# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=210

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

**Page:** 211

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## [Segment Mesher Module in Slicer 5.0.3](https://discourse.slicer.org/t/segment-mesher-module-in-slicer-5-0-3/24731)

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**Author:** [@F.A](https://discourse.slicer.org/u/F.A)\
**Replies:** 2\
**Last updated:** [August 12, 2022, 7:25pm UTC](https://discourse.slicer.org/t/segment-mesher-module-in-slicer-5-0-3/24731 "2022-08-12T19:25:41Z")

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Hi, I was using “Segment Mesher” module in slicer 4.13 to get the volumetric mesh with the capability of extracting material properties using “Prob Volume with Model”, but I can’t find it in Slicer 5.0.3. I appreciate y…

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## [Decomposing 4d nrrd](https://discourse.slicer.org/t/decomposing-4d-nrrd/24722)

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**Author:** [@Deepthy\_Rose\_Jose\_am](https://discourse.slicer.org/u/Deepthy_Rose_Jose_am)\
**Replies:** 0\
**Last updated:** [August 12, 2022, 5:30am UTC](https://discourse.slicer.org/t/decomposing-4d-nrrd/24722 "2022-08-12T05:30:27Z")

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Hello! I wanted to decompose a 4d nrrd file into a sequence of 3d nrrd files with timestamp. Please find the attached image for reference. Looking forward to your inputs

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## [App quit while operating on big volume](https://discourse.slicer.org/t/app-quit-while-operating-on-big-volume/24720)

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**Author:** [@allenzhuang975](https://discourse.slicer.org/u/allenzhuang975)\
**Replies:** 2\
**Last updated:** [August 12, 2022, 3:12am UTC](https://discourse.slicer.org/t/app-quit-while-operating-on-big-volume/24720 "2022-08-12T03:12:41Z")

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Problem report for Slicer 5.0.3 win-amd64: \[please describe expected and actual behavior\] Volume was about 674 x 674 x 1974. When I rotating the volumes in the cener windows, the app crushed, and every time. It takes up…

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## [Segmentation scheme](https://discourse.slicer.org/t/segmentation-scheme/24612)

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**Author:** [@radiodid](https://discourse.slicer.org/u/radiodid)\
**Replies:** 8\
**Last updated:** [August 12, 2022, 2:33am UTC](https://discourse.slicer.org/t/segmentation-scheme/24612 "2022-08-12T02:33:58Z")

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I need to perform the same segmentation example on a huge number of images. Is there a way to create a common sample that I could use every time for different images? Sorry if this is somewhere on the forum, but I could…

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## [Slicer windows in a custom web application](https://discourse.slicer.org/t/slicer-windows-in-a-custom-web-application/24706)

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**Author:** [@NaglisR](https://discourse.slicer.org/u/NaglisR)\
**Replies:** 5\
**Last updated:** [August 11, 2022, 2:20pm UTC](https://discourse.slicer.org/t/slicer-windows-in-a-custom-web-application/24706 "2022-08-11T14:20:15Z")

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Hi all, I have a somewhat abstract question regarding integrating slicer windows in a custom web application window. Generally I suppose it should work something like this https://youtu.be/vTGQMDIqL9k meaning that the Sl…

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## [How to access realtime outside signs?](https://discourse.slicer.org/t/how-to-access-realtime-outside-signs/24556)

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**Author:** [@whu](https://discourse.slicer.org/u/whu)\
**Replies:** 8\
**Last updated:** [August 11, 2022, 7:20am UTC](https://discourse.slicer.org/t/how-to-access-realtime-outside-signs/24556 "2022-08-11T07:20:57Z")

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Dear All, How to access a real-time external signal source? And displayed on the slice interface. I have a device that generates real-time coordinate information （using usb interface） and simulates navigation, ho…

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## [How do I change the thickness of line with MarkupsROINode](https://discourse.slicer.org/t/how-do-i-change-the-thickness-of-line-with-markupsroinode/24686)

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**Author:** [@1023185654](https://discourse.slicer.org/u/1023185654)\
**Replies:** 2\
**Last updated:** [August 11, 2022, 2:39am UTC](https://discourse.slicer.org/t/how-do-i-change-the-thickness-of-line-with-markupsroinode/24686 "2022-08-11T02:39:27Z")

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hello,everyone. I tried to set the LineThickness and Line Width to MarkupsROINode,but it not work, i want to change the thickness of line,is there any good ideas?

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## [Creating two sets of "Slice intersection" in a "Three over three window"?](https://discourse.slicer.org/t/creating-two-sets-of-slice-intersection-in-a-three-over-three-window/24699)

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**Author:** [@spencer.t.brinker](https://discourse.slicer.org/u/spencer.t.brinker)\
**Replies:** 2\
**Last updated:** [August 10, 2022, 10:40pm UTC](https://discourse.slicer.org/t/creating-two-sets-of-slice-intersection-in-a-three-over-three-window/24699 "2022-08-10T22:40:33Z")

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This request is for attempting to produce two sets of independent “Slice Intersection” markers for independent use in top and bottom rows of a “Three over three” window. I use 3D slicer for a tracking one objects but I w…

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## [Why not working monai pathology?](https://discourse.slicer.org/t/why-not-working-monai-pathology/24703)

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**Author:** [@jhchoi](https://discourse.slicer.org/u/jhchoi)\
**Replies:** 1\
**Last updated:** [August 10, 2022, 1:48pm UTC](https://discourse.slicer.org/t/why-not-working-monai-pathology/24703 "2022-08-10T13:48:39Z")

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I installed monai to 3d slicer 5.0. It was working very well(as using radiology with sample files). so I want to change from radiology to pathology and other sample files. but in this pic, it was not working… how to …

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## [ThinPlateSplineKernelTransform\_double\_3\_3](https://discourse.slicer.org/t/thinplatesplinekerneltransform-double-3-3/24299)

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**Author:** [@Jean\_Jacquemier](https://discourse.slicer.org/u/Jean_Jacquemier)\
**Replies:** 16\
**Last updated:** [August 10, 2022, 9:52am UTC](https://discourse.slicer.org/t/thinplatesplinekerneltransform-double-3-3/24299 "2022-08-10T09:52:08Z")

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The author of a this paper (Brain microvasculature has a common topology with local differences in geometry that match metabolic load - ScienceDirect) published his data: a mouse brain vasculature and the transormation f…

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## [How to stich together several 3D models derived from CT segmentation? ](https://discourse.slicer.org/t/how-to-stich-together-several-3d-models-derived-from-ct-segmentation/24708)

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**Author:** [@Nicole\_Torres-Tamayo](https://discourse.slicer.org/u/Nicole_Torres-Tamayo)\
**Replies:** 1\
**Last updated:** [August 10, 2022, 9:46am UTC](https://discourse.slicer.org/t/how-to-stich-together-several-3d-models-derived-from-ct-segmentation/24708 "2022-08-10T09:46:47Z")

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Hi there, I am using 3D slicer to segment some micro-CTs that I have collected for my post-doc research. These micro-CTs are very very heavy because of their high resolution. They are composed 2000-3000 slices in DICOM …

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## [Exporting multiple markup points](https://discourse.slicer.org/t/exporting-multiple-markup-points/24707)

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**Author:** [@AMK](https://discourse.slicer.org/u/AMK)\
**Replies:** 0\
**Last updated:** [August 10, 2022, 9:01am UTC](https://discourse.slicer.org/t/exporting-multiple-markup-points/24707 "2022-08-10T09:01:48Z")

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Hi, I am trying to export multiple markup points from my slicer window to an excel sheet. I tried to use the script provided in the script repository. markupsNode = slicer.util.getNode(‘F’) slicer.modules.markups.logi…

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## [Converting DICOM structure sets to PLY format](https://discourse.slicer.org/t/converting-dicom-structure-sets-to-ply-format/24700)

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**Author:** [@indywood](https://discourse.slicer.org/u/indywood)\
**Replies:** 0\
**Last updated:** [August 9, 2022, 10:36pm UTC](https://discourse.slicer.org/t/converting-dicom-structure-sets-to-ply-format/24700 "2022-08-09T22:36:52Z")

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Operating system: Slicer version: Expected behavior: Actual behavior:

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## [How to retrieve multiple Sequence browser names with python](https://discourse.slicer.org/t/how-to-retrieve-multiple-sequence-browser-names-with-python/24693)

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**Author:** [@minhtan16](https://discourse.slicer.org/u/minhtan16)\
**Replies:** 5\
**Last updated:** [August 9, 2022, 3:25pm UTC](https://discourse.slicer.org/t/how-to-retrieve-multiple-sequence-browser-names-with-python/24693 "2022-08-09T15:25:33Z")

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Hi everyone, I’m looking to retrieve every sequence browser names using python. Considering I have multiple sequence browser : I would like to retrieve an array containing : SequenceBrowser\_1, SequenceBrowser\_2, etc …

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## [Problem when uploading volumes for registration](https://discourse.slicer.org/t/problem-when-uploading-volumes-for-registration/24582)

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**Author:** [@Valeria\_Onofrj](https://discourse.slicer.org/u/Valeria_Onofrj)\
**Replies:** 7\
**Last updated:** [August 9, 2022, 3:10pm UTC](https://discourse.slicer.org/t/problem-when-uploading-volumes-for-registration/24582 "2022-08-09T15:10:52Z")

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Operating system:MAC Slicer version:4.13 Expected behavior:I have uploaded DWI and FLAIR and I should be able to coregister FLAIR on DWI Actual behavior:The Brainregistration plug in does not recognise the DWI, theref…

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## [Updating of the sphere](https://discourse.slicer.org/t/updating-of-the-sphere/24689)

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**Author:** [@AMK](https://discourse.slicer.org/u/AMK)\
**Replies:** 2\
**Last updated:** [August 9, 2022, 2:33pm UTC](https://discourse.slicer.org/t/updating-of-the-sphere/24689 "2022-08-09T14:33:44Z")

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Hi, I have been trying to develop a model of a cup. For this I followed the following steps: Selected two fiducial points. Based on the fiducial points a sphere is created. A plane passes through these two fidu…

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## [Unexpected results from training new model in Monai Label](https://discourse.slicer.org/t/unexpected-results-from-training-new-model-in-monai-label/24681)

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**Author:** [@mahranahm](https://discourse.slicer.org/u/mahranahm)\
**Replies:** 8\
**Last updated:** [August 9, 2022, 2:28pm UTC](https://discourse.slicer.org/t/unexpected-results-from-training-new-model-in-monai-label/24681 "2022-08-09T14:28:59Z")

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Hi 3D slicer community, We are working to train a new model to segment the heart. We have 6 pre-labelled scans which I am using for the initial training. I kept all the parameters on default except increasing the max\_ep…

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## [Need a step by step for NDI trakSTAR data visualization](https://discourse.slicer.org/t/need-a-step-by-step-for-ndi-trakstar-data-visualization/24694)

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**Author:** [@whu](https://discourse.slicer.org/u/whu)\
**Replies:** 2\
**Last updated:** [August 9, 2022, 2:05pm UTC](https://discourse.slicer.org/t/need-a-step-by-step-for-ndi-trakstar-data-visualization/24694 "2022-08-09T14:05:59Z")

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Dear All, Here I get the NDI trakSTAR device, after using the OpenIGTLinkIF module, it seemed that the device can be connected. Next, I want to get the position, and show the point stream in the Slicer view. But I …

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## [CMAKE in Python script (slicer extension)](https://discourse.slicer.org/t/cmake-in-python-script-slicer-extension/24690)

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**Author:** [@Thu\_n\_Chu\_th](https://discourse.slicer.org/u/Thu_n_Chu_th)\
**Replies:** 1\
**Last updated:** [August 9, 2022, 1:43pm UTC](https://discourse.slicer.org/t/cmake-in-python-script-slicer-extension/24690 "2022-08-09T13:43:44Z")

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hello! i’m building python script extension object. but when I read document of python extension in slicer document, I look slicer require use Cmake to create .txt file in extension folder. but I still know role of cma…

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## [Pyradiomics, Brain MRI: How to Interpolate and remove outliers? ](https://discourse.slicer.org/t/pyradiomics-brain-mri-how-to-interpolate-and-remove-outliers/24683)

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**Author:** [@someOne](https://discourse.slicer.org/u/someOne)\
**Replies:** 0\
**Last updated:** [August 9, 2022, 6:39am UTC](https://discourse.slicer.org/t/pyradiomics-brain-mri-how-to-interpolate-and-remove-outliers/24683 "2022-08-09T06:39:36Z")

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Hello Team I was trying to extract features from brain MRI images using pyradiomics. According to this article (Page4) https://rdcu.be/cTh2N Two essential steps before the feature extraction are Interpolation to isot…

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## [Convert Slicer data to be compatible with MagicaVoxel](https://discourse.slicer.org/t/convert-slicer-data-to-be-compatible-with-magicavoxel/24033)

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**Author:** [@MatthewBrown](https://discourse.slicer.org/u/MatthewBrown)\
**Replies:** 3\
**Last updated:** [August 9, 2022, 6:39am UTC](https://discourse.slicer.org/t/convert-slicer-data-to-be-compatible-with-magicavoxel/24033 "2022-08-09T06:39:22Z")

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Hello, I am currently creating a VR project to visualize an MRI in a VR environment and allow a patient and a doctor to connect to one another to analyze it together. The functionality for this is available in Unreal En…

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## [How can I make my own template for SPHARM-PDM in 3D slicer?](https://discourse.slicer.org/t/how-can-i-make-my-own-template-for-spharm-pdm-in-3d-slicer/24677)

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**Author:** [@Suji\_L\_Lee](https://discourse.slicer.org/u/Suji_L_Lee)\
**Replies:** 0\
**Last updated:** [August 8, 2022, 12:23pm UTC](https://discourse.slicer.org/t/how-can-i-make-my-own-template-for-spharm-pdm-in-3d-slicer/24677 "2022-08-08T12:23:26Z")

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Hi expert, I’d like to do the shape analysis of the hippocampus using SPARM-PDM in 3D slicer (version: 4.11 in my Linux) As you know, SPHARM-PDM needs the mean group template for the rigid-body transformation. However…

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## [ShapeVariationAnalyzer in 3D Slicer](https://discourse.slicer.org/t/shapevariationanalyzer-in-3d-slicer/24674)

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**Author:** [@Suji\_L\_Lee](https://discourse.slicer.org/u/Suji_L_Lee)\
**Replies:** 4\
**Last updated:** [August 8, 2022, 12:10pm UTC](https://discourse.slicer.org/t/shapevariationanalyzer-in-3d-slicer/24674 "2022-08-08T12:10:09Z")

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Hi, expert I’d like to use ‘computation of mean group’ function of ‘ShapeVariationAnalyzer’ in a 3D slicer (version 4.11) for making the template of my data. But I couldn’t find that extension after completing the inst…

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## [Is it possible to generate a 3D mesh defined by coordinates on DICOM](https://discourse.slicer.org/t/is-it-possible-to-generate-a-3d-mesh-defined-by-coordinates-on-dicom/24676)

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**Author:** [@gtr970](https://discourse.slicer.org/u/gtr970)\
**Replies:** 0\
**Last updated:** [August 8, 2022, 11:15am UTC](https://discourse.slicer.org/t/is-it-possible-to-generate-a-3d-mesh-defined-by-coordinates-on-dicom/24676 "2022-08-08T11:15:28Z")

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I would like to segmentate a 3D mesh model defined by coordinates on abdominal CT DICOM images. The 3D box is based on abdominal pins (8 landmarks in total which makes a box when connected) in the CT images and serves a…

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## [I can't find one preset called "CT/MR-based pseudo-CT(pelvis prostate)" in elastix](https://discourse.slicer.org/t/i-cant-find-one-preset-called-ct-mr-based-pseudo-ct-pelvis-prostate-in-elastix/24671)

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**Author:** [@Luckypig](https://discourse.slicer.org/u/Luckypig)\
**Replies:** 0\
**Last updated:** [August 8, 2022, 3:41am UTC](https://discourse.slicer.org/t/i-cant-find-one-preset-called-ct-mr-based-pseudo-ct-pelvis-prostate-in-elastix/24671 "2022-08-08T03:41:47Z")

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Hello everyone, I have downloaded General Registration(Elastix),but I can’t find a preset called CT/MR-based pseudo-CT(pelvis prostate) which was mentioned in an article,so does it have this preset?or it is in one other…

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## [Dicom (not-scalar-volume-node) preview slider for a Series](https://discourse.slicer.org/t/dicom-not-scalar-volume-node-preview-slider-for-a-series/24667)

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**Author:** [@mau\_igna\_06](https://discourse.slicer.org/u/mau_igna_06)\
**Replies:** 1\
**Last updated:** [August 7, 2022, 4:11pm UTC](https://discourse.slicer.org/t/dicom-not-scalar-volume-node-preview-slider-for-a-series/24667 "2022-08-07T16:11:02Z")

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Hi. I would like to know if there exists some kind of preview-widget (opensource) you know for Slicer that achieves the following: Has a pixmap where the preview current dicom image of the Series is loaded Has a slider…

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## [Silcer Not Responding On Startup?](https://discourse.slicer.org/t/silcer-not-responding-on-startup/24659)

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**Author:** [@Abdulla\_Al\_Shibli](https://discourse.slicer.org/u/Abdulla_Al_Shibli)\
**Replies:** 2\
**Last updated:** [August 6, 2022, 4:46am UTC](https://discourse.slicer.org/t/silcer-not-responding-on-startup/24659 "2022-08-06T04:46:49Z")

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Hi, When I try to run 3DSlicer, the window that opens is just a white screen and I cannot even click “ok” in the popup that opens (that says 3DSlicer is not intended for medical use). The program does not respond and ev…

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## [Segmentation not working when changing reference volume](https://discourse.slicer.org/t/segmentation-not-working-when-changing-reference-volume/24643)

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**Author:** [@bserrano](https://discourse.slicer.org/u/bserrano)\
**Replies:** 4\
**Last updated:** [August 5, 2022, 9:20pm UTC](https://discourse.slicer.org/t/segmentation-not-working-when-changing-reference-volume/24643 "2022-08-05T21:20:04Z")

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Hi all, I segmented some structures using a cropped volume from a bigger one. I realized that I wanted a bigger volume so I cropped the original again. However, the segmentation I had is not working in the new area. …

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## [Import of 3DUS image and contour propagation](https://discourse.slicer.org/t/import-of-3dus-image-and-contour-propagation/24551)

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**Author:** [@erpoul](https://discourse.slicer.org/u/erpoul)\
**Replies:** 6\
**Last updated:** [August 5, 2022, 6:52pm UTC](https://discourse.slicer.org/t/import-of-3dus-image-and-contour-propagation/24551 "2022-08-05T18:52:55Z")

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Operating system: Windows 10 Slicer version: 5.0.3 revision 30893 Expected behavior: loading of a 3DUS image as a volume and export of the deform MRI with the ultrasound Actual behavior: loading of the images individu…

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## [Terminate DICOMRetrieve move/get following an event](https://discourse.slicer.org/t/terminate-dicomretrieve-move-get-following-an-event/24639)

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**Author:** [@dvbower](https://discourse.slicer.org/u/dvbower)\
**Replies:** 5\
**Last updated:** [August 5, 2022, 1:25pm UTC](https://discourse.slicer.org/t/terminate-dicomretrieve-move-get-following-an-event/24639 "2022-08-05T13:25:54Z")

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In a python script, I would like to terminate ctk.ctkDICOMRetrieve.moveSeries(studyinstanceUID, seriesinstanceUID) when an event is triggered. In short, I can trigger the event within slicer.dicomListener.fileAddedCallb…

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