# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=198

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

**Page:** 199

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## [How to perform automatic segmentation and rendering of the heart](https://discourse.slicer.org/t/how-to-perform-automatic-segmentation-and-rendering-of-the-heart/25870)

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**Author:** [@yuanlinliu](https://discourse.slicer.org/u/yuanlinliu)\
**Replies:** 1\
**Last updated:** [October 24, 2022, 5:57pm UTC](https://discourse.slicer.org/t/how-to-perform-automatic-segmentation-and-rendering-of-the-heart/25870 "2022-10-24T17:57:27Z")

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Operating system:window10 Slicer version:slicer 5.0.3 Expected behavior:When I import the dicom file, the software can automatically generate the 3D model of the heart part and render it automatically without any other…

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## [dti brain fa white matter tract measurements mean/sd data](https://discourse.slicer.org/t/dti-brain-fa-white-matter-tract-measurements-mean-sd-data/25869)

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**Author:** [@Paul1](https://discourse.slicer.org/u/Paul1)\
**Replies:** 0\
**Last updated:** [October 24, 2022, 5:26pm UTC](https://discourse.slicer.org/t/dti-brain-fa-white-matter-tract-measurements-mean-sd-data/25869 "2022-10-24T17:26:30Z")

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Operating system: Slicer version: Expected behavior: Actual behavior:

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## [Stack several images along channel dimension to create multichannel images (e.g. 4D volume)](https://discourse.slicer.org/t/stack-several-images-along-channel-dimension-to-create-multichannel-images-e-g-4d-volume/25813)

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**Author:** [@mangotee](https://discourse.slicer.org/u/mangotee)\
**Replies:** 3\
**Last updated:** [October 24, 2022, 11:42am UTC](https://discourse.slicer.org/t/stack-several-images-along-channel-dimension-to-create-multichannel-images-e-g-4d-volume/25813 "2022-10-24T11:42:42Z")

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Hi, I sometimes need to stack several 2D/3D images/volumes along the channel dimension, create a multichannel image and save it as a 4D Nifti/Nrrd. For simplicity’s sake, you can assume that I already have co-registered…

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## [Move the segmentation](https://discourse.slicer.org/t/move-the-segmentation/25860)

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**Author:** [@m.herrero](https://discourse.slicer.org/u/m.herrero)\
**Replies:** 0\
**Last updated:** [October 24, 2022, 11:24am UTC](https://discourse.slicer.org/t/move-the-segmentation/25860 "2022-10-24T11:24:00Z")

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Hi, i’m segmenting head and neck tumors on MRI. As the patient moves/swallows in some sequences I have to MOVE / DISPLACE the segmentation a few milimeters in each sequence, HOW can I do that? Thank you, greets from Am…

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## [Exporting file to .nii and .nii.gz changes the transform in the header](https://discourse.slicer.org/t/exporting-file-to-nii-and-nii-gz-changes-the-transform-in-the-header/24981)

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**Author:** [@koeglfryderyk](https://discourse.slicer.org/u/koeglfryderyk)\
**Replies:** 10\
**Last updated:** [October 24, 2022, 9:21am UTC](https://discourse.slicer.org/t/exporting-file-to-nii-and-nii-gz-changes-the-transform-in-the-header/24981 "2022-10-24T09:21:29Z")

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I have an .mrb with multiple files, from which I export one to .nii.gz When I load the file again, it doesn’t match the original file because it’s affine is changed (I loaded both files in Python with SimpleITK and saw …

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## [Double-barrel fibula flap mandible reconstruction on Slicer](https://discourse.slicer.org/t/double-barrel-fibula-flap-mandible-reconstruction-on-slicer/25726)

<div class="topic-metadata">

**Author:** [@mau\_igna\_06](https://discourse.slicer.org/u/mau_igna_06)\
**Replies:** 5\
**Last updated:** [October 23, 2022, 11:45am UTC](https://discourse.slicer.org/t/double-barrel-fibula-flap-mandible-reconstruction-on-slicer/25726 "2022-10-23T11:45:01Z")

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I see double-barrel (i.e. 2 levels) fibula flap mandible reconstruction support on Virtual Surgical Planning and Custom Fibula Surgical Guide Generation as the most "easy"and impactful change to BoneReconstructionPlanner …

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## [tha meaning of the numbers displayed in DataProbe](https://discourse.slicer.org/t/tha-meaning-of-the-numbers-displayed-in-dataprobe/25823)

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**Author:** [@fukumitsu](https://discourse.slicer.org/u/fukumitsu)\
**Replies:** 2\
**Last updated:** [October 23, 2022, 7:37am UTC](https://discourse.slicer.org/t/tha-meaning-of-the-numbers-displayed-in-dataprobe/25823 "2022-10-23T07:37:52Z")

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Slicer version:5.0.3 Hi 3D slicer experts: I imported Dicom RT DOSE data into 3Dslicer to compare dose distributions using Dose comparison. I want to know the meaning of the numbers displayed in DataProbe. It seemed t…

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## [Image Processing: reslicing a DICOM series generates artifacts](https://discourse.slicer.org/t/image-processing-reslicing-a-dicom-series-generates-artifacts/25841)

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**Author:** [@El\_merendero](https://discourse.slicer.org/u/El_merendero)\
**Replies:** 1\
**Last updated:** [October 22, 2022, 12:46pm UTC](https://discourse.slicer.org/t/image-processing-reslicing-a-dicom-series-generates-artifacts/25841 "2022-10-22T12:46:56Z")

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I am creating a web application to manage 3D biomedical images. From each of these 3D images I would like to extract a slice that is not perpendicular to the principal axes (axial, saggital or coronal). However, the resu…

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## [VMTK error: executing vmtkcenterlines](https://discourse.slicer.org/t/vmtk-error-executing-vmtkcenterlines/25838)

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**Author:** [@gboels](https://discourse.slicer.org/u/gboels)\
**Replies:** 0\
**Last updated:** [October 22, 2022, 11:43am UTC](https://discourse.slicer.org/t/vmtk-error-executing-vmtkcenterlines/25838 "2022-10-22T11:43:53Z")

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Operating system: Windows 11 Famille Slicer version: VMTK 1.4 Actual behavior:

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## [Cannot drag-and-drop segmentation to the application window and unequal view width on Windows11](https://discourse.slicer.org/t/cannot-drag-and-drop-segmentation-to-the-application-window-and-unequal-view-width-on-windows11/25638)

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**Author:** [@radiodid](https://discourse.slicer.org/u/radiodid)\
**Replies:** 5\
**Last updated:** [October 22, 2022, 6:11am UTC](https://discourse.slicer.org/t/cannot-drag-and-drop-segmentation-to-the-application-window-and-unequal-view-width-on-windows11/25638 "2022-10-22T06:11:21Z")

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I used to have 4 equal quadrants while working and now the window with the same settings looks like this and can’t be changed in any way. Also, I can’t copy existing segmentation lists into Slicer. When transferring fil…

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## [Input needed in DWI QC](https://discourse.slicer.org/t/input-needed-in-dwi-qc/25815)

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**Author:** [@ecgt](https://discourse.slicer.org/u/ecgt)\
**Replies:** 2\
**Last updated:** [October 21, 2022, 10:56pm UTC](https://discourse.slicer.org/t/input-needed-in-dwi-qc/25815 "2022-10-21T22:56:44Z")

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I try using Diffusion–\>Process–\>GraQC Input volume I upload the nrrd file but I don’t know about the input volume mask If I check create the mask gives an error What do I have to upload in Input volume mask and how do…

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## [3D Slicer often crashes when using Segment Editor](https://discourse.slicer.org/t/3d-slicer-often-crashes-when-using-segment-editor/25826)

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**Author:** [@torquil](https://discourse.slicer.org/u/torquil)\
**Replies:** 5\
**Last updated:** [October 21, 2022, 8:07pm UTC](https://discourse.slicer.org/t/3d-slicer-often-crashes-when-using-segment-editor/25826 "2022-10-21T20:07:16Z")

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Hi! I am experience quite a lot of crashing when using the Segment Editor (newest 3D Slicer from today on Linux, but older versions also). Typically it happens when I e.g. use “Keep largest island” or when using the sci…

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## [Pixelated coronal and axial views on sagittal MRI dicom](https://discourse.slicer.org/t/pixelated-coronal-and-axial-views-on-sagittal-mri-dicom/25807)

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**Author:** [@Neural](https://discourse.slicer.org/u/Neural)\
**Replies:** 2\
**Last updated:** [October 21, 2022, 1:07pm UTC](https://discourse.slicer.org/t/pixelated-coronal-and-axial-views-on-sagittal-mri-dicom/25807 "2022-10-21T13:07:22Z")

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Hi! I am fairly new to 3d slicer and am exploring the program for segmentation. I have this MRI dicom file of the knee, and I am trying to create a 3d model of the distal femur and proximal tibia. I have axial, coronal, …

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## [DICOM imports single slice only](https://discourse.slicer.org/t/dicom-imports-single-slice-only/25686)

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**Author:** [@Markb](https://discourse.slicer.org/u/Markb)\
**Replies:** 2\
**Last updated:** [October 21, 2022, 12:40pm UTC](https://discourse.slicer.org/t/dicom-imports-single-slice-only/25686 "2022-10-21T12:40:29Z")

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Hi all. I’ve very recently started using 3D Slicer, and I’m using version 4.11.20210226 on a virtual machine hosting “VGate” (using Ubuntu 18.4). I am trying to create some fake CT DICOM files using python and pydicom. …

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## [Issue on auto-crop multiplanar image](https://discourse.slicer.org/t/issue-on-auto-crop-multiplanar-image/25828)

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**Author:** [@damiazlkflee](https://discourse.slicer.org/u/damiazlkflee)\
**Replies:** 1\
**Last updated:** [October 21, 2022, 12:28pm UTC](https://discourse.slicer.org/t/issue-on-auto-crop-multiplanar-image/25828 "2022-10-21T12:28:42Z")

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Operating system: windows 10 Slicer version: 4.11.20210226 r29738 / 7a593c8 Issue: when I uploaded CT scan images, it should show full images of axial, coronal and sagittal (as attached below). But some images appe…

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## [How to change ctk style in Slicer?](https://discourse.slicer.org/t/how-to-change-ctk-style-in-slicer/25696)

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**Author:** [@Mr.Sang](https://discourse.slicer.org/u/Mr.Sang)\
**Replies:** 1\
**Last updated:** [October 21, 2022, 12:20pm UTC](https://discourse.slicer.org/t/how-to-change-ctk-style-in-slicer/25696 "2022-10-21T12:20:15Z")

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How to change ctk style in Slicer? For example, ctkFileDialog, ctkDoubleRangeSlider and so on

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## [Registration of head CT and MRI of sheep](https://discourse.slicer.org/t/registration-of-head-ct-and-mri-of-sheep/14134)

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**Author:** [@ADeane](https://discourse.slicer.org/u/ADeane)\
**Replies:** 5\
**Last updated:** [October 21, 2022, 12:03pm UTC](https://discourse.slicer.org/t/registration-of-head-ct-and-mri-of-sheep/14134 "2022-10-21T12:03:46Z")

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Hi all, Goal: accurately registering head CT (bone) and T1 MRI from ovine subject - to be used for surgical planning. Problem: unable to apply general registration (BRAINS) I am new to using 3D slicer for registratio…

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## [Automatic paint tool along curve](https://discourse.slicer.org/t/automatic-paint-tool-along-curve/25800)

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**Author:** [@bserrano](https://discourse.slicer.org/u/bserrano)\
**Replies:** 7\
**Last updated:** [October 21, 2022, 10:03am UTC](https://discourse.slicer.org/t/automatic-paint-tool-along-curve/25800 "2022-10-21T10:03:22Z")

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Hello, I want to implement a paint tool that can automatically follow a path so I can set the radius and threshold and get the segmentation from the beginning to the end of the curve. Can anyone give some idea how to do…

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## [R-Vessel-X node position help window](https://discourse.slicer.org/t/r-vessel-x-node-position-help-window/25656)

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**Author:** [@Gonzalo\_Rojas\_Costa](https://discourse.slicer.org/u/Gonzalo_Rojas_Costa)\
**Replies:** 1\
**Last updated:** [October 21, 2022, 3:32am UTC](https://discourse.slicer.org/t/r-vessel-x-node-position-help-window/25656 "2022-10-21T03:32:00Z")

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Hi: When I am trying to specify the nodes of the vessels, I tried to view the “node positon help window”, But, that window appears completely blank. Without any tree. Why? Sincerely, Gonzalo Rojas Costa

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## [R-Vessel-X node position](https://discourse.slicer.org/t/r-vessel-x-node-position/25688)

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**Author:** [@Gonzalo\_Rojas\_Costa](https://discourse.slicer.org/u/Gonzalo_Rojas_Costa)\
**Replies:** 1\
**Last updated:** [October 21, 2022, 3:31am UTC](https://discourse.slicer.org/t/r-vessel-x-node-position/25688 "2022-10-21T03:31:30Z")

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Another question: I specified all portal vein nodes. Why the button “Extract Vessels from node tree” continue in gray color without activating it? Sincerely Gonzalo Rojas Costa

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## [R-Vessel-X node position help window (again)s](https://discourse.slicer.org/t/r-vessel-x-node-position-help-window-again-s/25706)

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**Author:** [@Gonzalo\_Rojas\_Costa](https://discourse.slicer.org/u/Gonzalo_Rojas_Costa)\
**Replies:** 1\
**Last updated:** [October 21, 2022, 3:30am UTC](https://discourse.slicer.org/t/r-vessel-x-node-position-help-window-again-s/25706 "2022-10-21T03:30:49Z")

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Hi: When I am trying to specify the nodes of the vessels, I tried to view the “node positon help window”, But, that window appears completely blank. Without any tree. Why? Sincerely, Gonzalo Rojas Costa

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## [R-Vessel-X node position (again)](https://discourse.slicer.org/t/r-vessel-x-node-position-again/25707)

<div class="topic-metadata">

**Author:** [@Gonzalo\_Rojas\_Costa](https://discourse.slicer.org/u/Gonzalo_Rojas_Costa)\
**Replies:** 1\
**Last updated:** [October 21, 2022, 3:30am UTC](https://discourse.slicer.org/t/r-vessel-x-node-position-again/25707 "2022-10-21T03:30:15Z")

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Another question: I specified all portal vein nodes. Why the button “Extract Vessels from node tree” continue in gray color without activating it? Sincerely Gonzalo Rojas Costa

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## [Mean distance calculation of two 3D objects](https://discourse.slicer.org/t/mean-distance-calculation-of-two-3d-objects/25595)

<div class="topic-metadata">

**Author:** [@Chm](https://discourse.slicer.org/u/Chm)\
**Replies:** 4\
**Last updated:** [October 21, 2022, 3:27am UTC](https://discourse.slicer.org/t/mean-distance-calculation-of-two-3d-objects/25595 "2022-10-21T03:27:28Z")

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I load in 3D Slicer two identical 3D objects after segmentation and my target is to compare all the edges between the surfaces of these 3D objects and calculate the mean distance. I use the module “Fiducial Registration …

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## [Missing dots when drawing](https://discourse.slicer.org/t/missing-dots-when-drawing/25675)

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**Author:** [@Leonie](https://discourse.slicer.org/u/Leonie)\
**Replies:** 1\
**Last updated:** [October 21, 2022, 3:16am UTC](https://discourse.slicer.org/t/missing-dots-when-drawing/25675 "2022-10-21T03:16:45Z")

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Slicer version: Slicer 5.0.3 I have a problem with the drawing function in the segment editor. I wanted to calculate the area of fat, muscle and bone by marking them and then use the tool “segment statistics”. But someh…

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## [Merge fiber tracts and a T1 volume](https://discourse.slicer.org/t/merge-fiber-tracts-and-a-t1-volume/25816)

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**Author:** [@ferru](https://discourse.slicer.org/u/ferru)\
**Replies:** 3\
**Last updated:** [October 20, 2022, 9:54pm UTC](https://discourse.slicer.org/t/merge-fiber-tracts-and-a-t1-volume/25816 "2022-10-20T21:54:19Z")

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Operating system: Mac OS Slicer version: 5.02 Expected behavior: Actual behavior: Hi, I have fiber tracts from WMA. I want to merge two of them with the anatomical T1 volume and save as DICOM to export to a Radiothe…

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## [Python call for segmentation node selector in the view controller](https://discourse.slicer.org/t/python-call-for-segmentation-node-selector-in-the-view-controller/25554)

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**Author:** [@BraDan](https://discourse.slicer.org/u/BraDan)\
**Replies:** 2\
**Last updated:** [October 20, 2022, 8:58pm UTC](https://discourse.slicer.org/t/python-call-for-segmentation-node-selector-in-the-view-controller/25554 "2022-10-20T20:58:35Z")

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Hi everybody, I am working with multiple segmentations. When entering: sliceController = slicer.app.layoutManager().sliceWidget(“Red”).sliceController() sliceController.toggleSegmentationOutlineFill() I am able to to…

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## [Exceptions in Slicer in kernel 6.0](https://discourse.slicer.org/t/exceptions-in-slicer-in-kernel-6-0/25808)

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**Author:** [@Alex\_Vergara](https://discourse.slicer.org/u/Alex_Vergara)\
**Replies:** 1\
**Last updated:** [October 20, 2022, 8:51pm UTC](https://discourse.slicer.org/t/exceptions-in-slicer-in-kernel-6-0/25808 "2022-10-20T20:51:10Z")

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When I moved my linux system to use the new kernel 6.0 I started noticing a lot of exceptions like this one. QVariant::save: unable to save type ‘PythonQtSafeObjectPtr’ (type id: 1132). Some extensions don’t worked any…

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## [Models / Scalar Display: Display defined color for areas below threshold](https://discourse.slicer.org/t/models-scalar-display-display-defined-color-for-areas-below-threshold/25757)

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**Author:** [@stephan](https://discourse.slicer.org/u/stephan)\
**Replies:** 2\
**Last updated:** [October 20, 2022, 7:21pm UTC](https://discourse.slicer.org/t/models-scalar-display-display-defined-color-for-areas-below-threshold/25757 "2022-10-20T19:21:18Z")

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Dear Slicer developers, may I make a feature request? In the models module, scalars can by displayed on the surface using a custom color palette. Also, there is a threshold function which allows the display only of thos…

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## [Import 3DUS Stradwin Files](https://discourse.slicer.org/t/import-3dus-stradwin-files/25480)

<div class="topic-metadata">

**Author:** [@PaulT95](https://discourse.slicer.org/u/PaulT95)\
**Replies:** 15\
**Last updated:** [October 20, 2022, 4:53pm UTC](https://discourse.slicer.org/t/import-3dus-stradwin-files/25480 "2022-10-20T16:53:11Z")

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Hi everyone, I have been collecting freehand 3DUS data using StradWin (http://mi.eng.cam.ac.uk/Main/StradWin) but I would like to perform the segmentation in 3D slicer, however, the file format of the recorded data is .…

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## [Stitching volumes](https://discourse.slicer.org/t/stitching-volumes/16972)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 4\
**Last updated:** [October 20, 2022, 3:11pm UTC](https://discourse.slicer.org/t/stitching-volumes/16972 "2022-10-20T15:11:08Z")

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i have neck and chest ct for same patient but in different series , is it possible to stitch the two ? thanks

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