# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=151

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

**Page:** 152

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## [existing module for segmenting grey matter](https://discourse.slicer.org/t/existing-module-for-segmenting-grey-matter/30691)

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**Author:** [@Mahima\_Arora](https://discourse.slicer.org/u/Mahima_Arora)\
**Replies:** 1\
**Last updated:** [July 19, 2023, 11:02pm UTC](https://discourse.slicer.org/t/existing-module-for-segmenting-grey-matter/30691 "2023-07-19T23:02:07Z")

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Hi, I wish to segment the grey matter in the brain in Slicer. I was wondering if there is a way to segment that using any module? Slicer version that I am using - 4.11

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## [Transforming .json markups file](https://discourse.slicer.org/t/transforming-json-markups-file/30610)

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**Author:** [@Sophrobs](https://discourse.slicer.org/u/Sophrobs)\
**Replies:** 9\
**Last updated:** [July 19, 2023, 3:56pm UTC](https://discourse.slicer.org/t/transforming-json-markups-file/30610 "2023-07-19T15:56:10Z")

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Operating system: MacOS Ventura 13.4.1 Slicer version: 5.2.2 Expected behavior: Save .json file with transform applied Actual behavior: Transform is not applied and markups are in the same position as the original fil…

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## [Combine two CT volumes and generate a new dicom set](https://discourse.slicer.org/t/combine-two-ct-volumes-and-generate-a-new-dicom-set/17654)

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**Author:** [@wjd582](https://discourse.slicer.org/u/wjd582)\
**Replies:** 7\
**Last updated:** [July 18, 2023, 6:50pm UTC](https://discourse.slicer.org/t/combine-two-ct-volumes-and-generate-a-new-dicom-set/17654 "2023-07-18T18:50:06Z")

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Operating system: window 7 Slicer version:4.11.0-2020-08-19 Hello. Now I am trying to combine two dicom set to a singe dicom set. As you can I above image, I have two volumes that are Lower and Upper body. What I…

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## [calculating vessel angles](https://discourse.slicer.org/t/calculating-vessel-angles/30659)

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**Author:** [@pan\_fangjia](https://discourse.slicer.org/u/pan_fangjia)\
**Replies:** 0\
**Last updated:** [July 18, 2023, 3:05pm UTC](https://discourse.slicer.org/t/calculating-vessel-angles/30659 "2023-07-18T15:05:02Z")

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Hello! I tried to use slicer to make reconstruction of intracranial vessels. After I received the models, I would like to know the angles between the vessels at the bifurcation point. Are there any way I can access to …

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## [Slicer crashes when using arrayFromSegmentBinaryLabelmap if segment is too small](https://discourse.slicer.org/t/slicer-crashes-when-using-arrayfromsegmentbinarylabelmap-if-segment-is-too-small/30636)

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**Author:** [@kkkkkkk123](https://discourse.slicer.org/u/kkkkkkk123)\
**Replies:** 2\
**Last updated:** [July 18, 2023, 2:34pm UTC](https://discourse.slicer.org/t/slicer-crashes-when-using-arrayfromsegmentbinarylabelmap-if-segment-is-too-small/30636 "2023-07-18T14:34:12Z")

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Hello, I am trying to use arrayFromSegmentBinaryLabelmap, but when my segmentation is too small (e.g. just a few voxels), 3D Slicer crashes. Is there any way to prevent this? Can I extract information about the size of s…

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## [How to Create shadows of the segments?](https://discourse.slicer.org/t/how-to-create-shadows-of-the-segments/30406)

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**Author:** [@shahrokh](https://discourse.slicer.org/u/shahrokh)\
**Replies:** 7\
**Last updated:** [July 18, 2023, 12:19pm UTC](https://discourse.slicer.org/t/how-to-create-shadows-of-the-segments/30406 "2023-07-18T12:19:56Z")

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Dear Developers and Users I want to create an image, with a certain matrix and pixel sizes, of the shadows of the segments in RTSTRUCTURE (one of the inputs used in SlicerRT) on a plan at a distance of 160 cm from the t…

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## [How to make the ruler longer like this picture](https://discourse.slicer.org/t/how-to-make-the-ruler-longer-like-this-picture/30635)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 3\
**Last updated:** [July 18, 2023, 3:04am UTC](https://discourse.slicer.org/t/how-to-make-the-ruler-longer-like-this-picture/30635 "2023-07-18T03:04:47Z")

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Any script will be helpful!

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## [Convert DICOM to STEP or other Autodesk inventor compatible format](https://discourse.slicer.org/t/convert-dicom-to-step-or-other-autodesk-inventor-compatible-format/30642)

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**Author:** [@alogdia](https://discourse.slicer.org/u/alogdia)\
**Replies:** 1\
**Last updated:** [July 18, 2023, 2:32am UTC](https://discourse.slicer.org/t/convert-dicom-to-step-or-other-autodesk-inventor-compatible-format/30642 "2023-07-18T02:32:04Z")

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Hello everyone! using 3d slicer can i convert DICOM images to STEP or in another format that can be used and processed by the software Autodesk inventor.

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## [C1001: Internal compiler error](https://discourse.slicer.org/t/c1001-internal-compiler-error/29604)

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**Author:** [@Ngo\_Minh\_Toan](https://discourse.slicer.org/u/Ngo_Minh_Toan)\
**Replies:** 9\
**Last updated:** [July 18, 2023, 12:18am UTC](https://discourse.slicer.org/t/c1001-internal-compiler-error/29604 "2023-07-18T00:18:56Z")

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I tried to build the latest Slicer on Windows using CMake 3.26.3 and Visual Studio 2022 17.6.1 with the prerequisites have met (Windows — 3D Slicer documentation) CMake configure and generate the Release build were don…

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## [Problems with files from Visible Human](https://discourse.slicer.org/t/problems-with-files-from-visible-human/30018)

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**Author:** [@Guido\_Resmini](https://discourse.slicer.org/u/Guido_Resmini)\
**Replies:** 2\
**Last updated:** [July 17, 2023, 9:36pm UTC](https://discourse.slicer.org/t/problems-with-files-from-visible-human/30018 "2023-07-17T21:36:20Z")

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Version: 5.2.2 OS: Windows 11 Dear all, I’m having problems uploading files (.fro, .fre, .t1, .t2, .pd) downloaded from Visible Human. Here is a screenshot of the error: I’ve also tried to open these files from …

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## [Obtaining Surface Area from Volume Shape](https://discourse.slicer.org/t/obtaining-surface-area-from-volume-shape/30529)

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**Author:** [@JasonMunoz](https://discourse.slicer.org/u/JasonMunoz)\
**Replies:** 2\
**Last updated:** [July 17, 2023, 8:43pm UTC](https://discourse.slicer.org/t/obtaining-surface-area-from-volume-shape/30529 "2023-07-17T20:43:42Z")

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OS: Windows 11 Version: 3D Slicer 5.2.2 Good morning, I am relatively new to the world of 3D Slicer and had some questions for the use of the program. Obviously, some questions I ask may be very easy to deny/accept be…

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## [Consider a non-destructive default in segment editor masking options](https://discourse.slicer.org/t/consider-a-non-destructive-default-in-segment-editor-masking-options/30631)

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**Author:** [@chir.set](https://discourse.slicer.org/u/chir.set)\
**Replies:** 3\
**Last updated:** [July 17, 2023, 8:13pm UTC](https://discourse.slicer.org/t/consider-a-non-destructive-default-in-segment-editor-masking-options/30631 "2023-07-17T20:13:33Z")

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The item ‘Modify other segments’ in the masking options of the ‘Segment editor’ defaults to ‘Overwrite all’. When working with multiple segments, we may forget to switch to ‘Allow overlap’ so as to preserve prior work, a…

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## [Signal loss through slices in sample. Need Cause and Post-Processing suggestions](https://discourse.slicer.org/t/signal-loss-through-slices-in-sample-need-cause-and-post-processing-suggestions/30611)

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**Author:** [@nasibov\_98](https://discourse.slicer.org/u/nasibov_98)\
**Replies:** 2\
**Last updated:** [July 17, 2023, 3:43pm UTC](https://discourse.slicer.org/t/signal-loss-through-slices-in-sample-need-cause-and-post-processing-suggestions/30611 "2023-07-17T15:43:41Z")

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Hi, I am working on a project to segment tumours and livers automatically in FLASH axial images of mouse livers. There is progressive signal loss as I approach the bottom-most slices in a 45 slice image. I have attached…

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## [Using U-net (R231) model for lung segmentation in Python IDE](https://discourse.slicer.org/t/using-u-net-r231-model-for-lung-segmentation-in-python-ide/30626)

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**Author:** [@Nima\_Yousefi](https://discourse.slicer.org/u/Nima_Yousefi)\
**Replies:** 3\
**Last updated:** [July 16, 2023, 5:16pm UTC](https://discourse.slicer.org/t/using-u-net-r231-model-for-lung-segmentation-in-python-ide/30626 "2023-07-16T17:16:26Z")

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Hi, I want to use U-net model for lung segmentation and create it’s mask, I read the descriptive text on “GitHub - JoHof/lungmask: Automated lung segmentation in CT” but unfortunately it didn’t help me enough. Is there…

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## [How to reslice an image along a curve?](https://discourse.slicer.org/t/how-to-reslice-an-image-along-a-curve/30629)

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**Author:** [@icedream](https://discourse.slicer.org/u/icedream)\
**Replies:** 1\
**Last updated:** [July 16, 2023, 12:10pm UTC](https://discourse.slicer.org/t/how-to-reslice-an-image-along-a-curve/30629 "2023-07-16T12:10:27Z")

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is there exist a slicer extension to function to split layer in a straighted image like the picture above

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## [PET/CT image registartion](https://discourse.slicer.org/t/pet-ct-image-registartion/30283)

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**Author:** [@Sbeta](https://discourse.slicer.org/u/Sbeta)\
**Replies:** 6\
**Last updated:** [July 16, 2023, 4:43am UTC](https://discourse.slicer.org/t/pet-ct-image-registartion/30283 "2023-07-16T04:43:19Z")

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Hi, I am a learner. I have a 512x512x74 CT image with 0.3848x0.3848x3 mm voxel size and PET image,135x135x74 with 3x3x3mm voxel size. Please advise me on the PET/CT registration process with different dimensions and voxe…

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## [Improve slice intersection display and interactions](https://discourse.slicer.org/t/improve-slice-intersection-display-and-interactions/30622)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 4\
**Last updated:** [July 16, 2023, 1:28am UTC](https://discourse.slicer.org/t/improve-slice-intersection-display-and-interactions/30622 "2023-07-16T01:28:16Z")

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I suggest that when the user clicks this icon, this option should be selected by default, or how to keep it selected through the script.

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## [How to connect three webcamera through Plus?](https://discourse.slicer.org/t/how-to-connect-three-webcamera-through-plus/30616)

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**Author:** [@jay1987](https://discourse.slicer.org/u/jay1987)\
**Replies:** 4\
**Last updated:** [July 16, 2023, 1:12am UTC](https://discourse.slicer.org/t/how-to-connect-three-webcamera-through-plus/30616 "2023-07-16T01:12:55Z")

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I want to connect three webcamera into my slicer app , one for Axial , One for Saggital , On for Coronal,right now i have managered to connect one webcamera into my Slicer app through Plus,how to connect three ?

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## [Adding Fiducial Markings](https://discourse.slicer.org/t/adding-fiducial-markings/30467)

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**Author:** [@sulaimanvesal](https://discourse.slicer.org/u/sulaimanvesal)\
**Replies:** 6\
**Last updated:** [July 15, 2023, 3:35pm UTC](https://discourse.slicer.org/t/adding-fiducial-markings/30467 "2023-07-15T15:35:56Z")

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Hi, I am working on prostate biopsy and I do have the x,y,z information of 16 cores top and bottom for both MRI and Ultrasound. I want to use python to automatically create a fiducial markers for bottom and tip of each …

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## [How to edit the segmentation masks generated after sequence registration](https://discourse.slicer.org/t/how-to-edit-the-segmentation-masks-generated-after-sequence-registration/29925)

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**Author:** [@Sanjib\_Gurung](https://discourse.slicer.org/u/Sanjib_Gurung)\
**Replies:** 4\
**Last updated:** [July 15, 2023, 3:32pm UTC](https://discourse.slicer.org/t/how-to-edit-the-segmentation-masks-generated-after-sequence-registration/29925 "2023-07-15T15:32:44Z")

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Hi, I applied the sequence registration to apply segmentation to series of images. However, I cannot edit the generated masks by using the tools in the segment editor. Is there a way to edit the segmentation masks after …

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## [Saving of MultiVolume Problems](https://discourse.slicer.org/t/saving-of-multivolume-problems/30590)

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**Author:** [@Liam\_S](https://discourse.slicer.org/u/Liam_S)\
**Replies:** 1\
**Last updated:** [July 15, 2023, 3:20pm UTC](https://discourse.slicer.org/t/saving-of-multivolume-problems/30590 "2023-07-15T15:20:29Z")

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Hi I am using slicer 5.2.2 to segment 4D Cardiac CT data. I am trying to use sequences to segment each time point but there seems to be an issue with saving volume sequences and multivolume datasets. I can load my imag…

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## [Why  the module Cardiacagatston cannot be used in the slicer 5.2.2?](https://discourse.slicer.org/t/why-the-module-cardiacagatston-cannot-be-used-in-the-slicer-5-2-2/30498)

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**Author:** [@SYL](https://discourse.slicer.org/u/SYL)\
**Replies:** 5\
**Last updated:** [July 15, 2023, 3:00pm UTC](https://discourse.slicer.org/t/why-the-module-cardiacagatston-cannot-be-used-in-the-slicer-5-2-2/30498 "2023-07-15T15:00:55Z")

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why the module Cardiacagatston cannot be used in the slicer 5.2.2

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## [Something wrong with the new slicer after installed some modules](https://discourse.slicer.org/t/something-wrong-with-the-new-slicer-after-installed-some-modules/30613)

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**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\
**Replies:** 2\
**Last updated:** [July 15, 2023, 12:19pm UTC](https://discourse.slicer.org/t/something-wrong-with-the-new-slicer-after-installed-some-modules/30613 "2023-07-15T12:19:01Z")

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What happened? Python 3.9.10 (main, Feb 22 2023, 01:07:37) \[MSC v.1930 64 bit (AMD64)\] on win32 \>\>\> \[Qt\] Error(s): \[Qt\] CLI executable: D:/3DSlicer/slicer5.2.2/NA-MIC/Extensions-31382/SlicerVMTK/lib/Slicer-5.2/qt…

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## [The least voxels that ROI should contains](https://discourse.slicer.org/t/the-least-voxels-that-roi-should-contains/30609)

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**Author:** [@PEC](https://discourse.slicer.org/u/PEC)\
**Replies:** 3\
**Last updated:** [July 15, 2023, 8:13am UTC](https://discourse.slicer.org/t/the-least-voxels-that-roi-should-contains/30609 "2023-07-15T08:13:02Z")

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Hello, I am conducting a software research on medical image feature extraction.In order to extract medical image features, the depicted ROI should contain at least how many voxels？ @lassoan

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## [Rotation around specific point](https://discourse.slicer.org/t/rotation-around-specific-point/9398)

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**Author:** [@Jmarcs](https://discourse.slicer.org/u/Jmarcs)\
**Replies:** 13\
**Last updated:** [July 14, 2023, 4:53pm UTC](https://discourse.slicer.org/t/rotation-around-specific-point/9398 "2023-07-14T16:53:50Z")

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Is it possible to change the center of rotation of an object in Transform when i move it

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## [Relative transform between linked 3D views](https://discourse.slicer.org/t/relative-transform-between-linked-3d-views/30597)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 7\
**Last updated:** [July 14, 2023, 4:49pm UTC](https://discourse.slicer.org/t/relative-transform-between-linked-3d-views/30597 "2023-07-14T16:49:50Z")

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i wish for the following to be possible in dual 3d screen synchronization work through moving in the same direction but not be a duplicate. right now, if I click on sync, the other 3d view will replicate the original v…

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## [Averaging rotations and calculating the variability](https://discourse.slicer.org/t/averaging-rotations-and-calculating-the-variability/30605)

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**Author:** [@Melanie](https://discourse.slicer.org/u/Melanie)\
**Replies:** 1\
**Last updated:** [July 14, 2023, 2:21pm UTC](https://discourse.slicer.org/t/averaging-rotations-and-calculating-the-variability/30605 "2023-07-14T14:21:44Z")

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Hi, I use the model registration module to register bones and calculate the 3-d displacements. My aim is to define the axis of rotation (finite helical axis). I would like to calculate a mean rotation for all transfor…

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## [Segmentation error with location](https://discourse.slicer.org/t/segmentation-error-with-location/30386)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 4\
**Last updated:** [July 14, 2023, 1:17pm UTC](https://discourse.slicer.org/t/segmentation-error-with-location/30386 "2023-07-14T13:17:23Z")

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I did this segmentation. however, the position is incorrect as in the picture

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## [Error while training with MONAILabel's deepedit](https://discourse.slicer.org/t/error-while-training-with-monailabels-deepedit/30582)

<div class="topic-metadata">

**Author:** [@lukasvanderstricht](https://discourse.slicer.org/u/lukasvanderstricht)\
**Replies:** 5\
**Last updated:** [July 14, 2023, 11:05am UTC](https://discourse.slicer.org/t/error-while-training-with-monailabels-deepedit/30582 "2023-07-14T11:05:34Z")

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Dear all I am currently using 3D Slicer and its MONAILabel extension to train a segmentation model using the DeepEdit model from the predefined radiology app. Both manual segmentation and training have been going smooth…

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## [Path of the loaded fiber bundle](https://discourse.slicer.org/t/path-of-the-loaded-fiber-bundle/30524)

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**Author:** [@Kening\_Zhang](https://discourse.slicer.org/u/Kening_Zhang)\
**Replies:** 6\
**Last updated:** [July 14, 2023, 8:20am UTC](https://discourse.slicer.org/t/path-of-the-loaded-fiber-bundle/30524 "2023-07-14T08:20:34Z")

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Dear developers, I am trying to get the file path of the fiber bundle loaded in the slicer, here I use a selector to assign a data, and I try to use command GetStorageNode().GetFileName() to get the path. This is my co…

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