need volumetric mesh from Slicer](https://discourse.slicer.org/t/need-volumetric-mesh-from-slicer/13623)

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**Author:** [@masud407](https://discourse.slicer.org/u/masud407)\
**Replies:** 6\
**Last updated:** [October 12, 2020, 4:51am UTC](https://discourse.slicer.org/t/need-volumetric-mesh-from-slicer/13623 "2020-10-12T04:51:02Z")

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Hello, I have segmented a spine CT scan data using slicer. I need to import it in to the finite element software (ANSYS or Abaqus). I need to have meshing file for this. The file I get from segmentation using slicer is …

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## [A question about contact condition](https://discourse.slicer.org/t/a-question-about-contact-condition/13983)

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**Author:** [@xxl](https://discourse.slicer.org/u/xxl)\
**Replies:** 4\
**Last updated:** [October 12, 2020, 3:01am UTC](https://discourse.slicer.org/t/a-question-about-contact-condition/13983 "2020-10-12T03:01:00Z")

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Hello.I’m new here and want to know whether the contact coordinates generated in 3D slicer are individual space or standard space.

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## [Problem with thin vessel walls](https://discourse.slicer.org/t/problem-with-thin-vessel-walls/13914)

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**Author:** [@Andreas](https://discourse.slicer.org/u/Andreas)\
**Replies:** 19\
**Last updated:** [October 11, 2020, 9:30pm UTC](https://discourse.slicer.org/t/problem-with-thin-vessel-walls/13914 "2020-10-11T21:30:08Z")

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I would like to print vessel models with a wall thickness of 0.3 mm. As you can see from the attached appendix, I already have problems with a wall thickness of 0.4 and 0.5 mm. Can you please tell me why these holes are …

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## [Odd appearance of model in slice view in projection mode](https://discourse.slicer.org/t/odd-appearance-of-model-in-slice-view-in-projection-mode/13988)

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**Author:** [@riep](https://discourse.slicer.org/u/riep)\
**Replies:** 2\
**Last updated:** [October 11, 2020, 7:55pm UTC](https://discourse.slicer.org/t/odd-appearance-of-model-in-slice-view-in-projection-mode/13988 "2020-10-11T19:55:10Z")

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Hi everyone, I have spotted a strange behavior of models with slice display in projection mode. (Slicer 11) If you look at the yellow slice scene you should not see the model as it is out of range. This is well display…

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## [Using one segmentation to subtract out from another during thresholding](https://discourse.slicer.org/t/using-one-segmentation-to-subtract-out-from-another-during-thresholding/13978)

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**Author:** [@Stone18jo](https://discourse.slicer.org/u/Stone18jo)\
**Replies:** 2\
**Last updated:** [October 11, 2020, 3:27pm UTC](https://discourse.slicer.org/t/using-one-segmentation-to-subtract-out-from-another-during-thresholding/13978 "2020-10-11T15:27:01Z")

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Hello all! I am trying to create 2 separate models for teeth that are biting together (occluding). It takes a while to isolate the lower teeth. Because they are touching, I then have to repeat the process. Instead I …

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## [A question with slicer 4.10.2](https://discourse.slicer.org/t/a-question-with-slicer-4-10-2/13982)

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**Author:** [@xxl](https://discourse.slicer.org/u/xxl)\
**Replies:** 0\
**Last updated:** [October 11, 2020, 2:40am UTC](https://discourse.slicer.org/t/a-question-with-slicer-4-10-2/13982 "2020-10-11T02:40:36Z")

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Hello.I want to know whether the contact coordinates generated in Slicer are individual space or standard space.Looking forward to your reply!

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## [Problem with extension installation on Ubuntu](https://discourse.slicer.org/t/problem-with-extension-installation-on-ubuntu/13979)

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**Author:** [@whirl](https://discourse.slicer.org/u/whirl)\
**Replies:** 2\
**Last updated:** [October 10, 2020, 9:47pm UTC](https://discourse.slicer.org/t/problem-with-extension-installation-on-ubuntu/13979 "2020-10-10T21:47:55Z")

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Hello. I can not install any extension on my 4.10.2 version on Ubuntu 18.04.05. When I go to the Extension Manager and try to run it, the program switches off. How can I fix it?

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## [how to create 3d surface rendering of 3D echocardiogram](https://discourse.slicer.org/t/how-to-create-3d-surface-rendering-of-3d-echocardiogram/5103)

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**Author:** [@gptruncus](https://discourse.slicer.org/u/gptruncus)\
**Replies:** 2\
**Last updated:** [December 17, 2018, 11:00pm UTC](https://discourse.slicer.org/t/how-to-create-3d-surface-rendering-of-3d-echocardiogram/5103 "2018-12-17T23:00:08Z")

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Operating system:Mac or Windows(have both) Slicer version:4.11.0 Expected behavior: Actual behavior: Hello, another user posted asking to create a surface rendering of a heart CT/MRI, and Im wondering how to do this …

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## [How to stitch two DICOM X-ray files to form a full length integrated DICOM file](https://discourse.slicer.org/t/how-to-stitch-two-dicom-x-ray-files-to-form-a-full-length-integrated-dicom-file/12229)

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**Author:** [@Beygi](https://discourse.slicer.org/u/Beygi)\
**Replies:** 5\
**Last updated:** [October 10, 2020, 8:20pm UTC](https://discourse.slicer.org/t/how-to-stitch-two-dicom-x-ray-files-to-form-a-full-length-integrated-dicom-file/12229 "2020-10-10T20:20:36Z")

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Operating system: Windows 7 Slicer version:4.5.0 Expected behavior: Actual behavior: Dear Community, Hope this message finds you all well. Beforehand, I am sorry as the question may look superficial to some of you. …

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## [How can I overlap live camera feed (2-D image) with the CT scan model for an Augmented Reality feel?](https://discourse.slicer.org/t/how-can-i-overlap-live-camera-feed-2-d-image-with-the-ct-scan-model-for-an-augmented-reality-feel/13273)

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**Author:** [@rak\_shrma](https://discourse.slicer.org/u/rak_shrma)\
**Replies:** 4\
**Last updated:** [October 10, 2020, 11:17am UTC](https://discourse.slicer.org/t/how-can-i-overlap-live-camera-feed-2-d-image-with-the-ct-scan-model-for-an-augmented-reality-feel/13273 "2020-10-10T11:17:30Z")

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We want to overlay the live camera feed with the CT scan model. The method to calculate the transformation matrix for accurate positioning has been worked out. However, we are struggling with the integration of both 2-D …

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## [Volume Rendering module UI redesign](https://discourse.slicer.org/t/volume-rendering-module-ui-redesign/13956)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 7\
**Last updated:** [October 10, 2020, 4:08am UTC](https://discourse.slicer.org/t/volume-rendering-module-ui-redesign/13956 "2020-10-10T04:08:35Z")

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Is there any plan to revamp the volume rendering module for upcoming stable or is it the too much to deal without specific funding? At the minimum, without touching the core or adding any features, I would suggest reorg…

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## [Convert image and segmentation to DICOM](https://discourse.slicer.org/t/convert-image-and-segmentation-to-dicom/543)

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**Author:** [@Josiah\_McAllister](https://discourse.slicer.org/u/Josiah_McAllister)\
**Replies:** 15\
**Last updated:** [June 22, 2017, 2:27am UTC](https://discourse.slicer.org/t/convert-image-and-segmentation-to-dicom/543 "2017-06-22T02:27:42Z")

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## [New Slicer stable release 4.11.20200930](https://discourse.slicer.org/t/new-slicer-stable-release-4-11-20200930/13865)

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**Author:** [@brhoom](https://discourse.slicer.org/u/brhoom)\
**Replies:** 4\
**Last updated:** [October 5, 2020, 6:00pm UTC](https://discourse.slicer.org/t/new-slicer-stable-release-4-11-20200930/13865 "2020-10-05T18:00:47Z")

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Congratulation on the new stable release :slight\_smile: It would be nice if you update the homepage as well, it is still saying 4.1.2.

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## [Realistic Models, or captures](https://discourse.slicer.org/t/realistic-models-or-captures/13955)

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**Author:** [@Ugi\_Mikla](https://discourse.slicer.org/u/Ugi_Mikla)\
**Replies:** 1\
**Last updated:** [October 9, 2020, 1:22pm UTC](https://discourse.slicer.org/t/realistic-models-or-captures/13955 "2020-10-09T13:22:24Z")

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Hi! I was wondering if there exists a module or extension where i can work my 3D models, applying textures, shadows, lights, to create a realistic scene or model. Thank u! Eugenia

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## [slicer.dicomDatabase is 'Nonetype'](https://discourse.slicer.org/t/slicer-dicomdatabase-is-nonetype/13954)

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**Author:** [@CHEN\_LIU](https://discourse.slicer.org/u/CHEN_LIU)\
**Replies:** 1\
**Last updated:** [October 9, 2020, 1:13pm UTC](https://discourse.slicer.org/t/slicer-dicomdatabase-is-nonetype/13954 "2020-10-09T13:13:50Z")

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I was trying to use python script to transfer Dicom to nrrd. But the code ‘slicer.dicomDatabase.fileValue’ doesn’t work. It reports ‘Nonetype’ has no attribute fileValue. Does anyone know what’s the problem and how t…

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## [Volume display - Interpolate turned off by default in newest stable?](https://discourse.slicer.org/t/volume-display-interpolate-turned-off-by-default-in-newest-stable/13918)

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**Author:** [@hherhold](https://discourse.slicer.org/u/hherhold)\
**Replies:** 16\
**Last updated:** [October 9, 2020, 2:12am UTC](https://discourse.slicer.org/t/volume-display-interpolate-turned-off-by-default-in-newest-stable/13918 "2020-10-09T02:12:24Z")

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Hey all, Newest stable looks awesome. Rock solid for me so far (MacOS). I did notice that Interpolate is turned off by default in the Volumes module. Is this new? Thanks! -Hollister

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## [Threading in Slicer 3d](https://discourse.slicer.org/t/threading-in-slicer-3d/13931)

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**Author:** [@Chintha\_Siva\_Prasad](https://discourse.slicer.org/u/Chintha_Siva_Prasad)\
**Replies:** 2\
**Last updated:** [October 8, 2020, 7:12pm UTC](https://discourse.slicer.org/t/threading-in-slicer-3d/13931 "2020-10-08T19:12:37Z")

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I am creating a progress bar in slicer. But when using threads slicer is exiting abnormally. This the runnable I created This is the driver code Why is the slicer exiting? Can I know how to create a progress bar…

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## [Threshold in Segment Editor does not apply Segmentation](https://discourse.slicer.org/t/threshold-in-segment-editor-does-not-apply-segmentation/13937)

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**Author:** [@Fadyed](https://discourse.slicer.org/u/Fadyed)\
**Replies:** 2\
**Last updated:** [October 8, 2020, 4:57pm UTC](https://discourse.slicer.org/t/threshold-in-segment-editor-does-not-apply-segmentation/13937 "2020-10-08T16:57:47Z")

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Operating system:Win Slicer version:4.10.2 Expected behavior: Apply threshold segmentation after successful preview Actual behavior: “Apply” does nothing. segmentation is erased if Module or Tool are switched I ne…

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## [3D view doesn't change](https://discourse.slicer.org/t/3d-view-doesnt-change/13933)

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**Author:** [@arifeuzundurukan](https://discourse.slicer.org/u/arifeuzundurukan)\
**Replies:** 3\
**Last updated:** [October 8, 2020, 4:38pm UTC](https://discourse.slicer.org/t/3d-view-doesnt-change/13933 "2020-10-08T16:38:39Z")

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Hello everyone, I do not understand why I see the 3D picture even I hide the all of the parts. Also, I couldn’t see seperately in 3D when I try to click the eye icon neither for soft tissue or for rib cage . Could you …

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## [Proportional Transformation](https://discourse.slicer.org/t/proportional-transformation/13904)

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**Author:** [@manjula](https://discourse.slicer.org/u/manjula)\
**Replies:** 3\
**Last updated:** [October 8, 2020, 1:22am UTC](https://discourse.slicer.org/t/proportional-transformation/13904 "2020-10-08T01:22:28Z")

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Hi all, Is there a way to move a part of a segment proportionally in relation to another segment 3D Slicer? I have attached a photo to illustrate it something i did via Blender. For example, when I move the mandible …

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## [save segmentation  ](https://discourse.slicer.org/t/save-segmentation/13923)

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**Author:** [@Eslam\_Abdo](https://discourse.slicer.org/u/Eslam_Abdo)\
**Replies:** 1\
**Last updated:** [October 7, 2020, 7:59pm UTC](https://discourse.slicer.org/t/save-segmentation/13923 "2020-10-07T19:59:48Z")

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Operating system: MACOS Slicer version: 4.10.2 I saved my segmentation as labelmap and I read it from python and I need to know the structure of the data to use it in my deep learning model

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## [Checksum for retrieved DICOM](https://discourse.slicer.org/t/checksum-for-retrieved-dicom/13922)

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**Author:** [@xriobe](https://discourse.slicer.org/u/xriobe)\
**Replies:** 4\
**Last updated:** [October 7, 2020, 3:22pm UTC](https://discourse.slicer.org/t/checksum-for-retrieved-dicom/13922 "2020-10-07T15:22:38Z")

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Hi, we are using the DICOM browser module in our application, and i am looking for a way to check the integrity of the data retrieved from a PACS. Does anybody know if there is an available mechanism to do that (in Sli…

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## [How to access child node](https://discourse.slicer.org/t/how-to-access-child-node/13866)

<div class="topic-metadata">

**Author:** [@aldoSanchez](https://discourse.slicer.org/u/aldoSanchez)\
**Replies:** 3\
**Last updated:** [October 7, 2020, 2:22pm UTC](https://discourse.slicer.org/t/how-to-access-child-node/13866 "2020-10-07T14:22:17Z")

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how can i access child node by code. for example : the Segmentation node has child nodes: Left-Cerebral-White-Matter Left-Cerebral-Cortex …

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