# Support

**URL:** https://discourse.slicer.org/c/support/11.md?no_subcategories=false&page=87

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

**Page:** 88

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## [Dicom import RTSTRUCT that were exported from slicer](https://discourse.slicer.org/t/dicom-import-rtstruct-that-were-exported-from-slicer/36986)

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**Author:** [@gleesoi](https://discourse.slicer.org/u/gleesoi)\
**Replies:** 2\
**Last updated:** [June 24, 2024, 8:15pm UTC](https://discourse.slicer.org/t/dicom-import-rtstruct-that-were-exported-from-slicer/36986 "2024-06-24T20:15:38Z")

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Hi, new to slicer and working on a dicom workflow. I notice that importing my dicom ct and segments look fine in dicom apart from a body rind and couch roi. I then export the ct and contours in dicom to file. I then lo…

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## [ MonaiLabel Models; Training from Scratch multiple times](https://discourse.slicer.org/t/monailabel-models-training-from-scratch-multiple-times/36988)

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**Author:** [@jessicasamir](https://discourse.slicer.org/u/jessicasamir)\
**Replies:** 0\
**Last updated:** [June 24, 2024, 6:26pm UTC](https://discourse.slicer.org/t/monailabel-models-training-from-scratch-multiple-times/36988 "2024-06-24T18:26:44Z")

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Hi everyone! I am a novice at 3D Slicer, but I am super excited to get started! I have already completed the tutorials MonaiLabel offers with the Radiology App and the MONAIBundle app which are both consistent with 3D S…

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## [Running Slicer on an EC2](https://discourse.slicer.org/t/running-slicer-on-an-ec2/36987)

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**Author:** [@Samuel\_Bentley](https://discourse.slicer.org/u/Samuel_Bentley)\
**Replies:** 1\
**Last updated:** [June 24, 2024, 6:03pm UTC](https://discourse.slicer.org/t/running-slicer-on-an-ec2/36987 "2024-06-24T18:03:30Z")

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Hi, I’m trying to install Slicer on a Windows EC2. I’ve tried manually installing the NVIDIA drivers on a GPU instance and have also tried using an EC2 AMI with prebuilt NVIDIA drivers, but neither work. I get a message…

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## [DentalSegmentator extension installation failed](https://discourse.slicer.org/t/dentalsegmentator-extension-installation-failed/36978)

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**Author:** [@nucerar](https://discourse.slicer.org/u/nucerar)\
**Replies:** 1\
**Last updated:** [June 24, 2024, 5:26pm UTC](https://discourse.slicer.org/t/dentalsegmentator-extension-installation-failed/36978 "2024-06-24T17:26:38Z")

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Dear 3D Slicer Community, I am trying to install the DentalSegmentator extension from my MAC PC. When I look for the extension that is built into the software, I cannot find it. When I download the .zip file with the …

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## [ADC maps from separate DWI volumes?](https://discourse.slicer.org/t/adc-maps-from-separate-dwi-volumes/36973)

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**Author:** [@hannaho](https://discourse.slicer.org/u/hannaho)\
**Replies:** 3\
**Last updated:** [June 24, 2024, 4:33pm UTC](https://discourse.slicer.org/t/adc-maps-from-separate-dwi-volumes/36973 "2024-06-24T16:33:40Z")

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Hi all. I have a couple DWI images (b = 0 and b = 1000) from which I would like to determine the ADC values in specific regions. Below is the area I have segmented which I would like to find the ADC value of. I previ…

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## [Zoom link for PW 41?](https://discourse.slicer.org/t/zoom-link-for-pw-41/36979)

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**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Replies:** 1\
**Last updated:** [June 24, 2024, 4:23pm UTC](https://discourse.slicer.org/t/zoom-link-for-pw-41/36979 "2024-06-24T16:23:59Z")

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Hi, could Someone Provide the zoom link for PW 41 ? Or add ist on the PW Website? Thank you

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## [Combining two overlaid volumes into one (with colour)](https://discourse.slicer.org/t/combining-two-overlaid-volumes-into-one-with-colour/36205)

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**Author:** [@hannaho](https://discourse.slicer.org/u/hannaho)\
**Replies:** 5\
**Last updated:** [June 24, 2024, 10:48am UTC](https://discourse.slicer.org/t/combining-two-overlaid-volumes-into-one-with-colour/36205 "2024-06-24T10:48:16Z")

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Hi all, I am trying to add ‘hotspots’ from a DW MRI image over top of a CT image. The goal is to have something that looks like a classic PET-CT image, with anatomical data from CT in greyscale with ‘functional’ info fr…

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## [Programatically use "Specify Geometry" (Python)](https://discourse.slicer.org/t/programatically-use-specify-geometry-python/18941)

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**Author:** [@Alex\_Vergara](https://discourse.slicer.org/u/Alex_Vergara)\
**Replies:** 11\
**Last updated:** [June 24, 2024, 10:39am UTC](https://discourse.slicer.org/t/programatically-use-specify-geometry-python/18941 "2024-06-24T10:39:54Z")

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Hello I want to control programatically this option “Specify Geometry” Basically reassign a new source volume to the segmentation I have tried to use newsegmNode = shNode.GetItemDataNode(newsegmID) …

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## [TotalSegmentator error at first run: ‘DummyFile’ object has no attribute ‘flush’](https://discourse.slicer.org/t/totalsegmentator-error-at-first-run-dummyfile-object-has-no-attribute-flush/28399)

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**Author:** [@antoniozidaric](https://discourse.slicer.org/u/antoniozidaric)\
**Replies:** 12\
**Last updated:** [June 24, 2024, 1:25am UTC](https://discourse.slicer.org/t/totalsegmentator-error-at-first-run-dummyfile-object-has-no-attribute-flush/28399 "2024-06-24T01:25:48Z")

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Hi Iassoan, I’m trying to use the TotalSegmentator Tool but i receive this error below the Apply button: RuntimeError: FIND was unable to find an engine to execute this computation Exception ignored in: \<totalsegmentat…

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## [Regarding the unexpected segmentation effects that occur during segmentation of lung tissue using MONAI Auto3DSeg](https://discourse.slicer.org/t/regarding-the-unexpected-segmentation-effects-that-occur-during-segmentation-of-lung-tissue-using-monai-auto3dseg/36952)

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**Author:** [@lirongyaoper](https://discourse.slicer.org/u/lirongyaoper)\
**Replies:** 1\
**Last updated:** [June 23, 2024, 10:34pm UTC](https://discourse.slicer.org/t/regarding-the-unexpected-segmentation-effects-that-occur-during-segmentation-of-lung-tissue-using-monai-auto3dseg/36952 "2024-06-23T22:34:16Z")

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Operating system:ubuntu 24.04 Slicer version:3D Slicer 5.7.0-2.24-06-06 Expected behavior:Ensure pulmonary vascular continuity Actual behavior:I encountered the following problems when using the Lungs Segmentation mod…

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## [Workflow for segmentation with Vmtk Vesselness Filtering](https://discourse.slicer.org/t/workflow-for-segmentation-with-vmtk-vesselness-filtering/36950)

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**Author:** [@Olivier](https://discourse.slicer.org/u/Olivier)\
**Replies:** 3\
**Last updated:** [June 23, 2024, 10:29pm UTC](https://discourse.slicer.org/t/workflow-for-segmentation-with-vmtk-vesselness-filtering/36950 "2024-06-23T22:29:23Z")

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Hello, I am trying to figure out a workflow to segment connective tissue in muscle volume reconstructions from ultrasound. What I thought of doing is: segment the muscle apply a vesselness filter to the segmented vol…

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## [Slicermorph orientation issue with warped/average model after GPA](https://discourse.slicer.org/t/slicermorph-orientation-issue-with-warped-average-model-after-gpa/36934)

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**Author:** [@coco](https://discourse.slicer.org/u/coco)\
**Replies:** 7\
**Last updated:** [June 23, 2024, 3:58pm UTC](https://discourse.slicer.org/t/slicermorph-orientation-issue-with-warped-average-model-after-gpa/36934 "2024-06-23T15:58:31Z")

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Dear Murat, What I have done below is to run a GPA on three landmark sets for a single reference brain, done all three by three users. I’m still facing another issue regarding making an average model. as you can see f…

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## [Link dual views with relative camera position](https://discourse.slicer.org/t/link-dual-views-with-relative-camera-position/29181)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 5\
**Last updated:** [June 22, 2024, 1:42pm UTC](https://discourse.slicer.org/t/link-dual-views-with-relative-camera-position/29181 "2024-06-22T13:42:37Z")

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I am not sure if title explains it what I want correctly. But here is the use case: I have two models with different orientations, loaded into two 3D viewers. I would like to link the views such that when I rotate right…

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## [Straightening Catheters](https://discourse.slicer.org/t/straightening-catheters/36842)

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**Author:** [@Jessica\_de\_Kort](https://discourse.slicer.org/u/Jessica_de_Kort)\
**Replies:** 5\
**Last updated:** [June 22, 2024, 11:49am UTC](https://discourse.slicer.org/t/straightening-catheters/36842 "2024-06-22T11:49:32Z")

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Hi there, I have curved catheter predicted models and I want the first half of the prediction to be straight and the second half to keep its predicted curvature. Is there a module that would allow me to adjust this curva…

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## [How to export file without patient name](https://discourse.slicer.org/t/how-to-export-file-without-patient-name/36908)

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**Author:** [@akmal871026](https://discourse.slicer.org/u/akmal871026)\
**Replies:** 2\
**Last updated:** [June 22, 2024, 5:11am UTC](https://discourse.slicer.org/t/how-to-export-file-without-patient-name/36908 "2024-06-22T05:11:54Z")

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Dear all, How to export image data set without patient name? Thank you.

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## [Cybersecurity questions](https://discourse.slicer.org/t/cybersecurity-questions/36946)

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**Author:** [@atan17](https://discourse.slicer.org/u/atan17)\
**Replies:** 1\
**Last updated:** [June 22, 2024, 3:06am UTC](https://discourse.slicer.org/t/cybersecurity-questions/36946 "2024-06-22T03:06:07Z")

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Hello, I’m using slicer as part of my Master’s thesis and just have some questions regarding cybersecurity for my ethics application. I couldn’t find them anywhere else so hoping someone here would be able to answer! I…

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## [Play custom sound with Breach Warning?](https://discourse.slicer.org/t/play-custom-sound-with-breach-warning/36790)

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**Author:** [@mikebind](https://discourse.slicer.org/u/mikebind)\
**Replies:** 7\
**Last updated:** [June 21, 2024, 7:26pm UTC](https://discourse.slicer.org/t/play-custom-sound-with-breach-warning/36790 "2024-06-21T19:26:59Z")

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For trainee feedback when using a flexible scope with a electromagnetically tracked tip on a 3D printed mannequin airway, we would like to implement playing of sounds when certain areas are entered or touched. Slicer IG…

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## [Is there a module to help localize lesions？](https://discourse.slicer.org/t/is-there-a-module-to-help-localize-lesions/34474)

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**Author:** [@brynn\_martinsons](https://discourse.slicer.org/u/brynn_martinsons)\
**Replies:** 2\
**Last updated:** [June 21, 2024, 7:08pm UTC](https://discourse.slicer.org/t/is-there-a-module-to-help-localize-lesions/34474 "2024-06-21T19:08:57Z")

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Operating system: Slicer version:5.4.0 Expected behavior: I would like to pinpoint the location of the lesion by 3Dslicer. It is OK to only locate in the lobes of the brain, here are the steps I envisioned Prepare …

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## [How to select a single slice/scene from CT scan and calculate specific segmentation volume stat? ](https://discourse.slicer.org/t/how-to-select-a-single-slice-scene-from-ct-scan-and-calculate-specific-segmentation-volume-stat/36921)

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**Author:** [@hatcher](https://discourse.slicer.org/u/hatcher)\
**Replies:** 5\
**Last updated:** [June 21, 2024, 6:37pm UTC](https://discourse.slicer.org/t/how-to-select-a-single-slice-scene-from-ct-scan-and-calculate-specific-segmentation-volume-stat/36921 "2024-06-21T18:37:20Z")

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Hi all! I have currently been using 3D slicer to segment sarcopenia from CT scans. I use the tissue type segmentation task on Total Segmentator Extension and look at the skeletal muscle. I was able to figure out how to …

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## [How to divide the liver according to vascular drainage？](https://discourse.slicer.org/t/how-to-divide-the-liver-according-to-vascular-drainage/36536)

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**Author:** [@Gerard\_Siker](https://discourse.slicer.org/u/Gerard_Siker)\
**Replies:** 11\
**Last updated:** [June 21, 2024, 12:59pm UTC](https://discourse.slicer.org/t/how-to-divide-the-liver-according-to-vascular-drainage/36536 "2024-06-21T12:59:04Z")

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Hello everyone, I’m trying to divide the liver according to vascular drainage.I tried following the tutorial step by step using the SlicerLiver extension. But when I add all the vessel points and click on the button ‘Ca…

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## [TotalSegmentator installation](https://discourse.slicer.org/t/totalsegmentator-installation/36865)

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**Author:** [@AnyGoe](https://discourse.slicer.org/u/AnyGoe)\
**Replies:** 2\
**Last updated:** [June 21, 2024, 12:19pm UTC](https://discourse.slicer.org/t/totalsegmentator-installation/36865 "2024-06-21T12:19:21Z")

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Dear experts, I just tried to follow the available installation procedure for the TotalSegmentator module. However, when I search for the module inside the Extensions Manager, it doesn’t show up as an option. Has it bee…

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## [Segment comparison error](https://discourse.slicer.org/t/segment-comparison-error/36911)

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**Author:** [@Piergiorgio\_Gaudioso](https://discourse.slicer.org/u/Piergiorgio_Gaudioso)\
**Replies:** 1\
**Last updated:** [June 21, 2024, 11:34am UTC](https://discourse.slicer.org/t/segment-comparison-error/36911 "2024-06-21T11:34:09Z")

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Hi! I am trying to use SegmentComparison module, but it gives me the error “SegmentComparison module is not loaded”. How can I solve it?

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## [Muscle and Fat segmentation](https://discourse.slicer.org/t/muscle-and-fat-segmentation/36940)

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**Author:** [@farzad2020](https://discourse.slicer.org/u/farzad2020)\
**Replies:** 0\
**Last updated:** [June 21, 2024, 11:00am UTC](https://discourse.slicer.org/t/muscle-and-fat-segmentation/36940 "2024-06-21T11:00:42Z")

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Hi there, Could you please let me know if there is a way to use automatic segmentation (total segmentator) to segment fat and muscle?

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## [Best way to flip entire scene](https://discourse.slicer.org/t/best-way-to-flip-entire-scene/36822)

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**Author:** [@evaherbst](https://discourse.slicer.org/u/evaherbst)\
**Replies:** 2\
**Last updated:** [June 21, 2024, 10:09am UTC](https://discourse.slicer.org/t/best-way-to-flip-entire-scene/36822 "2024-06-21T10:09:54Z")

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Hello, I am having some trouble with incorrect orientations of a scan. We received a CT scan of the upper body in .IMA format (unfortunately not DICOM). Therefore to load the CT data I converted to .nrrd in ImageJ, the…

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## [GPA issue with factor](https://discourse.slicer.org/t/gpa-issue-with-factor/36918)

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**Author:** [@coco](https://discourse.slicer.org/u/coco)\
**Replies:** 2\
**Last updated:** [June 21, 2024, 7:07am UTC](https://discourse.slicer.org/t/gpa-issue-with-factor/36918 "2024-06-21T07:07:51Z")

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Dear all, I am facing a recurrent bug with the factor option in the PCA Scatter Plot options in the module alpaca. It s a linux version on calculation server but usually, the first time I am running slicer, I manage to …

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## [How do I analyse bone morphometry (BV, BV/TV, etc.) using 3D slicer?](https://discourse.slicer.org/t/how-do-i-analyse-bone-morphometry-bv-bv-tv-etc-using-3d-slicer/36926)

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**Author:** [@maruf.almaruf](https://discourse.slicer.org/u/maruf.almaruf)\
**Replies:** 0\
**Last updated:** [June 20, 2024, 7:53pm UTC](https://discourse.slicer.org/t/how-do-i-analyse-bone-morphometry-bv-bv-tv-etc-using-3d-slicer/36926 "2024-06-20T19:53:19Z")

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I want to analyse microCT scanned bone sample which has a TCP scaffold. I want to analyse the bone growth within the TCP scaffold by evaluating the bone morphometry using 3D slicer? Can anyone please help me with a stand…

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## [VMTK go to the endpoints when extract centerline](https://discourse.slicer.org/t/vmtk-go-to-the-endpoints-when-extract-centerline/35209)

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**Author:** [@Ethan\_Penn](https://discourse.slicer.org/u/Ethan_Penn)\
**Replies:** 4\
**Last updated:** [June 20, 2024, 4:07pm UTC](https://discourse.slicer.org/t/vmtk-go-to-the-endpoints-when-extract-centerline/35209 "2024-06-20T16:07:28Z")

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when I extract the centerline in slicer, it does not go all the way to the endpoints, just close, is there a way to make it so the centerline will go all the way to the endpoints?

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## [Issue running GPA in Slicermorph](https://discourse.slicer.org/t/issue-running-gpa-in-slicermorph/36906)

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**Author:** [@isacampos495](https://discourse.slicer.org/u/isacampos495)\
**Replies:** 7\
**Last updated:** [June 20, 2024, 2:43pm UTC](https://discourse.slicer.org/t/issue-running-gpa-in-slicermorph/36906 "2024-06-20T14:43:57Z")

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Hello! I’ve been trying to run GPA analysis with Slicermorph but it hasn’t been doing anything. I’ve already successfully run ALPACA with multiple data sets to get my landmarks, but when I try to put them into GPA an…

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## [Slicer closes suddendly in event driven program](https://discourse.slicer.org/t/slicer-closes-suddendly-in-event-driven-program/36913)

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**Author:** [@SANTIAGO\_PENDON\_MING](https://discourse.slicer.org/u/SANTIAGO_PENDON_MING)\
**Replies:** 1\
**Last updated:** [June 20, 2024, 12:56pm UTC](https://discourse.slicer.org/t/slicer-closes-suddendly-in-event-driven-program/36913 "2024-06-20T12:56:34Z")

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Hi to everyone, the problem today is a bit weird. Me and my team have developed a python script where we can create and delete buttons (these buttons allow the user make actions i.e. reslice volume automatically using R…

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## [Problem loading MRI scan. Only one view, axial, is clear, the other two are blurry](https://discourse.slicer.org/t/problem-loading-mri-scan-only-one-view-axial-is-clear-the-other-two-are-blurry/1799)

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**Author:** [@olivya\_caballero](https://discourse.slicer.org/u/olivya_caballero)\
**Replies:** 7\
**Last updated:** [June 19, 2024, 11:39pm UTC](https://discourse.slicer.org/t/problem-loading-mri-scan-only-one-view-axial-is-clear-the-other-two-are-blurry/1799 "2024-06-19T23:39:28Z")

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Operating system: Windows 10 Slicer version: 4.8.0 Expected behavior: All three views are clear Actual behavior: Only axial is clear and the other views are a bit titled and blurry. Unable to get a good 3d model out o…

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