# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=125

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

**Page:** 126

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## [Segmentation of large nodule from CT](https://discourse.slicer.org/t/segmentation-of-large-nodule-from-ct/32550)

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**Author:** [@Caterina](https://discourse.slicer.org/u/Caterina)\
**Replies:** 37\
**Last updated:** [December 5, 2023, 3:53pm UTC](https://discourse.slicer.org/t/segmentation-of-large-nodule-from-ct/32550 "2023-12-05T15:53:29Z")

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Good morning, I’m interested in performing segmentation of large nodule from CT dicom images. Is Lung CT Segmenter Module useful to identify large nodule or other abnormalities? Can you please suggest me the better se…

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## [slicer does not open](https://discourse.slicer.org/t/slicer-does-not-open/17792)

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**Author:** [@surgeon](https://discourse.slicer.org/u/surgeon)\
**Replies:** 6\
**Last updated:** [November 8, 2022, 1:50am UTC](https://discourse.slicer.org/t/slicer-does-not-open/17792 "2022-11-08T01:50:16Z")

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Operating system: windows 10 home Slicer version:4.13.0-2021-5-22 Expected behavior: opens Actual behavior: does not open in installed 3D slicer on a new computer, i opened the program and installed extensions from t…

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## [Grow from seeds - limit to some segmentations, no overlap](https://discourse.slicer.org/t/grow-from-seeds-limit-to-some-segmentations-no-overlap/33199)

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**Author:** [@Tomasz\_Bartczak](https://discourse.slicer.org/u/Tomasz_Bartczak)\
**Replies:** 2\
**Last updated:** [December 5, 2023, 7:18am UTC](https://discourse.slicer.org/t/grow-from-seeds-limit-to-some-segmentations-no-overlap/33199 "2023-12-05T07:18:17Z")

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Hello. I’ve been using ‘grow from seeds’ successfully for some cases. I do understand it requires at least two segments to run (foreground + background). However I have a case, where I would like to use a 3rd segmentat…

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## [Is it possible to change ROI to a labelmap?](https://discourse.slicer.org/t/is-it-possible-to-change-roi-to-a-labelmap/33193)

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**Author:** [@Xiaojie\_Guo](https://discourse.slicer.org/u/Xiaojie_Guo)\
**Replies:** 2\
**Last updated:** [December 5, 2023, 1:16am UTC](https://discourse.slicer.org/t/is-it-possible-to-change-roi-to-a-labelmap/33193 "2023-12-05T01:16:12Z")

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Hi, I drew a rectangle ROI box in slicer, and want to change it to a label map. Then I can get a mask. What should I do?

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## [Combine two cone-beam CT images](https://discourse.slicer.org/t/combine-two-cone-beam-ct-images/33125)

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**Author:** [@tenzin\_kunkyab](https://discourse.slicer.org/u/tenzin_kunkyab)\
**Replies:** 5\
**Last updated:** [December 5, 2023, 12:36am UTC](https://discourse.slicer.org/t/combine-two-cone-beam-ct-images/33125 "2023-12-05T00:36:56Z")

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Hi Developers, I think this is a new specific case problem, which is why I created another thread. I have an object of size about less than 5 mm that I scanned with our linac-integrated cone-beam CT with image acquisit…

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## [Create sphere with designated center point](https://discourse.slicer.org/t/create-sphere-with-designated-center-point/33153)

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**Author:** [@lccmyers](https://discourse.slicer.org/u/lccmyers)\
**Replies:** 8\
**Last updated:** [December 4, 2023, 7:53pm UTC](https://discourse.slicer.org/t/create-sphere-with-designated-center-point/33153 "2023-12-04T19:53:15Z")

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I’d like to know how to create a sphere with customizable size with the centroid of the sphere being a designated markup point, any ideas?

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## [FFT from ITK Simple Filters (vs rest of Slicer)](https://discourse.slicer.org/t/fft-from-itk-simple-filters-vs-rest-of-slicer/33206)

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**Author:** [@shai-ikko](https://discourse.slicer.org/u/shai-ikko)\
**Replies:** 1\
**Last updated:** [December 4, 2023, 5:24pm UTC](https://discourse.slicer.org/t/fft-from-itk-simple-filters-vs-rest-of-slicer/33206 "2023-12-04T17:24:06Z")

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Hi, I am trying to do some image processing with Slicer, and one of the things I wanted to try was a High Pass filter. I found no such filter ready-made, so I thought I might construct one using parts which are. The fir…

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## [Export axial image stack as BMP/TIFF](https://discourse.slicer.org/t/export-axial-image-stack-as-bmp-tiff/33169)

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**Author:** [@snehak](https://discourse.slicer.org/u/snehak)\
**Replies:** 2\
**Last updated:** [December 4, 2023, 5:08pm UTC](https://discourse.slicer.org/t/export-axial-image-stack-as-bmp-tiff/33169 "2023-12-04T17:08:15Z")

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I am working on a project that involves loading DICOMM images into 3D slicer, cropping the image into 2 layers, performing re-orientation of the sagittal plane (using reformat), adjusting window leveling, and then export…

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## [Error when editing a segmentation](https://discourse.slicer.org/t/error-when-editing-a-segmentation/33185)

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**Author:** [@dhaughto](https://discourse.slicer.org/u/dhaughto)\
**Replies:** 11\
**Last updated:** [December 4, 2023, 2:14pm UTC](https://discourse.slicer.org/t/error-when-editing-a-segmentation/33185 "2023-12-04T14:14:42Z")

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Operating system: MAC OS M2 running Sonoma Slicer version: 5.6 Expected behavior: painting and drawing will not add on to a segmentation Actual behavior: Get the following error Traceback (most recent call last): Fi…

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## [Volume of fat within lymph node](https://discourse.slicer.org/t/volume-of-fat-within-lymph-node/31956)

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**Author:** [@Priyanka](https://discourse.slicer.org/u/Priyanka)\
**Replies:** 9\
**Last updated:** [December 4, 2023, 1:13pm UTC](https://discourse.slicer.org/t/volume-of-fat-within-lymph-node/31956 "2023-12-04T13:13:59Z")

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Hello, I am new to 3D slicer and had a query. My project requires me to segment the lymph nodes and calculate the volume, which I was able to do with segment editor. Additionally, I have to calculate the volume of fat wi…

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## [Smoothing/ Hole Filling problem](https://discourse.slicer.org/t/smoothing-hole-filling-problem/4530)

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**Author:** [@kantzoul](https://discourse.slicer.org/u/kantzoul)\
**Replies:** 2\
**Last updated:** [December 4, 2023, 8:55am UTC](https://discourse.slicer.org/t/smoothing-hole-filling-problem/4530 "2023-12-04T08:55:50Z")

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Hi all, So I am having trouble fixing some holes on my Tympanic membrane model. After using the closing holes option for smoothing in the segmentation editor, whilst some holes where repaired some still persist. I have …

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## [How to setup the parameters in SetSliceToRASByNTP?](https://discourse.slicer.org/t/how-to-setup-the-parameters-in-setslicetorasbyntp/33192)

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**Author:** [@derekcbr](https://discourse.slicer.org/u/derekcbr)\
**Replies:** 0\
**Last updated:** [December 4, 2023, 5:17am UTC](https://discourse.slicer.org/t/how-to-setup-the-parameters-in-setslicetorasbyntp/33192 "2023-12-04T05:17:57Z")

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I am trying to use plane matrix to control the green slice position and rotation. matrix\_transform = np.array(\[ \[1, 0, 0, 0.2\], \[0, 1, 0, 0.3\], \[0, 0, 1, 0.4\], \[0, 0, 0, 1\] \]) How to use matrix to setup the parame…

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## [Color scale for PET segmentation](https://discourse.slicer.org/t/color-scale-for-pet-segmentation/33191)

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**Author:** [@ykl](https://discourse.slicer.org/u/ykl)\
**Replies:** 1\
**Last updated:** [December 4, 2023, 2:23am UTC](https://discourse.slicer.org/t/color-scale-for-pet-segmentation/33191 "2023-12-04T02:23:06Z")

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Operating system: Windows 11 Slicer version: 5.4.0 Hi, I’d like to know how to use a color scale “Rainbow” typically used in PET interpretation software. I am intending to delineate tumors on PET PSMA but need to have …

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## [New feature: maximize view](https://discourse.slicer.org/t/new-feature-maximize-view/19581)

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**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Replies:** 15\
**Last updated:** [December 3, 2023, 10:39pm UTC](https://discourse.slicer.org/t/new-feature-maximize-view/19581 "2023-12-03T22:39:21Z")

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We added a new feature that allows quickly maximize a view (use the space of the entire view layout) without switching between layouts. The feature can be activated using 3 methods: double-click on a view to maximize/…

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## [Heart segmentation problem](https://discourse.slicer.org/t/heart-segmentation-problem/33179)

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**Author:** [@Isabel\_Smith](https://discourse.slicer.org/u/Isabel_Smith)\
**Replies:** 2\
**Last updated:** [December 3, 2023, 4:27pm UTC](https://discourse.slicer.org/t/heart-segmentation-problem/33179 "2023-12-03T16:27:08Z")

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Operating system: Windows 11 Slicer version: 5.4.0. Expected behavior: Actual behavior: Hi! I am having trouble with replicating this segmentation of the heart: I would like to segment this sample (below picture)…

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## [ArterySegmentation module is not loaded ](https://discourse.slicer.org/t/arterysegmentation-module-is-not-loaded/33040)

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**Author:** [@Benny\_Zamir](https://discourse.slicer.org/u/Benny_Zamir)\
**Replies:** 1\
**Last updated:** [November 26, 2023, 6:18pm UTC](https://discourse.slicer.org/t/arterysegmentation-module-is-not-loaded/33040 "2023-11-26T18:18:48Z")

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Hi I can’t see the SlicerVMTK extension. What to do?

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## [Slicer 5.6.0 issue default loaded volume](https://discourse.slicer.org/t/slicer-5-6-0-issue-default-loaded-volume/33158)

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**Author:** [@Nicolas\_Tempier](https://discourse.slicer.org/u/Nicolas_Tempier)\
**Replies:** 1\
**Last updated:** [December 2, 2023, 4:39am UTC](https://discourse.slicer.org/t/slicer-5-6-0-issue-default-loaded-volume/33158 "2023-12-02T04:39:07Z")

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Dear Slicer community, i switched to 3D Slicer 5.6.0 and so reinstalled the python modules that i use, for exemple openslide. But after “coding a bit” (ill post at the end of this post what i mean by that), i restarded…

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## [Slicer crash when launch mutiviews](https://discourse.slicer.org/t/slicer-crash-when-launch-mutiviews/32940)

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**Author:** [@Young\_Wang](https://discourse.slicer.org/u/Young_Wang)\
**Replies:** 7\
**Last updated:** [December 2, 2023, 3:55am UTC](https://discourse.slicer.org/t/slicer-crash-when-launch-mutiviews/32940 "2023-12-02T03:55:00Z")

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Translated Report (Full Report Below) Process: Slicer \[6267\] Path: /Applications/Slicer.app/Contents/MacOS/Slicer Identifier: org.slicer.slicer Version: (5.3.0…

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## [No "Stable" Linux extension packages since Nov 26th](https://discourse.slicer.org/t/no-stable-linux-extension-packages-since-nov-26th/33150)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 7\
**Last updated:** [December 2, 2023, 12:23am UTC](https://discourse.slicer.org/t/no-stable-linux-extension-packages-since-nov-26th/33150 "2023-12-02T00:23:36Z")

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Cdash is not showing any linux packages for stable. Are they still being build? https://slicer.cdash.org/index.php?project=SlicerStable

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## [Slicer fresh build crash start, but executes with sudo permissions](https://discourse.slicer.org/t/slicer-fresh-build-crash-start-but-executes-with-sudo-permissions/32978)

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**Author:** [@acsenrafilho](https://discourse.slicer.org/u/acsenrafilho)\
**Replies:** 14\
**Last updated:** [December 1, 2023, 10:07pm UTC](https://discourse.slicer.org/t/slicer-fresh-build-crash-start-but-executes-with-sudo-permissions/32978 "2023-12-01T22:07:49Z")

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Hi Slicers! I am quite embarrassed to ask this, but I have tried to find this topic on the forum and rebuilding Slicer several times with slightly different options. However, it still continues to happen. The problem i…

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## [Not imported DICOM files](https://discourse.slicer.org/t/not-imported-dicom-files/32868)

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**Author:** [@luarpy](https://discourse.slicer.org/u/luarpy)\
**Replies:** 9\
**Last updated:** [December 1, 2023, 10:03pm UTC](https://discourse.slicer.org/t/not-imported-dicom-files/32868 "2023-12-01T22:03:03Z")

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Hello I could see that Slicer for Linux is not able to load all the DICOM files present in a folder. I have checked the following checks: Files exist: yes Slicer for Windows loads them: yes The files contain data: yes …

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## [New surface model generation method: SurfaceNets](https://discourse.slicer.org/t/new-surface-model-generation-method-surfacenets/32430)

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**Author:** [@Sam\_Horvath](https://discourse.slicer.org/u/Sam_Horvath)\
**Replies:** 2\
**Last updated:** [December 1, 2023, 7:26pm UTC](https://discourse.slicer.org/t/new-surface-model-generation-method-surfacenets/32430 "2023-12-01T19:26:37Z")

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We have now integrated the SurfaceNets isocontouring method into “Show 3D” functionality of the Segment Editor! The new experimental algorithm provides a ~7x speedup to the generation of surface models from segmentation…

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## [Vtkvmtk module is not loaded Please help](https://discourse.slicer.org/t/vtkvmtk-module-is-not-loaded-please-help/33167)

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**Author:** [@Benny\_Zamir](https://discourse.slicer.org/u/Benny_Zamir)\
**Replies:** 1\
**Last updated:** [December 1, 2023, 7:00pm UTC](https://discourse.slicer.org/t/vtkvmtk-module-is-not-loaded-please-help/33167 "2023-12-01T19:00:02Z")

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\[DEBUG\]\[Qt\] 01.12.2023 20:32:46 (unknown:0) - Session start time …: 2023-12-01 20:32:46 \[DEBUG\]\[Qt\] 01.12.2023 20:32:46 (unknown:0) - Slicer version …: 5.6.0 (revision 32390 / 0a13b9c) win-amd64 - installed release \[…

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## [How to install omero-py with slicer.util.pip\_install](https://discourse.slicer.org/t/how-to-install-omero-py-with-slicer-util-pip-install/33163)

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**Author:** [@borjafernanruiz](https://discourse.slicer.org/u/borjafernanruiz)\
**Replies:** 1\
**Last updated:** [December 1, 2023, 6:12pm UTC](https://discourse.slicer.org/t/how-to-install-omero-py-with-slicer-util-pip-install/33163 "2023-12-01T18:12:47Z")

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Hi all, I am working with 3D Slicer on a Ubuntu 20.0.4 docker. I am trying to install the omero-py Python library. It needs to install zero-ice==3.6.5. Additionally, you have to install the following libraries in Ubuntu…

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## [Clarius Live via Plus IMU Data](https://discourse.slicer.org/t/clarius-live-via-plus-imu-data/33061)

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**Author:** [@kst](https://discourse.slicer.org/u/kst)\
**Replies:** 3\
**Last updated:** [December 1, 2023, 2:28pm UTC](https://discourse.slicer.org/t/clarius-live-via-plus-imu-data/33061 "2023-12-01T14:28:57Z")

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Hello, is it possible to transfer the IMU position data of the Clarius C3HD3 to Slicer? The connection via Plus works and live images can also be displayed. How can the position data be used to display the ultrasound ima…

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## [Preserve colors from segment editor node and export it as Nifti LabelMap](https://discourse.slicer.org/t/preserve-colors-from-segment-editor-node-and-export-it-as-nifti-labelmap/33100)

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**Author:** [@Vishal\_P](https://discourse.slicer.org/u/Vishal_P)\
**Replies:** 8\
**Last updated:** [December 1, 2023, 2:11am UTC](https://discourse.slicer.org/t/preserve-colors-from-segment-editor-node-and-export-it-as-nifti-labelmap/33100 "2023-12-01T02:11:02Z")

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Slicer 5.2.2 Hello, i am currently using segment editor and selected Generic Color Table and made following sample segments. and then i move the segments to segmentation module and export it as a new label map, once…

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## [Unable to export segmentation object](https://discourse.slicer.org/t/unable-to-export-segmentation-object/33146)

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**Author:** [@arfei1234](https://discourse.slicer.org/u/arfei1234)\
**Replies:** 2\
**Last updated:** [December 1, 2023, 1:09am UTC](https://discourse.slicer.org/t/unable-to-export-segmentation-object/33146 "2023-12-01T01:09:55Z")

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Hi, I’ve been trying to export my segmentation object as dicom and am unable to do so. I am using the latest nightly build 5.7.0 and the latest SlicerRT and Quantitative Reporting plugin with all the dependencies. I h…

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## [Slicer default text-size is smaller than other applications (Windows)](https://discourse.slicer.org/t/slicer-default-text-size-is-smaller-than-other-applications-windows/33154)

<div class="topic-metadata">

**Author:** [@mau\_igna\_06](https://discourse.slicer.org/u/mau_igna_06)\
**Replies:** 1\
**Last updated:** [November 30, 2023, 10:32pm UTC](https://discourse.slicer.org/t/slicer-default-text-size-is-smaller-than-other-applications-windows/33154 "2023-11-30T22:32:37Z")

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Please see image below showing from left to right a firefox window, visual studio code and Slicer: Hope you can help

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## [Apple Silicon GPU support via Pytorch Nightly ?](https://discourse.slicer.org/t/apple-silicon-gpu-support-via-pytorch-nightly/33145)

<div class="topic-metadata">

**Author:** [@Jamjampi](https://discourse.slicer.org/u/Jamjampi)\
**Replies:** 0\
**Last updated:** [November 30, 2023, 1:54pm UTC](https://discourse.slicer.org/t/apple-silicon-gpu-support-via-pytorch-nightly/33145 "2023-11-30T13:54:33Z")

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Operating system: Mac OS Sonoma Slicer version: 5.6 Hey there thank you for this amazing extension, I know that the version of PyTorch that is currently used only supports CUDA compatible GPUs and for that reason every…

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## ["incorrect" names of segments after importing a TotalSegmentator nifti file](https://discourse.slicer.org/t/incorrect-names-of-segments-after-importing-a-totalsegmentator-nifti-file/33142)

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**Author:** [@Jan\_Lennart](https://discourse.slicer.org/u/Jan_Lennart)\
**Replies:** 0\
**Last updated:** [November 30, 2023, 11:51am UTC](https://discourse.slicer.org/t/incorrect-names-of-segments-after-importing-a-totalsegmentator-nifti-file/33142 "2023-11-30T11:51:39Z")

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Hi Everybody, I have a rather simple questions. I’m using TotalSegmentator externally on a very potent server. Once the segmentation is done I’d like to import it to my Slicer 3d version on my computer. I do the follow…

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