# Support

**URL:** https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=85

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

**Page:** 86

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## [Aligning Segmented Tumor Volumes Across MRI Sequences ](https://discourse.slicer.org/t/aligning-segmented-tumor-volumes-across-mri-sequences/37196)

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**Author:** [@Matthias\_Anders](https://discourse.slicer.org/u/Matthias_Anders)\
**Replies:** 1\
**Last updated:** [July 5, 2024, 4:58pm UTC](https://discourse.slicer.org/t/aligning-segmented-tumor-volumes-across-mri-sequences/37196 "2024-07-05T16:58:28Z")

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Hello everyone, I work with MRI data using different contrast sequences (referred to as sequences). I’m facing an issue with aligning segmented tumor volumes across these sequences. Initially, I loaded and segmented tum…

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## [Speed issues during segmentation](https://discourse.slicer.org/t/speed-issues-during-segmentation/37207)

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**Author:** [@Istvan](https://discourse.slicer.org/u/Istvan)\
**Replies:** 1\
**Last updated:** [July 5, 2024, 11:06am UTC](https://discourse.slicer.org/t/speed-issues-during-segmentation/37207 "2024-07-05T11:06:52Z")

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Windows version: 10.0.22631 Build 22631 Slicer Version: 4.11.20200930 r29402 / 002be18 Expected behavior: similar slicing speed in case of a geometry and also in case of its inverse Actual behavior: significant differ…

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## [Unable to open a scene](https://discourse.slicer.org/t/unable-to-open-a-scene/37166)

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**Author:** [@Noa](https://discourse.slicer.org/u/Noa)\
**Replies:** 3\
**Last updated:** [July 5, 2024, 11:05am UTC](https://discourse.slicer.org/t/unable-to-open-a-scene/37166 "2024-07-05T11:05:19Z")

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Hello, I’ve been using slicer to create a .mrb scene but when I try to open it I get this message : Error: Loading C:/Users/Eleve/Desktop/Scene010724.mrb - ERROR: In vtkXMLParser.cxx, line 380 vtkMRMLParser (000001C6A…

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## [Extensions python help](https://discourse.slicer.org/t/extensions-python-help/37209)

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**Author:** [@xuxu](https://discourse.slicer.org/u/xuxu)\
**Replies:** 0\
**Last updated:** [July 5, 2024, 9:24am UTC](https://discourse.slicer.org/t/extensions-python-help/37209 "2024-07-05T09:24:08Z")

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As a programming beginner who has just learned python, I am very interested in the project of 3d slicer. I want to develop a python plug-in to realize the extraction function of shape in radiomic with a simple ui interfa…

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## [3D segmentation eraser tool - excessive compute?](https://discourse.slicer.org/t/3d-segmentation-eraser-tool-excessive-compute/37203)

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**Author:** [@hari\_seldon](https://discourse.slicer.org/u/hari_seldon)\
**Replies:** 3\
**Last updated:** [July 4, 2024, 10:50pm UTC](https://discourse.slicer.org/t/3d-segmentation-eraser-tool-excessive-compute/37203 "2024-07-04T22:50:36Z")

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Hello, I am annotating a 256x256x256 cube of voxels in 3D, through removing excess semantic mask to generate instance segmentations, and the eraser tool is crippling laggy on an amd7950X, rtx4080S, 128Gddr5, 7500mb/s nvm…

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## [Pyradiomics voxel-based extraction adds empty slices when using rectangular mask](https://discourse.slicer.org/t/pyradiomics-voxel-based-extraction-adds-empty-slices-when-using-rectangular-mask/37197)

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**Author:** [@davidpalomino6](https://discourse.slicer.org/u/davidpalomino6)\
**Replies:** 0\
**Last updated:** [July 4, 2024, 3:21pm UTC](https://discourse.slicer.org/t/pyradiomics-voxel-based-extraction-adds-empty-slices-when-using-rectangular-mask/37197 "2024-07-04T15:21:17Z")

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Operating system: Windows 11 Slicer version: 4.11 Expected behavior: I am trying to get the radiomic maps based on the voxel-based extraction provided by pyradiomics. In addition, I am trying to obtain the radiomics ma…

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## [DentalSegmentator for condyle segmentation?](https://discourse.slicer.org/t/dentalsegmentator-for-condyle-segmentation/36847)

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**Author:** [@crosswick](https://discourse.slicer.org/u/crosswick)\
**Replies:** 4\
**Last updated:** [July 4, 2024, 8:38am UTC](https://discourse.slicer.org/t/dentalsegmentator-for-condyle-segmentation/36847 "2024-07-04T08:38:34Z")

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@Gauthier thank you so much for this! Finally I can see my condyles in glorious 3D :smiley:

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## [How to cut model into half](https://discourse.slicer.org/t/how-to-cut-model-into-half/37164)

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**Author:** [@huwqchn](https://discourse.slicer.org/u/huwqchn)\
**Replies:** 3\
**Last updated:** [July 4, 2024, 6:39am UTC](https://discourse.slicer.org/t/how-to-cut-model-into-half/37164 "2024-07-04T06:39:54Z")

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Hi, I’d like to know how to create a cross-section in 3D Slicer by adding multiple control points to slice a 3D model into two parts.

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## [Slicer Not Responding on Windows11](https://discourse.slicer.org/t/slicer-not-responding-on-windows11/23235)

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**Author:** [@Yun\_Chen](https://discourse.slicer.org/u/Yun_Chen)\
**Replies:** 7\
**Last updated:** [July 3, 2024, 8:44pm UTC](https://discourse.slicer.org/t/slicer-not-responding-on-windows11/23235 "2024-07-03T20:44:02Z")

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Dear friends, I upgraded my system to Windows 11 recently, and the 3D Slicer no longer working. When I open 3D Slicer, after the flashes loading all the modules and poping up the Slicer interface, the window white out …

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## [GetPlaneCornerPoints function and vtkPoints Class](https://discourse.slicer.org/t/getplanecornerpoints-function-and-vtkpoints-class/37125)

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**Author:** [@ahenry](https://discourse.slicer.org/u/ahenry)\
**Replies:** 1\
**Last updated:** [July 3, 2024, 6:37pm UTC](https://discourse.slicer.org/t/getplanecornerpoints-function-and-vtkpoints-class/37125 "2024-07-03T18:37:02Z")

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Hello, I am interested in calling the RAS coordinates of the corners of markup planes after they have been created and rotated. I checked the api docs and found that the vtkMRMLMarkupsPlaneNode class has a GetPlaneCorne…

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## [Exporting only coronal slices to DICOM?](https://discourse.slicer.org/t/exporting-only-coronal-slices-to-dicom/37177)

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**Author:** [@hannaho](https://discourse.slicer.org/u/hannaho)\
**Replies:** 1\
**Last updated:** [July 3, 2024, 2:21pm UTC](https://discourse.slicer.org/t/exporting-only-coronal-slices-to-dicom/37177 "2024-07-03T14:21:03Z")

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Hi all, I have produced some fused image volumes I would like to share with my colleagues who don’t have Slicer and need them as DICOM files. I’ve been able to export them ok, except for some reason they only see the ax…

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## [CT scans dataset with arterial phase images](https://discourse.slicer.org/t/ct-scans-dataset-with-arterial-phase-images/37172)

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**Author:** [@ILB](https://discourse.slicer.org/u/ILB)\
**Replies:** 0\
**Last updated:** [July 3, 2024, 10:18am UTC](https://discourse.slicer.org/t/ct-scans-dataset-with-arterial-phase-images/37172 "2024-07-03T10:18:13Z")

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Hello! Do you know of any existing dataset available to download with CT scans of arterial phase? I need images for vessel segmentations, and in other datasets i have found, the contrast in the scan is not enough for my…

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## [Tools for Making Sagittal, Coronal, and Transverse Cuts in MRI Models](https://discourse.slicer.org/t/tools-for-making-sagittal-coronal-and-transverse-cuts-in-mri-models/37163)

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**Author:** [@Maria\_Ardila](https://discourse.slicer.org/u/Maria_Ardila)\
**Replies:** 0\
**Last updated:** [July 3, 2024, 3:48am UTC](https://discourse.slicer.org/t/tools-for-making-sagittal-coronal-and-transverse-cuts-in-mri-models/37163 "2024-07-03T03:48:56Z")

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Hello, I have this model that I obtained from an MRI scan. Is there any tool or method to make sagittal, coronal, and transverse cuts to this 3D object? It would be very helpful.

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## [Total Segmentator 1 - heartchambers highres](https://discourse.slicer.org/t/total-segmentator-1-heartchambers-highres/32505)

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**Author:** [@Investigacion\_y\_des1](https://discourse.slicer.org/u/Investigacion_y_des1)\
**Replies:** 6\
**Last updated:** [July 3, 2024, 12:55am UTC](https://discourse.slicer.org/t/total-segmentator-1-heartchambers-highres/32505 "2024-07-03T00:55:45Z")

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Hi ! I’m having trouble with the total segmentator 1, I installed the github, but when I run the heartchambers option, this sign appears: Do I need to install anything more? Does it happened to any of you? Many thanks…

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## [Superimposition CBCT](https://discourse.slicer.org/t/superimposition-cbct/37158)

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**Author:** [@MARIA\_Santos](https://discourse.slicer.org/u/MARIA_Santos)\
**Replies:** 0\
**Last updated:** [July 2, 2024, 9:00pm UTC](https://discourse.slicer.org/t/superimposition-cbct/37158 "2024-07-02T21:00:09Z")

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Hello, Can someone tell me how to superimpose two CBCTs and measure a linear distance between the two? Thank you!

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## [resample a series of radial images into 3D cartesian volume](https://discourse.slicer.org/t/resample-a-series-of-radial-images-into-3d-cartesian-volume/37130)

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**Author:** [@heatherdrury](https://discourse.slicer.org/u/heatherdrury)\
**Replies:** 2\
**Last updated:** [July 2, 2024, 8:53pm UTC](https://discourse.slicer.org/t/resample-a-series-of-radial-images-into-3d-cartesian-volume/37130 "2024-07-02T20:53:31Z")

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Operating system: Win 10 Slicer version: 5.6.2 Expected behavior: Actual behavior: Hi, i’m new to slicer but i did read the documentation and tried to find a similar topic. I have a set of images from a rotational sc…

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## [Single slide segmentation](https://discourse.slicer.org/t/single-slide-segmentation/37156)

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**Author:** [@MReza](https://discourse.slicer.org/u/MReza)\
**Replies:** 0\
**Last updated:** [July 2, 2024, 6:25pm UTC](https://discourse.slicer.org/t/single-slide-segmentation/37156 "2024-07-02T18:25:51Z")

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Hello everyone, I have a couple of questions regarding the procedure for AI segmentation using UNet for ultrasound segmentation. Firstly, is there any way to export the segmentation from the single slide segmentation d…

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## [Total Segmentator "fast mode" cant be turned off](https://discourse.slicer.org/t/total-segmentator-fast-mode-cant-be-turned-off/37155)

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**Author:** [@Luigi110](https://discourse.slicer.org/u/Luigi110)\
**Replies:** 0\
**Last updated:** [July 2, 2024, 5:31pm UTC](https://discourse.slicer.org/t/total-segmentator-fast-mode-cant-be-turned-off/37155 "2024-07-02T17:31:22Z")

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I am running the segmentation on a CPU and when ever I run total segmentator, and it gives me the option to run it on “fast mode” or “full resolution”, I choose full resolution but it still runs in fast mode. During the …

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## [Visibility of markups angle in 2D slice views is unlike other markups](https://discourse.slicer.org/t/visibility-of-markups-angle-in-2d-slice-views-is-unlike-other-markups/37091)

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**Author:** [@jamesobutler](https://discourse.slicer.org/u/jamesobutler)\
**Replies:** 3\
**Last updated:** [July 2, 2024, 3:32pm UTC](https://discourse.slicer.org/t/visibility-of-markups-angle-in-2d-slice-views-is-unlike-other-markups/37091 "2024-07-02T15:32:30Z")

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Why is that the Markups Angle lines can be seen across multiple slice offsets while other markup types such as Line is only seen in the slice offset drawn? I was confused when I was seeing the lines of the angle without …

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## [Configure Settings for System (not just User)](https://discourse.slicer.org/t/configure-settings-for-system-not-just-user/37150)

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**Author:** [@connorh](https://discourse.slicer.org/u/connorh)\
**Replies:** 0\
**Last updated:** [July 2, 2024, 3:11pm UTC](https://discourse.slicer.org/t/configure-settings-for-system-not-just-user/37150 "2024-07-02T15:11:02Z")

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Hello, I’m trying to configure Slicer settings for a system that will be accessed by multiple users during a study. Just like this post I would like to set the settings to be system-wide rather than just for a single us…

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## [Flipped volume on 3D view but correct on red/green/yellow](https://discourse.slicer.org/t/flipped-volume-on-3d-view-but-correct-on-red-green-yellow/37143)

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**Author:** [@coco](https://discourse.slicer.org/u/coco)\
**Replies:** 1\
**Last updated:** [July 2, 2024, 2:44pm UTC](https://discourse.slicer.org/t/flipped-volume-on-3d-view-but-correct-on-red-green-yellow/37143 "2024-07-02T14:44:36Z")

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Dear all, I had a very odd thing happenning to me. I used the crop volume module to create left and right brain hemispheres out of a full brain. First sample went well. Second sample I had this flip between the two hemi…

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## [SlicerRadiomics extension](https://discourse.slicer.org/t/slicerradiomics-extension/37110)

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**Author:** [@Uche\_Anakwenze](https://discourse.slicer.org/u/Uche_Anakwenze)\
**Replies:** 1\
**Last updated:** [July 2, 2024, 10:04am UTC](https://discourse.slicer.org/t/slicerradiomics-extension/37110 "2024-07-02T10:04:43Z")

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Please I have been trying to install radiomics for over 3 weeks now, but to no avail. I came accross SlicerRadiomics extension. I followed install instruction and installed it but it is not showing in ny anaconda environ…

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## ["Adding data failed" Files edited with "Segment Editor" cannot be reopened](https://discourse.slicer.org/t/adding-data-failed-files-edited-with-segment-editor-cannot-be-reopened/37058)

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**Author:** [@JSteinJ](https://discourse.slicer.org/u/JSteinJ)\
**Replies:** 13\
**Last updated:** [July 2, 2024, 9:16am UTC](https://discourse.slicer.org/t/adding-data-failed-files-edited-with-segment-editor-cannot-be-reopened/37058 "2024-07-02T09:16:01Z")

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using slicer 5.6.2 on win11 we are segmenting a few hundred mri brain images. we have mri scans stored in .nii.gz format. we have segmentations stored in the same .nii.gz format. now we are adding new features so we …

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## [MONAI and TotalSegmentator](https://discourse.slicer.org/t/monai-and-totalsegmentator/36636)

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**Author:** [@khajta](https://discourse.slicer.org/u/khajta)\
**Replies:** 9\
**Last updated:** [July 2, 2024, 2:25am UTC](https://discourse.slicer.org/t/monai-and-totalsegmentator/36636 "2024-07-02T02:25:54Z")

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What is the difference between using MONAI Auto3DSeg and TotalSegmentor for automatic segmentation? There is also TotalSegmentator in MONAI Auto3DSeg.

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## [Volume rendering colors scheme changes automatically](https://discourse.slicer.org/t/volume-rendering-colors-scheme-changes-automatically/37118)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 2\
**Last updated:** [July 2, 2024, 2:20am UTC](https://discourse.slicer.org/t/volume-rendering-colors-scheme-changes-automatically/37118 "2024-07-02T02:20:36Z")

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volume renderering colors scheme changes automatically after opening file again . it happens randomly and changes to this specific color scheme in the pic

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## [Localizing a Fiducial Marker in a DICOM Volume](https://discourse.slicer.org/t/localizing-a-fiducial-marker-in-a-dicom-volume/37129)

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**Author:** [@lxedk](https://discourse.slicer.org/u/lxedk)\
**Replies:** 0\
**Last updated:** [July 1, 2024, 7:25pm UTC](https://discourse.slicer.org/t/localizing-a-fiducial-marker-in-a-dicom-volume/37129 "2024-07-01T19:25:40Z")

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Hello all, I’m pretty new to 3D Slicer, and need some help with a project of mine. I have several DICOM volumes from MRI and I am trying to localize a fiducial marker that has a particular geometry. I have an STL of sai…

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## [Reorient MPR slice for 2d segmentation](https://discourse.slicer.org/t/reorient-mpr-slice-for-2d-segmentation/36724)

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**Author:** [@rxl](https://discourse.slicer.org/u/rxl)\
**Replies:** 8\
**Last updated:** [July 1, 2024, 2:19pm UTC](https://discourse.slicer.org/t/reorient-mpr-slice-for-2d-segmentation/36724 "2024-07-01T14:19:56Z")

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I was searching for a way to resample a volume in the orientation of multiplanar reformation (using 3d Slicer’s “interactive slice intersections” feature), with the goal of creating a 2d segmentation that lives in 1 slic…

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## [Why is SegmentStatistics slower in Python console?](https://discourse.slicer.org/t/why-is-segmentstatistics-slower-in-python-console/31379)

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**Author:** [@chir.set](https://discourse.slicer.org/u/chir.set)\
**Replies:** 1\
**Last updated:** [July 1, 2024, 8:12am UTC](https://discourse.slicer.org/t/why-is-segmentstatistics-slower-in-python-console/31379 "2024-07-01T08:12:11Z")

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SegmentStatistics computation runs at least at half speed in the Python console than in the module’s widget. With a single segment drawn with the Paint tool at 3% and a sphere brush, the execution time is 0.40 secs in t…

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## [How to get first and last contact point between a vtkMRMLMarkupsCurveNode and a model?](https://discourse.slicer.org/t/how-to-get-first-and-last-contact-point-between-a-vtkmrmlmarkupscurvenode-and-a-model/37108)

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**Author:** [@apparrilla](https://discourse.slicer.org/u/apparrilla)\
**Replies:** 1\
**Last updated:** [June 30, 2024, 7:49pm UTC](https://discourse.slicer.org/t/how-to-get-first-and-last-contact-point-between-a-vtkmrmlmarkupscurvenode-and-a-model/37108 "2024-06-30T19:49:14Z")

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I have a bone model crossed by a curveNove. Any of the control points in curveNode are in model surface but I want to get them. I´ve used vtk.vtkOBBTree() with IntersectWithLine for lines but I can´t find something s…

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## [Smoothing a model](https://discourse.slicer.org/t/smoothing-a-model/15209)

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**Author:** [@treecrotch](https://discourse.slicer.org/u/treecrotch)\
**Replies:** 21\
**Last updated:** [June 30, 2024, 5:00pm UTC](https://discourse.slicer.org/t/smoothing-a-model/15209 "2024-06-30T17:00:01Z")

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Hi. I’m sorry if this is asked often… I started a basic segmentation of a femur from an MRI Here is a picture: How do you smooth it and get rid of those largely stair stepped sides…

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