# Support

**URL:** https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=55

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

**Page:** 56

---

## [Can't access MONAI Label server from 3D Slicer](https://discourse.slicer.org/t/cant-access-monai-label-server-from-3d-slicer/31301)

<div class="topic-metadata">

**Author:** [@shihje](https://discourse.slicer.org/u/shihje)\
**Replies:** 11\
**Last updated:** [January 27, 2025, 6:10pm UTC](https://discourse.slicer.org/t/cant-access-monai-label-server-from-3d-slicer/31301 "2025-01-27T18:10:35Z")

</div>

I’m trying to use 3D Slicer as a visualization tool for MONAI Label. I started up the MONAI Label server using the monailabel CLI in an SSH terminal, and got an IP address of the Uvicorn session: I then input this IP…

---

## [Issue while starting the MONAILabel server](https://discourse.slicer.org/t/issue-while-starting-the-monailabel-server/25839)

<div class="topic-metadata">

**Author:** [@deboshree\_roy](https://discourse.slicer.org/u/deboshree_roy)\
**Replies:** 2\
**Last updated:** [January 27, 2025, 6:09pm UTC](https://discourse.slicer.org/t/issue-while-starting-the-monailabel-server/25839 "2025-01-27T18:09:30Z")

</div>

Problem report for Slicer 5.0.3 win-amd64: \[please describe expected and actual behavior\] While initializing the server an error message - \[2022-10-22 12:03:10,941\] \[2356\] \[MainThread\] \[INFO\] (uvicorn.error:59) - Appli…

---

## [Magneticencephalography(MEG) for neuro-imaging fif files supportive in 3D slicer 5.0version](https://discourse.slicer.org/t/magneticencephalography-meg-for-neuro-imaging-fif-files-supportive-in-3d-slicer-5-0version/41311)

<div class="topic-metadata">

**Author:** [@Sri](https://discourse.slicer.org/u/Sri)\
**Replies:** 0\
**Last updated:** [January 27, 2025, 12:15pm UTC](https://discourse.slicer.org/t/magneticencephalography-meg-for-neuro-imaging-fif-files-supportive-in-3d-slicer-5-0version/41311 "2025-01-27T12:15:25Z")

</div>

i have a project which combines MEG files and MRI and PET files together does 3D slicer support fif files also?

---

## [Convert DICOM-RTSTRUCT format to Nifti format](https://discourse.slicer.org/t/convert-dicom-rtstruct-format-to-nifti-format/1580)

<div class="topic-metadata">

**Author:** [@glhfgg1024](https://discourse.slicer.org/u/glhfgg1024)\
**Replies:** 10\
**Last updated:** [January 27, 2025, 7:02am UTC](https://discourse.slicer.org/t/convert-dicom-rtstruct-format-to-nifti-format/1580 "2025-01-27T07:02:41Z")

</div>

Hi all, I’m facing another problem. I’m using machine learning method to do segmentation for medical images, and at first I convert the DICOM files to Nifti format. I have several DICOM directories and their correspondin…

---

## [The LV model reconstruction of 2D cineMRI](https://discourse.slicer.org/t/the-lv-model-reconstruction-of-2d-cinemri/41301)

<div class="topic-metadata">

**Author:** [@LWRwada](https://discourse.slicer.org/u/LWRwada)\
**Replies:** 0\
**Last updated:** [January 27, 2025, 2:21am UTC](https://discourse.slicer.org/t/the-lv-model-reconstruction-of-2d-cinemri/41301 "2025-01-27T02:21:50Z")

</div>

Hi, Everyone! Recently, I have acquired 2D cine MRI data. For the sagittal and short-axis planes, the cine series contains 20 frames per plane. I have already created the LV model at the ED phase. I would like to recon…

---

## [bad\_alloc error in slicerfreesurfer on 5.2.1 Linux](https://discourse.slicer.org/t/bad-alloc-error-in-slicerfreesurfer-on-5-2-1-linux/26694)

<div class="topic-metadata">

**Author:** [@kytk](https://discourse.slicer.org/u/kytk)\
**Replies:** 6\
**Last updated:** [January 26, 2025, 10:11pm UTC](https://discourse.slicer.org/t/bad-alloc-error-in-slicerfreesurfer-on-5-2-1-linux/26694 "2025-01-26T22:11:12Z")

</div>

Hi, I have trouble using FreeSurfer Importer provided with the SlicerFreSurfer extension. Problem: When I try to load segmentation, it cuases bad\_alloc error. The error message is below. “Slicer has caught an applicat…

---

## [Getting longest dimension of surface mesh with SVD](https://discourse.slicer.org/t/getting-longest-dimension-of-surface-mesh-with-svd/40694)

<div class="topic-metadata">

**Author:** [@evaherbst](https://discourse.slicer.org/u/evaherbst)\
**Replies:** 3\
**Last updated:** [January 26, 2025, 6:12pm UTC](https://discourse.slicer.org/t/getting-longest-dimension-of-surface-mesh-with-svd/40694 "2025-01-26T18:12:55Z")

</div>

Hello, I am working with vtk and np.linalg.svd to get the main axes of a surface mesh. I want to use the SVD singular values to find the longest dimensions of the model (as far as I understand, the singular values repr…

---

## [Shortcut keys doesnt work properly on Dental Segmentator 3dSlicer 5.8.0](https://discourse.slicer.org/t/shortcut-keys-doesnt-work-properly-on-dental-segmentator-3dslicer-5-8-0/41286)

<div class="topic-metadata">

**Author:** [@Esteban\_Barreiro](https://discourse.slicer.org/u/Esteban_Barreiro)\
**Replies:** 2\
**Last updated:** [January 25, 2025, 7:11pm UTC](https://discourse.slicer.org/t/shortcut-keys-doesnt-work-properly-on-dental-segmentator-3dslicer-5-8-0/41286 "2025-01-25T19:11:45Z")

</div>

Hi there! Im using 3dSlicer 5.8.0 and the shortcut ESC doesnt work properly on Dental Segmentator, it does not cancel the editing effect as in the Segment Editor Extra Effects. Also you cant change the name of the segm…

---

## [How can I download interactive charting of sequence module :(](https://discourse.slicer.org/t/how-can-i-download-interactive-charting-of-sequence-module/41277)

<div class="topic-metadata">

**Author:** [@yuriel](https://discourse.slicer.org/u/yuriel)\
**Replies:** 0\
**Last updated:** [January 25, 2025, 10:54am UTC](https://discourse.slicer.org/t/how-can-i-download-interactive-charting-of-sequence-module/41277 "2025-01-25T10:54:06Z")

</div>

Hi! I’m newbie in 3D Slicer. I want to measure difference between the FLAIR sequences signal intensity but I only can find the interactive charting in Sequence module. Can I get a numeric values for this charting?

---

## [3d Slicer and Amira have different(opposite) orientation](https://discourse.slicer.org/t/3d-slicer-and-amira-have-different-opposite-orientation/41245)

<div class="topic-metadata">

**Author:** [@Puja\_Ghosh](https://discourse.slicer.org/u/Puja_Ghosh)\
**Replies:** 12\
**Last updated:** [January 24, 2025, 9:17pm UTC](https://discourse.slicer.org/t/3d-slicer-and-amira-have-different-opposite-orientation/41245 "2025-01-24T21:17:29Z")

</div>

Why MRI data orientation of 3d Slicer and Amira is opposite? the left and right side is opposite to each other? Can anyone please tell why this happens? which one is correct?

---

## [A bit of confusion about the slicer coordinate system](https://discourse.slicer.org/t/a-bit-of-confusion-about-the-slicer-coordinate-system/29883)

<div class="topic-metadata">

**Author:** [@ma1282029525](https://discourse.slicer.org/u/ma1282029525)\
**Replies:** 13\
**Last updated:** [January 24, 2025, 8:54pm UTC](https://discourse.slicer.org/t/a-bit-of-confusion-about-the-slicer-coordinate-system/29883 "2025-01-24T20:54:55Z")

</div>

The itk coordinate system is lps, and the slider is ras. However, why does the cursor on the slider display coordinates that are not actually ras? For example, the dicom coordinates are (1, 1, 1), while the actual coordi…

---

## [Creating fibular cutting guide and saved data](https://discourse.slicer.org/t/creating-fibular-cutting-guide-and-saved-data/41208)

<div class="topic-metadata">

**Author:** [@Enkh-Orchlon\_Batbaya](https://discourse.slicer.org/u/Enkh-Orchlon_Batbaya)\
**Replies:** 4\
**Last updated:** [January 24, 2025, 6:11pm UTC](https://discourse.slicer.org/t/creating-fibular-cutting-guide-and-saved-data/41208 "2025-01-24T18:11:55Z")

</div>

Dear All, I have working on this case couple days, and finally able to plan fibula cutiing guide. However, after creating the guide using boolean operation and saved it as STL file, I could not see any miter box and hol…

---

## [DentalSegmentator error](https://discourse.slicer.org/t/dentalsegmentator-error/41262)

<div class="topic-metadata">

**Author:** [@Nermin\_Morgan](https://discourse.slicer.org/u/Nermin_Morgan)\
**Replies:** 0\
**Last updated:** [January 24, 2025, 3:32pm UTC](https://discourse.slicer.org/t/dentalsegmentator-error/41262 "2025-01-24T15:32:47Z")

</div>

Hello I downloaded preview version 5.7 and I could not use the dental segmentator, this error appears in the console: \[Qt\] void \_\_cdecl qMRMLSegmentEditorWidget::setSourceVolumeNode(class vtkMRMLNode \*) failed: need t…

---

## [DICOM Files not displaying different views properly](https://discourse.slicer.org/t/dicom-files-not-displaying-different-views-properly/41261)

<div class="topic-metadata">

**Author:** [@sofia](https://discourse.slicer.org/u/sofia)\
**Replies:** 1\
**Last updated:** [January 24, 2025, 3:31pm UTC](https://discourse.slicer.org/t/dicom-files-not-displaying-different-views-properly/41261 "2025-01-24T15:31:57Z")

</div>

I am relatively new to using slicer, I have only used tutorial sets of data, which are automatically set up to open all views properly. My issue, however, is that when opening, nothing looks right, and I don’t know ho…

---

## [Importing Color-Corrected TIFFs](https://discourse.slicer.org/t/importing-color-corrected-tiffs/41260)

<div class="topic-metadata">

**Author:** [@milbelle](https://discourse.slicer.org/u/milbelle)\
**Replies:** 0\
**Last updated:** [January 24, 2025, 3:27pm UTC](https://discourse.slicer.org/t/importing-color-corrected-tiffs/41260 "2025-01-24T15:27:29Z")

</div>

Hello! Hope you’re all having a lovely January so far. I recently received a scan that I needed to do some color correcting to, in order to increase contrast. I have done so in Lightroom since that is the program that i…

---

## [Gantry rotation order?](https://discourse.slicer.org/t/gantry-rotation-order/41259)

<div class="topic-metadata">

**Author:** [@DeclanGarvey](https://discourse.slicer.org/u/DeclanGarvey)\
**Replies:** 0\
**Last updated:** [January 24, 2025, 3:26pm UTC](https://discourse.slicer.org/t/gantry-rotation-order/41259 "2025-01-24T15:26:19Z")

</div>

Hi, I am currently writing my own code for coordinate transformations which will involve Gantry rotation around Y and Gantry pitch rotation around X. So I was wondering what is the standard order of rotations, is it pitc…

---

## [3d view in segmentation rendering does not show anyting](https://discourse.slicer.org/t/3d-view-in-segmentation-rendering-does-not-show-anyting/41254)

<div class="topic-metadata">

**Author:** [@alex\_He](https://discourse.slicer.org/u/alex_He)\
**Replies:** 3\
**Last updated:** [January 24, 2025, 2:26pm UTC](https://discourse.slicer.org/t/3d-view-in-segmentation-rendering-does-not-show-anyting/41254 "2025-01-24T14:26:05Z")

</div>

hi I tried to show the 3d view in the volume rendering module but unsucessful. please advise and see the attached screen capture. thank you

---

## [Can't download because the source file cannot be read](https://discourse.slicer.org/t/cant-download-because-the-source-file-cannot-be-read/41158)

<div class="topic-metadata">

**Author:** [@ValerieS](https://discourse.slicer.org/u/ValerieS)\
**Replies:** 16\
**Last updated:** [January 23, 2025, 10:58pm UTC](https://discourse.slicer.org/t/cant-download-because-the-source-file-cannot-be-read/41158 "2025-01-23T22:58:30Z")

</div>

I’m working on Windows 11, can’t download 5.6.2. It gets to about 15% and then stops. I get a message saying ‘can’t download because the source file cannot be read’. I have not used 3D slicer for a while, but the 4.10.2 …

---

## [TAVR module in Slicer](https://discourse.slicer.org/t/tavr-module-in-slicer/41171)

<div class="topic-metadata">

**Author:** [@PaoloZaffino](https://discourse.slicer.org/u/PaoloZaffino)\
**Replies:** 1\
**Last updated:** [January 23, 2025, 3:37pm UTC](https://discourse.slicer.org/t/tavr-module-in-slicer/41171 "2025-01-23T15:37:14Z")

</div>

Hi all, I saw this video and I was wondering which extension/module is that (and how to get it). Any idea? Thanks a lot. Paolo

---

## [Need help on changing dicom modality](https://discourse.slicer.org/t/need-help-on-changing-dicom-modality/41212)

<div class="topic-metadata">

**Author:** [@alientex](https://discourse.slicer.org/u/alientex)\
**Replies:** 3\
**Last updated:** [January 23, 2025, 1:29pm UTC](https://discourse.slicer.org/t/need-help-on-changing-dicom-modality/41212 "2025-01-23T13:29:06Z")

</div>

Hello, As per my use case, I want to change the modality of DICOM data when importing a DICOM directory, so that when viewing the DICOM metadata, it reflects the changes I made. Can anyone please help me achieve thi…

---

## [Easy way to display the metadata of a CT](https://discourse.slicer.org/t/easy-way-to-display-the-metadata-of-a-ct/41220)

<div class="topic-metadata">

**Author:** [@Matteboo](https://discourse.slicer.org/u/Matteboo)\
**Replies:** 1\
**Last updated:** [January 23, 2025, 1:13pm UTC](https://discourse.slicer.org/t/easy-way-to-display-the-metadata-of-a-ct/41220 "2025-01-23T13:13:45Z")

</div>

Hello, I’m working on cases transfered by an hospital. The case contains multiple CT. When I load the CT they are ordered by the series number. I want to order them by acquisition time to make it easier to understand th…

---

## [Export DICOM-SEG data](https://discourse.slicer.org/t/export-dicom-seg-data/21636)

<div class="topic-metadata">

**Author:** [@Johannes](https://discourse.slicer.org/u/Johannes)\
**Replies:** 4\
**Last updated:** [January 23, 2025, 11:33am UTC](https://discourse.slicer.org/t/export-dicom-seg-data/21636 "2025-01-23T11:33:16Z")

</div>

Hi everyone, I cannot export DICOM SEG files from anonymized DICOM files. It works without any problems with DICOM objects that have not been anonymized. As an example, this dataset from the internet can be used to re…

---

## [Segment section of adipose tissue whose radial distance from the blood vessel wall is equal to the diameter of the blood vessel.](https://discourse.slicer.org/t/segment-section-of-adipose-tissue-whose-radial-distance-from-the-blood-vessel-wall-is-equal-to-the-diameter-of-the-blood-vessel/41017)

<div class="topic-metadata">

**Author:** [@seraphina](https://discourse.slicer.org/u/seraphina)\
**Replies:** 15\
**Last updated:** [January 23, 2025, 8:39am UTC](https://discourse.slicer.org/t/segment-section-of-adipose-tissue-whose-radial-distance-from-the-blood-vessel-wall-is-equal-to-the-diameter-of-the-blood-vessel/41017 "2025-01-23T08:39:58Z")

</div>

I would like to obtain a segment of adipose tissue whose radial distance from the blood vessel wall is equal to the diameter of the blood vessel, and this segment can change along with the variation of the blood vessel d…

---

## [Constraining ruler tool to a perfectly horizontal or vertical line](https://discourse.slicer.org/t/constraining-ruler-tool-to-a-perfectly-horizontal-or-vertical-line/41229)

<div class="topic-metadata">

**Author:** [@Bella\_Salerno](https://discourse.slicer.org/u/Bella_Salerno)\
**Replies:** 0\
**Last updated:** [January 22, 2025, 7:17pm UTC](https://discourse.slicer.org/t/constraining-ruler-tool-to-a-perfectly-horizontal-or-vertical-line/41229 "2025-01-22T19:17:51Z")

</div>

Hello, I have a question regarding the ruler tool and creating a measurement line. Is there a way to ‘snap’ the line to a perfectly horizontal or vertical line? For example, in other applications I can hold down the “sh…

---

## [How to Improve TotalSegmentator's Spine Segmentation in 3D Slicer?](https://discourse.slicer.org/t/how-to-improve-totalsegmentators-spine-segmentation-in-3d-slicer/41213)

<div class="topic-metadata">

**Author:** [@wenlin\_x](https://discourse.slicer.org/u/wenlin_x)\
**Replies:** 1\
**Last updated:** [January 22, 2025, 7:09pm UTC](https://discourse.slicer.org/t/how-to-improve-totalsegmentators-spine-segmentation-in-3d-slicer/41213 "2025-01-22T19:09:17Z")

</div>

Hi, I am using TotalSegmentator to segment the spine from CT scans. However, I noticed that certain parts, such as the spinous processes, are not segmented very well. I would like to manually refine the segmentation res…

---

## [Empty voxels upon joint smoothing](https://discourse.slicer.org/t/empty-voxels-upon-joint-smoothing/41194)

<div class="topic-metadata">

**Author:** [@coco](https://discourse.slicer.org/u/coco)\
**Replies:** 6\
**Last updated:** [January 22, 2025, 4:05pm UTC](https://discourse.slicer.org/t/empty-voxels-upon-joint-smoothing/41194 "2025-01-22T16:05:21Z")

</div>

Dear all, We have brain samples that we segment using a seeding/grow from seeds approach followed by a joint smoothing. This last step results in a couple of empty voxels as you can see on the picture below: the red…

---

## [Nasal Build and Reconsturction; 3D CT and 3D MRI to show bone and soft tissue interaction.](https://discourse.slicer.org/t/nasal-build-and-reconsturction-3d-ct-and-3d-mri-to-show-bone-and-soft-tissue-interaction/41173)

<div class="topic-metadata">

**Author:** [@Justin\_Rhiner](https://discourse.slicer.org/u/Justin_Rhiner)\
**Replies:** 7\
**Last updated:** [January 22, 2025, 8:06am UTC](https://discourse.slicer.org/t/nasal-build-and-reconsturction-3d-ct-and-3d-mri-to-show-bone-and-soft-tissue-interaction/41173 "2025-01-22T08:06:29Z")

</div>

Hello I am trying to reconstruct and show every piece of nasal septum, cartilidge and bone in a nose like. I currently have a 64 slice nasal CT and a nasal MRI. I have been able to rebuild the CT and show the crooked na…

---

## [Activate Fill in mode](https://discourse.slicer.org/t/activate-fill-in-mode/41204)

<div class="topic-metadata">

**Author:** [@mbol](https://discourse.slicer.org/u/mbol)\
**Replies:** 1\
**Last updated:** [January 22, 2025, 2:24am UTC](https://discourse.slicer.org/t/activate-fill-in-mode/41204 "2025-01-22T02:24:11Z")

</div>

Hello everyone! I just simply want to activate the fill in mode on segmentation editor. I want to be able to draw a circle and get it filled automatically. I looked everywhere for instructions which all brinigng up Tool…

---

## [Lost data of segmentation](https://discourse.slicer.org/t/lost-data-of-segmentation/41201)

<div class="topic-metadata">

**Author:** [@yuvaraj\_bigwigs](https://discourse.slicer.org/u/yuvaraj_bigwigs)\
**Replies:** 1\
**Last updated:** [January 22, 2025, 2:19am UTC](https://discourse.slicer.org/t/lost-data-of-segmentation/41201 "2025-01-22T02:19:21Z")

</div>

Hi guys I am new to slicer tool. I did segmentation using segmentation option in slicer and I accidentally saved it as .nhrd file Instead of .nrrd file.if I try loading the .nhrd file it show Cannot load file.What shoul…

---

## [Spectral Lung CT. Ventilation and perfusión](https://discourse.slicer.org/t/spectral-lung-ct-ventilation-and-perfusion/41191)

<div class="topic-metadata">

**Author:** [@titotitoide](https://discourse.slicer.org/u/titotitoide)\
**Replies:** 0\
**Last updated:** [January 21, 2025, 2:06pm UTC](https://discourse.slicer.org/t/spectral-lung-ct-ventilation-and-perfusion/41191 "2025-01-21T14:06:38Z")

</div>

Hi I am trying to analyze a lung CT scan I have performed to assess the perfusion ventilation of a patient. I have performed it using a spectral CT. Is there any way to obtain a perfusion ventilation map using 3D slice? …

[Previous page](https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=54)

[Next page](https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=56)