# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=71

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

**Page:** 72

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## [Reload module error](https://discourse.slicer.org/t/reload-module-error/39581)

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**Author:** [@Shirly\_Someck](https://discourse.slicer.org/u/Shirly_Someck)\
**Replies:** 5\
**Last updated:** [October 10, 2024, 11:44am UTC](https://discourse.slicer.org/t/reload-module-error/39581 "2024-10-10T11:44:27Z")

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Hi, I’ve been using slicer a few months now, and recently trying to write an extension. Yesterday I moved some of my python files to a new path (since I had trouble importing them to my project), and since then I can’t…

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## [How to interpolate CT scan slices so i can plot it in 3D ](https://discourse.slicer.org/t/how-to-interpolate-ct-scan-slices-so-i-can-plot-it-in-3d/39605)

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**Author:** [@Baron\_Noam](https://discourse.slicer.org/u/Baron_Noam)\
**Replies:** 1\
**Last updated:** [October 10, 2024, 4:44am UTC](https://discourse.slicer.org/t/how-to-interpolate-ct-scan-slices-so-i-can-plot-it-in-3d/39605 "2024-10-10T04:44:14Z")

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Hey I’m currently working on a personal project where i try to reconstruct CT scans image and the last part of my project include visualizing my reconstructed image in 3D. But i’m currently stuck, I successfully reconstr…

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## [Reslice perpendicular to center line?](https://discourse.slicer.org/t/reslice-perpendicular-to-center-line/39622)

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**Author:** [@syafirasea](https://discourse.slicer.org/u/syafirasea)\
**Replies:** 1\
**Last updated:** [October 10, 2024, 4:36am UTC](https://discourse.slicer.org/t/reslice-perpendicular-to-center-line/39622 "2024-10-10T04:36:38Z")

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How can I reslice my planes to always be perpendicular to the center line that I have defined? I have a vessel that bends and curves, and I want to convert all of my images of each cross-sectional slice to be orthogonal …

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## [ABL Temporal Bone Segmentation Module ERROR](https://discourse.slicer.org/t/abl-temporal-bone-segmentation-module-error/39609)

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**Author:** [@BDA](https://discourse.slicer.org/u/BDA)\
**Replies:** 1\
**Last updated:** [October 10, 2024, 4:33am UTC](https://discourse.slicer.org/t/abl-temporal-bone-segmentation-module-error/39609 "2024-10-10T04:33:32Z")

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Operating system: windows Slicer version: 5.7.0 Expected behavior: Temporal bone segmentation from CT images Actual behavior: I want to get a three-dimensional model of the temporal bone in CT images with ABL temporal…

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## [Curved planar reformat can't be found](https://discourse.slicer.org/t/curved-planar-reformat-cant-be-found/28013)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 4\
**Last updated:** [October 10, 2024, 4:01am UTC](https://discourse.slicer.org/t/curved-planar-reformat-cant-be-found/28013 "2024-10-10T04:01:12Z")

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I’m not able to find curved multi-planar reformat module in slicer 5.3. 2023.2.17 on mac os

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## [Which files would I need to modify to replace the UR5 robot with my ABB IRB 120 robot?](https://discourse.slicer.org/t/which-files-would-i-need-to-modify-to-replace-the-ur5-robot-with-my-abb-irb-120-robot/13299)

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**Author:** [@CHRIS\_HUYNH](https://discourse.slicer.org/u/CHRIS_HUYNH)\
**Replies:** 3\
**Last updated:** [September 2, 2020, 4:18pm UTC](https://discourse.slicer.org/t/which-files-would-i-need-to-modify-to-replace-the-ur5-robot-with-my-abb-irb-120-robot/13299 "2020-09-02T16:18:54Z")

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Continuing the discussion from Is there a way to integrate 3D slicer and ROS?:, Hi, I’ve gone through Junichi Tokuda’s tutorial on how to integrate ROS and 3D slicer for planning purposes, but I now want to integrate m…

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## [Is there any conferences related to Slicer?](https://discourse.slicer.org/t/is-there-any-conferences-related-to-slicer/39591)

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**Author:** [@ytw0809](https://discourse.slicer.org/u/ytw0809)\
**Replies:** 2\
**Last updated:** [October 10, 2024, 1:06am UTC](https://discourse.slicer.org/t/is-there-any-conferences-related-to-slicer/39591 "2024-10-10T01:06:41Z")

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I apologize that my first post on this forum is a question like this. I regularly get a lot of help from this forum using slicer. Slicer is well-structed, complex, and has many interesting features. That’s why I’m cur…

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## [Stitching 2 MRI images with deformation.](https://discourse.slicer.org/t/stitching-2-mri-images-with-deformation/39623)

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**Author:** [@Haowen\_Wei](https://discourse.slicer.org/u/Haowen_Wei)\
**Replies:** 0\
**Last updated:** [October 9, 2024, 11:23pm UTC](https://discourse.slicer.org/t/stitching-2-mri-images-with-deformation/39623 "2024-10-09T23:23:55Z")

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Hello 3D Slicer Community, I am working with two MRI images of a leg—one capturing the upper section and the other covering the lower section. There is an overlap between these two images, but unfortunately, the regions…

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## [Export Default "Reformat" Registration](https://discourse.slicer.org/t/export-default-reformat-registration/39617)

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**Author:** [@ThymusTheTrain](https://discourse.slicer.org/u/ThymusTheTrain)\
**Replies:** 1\
**Last updated:** [October 9, 2024, 11:13pm UTC](https://discourse.slicer.org/t/export-default-reformat-registration/39617 "2024-10-09T23:13:04Z")

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I have an angled T2w sequence and a straight axial T1w. When I use the T2w as a base, the T1w seems to automatically adjust to nicely align with the anatomy in the T2w sequence and is called “Reformat” in the image viewe…

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## [How to install packages in slicer windows](https://discourse.slicer.org/t/how-to-install-packages-in-slicer-windows/39598)

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**Author:** [@maniron](https://discourse.slicer.org/u/maniron)\
**Replies:** 2\
**Last updated:** [October 9, 2024, 11:19am UTC](https://discourse.slicer.org/t/how-to-install-packages-in-slicer-windows/39598 "2024-10-09T11:19:47Z")

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Hi I want to install package in slicer for my plugin, How to do it, As I was using PythonSlicer.exe for installing packages is it the right way . As I could see slicer version 5.2.2 and 5.6.2 both are having PythonSlice…

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## [Is it possible to create a second 3D view without changing layout?](https://discourse.slicer.org/t/is-it-possible-to-create-a-second-3d-view-without-changing-layout/39586)

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**Author:** [@mau\_igna\_06](https://discourse.slicer.org/u/mau_igna_06)\
**Replies:** 1\
**Last updated:** [October 8, 2024, 10:34pm UTC](https://discourse.slicer.org/t/is-it-possible-to-create-a-second-3d-view-without-changing-layout/39586 "2024-10-08T22:34:35Z")

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Hi, my custom layout has 2 threeDViews. This layout is available in the layout menu after Slicer starts up but, apparently, I cannot access the second threeDView until the custom layout has not been set once. This is a…

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## [View two models(stl) side by side in 3d slicer](https://discourse.slicer.org/t/view-two-models-stl-side-by-side-in-3d-slicer/39588)

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**Author:** [@Puja\_Ghosh](https://discourse.slicer.org/u/Puja_Ghosh)\
**Replies:** 2\
**Last updated:** [October 8, 2024, 9:05pm UTC](https://discourse.slicer.org/t/view-two-models-stl-side-by-side-in-3d-slicer/39588 "2024-10-08T21:05:07Z")

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how to show two slt models side by side in 3d slicer? where I can see both at the same time and also two different in different sides?

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## [Regression in the DICOM data base](https://discourse.slicer.org/t/regression-in-the-dicom-data-base/37913)

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**Author:** [@rkikinis](https://discourse.slicer.org/u/rkikinis)\
**Replies:** 16\
**Last updated:** [October 8, 2024, 8:26pm UTC](https://discourse.slicer.org/t/regression-in-the-dicom-data-base/37913 "2024-10-08T20:26:31Z")

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Loading the following data set in Slicer nightly 8-15 on Mac OS 14.6.1 fails. The same data set works without problem in the stable release 5.6.2 The data is from IDC and loads into slicer with the IDC viewer. Seri…

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## [3D reconstruction of collagen structure](https://discourse.slicer.org/t/3d-reconstruction-of-collagen-structure/39541)

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**Author:** [@papagalos21](https://discourse.slicer.org/u/papagalos21)\
**Replies:** 3\
**Last updated:** [October 8, 2024, 4:57pm UTC](https://discourse.slicer.org/t/3d-reconstruction-of-collagen-structure/39541 "2024-10-08T16:57:48Z")

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Hello, I want to ask help for my project. So i have a stack of images from the collagen structure in the abnominal aorta. The stack consists 81 images with 1μm between them. The size of each image is 500μm X 500μm. I w…

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## [Cross Section Analysis Freezing](https://discourse.slicer.org/t/cross-section-analysis-freezing/37206)

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**Author:** [@SANTIAGO\_PENDON\_MING](https://discourse.slicer.org/u/SANTIAGO_PENDON_MING)\
**Replies:** 25\
**Last updated:** [October 8, 2024, 2:09pm UTC](https://discourse.slicer.org/t/cross-section-analysis-freezing/37206 "2024-10-08T14:09:53Z")

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Hi all. We automatizated the cross section analysis computation for our own centerlines. The program runs like this: def obtainDataFromGeometry(segmentationNode, segmentID, branchID, G, centerlinesDict, tableNode, …

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## [How to cut completely flat surface of phantom](https://discourse.slicer.org/t/how-to-cut-completely-flat-surface-of-phantom/39543)

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**Author:** [@HAN](https://discourse.slicer.org/u/HAN)\
**Replies:** 3\
**Last updated:** [October 8, 2024, 6:47am UTC](https://discourse.slicer.org/t/how-to-cut-completely-flat-surface-of-phantom/39543 "2024-10-08T06:47:53Z")

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Dear all, Hello, I need some help to resolve this problem. I wanted to cut the phantom and use it to 3D printer. So, I tried to use Cut function of Segment Editor tap. But, the sample phantom below doesn’t have the co…

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## [How to change parameters for output model?](https://discourse.slicer.org/t/how-to-change-parameters-for-output-model/39520)

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**Author:** [@JonNithal](https://discourse.slicer.org/u/JonNithal)\
**Replies:** 6\
**Last updated:** [October 7, 2024, 4:24pm UTC](https://discourse.slicer.org/t/how-to-change-parameters-for-output-model/39520 "2024-10-07T16:24:53Z")

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Hello, I am an orthopedic specialist in the United States, specializing in knee replacements. Our organization has been using Mimics for years, but we decided to switch to an alternative due to the increasing cost of th…

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## [Importing SynthMorph transform/deformation field output (NIFTI) into 3D Slicer](https://discourse.slicer.org/t/importing-synthmorph-transform-deformation-field-output-nifti-into-3d-slicer/38550)

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**Author:** [@andy97](https://discourse.slicer.org/u/andy97)\
**Replies:** 7\
**Last updated:** [October 7, 2024, 3:21pm UTC](https://discourse.slicer.org/t/importing-synthmorph-transform-deformation-field-output-nifti-into-3d-slicer/38550 "2024-10-07T15:21:22Z")

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Hi, I am using SynthMorph via ‘mri\_synthmorph’ command from Freesurfer to get the transform (deformation field) from image registration: mri\_synthmorph -m joint -t def.nii.gz moving.nii.gz fixed.nii.gz when I use this…

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## [Plane Fitting and Local to Global Transform Calculation](https://discourse.slicer.org/t/plane-fitting-and-local-to-global-transform-calculation/39518)

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**Author:** [@evaherbst](https://discourse.slicer.org/u/evaherbst)\
**Replies:** 6\
**Last updated:** [October 7, 2024, 1:19pm UTC](https://discourse.slicer.org/t/plane-fitting-and-local-to-global-transform-calculation/39518 "2024-10-07T13:19:00Z")

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Hello, I am trying to fit a plane to the glenoid to define a new local coordinate system, to calculate the transform between that coordinate system and a previous one. The glenoid’s previous coordinate system is curren…

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## [Run Cross-Section Analysis with models](https://discourse.slicer.org/t/run-cross-section-analysis-with-models/39561)

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**Author:** [@SANTIAGO\_PENDON\_MING](https://discourse.slicer.org/u/SANTIAGO_PENDON_MING)\
**Replies:** 1\
**Last updated:** [October 7, 2024, 11:11am UTC](https://discourse.slicer.org/t/run-cross-section-analysis-with-models/39561 "2024-10-07T11:11:46Z")

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Hi to everyone. My team and I were in troubles with Cross-Section Analysis extension a few months ago. The problem remains today… (See more in https://discourse.slicer.org/t/cross-section-analysis-freezing/37206/17) We…

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## [Creating 3D model from large (90GB) segmentation (NRRD volume)](https://discourse.slicer.org/t/creating-3d-model-from-large-90gb-segmentation-nrrd-volume/38483)

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**Author:** [@Tyler](https://discourse.slicer.org/u/Tyler)\
**Replies:** 25\
**Last updated:** [October 6, 2024, 4:24pm UTC](https://discourse.slicer.org/t/creating-3d-model-from-large-90gb-segmentation-nrrd-volume/38483 "2024-10-06T16:24:48Z")

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So I have a nrrd volume about 90 Gb in size, I can segment this fine but converting the segmentation to model via export would throw the error of out of memory ( although I have plenty of memory left (tried on one machin…

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## [How to load label name from file (in this case xlm](https://discourse.slicer.org/t/how-to-load-label-name-from-file-in-this-case-xlm/38052)

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**Author:** [@Tobias](https://discourse.slicer.org/u/Tobias)\
**Replies:** 1\
**Last updated:** [October 6, 2024, 11:46am UTC](https://discourse.slicer.org/t/how-to-load-label-name-from-file-in-this-case-xlm/38052 "2024-10-06T11:46:37Z")

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Hi I want to load a dataset that has segments and then i have an xlm file with the name for each segment. Is there any easy way of making the names link to the segments?

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## [Running ALPACA from Python Console](https://discourse.slicer.org/t/running-alpaca-from-python-console/35538)

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**Author:** [@evaherbst](https://discourse.slicer.org/u/evaherbst)\
**Replies:** 12\
**Last updated:** [October 6, 2024, 8:00am UTC](https://discourse.slicer.org/t/running-alpaca-from-python-console/35538 "2024-10-06T08:00:01Z")

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Hello, I am trying to run ALPACA from the Python console. I am accessing the logic with: import ALPACA AlpacaLogic = ALPACA.ALPACALogic() Then I define my paths and directories as inputs for ALPACA batch mode. I se…

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## [Saving landmark files for ALPACA - details requested](https://discourse.slicer.org/t/saving-landmark-files-for-alpaca-details-requested/38248)

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**Author:** [@pamelaeck](https://discourse.slicer.org/u/pamelaeck)\
**Replies:** 22\
**Last updated:** [October 5, 2024, 12:25am UTC](https://discourse.slicer.org/t/saving-landmark-files-for-alpaca-details-requested/38248 "2024-10-05T00:25:40Z")

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Still a newbie here … I created a landmark template for a fifth cervical vertebra and want to transfer the landmarks to more C5 vertebrae via ALPACA. I see in the ALPACA tutorial that the source mesh is a .ply and the s…

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## [SlicerHeart segmentation / cine-display of a 4D dataset](https://discourse.slicer.org/t/slicerheart-segmentation-cine-display-of-a-4d-dataset/37827)

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**Author:** [@J\_Deng](https://discourse.slicer.org/u/J_Deng)\
**Replies:** 3\
**Last updated:** [October 4, 2024, 9:31pm UTC](https://discourse.slicer.org/t/slicerheart-segmentation-cine-display-of-a-4d-dataset/37827 "2024-10-04T21:31:39Z")

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The Play button appears to only allow cine-display of three orthogonal 2D views but not of the 4D volume. Using Segmentation Editor, seeds only grow within the volume at one time point of a 4D dataset. How to make seeds…

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## [Getting started with MONAIlabel](https://discourse.slicer.org/t/getting-started-with-monailabel/38559)

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**Author:** [@gendex](https://discourse.slicer.org/u/gendex)\
**Replies:** 2\
**Last updated:** [October 4, 2024, 1:56pm UTC](https://discourse.slicer.org/t/getting-started-with-monailabel/38559 "2024-10-04T13:56:36Z")

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Dear Slicer Community, I have been working with Slicer for a while now and have recently started using the MONAI module in Slicer. However, I’m having some issues getting the output that I’m looking for. I’ve managed t…

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## [View Panels get irresponsive to input](https://discourse.slicer.org/t/view-panels-get-irresponsive-to-input/31645)

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**Author:** [@HOAreg](https://discourse.slicer.org/u/HOAreg)\
**Replies:** 6\
**Last updated:** [October 4, 2024, 6:59am UTC](https://discourse.slicer.org/t/view-panels-get-irresponsive-to-input/31645 "2024-10-04T06:59:29Z")

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Hi! First of all thanks for all who helped to create this wonderful software, really outstanding project! I frequently have a “freeze” of one or several of the view panels, which means that no mouse input is working in…

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## [Brain Strip mask](https://discourse.slicer.org/t/brain-strip-mask/38560)

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**Author:** [@BDhoth](https://discourse.slicer.org/u/BDhoth)\
**Replies:** 2\
**Last updated:** [October 3, 2024, 4:55pm UTC](https://discourse.slicer.org/t/brain-strip-mask/38560 "2024-10-03T16:55:48Z")

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Brain strip mask still overlaying scan. Can I get this off to clearly visualize the scan better?

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## [Support python text highlighting in Text module](https://discourse.slicer.org/t/support-python-text-highlighting-in-text-module/34511)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 19\
**Last updated:** [October 3, 2024, 3:49pm UTC](https://discourse.slicer.org/t/support-python-text-highlighting-in-text-module/34511 "2024-10-03T15:49:09Z")

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As discussed in this thread, it would be nice to have a simple text editor that supports code highlight and indentation that can be routed directly into the python console for interactive python scripts. Would be a valu…

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## [Deleting slices - keep every n-th slice](https://discourse.slicer.org/t/deleting-slices-keep-every-n-th-slice/39523)

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**Author:** [@Dejf](https://discourse.slicer.org/u/Dejf)\
**Replies:** 2\
**Last updated:** [October 3, 2024, 3:32pm UTC](https://discourse.slicer.org/t/deleting-slices-keep-every-n-th-slice/39523 "2024-10-03T15:32:11Z")

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Hello, I am about to do segmentation on dataset that has more than 5000 slices. I would like to delete even slices or maybe keep every 3rd or 4th slice and get rid of the rest. Is there any way how to do this? Thank you,…

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