# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=181

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

**Page:** 182

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## [DICOM images, raw or processed ones](https://discourse.slicer.org/t/dicom-images-raw-or-processed-ones/27611)

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**Author:** [@Mahsa1](https://discourse.slicer.org/u/Mahsa1)\
**Replies:** 5\
**Last updated:** [February 4, 2023, 10:58pm UTC](https://discourse.slicer.org/t/dicom-images-raw-or-processed-ones/27611 "2023-02-04T22:58:09Z")

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Hi, I have requested the CT-scan (DICOM format) images from the clinic. They asked me if I need the raw images or processed ones. Could you please tell me which type of images are needed to import 3D Slicer?

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## [Distance from fiducial to a plane](https://discourse.slicer.org/t/distance-from-fiducial-to-a-plane/18766)

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**Author:** [@YingHsu](https://discourse.slicer.org/u/YingHsu)\
**Replies:** 3\
**Last updated:** [February 3, 2023, 9:59pm UTC](https://discourse.slicer.org/t/distance-from-fiducial-to-a-plane/18766 "2023-02-03T21:59:19Z")

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I have a CBCT data, and I want to measure distance from a given fiducial to a plane. I tried extension of “Angle Planes”, but I could not add scene before continuing to manage planes. Is there any extension for measurin…

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## [Extracting 2D Slices shown in 3D Plane](https://discourse.slicer.org/t/extracting-2d-slices-shown-in-3d-plane/27621)

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**Author:** [@tinacai](https://discourse.slicer.org/u/tinacai)\
**Replies:** 0\
**Last updated:** [February 3, 2023, 7:13pm UTC](https://discourse.slicer.org/t/extracting-2d-slices-shown-in-3d-plane/27621 "2023-02-03T19:13:47Z")

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Hi All, I am trying to measure relative bone density. Is there a way that I can identify the slice corresponding to a specific structure and if there’s a way I can merge 2d slices together with the desire structure? Tha…

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## [Exporting volumetric ultrasound to DICOM](https://discourse.slicer.org/t/exporting-volumetric-ultrasound-to-dicom/22265)

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**Author:** [@koeglfryderyk](https://discourse.slicer.org/u/koeglfryderyk)\
**Replies:** 27\
**Last updated:** [February 3, 2023, 12:45pm UTC](https://discourse.slicer.org/t/exporting-volumetric-ultrasound-to-dicom/22265 "2023-02-03T12:45:29Z")

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I want to export 3D ultrasound to DICOM. When I choose the modality as US during export, and then load the exported DICOMs back it into Slicer, it gets loaded as a lot of separate slices, instead of one volume (like for…

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## [3d slicer and emblism](https://discourse.slicer.org/t/3d-slicer-and-emblism/27612)

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**Author:** [@17banai99](https://discourse.slicer.org/u/17banai99)\
**Replies:** 0\
**Last updated:** [February 3, 2023, 11:25am UTC](https://discourse.slicer.org/t/3d-slicer-and-emblism/27612 "2023-02-03T11:25:25Z")

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Has anyone ever worked with the 3d Slicer to highlight pulmonary embolism? If so, is it more efficient than the usual means.

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## [Workflow with Docker and Slicer](https://discourse.slicer.org/t/workflow-with-docker-and-slicer/4091)

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**Author:** [@darekdev](https://discourse.slicer.org/u/darekdev)\
**Replies:** 9\
**Last updated:** [February 3, 2023, 5:32am UTC](https://discourse.slicer.org/t/workflow-with-docker-and-slicer/4091 "2023-02-03T05:32:36Z")

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Hi, I’am a scientist and working with Slicer build inside a docker image but I want make some upgrade in a workflow and add SlicerJupyter extension. I have a dream that I am preparing a docker image for my friends in te…

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## [Image slices are scrambled](https://discourse.slicer.org/t/image-slices-are-scrambled/27598)

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**Author:** [@17banai99](https://discourse.slicer.org/u/17banai99)\
**Replies:** 3\
**Last updated:** [February 2, 2023, 7:58pm UTC](https://discourse.slicer.org/t/image-slices-are-scrambled/27598 "2023-02-02T19:58:42Z")

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What to do if version 5.2 does not open files properly at the rebuild level saggital et coronal? (automatically translated by Google translate) Original in FrenchOuverture fichier Comment faire si la version 5.2 n…

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## [Typing custom coordinates to edit a fiducial](https://discourse.slicer.org/t/typing-custom-coordinates-to-edit-a-fiducial/18442)

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**Author:** [@Rahulsabharwal](https://discourse.slicer.org/u/Rahulsabharwal)\
**Replies:** 3\
**Last updated:** [February 2, 2023, 7:22pm UTC](https://discourse.slicer.org/t/typing-custom-coordinates-to-edit-a-fiducial/18442 "2023-02-02T19:22:12Z")

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Can we type custom r,a,s coordinates and edit a placed fiducial markup ?

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## [SlicerHeart with CT images](https://discourse.slicer.org/t/slicerheart-with-ct-images/27604)

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**Author:** [@Deep\_Learning](https://discourse.slicer.org/u/Deep_Learning)\
**Replies:** 0\
**Last updated:** [February 2, 2023, 3:12pm UTC](https://discourse.slicer.org/t/slicerheart-with-ct-images/27604 "2023-02-02T15:12:30Z")

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I am using SlicerHeart with CT images as well as TotalSegmentator. SlicerHeart seems to spacially translate both segmentations in opposite directions (see attached image). Any suggestions? Could it be a selection of s…

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## ["Edge not recovered, polygon fill suspect" with "shortest distance on surface"](https://discourse.slicer.org/t/edge-not-recovered-polygon-fill-suspect-with-shortest-distance-on-surface/27602)

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**Author:** [@Deep\_Learning](https://discourse.slicer.org/u/Deep_Learning)\
**Replies:** 0\
**Last updated:** [February 2, 2023, 3:01pm UTC](https://discourse.slicer.org/t/edge-not-recovered-polygon-fill-suspect-with-shortest-distance-on-surface/27602 "2023-02-02T15:01:59Z")

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I am getting the following error when marking up on a surface/model: \[VTK\] vtkDelaunay2D (0000024030965F60): Edge not recovered, polygon fill suspect \[VTK\] - Warning: Warning: In D:\\D\\P\\S-0-build\\VTK\\Filters\\Core\\vtkDe…

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## [Fog in 3D rendering](https://discourse.slicer.org/t/fog-in-3d-rendering/27593)

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**Author:** [@Taote](https://discourse.slicer.org/u/Taote)\
**Replies:** 2\
**Last updated:** [February 2, 2023, 2:09pm UTC](https://discourse.slicer.org/t/fog-in-3d-rendering/27593 "2023-02-02T14:09:09Z")

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In ancient versions of 3D Slicer there was a fog tab to add to a 3D scene. It had the merit of making more visible some structures by hiding in a progressive way the background. Was great for interactive presentations. U…

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## ["Paging File is Too Small" error](https://discourse.slicer.org/t/paging-file-is-too-small-error/27379)

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**Author:** [@MattAWard](https://discourse.slicer.org/u/MattAWard)\
**Replies:** 2\
**Last updated:** [February 2, 2023, 11:48am UTC](https://discourse.slicer.org/t/paging-file-is-too-small-error/27379 "2023-02-02T11:48:35Z")

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Operating system: Windows Server 2019 (Virtual Machine) Slicer version: 5.2.1 Expected behavior: Total segmentation of abdominal CT using TotalSegmentator extension Actual behavior: OSError \[WinError 1455\] The paging …

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## [Fixing/Saving slice relations from the interactive slice intersection tool](https://discourse.slicer.org/t/fixing-saving-slice-relations-from-the-interactive-slice-intersection-tool/27585)

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**Author:** [@danpak94](https://discourse.slicer.org/u/danpak94)\
**Replies:** 0\
**Last updated:** [February 1, 2023, 5:22pm UTC](https://discourse.slicer.org/t/fixing-saving-slice-relations-from-the-interactive-slice-intersection-tool/27585 "2023-02-01T17:22:09Z")

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Hello, I feel like this may have been addressed somewhere in the support section already, but I was not able to find the right post. I am wondering if there is a way to “fix” the slice orientation & position set by us…

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## [How to make a 3D screen selection for Markup ControlPoints?](https://discourse.slicer.org/t/how-to-make-a-3d-screen-selection-for-markup-controlpoints/27575)

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**Author:** [@sunshine](https://discourse.slicer.org/u/sunshine)\
**Replies:** 2\
**Last updated:** [February 1, 2023, 11:51am UTC](https://discourse.slicer.org/t/how-to-make-a-3d-screen-selection-for-markup-controlpoints/27575 "2023-02-01T11:51:53Z")

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Hello everyone, I am working on my Python Scripted extension, trying to implement a rectangle (drawn by mouse) selection on the screen (3D Widget / Window) to select all the ControlPoints covered by the rectangle. Coul…

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## [Event on double right click in a given view](https://discourse.slicer.org/t/event-on-double-right-click-in-a-given-view/27486)

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**Author:** [@rhodesdante](https://discourse.slicer.org/u/rhodesdante)\
**Replies:** 10\
**Last updated:** [January 31, 2023, 9:17pm UTC](https://discourse.slicer.org/t/event-on-double-right-click-in-a-given-view/27486 "2023-01-31T21:17:42Z")

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Is it possible to trigger a custom event when double-right clicking on a slice viewer? I saw that it was possible to observe the crosshair node, but this is not exactly what I’m after. I know right clicking and double cl…

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## [How to change the b value on the ADC maps using 3d slicer ?](https://discourse.slicer.org/t/how-to-change-the-b-value-on-the-adc-maps-using-3d-slicer/27569)

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**Author:** [@Floren](https://discourse.slicer.org/u/Floren)\
**Replies:** 0\
**Last updated:** [January 31, 2023, 7:21pm UTC](https://discourse.slicer.org/t/how-to-change-the-b-value-on-the-adc-maps-using-3d-slicer/27569 "2023-01-31T19:21:45Z")

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Hi! It is posible to change the b value on the ADC maps using 3d slicer?

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## [Support for applying settings to updated Slicer application](https://discourse.slicer.org/t/support-for-applying-settings-to-updated-slicer-application/27562)

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**Author:** [@dalv.silvermann](https://discourse.slicer.org/u/dalv.silvermann)\
**Replies:** 1\
**Last updated:** [October 19, 2022, 5:49am UTC](https://discourse.slicer.org/t/support-for-applying-settings-to-updated-slicer-application/27562 "2022-10-19T05:49:29Z")

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Dear Andras Lasso, Is it possible to upgrade Slicer and stay with my current extensions and self written modules? I mean that without installing the new version and stay on my current (in the point of view of extensions…

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## [Line profile in MRI image](https://discourse.slicer.org/t/line-profile-in-mri-image/27560)

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**Author:** [@hanan](https://discourse.slicer.org/u/hanan)\
**Replies:** 0\
**Last updated:** [January 31, 2023, 3:28pm UTC](https://discourse.slicer.org/t/line-profile-in-mri-image/27560 "2023-01-31T15:28:34Z")

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Hello, How i compute and plot image intensity profile along a line in MRI image? I try Sandbox but it didn’t work for MRI image. Thanks in advance.

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## [Change data type for nifti export of SEG](https://discourse.slicer.org/t/change-data-type-for-nifti-export-of-seg/27549)

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**Author:** [@alireza](https://discourse.slicer.org/u/alireza)\
**Replies:** 1\
**Last updated:** [January 31, 2023, 11:05am UTC](https://discourse.slicer.org/t/change-data-type-for-nifti-export-of-seg/27549 "2023-01-31T11:05:50Z")

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Hi, thanks in advance Is nifti export of Segmentations in 3D Slicer, Nifti2? or Nifti1? Seems like 3D Slicer uses signed short (16 bit) for data type of the exported nifti. Is it possible to force it to use unsigned ch…

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## [MALPACA template selection](https://discourse.slicer.org/t/malpaca-template-selection/27530)

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**Author:** [@Rachel\_Fleming](https://discourse.slicer.org/u/Rachel_Fleming)\
**Replies:** 16\
**Last updated:** [January 30, 2023, 8:53pm UTC](https://discourse.slicer.org/t/malpaca-template-selection/27530 "2023-01-30T20:53:43Z")

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Hello! I would like to use the MALPACA template selection tool, but I am running into an error. I went through the MALPACA tutorial with the sample data (mouse skulls) and it worked fine. Now I am trying the same thing …

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## [Change background color of DVH graph](https://discourse.slicer.org/t/change-background-color-of-dvh-graph/27543)

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**Author:** [@Js165](https://discourse.slicer.org/u/Js165)\
**Replies:** 0\
**Last updated:** [January 30, 2023, 8:02pm UTC](https://discourse.slicer.org/t/change-background-color-of-dvh-graph/27543 "2023-01-30T20:02:24Z")

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Is it possible to change the background color (yellow) of the DVH graph to white? I also want to increase the x and y-axis tick size. I checked Informatics–\> Plot. But didn’t find the necessary options. Any help will be …

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## [Using MONAILabel for vertebrae segmentation](https://discourse.slicer.org/t/using-monailabel-for-vertebrae-segmentation/27511)

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**Author:** [@DeepaKrishnaswamy](https://discourse.slicer.org/u/DeepaKrishnaswamy)\
**Replies:** 3\
**Last updated:** [January 30, 2023, 7:42pm UTC](https://discourse.slicer.org/t/using-monailabel-for-vertebrae-segmentation/27511 "2023-01-30T19:42:53Z")

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Hi, I’m trying to perform inference using the pretrained model from the 3 stage vertebrae segmentation pipeline from MONAI Label, but have been running into a few issues on a Windows machine with Slicer version 5.2.1: …

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## [Module from console with arguments](https://discourse.slicer.org/t/module-from-console-with-arguments/27475)

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**Author:** [@lucas\_sd](https://discourse.slicer.org/u/lucas_sd)\
**Replies:** 5\
**Last updated:** [January 30, 2023, 4:42pm UTC](https://discourse.slicer.org/t/module-from-console-with-arguments/27475 "2023-01-30T16:42:40Z")

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Hi everybody, I run a specific module using the terminal like this: Slicer.exe --python-code selectModule('MyModule'). Now, the code of the module take arguments (-t), and I try to run the module just adding: Slicer.ex…

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## [Editing segmentations after loading](https://discourse.slicer.org/t/editing-segmentations-after-loading/27467)

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**Author:** [@Alex\_Benjamin](https://discourse.slicer.org/u/Alex_Benjamin)\
**Replies:** 6\
**Last updated:** [January 30, 2023, 2:33pm UTC](https://discourse.slicer.org/t/editing-segmentations-after-loading/27467 "2023-01-30T14:33:37Z")

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Hello, I have been able to segment a few images (both in Slicer3D and externally using an algorithm). Is there a way to load in these segmentation masks and edit or fine tune the segmentation masks without deleting or e…

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## [Custom fiducials](https://discourse.slicer.org/t/custom-fiducials/27539)

<div class="topic-metadata">

**Author:** [@Rahulsabharwal](https://discourse.slicer.org/u/Rahulsabharwal)\
**Replies:** 0\
**Last updated:** [January 30, 2023, 7:28am UTC](https://discourse.slicer.org/t/custom-fiducials/27539 "2023-01-30T07:28:34Z")

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I want to place a fiducial at coordinates (0,0,0). Also want that fiducial to be on a specific place on the model i.e I want to make my own (0,0,0) for a model. How can I do that ?

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## [Total Segmentor error ( slow segmentation mode)](https://discourse.slicer.org/t/total-segmentor-error-slow-segmentation-mode/27533)

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**Author:** [@Chuns\_SS](https://discourse.slicer.org/u/Chuns_SS)\
**Replies:** 0\
**Last updated:** [January 30, 2023, 5:08am UTC](https://discourse.slicer.org/t/total-segmentor-error-slow-segmentation-mode/27533 "2023-01-30T05:08:25Z")

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I’m getting the following error using slower long segmentation mode. Fast seems ok. I’m on a linux Ubuntu 22.04 platform Nvidia rtx 3060, cuda 11.8 cudnn 8.7.0. Git installed ReferenceImageExtentOffset attribute was no…

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## [Can't import a labelmap in the segmentation module](https://discourse.slicer.org/t/cant-import-a-labelmap-in-the-segmentation-module/27526)

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**Author:** [@philippepellerin](https://discourse.slicer.org/u/philippepellerin)\
**Replies:** 2\
**Last updated:** [January 29, 2023, 4:23pm UTC](https://discourse.slicer.org/t/cant-import-a-labelmap-in-the-segmentation-module/27526 "2023-01-29T16:23:41Z")

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Hi, I tried to import a labelmap in the segmentation module, I expected that clicking on the import bar would open a window to browse for the wished file, but nothing happen…

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## [Repeating crash with slicer 5-3-0 2023 01 13](https://discourse.slicer.org/t/repeating-crash-with-slicer-5-3-0-2023-01-13/27527)

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**Author:** [@philippepellerin](https://discourse.slicer.org/u/philippepellerin)\
**Replies:** 2\
**Last updated:** [January 29, 2023, 10:41am UTC](https://discourse.slicer.org/t/repeating-crash-with-slicer-5-3-0-2023-01-13/27527 "2023-01-29T10:41:10Z")

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Hello, I have a repeating crash which happens during some segmentation work. Suddenly I can’t zoom or move the display in 3D or in the red screen. I always get the same log error (see the picture) and have to restart t…

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## [Make dynamic UI](https://discourse.slicer.org/t/make-dynamic-ui/27522)

<div class="topic-metadata">

**Author:** [@SH4096](https://discourse.slicer.org/u/SH4096)\
**Replies:** 1\
**Last updated:** [January 29, 2023, 9:22am UTC](https://discourse.slicer.org/t/make-dynamic-ui/27522 "2023-01-29T09:22:46Z")

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I want to make a dynamic interface in slicer with QML, but I can’t find this library, how can I do it

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## [Export Volume Rendering as stack of PNG's. NOT stl's](https://discourse.slicer.org/t/export-volume-rendering-as-stack-of-pngs-not-stls/3333)

<div class="topic-metadata">

**Author:** [@JoeCrozier](https://discourse.slicer.org/u/JoeCrozier)\
**Replies:** 85\
**Last updated:** [January 28, 2023, 6:37pm UTC](https://discourse.slicer.org/t/export-volume-rendering-as-stack-of-pngs-not-stls/3333 "2023-01-28T18:37:45Z")

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Operating system:Windows 10 Pro Slicer version:4.9.0 Hello. I did a quick google search but nothing showed up so I was wondering if you could help me. I am very familiar with thresholding/segmenting/exporting as stl’…

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