# Support

**URL:** https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=77

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

**Page:** 78

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## [.xml file output for .mhd file](https://discourse.slicer.org/t/xml-file-output-for-mhd-file/38100)

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**Author:** [@QianyuXie\_Julie](https://discourse.slicer.org/u/QianyuXie_Julie)\
**Replies:** 2\
**Last updated:** [August 29, 2024, 9:04pm UTC](https://discourse.slicer.org/t/xml-file-output-for-mhd-file/38100 "2024-08-29T21:04:06Z")

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Hi everyone, I’m working on a Unity project and I need a related .mhd file along with an .xml file. However, when I export the .mhd image from Slicer3D, I only get the .mhd and .raw files. Does anyone know how I can ge…

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## [Experience with importing amira/avizo into 3D Slicer](https://discourse.slicer.org/t/experience-with-importing-amira-avizo-into-3d-slicer/18223)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 9\
**Last updated:** [August 29, 2024, 4:59pm UTC](https://discourse.slicer.org/t/experience-with-importing-amira-avizo-into-3d-slicer/18223 "2024-08-29T16:59:46Z")

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I am curious if anyone on the forum has experience with importing Amira/Avizo files (particularly the segmentation) into Slicer one way or another. Amira/Avizo has been used quite a lot in the biological sciences for 3D…

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## [Is it possible to use slicerRT delineate the target and OAR?](https://discourse.slicer.org/t/is-it-possible-to-use-slicerrt-delineate-the-target-and-oar/38116)

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**Author:** [@LGDi](https://discourse.slicer.org/u/LGDi)\
**Replies:** 1\
**Last updated:** [August 29, 2024, 1:21pm UTC](https://discourse.slicer.org/t/is-it-possible-to-use-slicerrt-delineate-the-target-and-oar/38116 "2024-08-29T13:21:00Z")

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I have imported the DICOM images. Can I use slicerRT to delineate the target and further calculate the dose?

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## [Aligning a surface model and volume rendering of the same skull](https://discourse.slicer.org/t/aligning-a-surface-model-and-volume-rendering-of-the-same-skull/36024)

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**Author:** [@paleomariomm](https://discourse.slicer.org/u/paleomariomm)\
**Replies:** 6\
**Last updated:** [August 29, 2024, 12:02pm UTC](https://discourse.slicer.org/t/aligning-a-surface-model-and-volume-rendering-of-the-same-skull/36024 "2024-08-29T12:02:01Z")

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Hi community. I have the DICOM files of a skull and the Surface model (in PLY format) separately. When I load both into Slicer, and do the volume rendering of the DICOM files, I can see that they are NOT aligned. H…

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## [Fill between slices for line ROI](https://discourse.slicer.org/t/fill-between-slices-for-line-roi/38097)

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**Author:** [@liux0736](https://discourse.slicer.org/u/liux0736)\
**Replies:** 0\
**Last updated:** [August 28, 2024, 8:40pm UTC](https://discourse.slicer.org/t/fill-between-slices-for-line-roi/38097 "2024-08-28T20:40:51Z")

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I use the “fill between slices” to interpolate masks on different slices. My mask can be a thin line (1-2 pixel wide). In that case, the tool doesn’t generate any mask in the intermediate slices. Making the lines thicker…

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## [About the capabilities of a MacStudio M2 Max (64GB memory)?](https://discourse.slicer.org/t/about-the-capabilities-of-a-macstudio-m2-max-64gb-memory/38082)

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**Author:** [@Fredy](https://discourse.slicer.org/u/Fredy)\
**Replies:** 2\
**Last updated:** [August 28, 2024, 1:38pm UTC](https://discourse.slicer.org/t/about-the-capabilities-of-a-macstudio-m2-max-64gb-memory/38082 "2024-08-28T13:38:32Z")

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Hi all, I´m new in the forum. Did every one used/has a MacStudio M2 MAX…? I´m not sure to buy one of them (but I want to…), but I can not found personal experiences with using this Mac and Slicer. I´m interested mainly t…

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## [DICOM Database View ](https://discourse.slicer.org/t/dicom-database-view/38080)

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**Author:** [@CTuser](https://discourse.slicer.org/u/CTuser)\
**Replies:** 1\
**Last updated:** [August 28, 2024, 1:15pm UTC](https://discourse.slicer.org/t/dicom-database-view/38080 "2024-08-28T13:15:11Z")

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Two Questions: Is there a way to adjust the column width on the DATA → DICOM Database Results page? Right now I can’t see the full date added. I have maximized the the 3D Slicer window and Date Added is still not fully…

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## [Request for Assistance: Fixing Paint Tool Size Independently of Zoom](https://discourse.slicer.org/t/request-for-assistance-fixing-paint-tool-size-independently-of-zoom/38078)

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**Author:** [@jeongin9248](https://discourse.slicer.org/u/jeongin9248)\
**Replies:** 1\
**Last updated:** [August 28, 2024, 1:09pm UTC](https://discourse.slicer.org/t/request-for-assistance-fixing-paint-tool-size-independently-of-zoom/38078 "2024-08-28T13:09:22Z")

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Hello, I am experiencing an issue with the Paint tool in Slicer where the tool size changes along with the zoom level when using Ctrl + mouse wheel to adjust the slice view. I would like to keep the Paint tool size f…

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## [Load segmention cannot be displayed in three views properly](https://discourse.slicer.org/t/load-segmention-cannot-be-displayed-in-three-views-properly/38079)

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**Author:** [@dingdanpeng](https://discourse.slicer.org/u/dingdanpeng)\
**Replies:** 1\
**Last updated:** [August 28, 2024, 1:03pm UTC](https://discourse.slicer.org/t/load-segmention-cannot-be-displayed-in-three-views-properly/38079 "2024-08-28T13:03:29Z")

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Operating system:windows11 Slicer version:slicer 5.7.0 Expected behavior:I first opened a nii file for a brain tumor, and then opened a corresponding nii file for segmentation results. In three views, I should be able …

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## [Open and visualize a 4D niftii file?](https://discourse.slicer.org/t/open-and-visualize-a-4d-niftii-file/38083)

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**Author:** [@theanega](https://discourse.slicer.org/u/theanega)\
**Replies:** 1\
**Last updated:** [August 28, 2024, 12:51pm UTC](https://discourse.slicer.org/t/open-and-visualize-a-4d-niftii-file/38083 "2024-08-28T12:51:44Z")

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Hi all! I’m having trouble opening a 4D NIfTI file in 3D Slicer. The file contains 6 concatenated 3D voxelwise maps of a segmented tumor, created using nibabel in Python. The file I’m trying to open has dimensions (x, …

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## [How to use latest 3D Slicer in machine without GPU](https://discourse.slicer.org/t/how-to-use-latest-3d-slicer-in-machine-without-gpu/38084)

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**Author:** [@xiyue](https://discourse.slicer.org/u/xiyue)\
**Replies:** 1\
**Last updated:** [August 28, 2024, 12:45pm UTC](https://discourse.slicer.org/t/how-to-use-latest-3d-slicer-in-machine-without-gpu/38084 "2024-08-28T12:45:46Z")

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Could I use the latest 3D Slicer in a machine without GPU support? Now I use the old version (v4.8.0) in our machine, the machine has no GPU because of some restriction. But some features are not supported by the old ve…

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## [Segmentation Diffusion Weighted Image Whole Body MRI](https://discourse.slicer.org/t/segmentation-diffusion-weighted-image-whole-body-mri/38081)

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**Author:** [@MickaelT](https://discourse.slicer.org/u/MickaelT)\
**Replies:** 0\
**Last updated:** [August 28, 2024, 12:27pm UTC](https://discourse.slicer.org/t/segmentation-diffusion-weighted-image-whole-body-mri/38081 "2024-08-28T12:27:40Z")

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Hello, I am trying to find a better way to perform a manual segmentation of numerous lesions on Whole Body DWI of multiple patient. These lesions exhibit high signal intensity on high b-values. I tried a few tools to im…

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## [python interactor - General Registration (BRAINS) module](https://discourse.slicer.org/t/python-interactor-general-registration-brains-module/24216)

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**Author:** [@Noemi\_Garau](https://discourse.slicer.org/u/Noemi_Garau)\
**Replies:** 2\
**Last updated:** [August 28, 2024, 11:39am UTC](https://discourse.slicer.org/t/python-interactor-general-registration-brains-module/24216 "2024-08-28T11:39:03Z")

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Dear all, I’m working with a large amount of CT scans and I need to apply rigid registration between series acquired at different time points. Using simpleITK I’m still not able to reach results good enough in a reasona…

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## [Hi Everyone, how to calculate bone mineral density](https://discourse.slicer.org/t/hi-everyone-how-to-calculate-bone-mineral-density/38059)

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**Author:** [@Siva\_sai\_Kumar](https://discourse.slicer.org/u/Siva_sai_Kumar)\
**Replies:** 1\
**Last updated:** [August 27, 2024, 6:32pm UTC](https://discourse.slicer.org/t/hi-everyone-how-to-calculate-bone-mineral-density/38059 "2024-08-27T18:32:18Z")

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Hi Everyone How to calculate bone mineral density in 3d slicer.

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## [Start 3d slice on my surface pro](https://discourse.slicer.org/t/start-3d-slice-on-my-surface-pro/20219)

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**Author:** [@Ana\_Gomez](https://discourse.slicer.org/u/Ana_Gomez)\
**Replies:** 4\
**Last updated:** [August 27, 2024, 1:11pm UTC](https://discourse.slicer.org/t/start-3d-slice-on-my-surface-pro/20219 "2024-08-27T13:11:11Z")

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I have installed 3d surface on the surface pro but it won’t boot. I do not know what the problem might be.

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## [I need help please if anyone know, can you please help me](https://discourse.slicer.org/t/i-need-help-please-if-anyone-know-can-you-please-help-me/38048)

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**Author:** [@Vikram](https://discourse.slicer.org/u/Vikram)\
**Replies:** 5\
**Last updated:** [August 27, 2024, 10:24am UTC](https://discourse.slicer.org/t/i-need-help-please-if-anyone-know-can-you-please-help-me/38048 "2024-08-27T10:24:46Z")

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Hi i have 3D stl file of cubic , in stl file there is two density one is air and other is solid part , i want to calculate the volume of solid part and air , but the file is in stl format , can anyone please help me firs…

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## [Converting vtk to DICOM](https://discourse.slicer.org/t/converting-vtk-to-dicom/38041)

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**Author:** [@dbak](https://discourse.slicer.org/u/dbak)\
**Replies:** 1\
**Last updated:** [August 27, 2024, 9:19am UTC](https://discourse.slicer.org/t/converting-vtk-to-dicom/38041 "2024-08-27T09:19:20Z")

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Hi! I have a VTK file (UnstructuredGrid) that I want to convert to a DICOM to share with my colleagues in medicine. I am familiar with VTKs but it is my first time doing anything with DICOM, so I would appreciate any hel…

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## [Horizontal Noise in 3D Reconstruction Using Slicer](https://discourse.slicer.org/t/horizontal-noise-in-3d-reconstruction-using-slicer/38031)

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**Author:** [@ypd04474](https://discourse.slicer.org/u/ypd04474)\
**Replies:** 2\
**Last updated:** [August 27, 2024, 8:03am UTC](https://discourse.slicer.org/t/horizontal-noise-in-3d-reconstruction-using-slicer/38031 "2024-08-27T08:03:39Z")

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I’m currently working on a 3D reconstruction project using Slicer, but I’ve encountered an issue where horizontal noise appears in the final 3D model. The source images are 2D slices, and the reconstruction generally lo…

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## [Creating Truth Mask for Segmentation Task](https://discourse.slicer.org/t/creating-truth-mask-for-segmentation-task/38043)

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**Author:** [@Marcellofabrizio](https://discourse.slicer.org/u/Marcellofabrizio)\
**Replies:** 2\
**Last updated:** [August 26, 2024, 11:35pm UTC](https://discourse.slicer.org/t/creating-truth-mask-for-segmentation-task/38043 "2024-08-26T23:35:14Z")

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Hello everyone! I’m a Computer Science student currently working on a research project focused on segmenting root canals using DICOM images. My approach involves using a U-Net combined with DenseNet-121. I have access t…

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## [Failed to create 3D model after segmentation in 3 planes](https://discourse.slicer.org/t/failed-to-create-3d-model-after-segmentation-in-3-planes/38023)

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**Author:** [@Yoon](https://discourse.slicer.org/u/Yoon)\
**Replies:** 1\
**Last updated:** [August 26, 2024, 11:17am UTC](https://discourse.slicer.org/t/failed-to-create-3d-model-after-segmentation-in-3-planes/38023 "2024-08-26T11:17:28Z")

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## [Converting .stl files to binary label maps in .nii format using Python](https://discourse.slicer.org/t/converting-stl-files-to-binary-label-maps-in-nii-format-using-python/13038)

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**Author:** [@DC-3T](https://discourse.slicer.org/u/DC-3T)\
**Replies:** 11\
**Last updated:** [August 25, 2024, 8:29pm UTC](https://discourse.slicer.org/t/converting-stl-files-to-binary-label-maps-in-nii-format-using-python/13038 "2024-08-25T20:29:43Z")

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Dear all, I hope you’re doing well. I’ve spent the last week or two struggling to convert a large number of .stl files (~1,000) drawn in 3D Slicer 4.10.2 into .nii binary label maps using Python. The .stl data were deri…

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## [SegmentEditor: No node found for itemID](https://discourse.slicer.org/t/segmenteditor-no-node-found-for-itemid/37925)

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**Author:** [@chir.set](https://discourse.slicer.org/u/chir.set)\
**Replies:** 10\
**Last updated:** [August 25, 2024, 8:28pm UTC](https://discourse.slicer.org/t/segmenteditor-no-node-found-for-itemid/37925 "2024-08-25T20:28:49Z")

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Whenever a new segment is created in ‘Segment editor’, this message appears in the python console: No node found for itemID {19…??} It is unknown in which release it started, it is noted in factory release 5.7.0-2024…

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## [Automatic liver segmentation in MRI](https://discourse.slicer.org/t/automatic-liver-segmentation-in-mri/38011)

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**Author:** [@Matteboo](https://discourse.slicer.org/u/Matteboo)\
**Replies:** 1\
**Last updated:** [August 24, 2024, 7:37am UTC](https://discourse.slicer.org/t/automatic-liver-segmentation-in-mri/38011 "2024-08-24T07:37:04Z")

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Hello, I’m looking for a way to automatically segment the liver in a MRI. I found this old topic but it didn’t have any answer. I’m familiar with total segmentator and MONAI Auto3DSeg but none of them support MRI for…

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## [Padding the segmentation geometry](https://discourse.slicer.org/t/padding-the-segmentation-geometry/38016)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 4\
**Last updated:** [August 24, 2024, 6:33am UTC](https://discourse.slicer.org/t/padding-the-segmentation-geometry/38016 "2024-08-24T06:33:29Z")

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I have a bunch of 3D models that I need to edit (I do not have the original segmentation). I need to run dilation on these models but as imported the geometry of the segmentation is too tight to do any dilation (I end up…

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## [Unable to install TotalSegmentator on 5.2.2 Windows](https://discourse.slicer.org/t/unable-to-install-totalsegmentator-on-5-2-2-windows/37983)

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**Author:** [@id185059](https://discourse.slicer.org/u/id185059)\
**Replies:** 2\
**Last updated:** [August 23, 2024, 5:26pm UTC](https://discourse.slicer.org/t/unable-to-install-totalsegmentator-on-5-2-2-windows/37983 "2024-08-23T17:26:16Z")

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Hello. I am running 3D Slicer 5.2.2 on a Windows machine. Want to install the TotalSegmentator extension but receive attached error messages each time. Would appreciate any help on how to accomplish this.

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## [Can't open 3d slicer on macbook air m1](https://discourse.slicer.org/t/cant-open-3d-slicer-on-macbook-air-m1/37985)

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**Author:** [@ikroop](https://discourse.slicer.org/u/ikroop)\
**Replies:** 3\
**Last updated:** [August 22, 2024, 12:21pm UTC](https://discourse.slicer.org/t/cant-open-3d-slicer-on-macbook-air-m1/37985 "2024-08-22T12:21:05Z")

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help please! I’m not able to open the application of 3d slicer on my mac m1. it is downloaded and whenever i click on it it says check your internet connection for updates it isnt opening even after redownloading help…

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## [Single series with multiple frames, separate out?](https://discourse.slicer.org/t/single-series-with-multiple-frames-separate-out/2285)

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**Author:** [@mgastall](https://discourse.slicer.org/u/mgastall)\
**Replies:** 3\
**Last updated:** [August 22, 2024, 11:09am UTC](https://discourse.slicer.org/t/single-series-with-multiple-frames-separate-out/2285 "2024-08-22T11:09:41Z")

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I uploaded a dynamic MRI with multiple frames in one series. How do I separate these out (by trigger time?) so as to only segment on one individual frame?

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## [Subtraction of bone from soft tissue from same model](https://discourse.slicer.org/t/subtraction-of-bone-from-soft-tissue-from-same-model/37995)

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**Author:** [@cepehde](https://discourse.slicer.org/u/cepehde)\
**Replies:** 0\
**Last updated:** [August 22, 2024, 1:58am UTC](https://discourse.slicer.org/t/subtraction-of-bone-from-soft-tissue-from-same-model/37995 "2024-08-22T01:58:15Z")

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I am trying to create 2 models to 3D print of a diabetic foot with a plantar foot ulcer. I want to print a 3d model of the foot skeleton that can sit in the soft tissue envelope with the ulcer. I am trying to figure ou…

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## [Can't view Clarius IMU using PLUS server?](https://discourse.slicer.org/t/cant-view-clarius-imu-using-plus-server/37991)

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**Author:** [@achiravu](https://discourse.slicer.org/u/achiravu)\
**Replies:** 0\
**Last updated:** [August 21, 2024, 9:28pm UTC](https://discourse.slicer.org/t/cant-view-clarius-imu-using-plus-server/37991 "2024-08-21T21:28:07Z")

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I have been trying to look at Clarius data live using the PLUS server and 3D Slicer. This works fine with just B-mode data, but doesn’t work at all when using the configuration file for streaming IMU data. How would I ge…

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## [Segmentation to binary label map through python console](https://discourse.slicer.org/t/segmentation-to-binary-label-map-through-python-console/1916)

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**Author:** [@mmtg](https://discourse.slicer.org/u/mmtg)\
**Replies:** 6\
**Last updated:** [August 21, 2024, 6:26pm UTC](https://discourse.slicer.org/t/segmentation-to-binary-label-map-through-python-console/1916 "2024-08-21T18:26:39Z")

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Hello, I have a lot of RTstructs that I need to convert to binary label maps. I tried using the scripts for exporting to label map in the repository here (Documentation/4.8/ScriptRepository - Slicer Wiki) here is the c…

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