# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=124

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

**Page:** 125

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## [total segmentator  What's happening with this?](https://discourse.slicer.org/t/total-segmentator-whats-happening-with-this/33322)

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**Author:** [@hder](https://discourse.slicer.org/u/hder)\
**Replies:** 1\
**Last updated:** [December 10, 2023, 4:13am UTC](https://discourse.slicer.org/t/total-segmentator-whats-happening-with-this/33322 "2023-12-10T04:13:20Z")

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Failed to compute results. Command ‘\[‘C:/Users/源来/AppData/Local/slicer.org/Slicer 5.6.0/bin/…/bin\\PythonSlicer.EXE’, ‘C:\\Users\\源来\\AppData\\Local\\slicer.org\\Slicer 5.6.0\\lib\\Python\\Scripts\\TotalSegmentator.exe’, ‘-i’, ‘E:…

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## [Training on MONAILabel without GPU](https://discourse.slicer.org/t/training-on-monailabel-without-gpu/33320)

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**Author:** [@Vineet\_Saravanan](https://discourse.slicer.org/u/Vineet_Saravanan)\
**Replies:** 0\
**Last updated:** [December 10, 2023, 12:36am UTC](https://discourse.slicer.org/t/training-on-monailabel-without-gpu/33320 "2023-12-10T00:36:30Z")

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Hello. I am trying to train with MONAILabel for artery segmentation. I don’t have a GPU on my laptop, and I am getting an error here: How/where would I change it to map the storage to my CPU? I do have an integrated …

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## [Image segmentation](https://discourse.slicer.org/t/image-segmentation/33121)

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**Author:** [@S\_Esmaeili](https://discourse.slicer.org/u/S_Esmaeili)\
**Replies:** 11\
**Last updated:** [December 9, 2023, 11:07pm UTC](https://discourse.slicer.org/t/image-segmentation/33121 "2023-12-09T23:07:22Z")

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i have many 2d dicoms and want to segment them with bounding box, could someone please help me about the easiest way to segment them? (actually, i want to determine the segmentation parts(names, colors,…) for once and th…

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## [Surface area for kidney like structure](https://discourse.slicer.org/t/surface-area-for-kidney-like-structure/33317)

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**Author:** [@b\_gop](https://discourse.slicer.org/u/b_gop)\
**Replies:** 0\
**Last updated:** [December 9, 2023, 9:23pm UTC](https://discourse.slicer.org/t/surface-area-for-kidney-like-structure/33317 "2023-12-09T21:23:22Z")

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Hi all, I have a kidney-like or ellipsoid-like structure and I would like to measure how the surface area varies at different radii. Is there any tool in 3DSlicer that could help me with this calculation? Thanks for an…

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## [Pixel Spacing for volume reconstruction of ultrasound images](https://discourse.slicer.org/t/pixel-spacing-for-volume-reconstruction-of-ultrasound-images/33311)

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**Author:** [@Pratima](https://discourse.slicer.org/u/Pratima)\
**Replies:** 2\
**Last updated:** [December 9, 2023, 5:06pm UTC](https://discourse.slicer.org/t/pixel-spacing-for-volume-reconstruction-of-ultrasound-images/33311 "2023-12-09T17:06:00Z")

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Hello I am new to 3D slicer.I have a telemed C5-2R60S-3 potable ultrasound probe and windows 11 Pro.I want to scan the abdomen and generate 3d volume.I have used plusApp & Slicer openIGTlinkIF to successfully visualize …

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## [IJKtoRAS in 3d slicer vs nibabel](https://discourse.slicer.org/t/ijktoras-in-3d-slicer-vs-nibabel/33307)

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**Author:** [@Santiago\_Cutiller](https://discourse.slicer.org/u/Santiago_Cutiller)\
**Replies:** 0\
**Last updated:** [December 9, 2023, 2:59am UTC](https://discourse.slicer.org/t/ijktoras-in-3d-slicer-vs-nibabel/33307 "2023-12-09T02:59:10Z")

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Hello, I am working with nibabel and I have noticed that the affine matrix that I obtain with nibabel is different from the one shown by 3d slicer in the “Volumes” module. In this example I obtain this matrix with nibab…

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## [Issue importing TCIA Dicom files](https://discourse.slicer.org/t/issue-importing-tcia-dicom-files/33293)

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**Author:** [@dub2s](https://discourse.slicer.org/u/dub2s)\
**Replies:** 2\
**Last updated:** [December 8, 2023, 10:11pm UTC](https://discourse.slicer.org/t/issue-importing-tcia-dicom-files/33293 "2023-12-08T22:11:43Z")

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Hii all I am having trouble importing DICOM folders from a TCIA study. For example, when I import a folder of DICOM files into the DICOM database using drag and drop and then double click on it, I see it being opened as…

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## [Which value gives me the true number of voxels in a segmentation segment?](https://discourse.slicer.org/t/which-value-gives-me-the-true-number-of-voxels-in-a-segmentation-segment/33271)

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**Author:** [@jashrand](https://discourse.slicer.org/u/jashrand)\
**Replies:** 3\
**Last updated:** [December 8, 2023, 8:46pm UTC](https://discourse.slicer.org/t/which-value-gives-me-the-true-number-of-voxels-in-a-segmentation-segment/33271 "2023-12-08T20:46:31Z")

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I made a segmentation, and want to know the total number of voxels in the label I made. I right-clicked on the segmentation and chose “Calculate statistics…” It gave me the statistics in the table, shown in the attache…

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## [In Slicer 5.4, where to check the reformatLogic's new method RotateSlice()'s parameters?](https://discourse.slicer.org/t/in-slicer-5-4-where-to-check-the-reformatlogics-new-method-rotateslice-s-parameters/33278)

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**Author:** [@derekcbr](https://discourse.slicer.org/u/derekcbr)\
**Replies:** 2\
**Last updated:** [December 8, 2023, 10:57am UTC](https://discourse.slicer.org/t/in-slicer-5-4-where-to-check-the-reformatlogics-new-method-rotateslice-s-parameters/33278 "2023-12-08T10:57:41Z")

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reformatLogic = slicer.modules.reformat.logic() Is there a way to find out the function parameters of RotateSlice()?

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## [Exporting labelmap in raw format](https://discourse.slicer.org/t/exporting-labelmap-in-raw-format/32316)

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**Author:** [@mattiadl](https://discourse.slicer.org/u/mattiadl)\
**Replies:** 4\
**Last updated:** [October 20, 2023, 8:37am UTC](https://discourse.slicer.org/t/exporting-labelmap-in-raw-format/32316 "2023-10-20T08:37:26Z")

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Hello all, I’m trying to export a binary labelmap in raw format. I have a segmentation, I press “Export visible segment to binary labelmap”. Then I click on the new labelmap and export to file, saving it as raw. But t…

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## [Could someone help me about segmentation?](https://discourse.slicer.org/t/could-someone-help-me-about-segmentation/33166)

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**Author:** [@S\_Esmaeili](https://discourse.slicer.org/u/S_Esmaeili)\
**Replies:** 7\
**Last updated:** [December 7, 2023, 9:05pm UTC](https://discourse.slicer.org/t/could-someone-help-me-about-segmentation/33166 "2023-12-07T21:05:03Z")

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i defined my segmentation over the first image and want to use it for other images too. but when i load new images the segment boxes of the pervious image appear in the new image.

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## [Parallel zip library for Slicer](https://discourse.slicer.org/t/parallel-zip-library-for-slicer/33290)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 4\
**Last updated:** [December 7, 2023, 6:27pm UTC](https://discourse.slicer.org/t/parallel-zip-library-for-slicer/33290 "2023-12-07T18:27:40Z")

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There is this python library that supports parallel zip and looks like it is MIT license. Would it be possible to incorporate this into Slicer and use it for MRB creation? GitHub - fastzip/fastzip: Fast parallel zip fil…

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## ["Liver vessel" task](https://discourse.slicer.org/t/liver-vessel-task/33203)

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**Author:** [@Matteboo](https://discourse.slicer.org/u/Matteboo)\
**Replies:** 3\
**Last updated:** [December 7, 2023, 3:29pm UTC](https://discourse.slicer.org/t/liver-vessel-task/33203 "2023-12-07T15:29:23Z")

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Hello, One month ago (13th of november) I used totalsegmentator to segment the blood vessel of a liver From memory, the task was called “liver vessel” on the slicer interface However, I can’t find that task anymore…

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## [Slicer v. 5.6.0. Radiomics-module error while extracting features?](https://discourse.slicer.org/t/slicer-v-5-6-0-radiomics-module-error-while-extracting-features/33280)

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**Author:** [@Magnus](https://discourse.slicer.org/u/Magnus)\
**Replies:** 5\
**Last updated:** [December 7, 2023, 2:26pm UTC](https://discourse.slicer.org/t/slicer-v-5-6-0-radiomics-module-error-while-extracting-features/33280 "2023-12-07T14:26:05Z")

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Hello, Updated slicer to the latest version (5.6.0). Now I get an error while trying to extract radiomic features using the Radiomics module. See following error message. What can I do? \[2023-12-07 09:15:38\] I: radiomi…

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## [Usage rights to STN-PLANNING(sample data)](https://discourse.slicer.org/t/usage-rights-to-stn-planning-sample-data/33283)

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**Author:** [@zhang](https://discourse.slicer.org/u/zhang)\
**Replies:** 0\
**Last updated:** [December 7, 2023, 12:37pm UTC](https://discourse.slicer.org/t/usage-rights-to-stn-planning-sample-data/33283 "2023-12-07T12:37:19Z")

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3D Slicer sample data provides an STN-planning data set. I would like to know whether it is possible to design targets, demonstrate puncture paths and write related papers based on this data and model. This data set prov…

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## [Lung segmentation with LungCTSegmenter](https://discourse.slicer.org/t/lung-segmentation-with-lungctsegmenter/32704)

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**Author:** [@klc](https://discourse.slicer.org/u/klc)\
**Replies:** 12\
**Last updated:** [December 7, 2023, 12:06pm UTC](https://discourse.slicer.org/t/lung-segmentation-with-lungctsegmenter/32704 "2023-12-07T12:06:48Z")

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@rbumm Dear Prof. Rudolf Bumm, Hi, I am using the LungCTSegmenter to segment the lungs with AIrwaySegmentation, Vessel Segmentation following this video: https://www.youtube.com/watch?v=bw1IaxVkOM4&ab\_channel=medec021 …

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## [Using 3D Slicer Sample CTs for a publication](https://discourse.slicer.org/t/using-3d-slicer-sample-cts-for-a-publication/33260)

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**Author:** [@karl](https://discourse.slicer.org/u/karl)\
**Replies:** 3\
**Last updated:** [December 7, 2023, 10:37am UTC](https://discourse.slicer.org/t/using-3d-slicer-sample-cts-for-a-publication/33260 "2023-12-07T10:37:13Z")

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Hello, pretty new to slicer! I wanted to ask if it was allowed to use the sample data provided by slicer 3D (in this case Head MRI 1) to generate images and use them in a publication? Best regards and thank you for yo…

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## [HDR brachytherapy plan loading](https://discourse.slicer.org/t/hdr-brachytherapy-plan-loading/9383)

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**Author:** [@agv](https://discourse.slicer.org/u/agv)\
**Replies:** 8\
**Last updated:** [December 7, 2023, 4:45am UTC](https://discourse.slicer.org/t/hdr-brachytherapy-plan-loading/9383 "2023-12-07T04:45:31Z")

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## [how to generate an array representing the projection of a multileaf collimator (MLC) field onto a CT slice in 3D Slicer?](https://discourse.slicer.org/t/how-to-generate-an-array-representing-the-projection-of-a-multileaf-collimator-mlc-field-onto-a-ct-slice-in-3d-slicer/33273)

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**Author:** [@Meryeme\_Bellahsaouia](https://discourse.slicer.org/u/Meryeme_Bellahsaouia)\
**Replies:** 1\
**Last updated:** [December 6, 2023, 11:33pm UTC](https://discourse.slicer.org/t/how-to-generate-an-array-representing-the-projection-of-a-multileaf-collimator-mlc-field-onto-a-ct-slice-in-3d-slicer/33273 "2023-12-06T23:33:57Z")

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I am trying to create an array with the same dimensions as a CT slice. Within this array, each voxel will have a value of 1 if it falls inside the MLC field and 0 if it falls outside. Is this achievable using 3D Slicer? …

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## [CT Image Series Count Missing in 3D Slicer for CT Scanner Data](https://discourse.slicer.org/t/ct-image-series-count-missing-in-3d-slicer-for-ct-scanner-data/33267)

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**Author:** [@Sougata\_Maity](https://discourse.slicer.org/u/Sougata_Maity)\
**Replies:** 1\
**Last updated:** [December 6, 2023, 9:35pm UTC](https://discourse.slicer.org/t/ct-image-series-count-missing-in-3d-slicer-for-ct-scanner-data/33267 "2023-12-06T21:35:53Z")

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Hello, I’m having trouble determining the CT image series count. Is there a DICOM tag within the metadata that provides this information? We have configured two systems, the PACS and the CT Scanner, to interface with 3D …

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## [How can I view displacement field in 3D?](https://discourse.slicer.org/t/how-can-i-view-displacement-field-in-3d/29228)

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**Author:** [@Luna](https://discourse.slicer.org/u/Luna)\
**Replies:** 3\
**Last updated:** [December 6, 2023, 8:00pm UTC](https://discourse.slicer.org/t/how-can-i-view-displacement-field-in-3d/29228 "2023-12-06T20:00:18Z")

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I have two questions I have an nrrd file of my displacement field in 3D which I want to view. I managed to view it in 2D in transforms module but I couldn’t find a way to view it in 3D. How can I view it in 3D? Is ther…

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## [Elastix: generated output image doesn't align with applied and hardend transform ](https://discourse.slicer.org/t/elastix-generated-output-image-doesnt-align-with-applied-and-hardend-transform/33147)

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**Author:** [@ekls](https://discourse.slicer.org/u/ekls)\
**Replies:** 1\
**Last updated:** [December 6, 2023, 6:07pm UTC](https://discourse.slicer.org/t/elastix-generated-output-image-doesnt-align-with-applied-and-hardend-transform/33147 "2023-12-06T18:07:35Z")

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Hi, I’m quite new to slicer so maybe there‘s a very simple answer to my problem. I’m currently using Elastix to registrate brain MRIs. The genereated output volume looks perfectly fine but applying the transform to th…

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## [Error while installing Extension Pytorch utils ](https://discourse.slicer.org/t/error-while-installing-extension-pytorch-utils/33261)

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**Author:** [@Novak\_xu](https://discourse.slicer.org/u/Novak_xu)\
**Replies:** 1\
**Last updated:** [December 6, 2023, 6:02pm UTC](https://discourse.slicer.org/t/error-while-installing-extension-pytorch-utils/33261 "2023-12-06T18:02:42Z")

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Hello, dear repositories I am having trouble installing Pytorch utils in slicer 5.6.0. When I click the botton “install PyTorch”, it says pytorch will be installed using light-the-torch. After few minutes, I get the err…

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## [Problems in version 5.6.0](https://discourse.slicer.org/t/problems-in-version-5-6-0/33228)

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**Author:** [@hepato](https://discourse.slicer.org/u/hepato)\
**Replies:** 10\
**Last updated:** [December 6, 2023, 2:34pm UTC](https://discourse.slicer.org/t/problems-in-version-5-6-0/33228 "2023-12-06T14:34:37Z")

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I update slicer to version 5.6.0 and some error occured. 1.Maximize or restore views by double click of left key of mouse stopped working. 2.“patient name” not showed in DICOM database. Would you check and repair th…

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## [Crop dicom around a point, automate the process](https://discourse.slicer.org/t/crop-dicom-around-a-point-automate-the-process/33248)

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**Author:** [@winnfr](https://discourse.slicer.org/u/winnfr)\
**Replies:** 0\
**Last updated:** [December 6, 2023, 11:10am UTC](https://discourse.slicer.org/t/crop-dicom-around-a-point-automate-the-process/33248 "2023-12-06T11:10:10Z")

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Hi, I use slicer to display some dicom files (3D scans) and save them as a nrrd file. The nrrd file is too big for me, I need to crop this file around the center of the cube. How can I do this? I need to do for at le…

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## [Importing Tomovision Slice-O-Matic segmentations](https://discourse.slicer.org/t/importing-tomovision-slice-o-matic-segmentations/16084)

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**Author:** [@Justin](https://discourse.slicer.org/u/Justin)\
**Replies:** 11\
**Last updated:** [December 6, 2023, 7:51am UTC](https://discourse.slicer.org/t/importing-tomovision-slice-o-matic-segmentations/16084 "2023-12-06T07:51:27Z")

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Dear all, My group has been using Tomovision Slice-O-Matic to create segmentations on CT-scans to get cross-sectional areas. I myself am using Slicer 3D for this and would like to use the segmentations created by others…

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## [View controller bar is thicker in Slicer-5.6.0](https://discourse.slicer.org/t/view-controller-bar-is-thicker-in-slicer-5-6-0/33238)

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**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Replies:** 5\
**Last updated:** [December 5, 2023, 11:13pm UTC](https://discourse.slicer.org/t/view-controller-bar-is-thicker-in-slicer-5-6-0/33238 "2023-12-05T23:13:12Z")

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The bars of the view windows are bigger than before - they take too much space - will this also be addressed?

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## [Experiencing severe lag/crashing on a 2023 Mac M2 16GB](https://discourse.slicer.org/t/experiencing-severe-lag-crashing-on-a-2023-mac-m2-16gb/33212)

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**Author:** [@yevyevchungy](https://discourse.slicer.org/u/yevyevchungy)\
**Replies:** 5\
**Last updated:** [December 5, 2023, 8:45pm UTC](https://discourse.slicer.org/t/experiencing-severe-lag-crashing-on-a-2023-mac-m2-16gb/33212 "2023-12-05T20:45:24Z")

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Hello, I am a new user of 3D Slicer and I am experiencing long wait times (8 min+) and crashing with the program on my 2023 Mac M2 16 GB, which based off what I have seen and read seems uncommon. I am wondering if anyone…

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## [Drawing 3D objects](https://discourse.slicer.org/t/drawing-3d-objects/33236)

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**Author:** [@Dejf](https://discourse.slicer.org/u/Dejf)\
**Replies:** 1\
**Last updated:** [December 5, 2023, 4:23pm UTC](https://discourse.slicer.org/t/drawing-3d-objects/33236 "2023-12-05T16:23:30Z")

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Hello, I am trying to segment coronary arteries by thresholding. My idea is to draw two ovoids (or any kind of object with adjustable dimensions in every directions), the first should be bigger that a heart and second sh…

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## [How to annotate/markup an image with arrows and anatomical names](https://discourse.slicer.org/t/how-to-annotate-markup-an-image-with-arrows-and-anatomical-names/21588)

<div class="topic-metadata">

**Author:** [@Young\_Wang](https://discourse.slicer.org/u/Young_Wang)\
**Replies:** 43\
**Last updated:** [December 5, 2023, 4:18pm UTC](https://discourse.slicer.org/t/how-to-annotate-markup-an-image-with-arrows-and-anatomical-names/21588 "2023-12-05T16:18:05Z")

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Operating system: MacOS Monterey 12.1(21C52) Slicer version:3D Slicer 4.11.2021026 Expected behavior: Actual behavior: Please see the example shown here. Maybe this is an easy thing to be but I have yet found anythin…

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