# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=289

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

**Page:** 290

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## [Could I preserve an image resolution before and after Rigid registration?](https://discourse.slicer.org/t/could-i-preserve-an-image-resolution-before-and-after-rigid-registration/16839)

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**Author:** [@Yasuhiro\_TAKEDA](https://discourse.slicer.org/u/Yasuhiro_TAKEDA)\
**Replies:** 4\
**Last updated:** [March 31, 2021, 7:24am UTC](https://discourse.slicer.org/t/could-i-preserve-an-image-resolution-before-and-after-rigid-registration/16839 "2021-03-31T07:24:31Z")

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Hi I registered two head MRI images, a T2 and a CET1 image, using General Registration function with rigid. The registration was succeeded, but the output image resolution has changed. The image resolution of the CET1…

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## [T2 mapping error](https://discourse.slicer.org/t/t2-mapping-error/16806)

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**Author:** [@selmanca](https://discourse.slicer.org/u/selmanca)\
**Replies:** 2\
**Last updated:** [March 30, 2021, 3:09pm UTC](https://discourse.slicer.org/t/t2-mapping-error/16806 "2021-03-30T15:09:04Z")

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Operating system: Win 10 Slicer version: 4.13.0 Hello developers, I am trying to use T2 mapping module for knee cartilage. After choosing input volume and T2 output volume, I click apply and it gives this error messag…

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## [Rotate model around specific point](https://discourse.slicer.org/t/rotate-model-around-specific-point/16846)

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**Author:** [@Mik](https://discourse.slicer.org/u/Mik)\
**Replies:** 2\
**Last updated:** [March 30, 2021, 12:35pm UTC](https://discourse.slicer.org/t/rotate-model-around-specific-point/16846 "2021-03-30T12:35:06Z")

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What is the easiest way to rotate model around specific point or a new origin? The model of table top by default rotates around origin (0, 0, 0). I want to simulate the pitch and roll angles of the table top around spec…

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## [Using data augmentation to generate new data for deep learning](https://discourse.slicer.org/t/using-data-augmentation-to-generate-new-data-for-deep-learning/16421)

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**Author:** [@Abdulrahman](https://discourse.slicer.org/u/Abdulrahman)\
**Replies:** 19\
**Last updated:** [March 30, 2021, 10:25am UTC](https://discourse.slicer.org/t/using-data-augmentation-to-generate-new-data-for-deep-learning/16421 "2021-03-30T10:25:04Z")

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Hi everyone, what is the best module to create new data of MRI heads using affine transformation, the volumes and their segmentation (binary labelmap) saved in NIFTI format ? detailed steps are really appreciated… Tha…

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## [Can't upload files when selecting the “Option” -\> Uncheck “Single File”](https://discourse.slicer.org/t/cant-upload-files-when-selecting-the-option-uncheck-single-file/16798)

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**Author:** [@Pseudoceros](https://discourse.slicer.org/u/Pseudoceros)\
**Replies:** 2\
**Last updated:** [March 30, 2021, 3:11am UTC](https://discourse.slicer.org/t/cant-upload-files-when-selecting-the-option-uncheck-single-file/16798 "2021-03-30T03:11:18Z")

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Hi all, I’m trying to create a 3D image out of a series of histological sections. I have a .czi file of each slide which I separated into the individual slices and saved as different formats (.tif, .png., .jpeg., .czi) …

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## [How to show the segmentation in segment editor which is loaded from a nii.gz file generated by other program?](https://discourse.slicer.org/t/how-to-show-the-segmentation-in-segment-editor-which-is-loaded-from-a-nii-gz-file-generated-by-other-program/13096)

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**Author:** [@SummerZ2020](https://discourse.slicer.org/u/SummerZ2020)\
**Replies:** 17\
**Last updated:** [March 30, 2021, 12:45am UTC](https://discourse.slicer.org/t/how-to-show-the-segmentation-in-segment-editor-which-is-loaded-from-a-nii-gz-file-generated-by-other-program/13096 "2021-03-30T00:45:21Z")

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hello all, I generated a segmented mark file from other program, and saved it to a nii.gz file which can be viewed in ITK snap. And the value is only 0 and 1 in the nii.gz file. Currently I would like use slicer to edit…

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## [Trouble loading a sequence programatically](https://discourse.slicer.org/t/trouble-loading-a-sequence-programatically/16835)

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**Author:** [@Teresa\_Gadda](https://discourse.slicer.org/u/Teresa_Gadda)\
**Replies:** 1\
**Last updated:** [March 29, 2021, 10:13pm UTC](https://discourse.slicer.org/t/trouble-loading-a-sequence-programatically/16835 "2021-03-29T22:13:14Z")

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Operating system: Windows 10 Slicer version: 4.11.20200930 Expected behavior: Sequence loaded from python interactor Actual behavior: RuntimeError: Failed to load node from file I have a tracked ultrasound file (gene…

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## [Slicer compatible and 3D capable PACS Viewer in clinical setting?](https://discourse.slicer.org/t/slicer-compatible-and-3d-capable-pacs-viewer-in-clinical-setting/16827)

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**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Replies:** 1\
**Last updated:** [March 29, 2021, 7:03pm UTC](https://discourse.slicer.org/t/slicer-compatible-and-3d-capable-pacs-viewer-in-clinical-setting/16827 "2021-03-29T19:03:40Z")

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Hi, we are looking for a new system-wide PACS Viewer in a hospital setting. Is there any advice on a Slicer-compatible 3D-capable product? Does anyone have experience with the Sectra viewer or other recommendations? T…

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## [Segmentation pixel roblem](https://discourse.slicer.org/t/segmentation-pixel-roblem/16810)

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**Author:** [@bio](https://discourse.slicer.org/u/bio)\
**Replies:** 5\
**Last updated:** [March 29, 2021, 5:33pm UTC](https://discourse.slicer.org/t/segmentation-pixel-roblem/16810 "2021-03-29T17:33:42Z")

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Hi. I have a problem with my segmentation pixels for dataset from datastore lung segmentation. I had to fix right side and segment the left. But when trying to segment left side the size of pixels in the segmentation is …

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## [Segmentation Registration Extension](https://discourse.slicer.org/t/segmentation-registration-extension/16723)

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**Author:** [@reddington.15](https://discourse.slicer.org/u/reddington.15)\
**Replies:** 3\
**Last updated:** [March 29, 2021, 1:38pm UTC](https://discourse.slicer.org/t/segmentation-registration-extension/16723 "2021-03-29T13:38:09Z")

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Hi, I am working on comparing two different segmentations and comparing their linear and rotational deformation. In another discussion it was recommended to download SlicerRegistration. I downloaded it and then ran the …

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## [Wrong lines of DICOM RT Structure Set for heart radiosurgery](https://discourse.slicer.org/t/wrong-lines-of-dicom-rt-structure-set-for-heart-radiosurgery/16752)

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**Author:** [@Cody\_Xie](https://discourse.slicer.org/u/Cody_Xie)\
**Replies:** 4\
**Last updated:** [March 29, 2021, 9:17am UTC](https://discourse.slicer.org/t/wrong-lines-of-dicom-rt-structure-set-for-heart-radiosurgery/16752 "2021-03-29T09:17:39Z")

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Dear all, there is a problem that has bothered me for a long time. Operating system: Windows 10 Slicer version: 4.11 Expected behavior: Import a DICOM-RT Structure Set of a heart radiosurgery target, which has two reg…

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## [Brush lag using Wacom tablet](https://discourse.slicer.org/t/brush-lag-using-wacom-tablet/16689)

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**Author:** [@opetne](https://discourse.slicer.org/u/opetne)\
**Replies:** 2\
**Last updated:** [March 29, 2021, 8:27am UTC](https://discourse.slicer.org/t/brush-lag-using-wacom-tablet/16689 "2021-03-29T08:27:26Z")

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My Wacom Intuos worked fine with the older version of Slicer (from Sept of 2020). I downloaded the latest stable version 4.11.20210226 and after starting to paint anything with the brush after the first touch the brush f…

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## [How to map distances between joint areas in contact using 3D Slicer version 4.11.2?](https://discourse.slicer.org/t/how-to-map-distances-between-joint-areas-in-contact-using-3d-slicer-version-4-11-2/16237)

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**Author:** [@priya](https://discourse.slicer.org/u/priya)\
**Replies:** 1\
**Last updated:** [March 29, 2021, 4:54am UTC](https://discourse.slicer.org/t/how-to-map-distances-between-joint-areas-in-contact-using-3d-slicer-version-4-11-2/16237 "2021-03-29T04:54:14Z")

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

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## [NVidia AIAA segment editor effect returns "URL not found" error](https://discourse.slicer.org/t/nvidia-aiaa-segment-editor-effect-returns-url-not-found-error/16811)

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**Author:** [@akmal871026](https://discourse.slicer.org/u/akmal871026)\
**Replies:** 1\
**Last updated:** [March 28, 2021, 11:28pm UTC](https://discourse.slicer.org/t/nvidia-aiaa-segment-editor-effect-returns-url-not-found-error/16811 "2021-03-28T23:28:02Z")

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Hi all, I got this error when trying to use Nvidia Extension for liver and tumor segmentation. anyone can help me? Traceback (most recent call last): File “C:/Users/Akmal/AppData/Local/NA-MIC/Slicer 4.11.20210226/NA-MI…

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## [Load a .stl file and save it to a binary label map through](https://discourse.slicer.org/t/load-a-stl-file-and-save-it-to-a-binary-label-map-through/11315)

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**Author:** [@Xabierenko](https://discourse.slicer.org/u/Xabierenko)\
**Replies:** 4\
**Last updated:** [April 27, 2020, 9:00pm UTC](https://discourse.slicer.org/t/load-a-stl-file-and-save-it-to-a-binary-label-map-through/11315 "2020-04-27T21:00:51Z")

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Good afternoon, I’m trying to save a big bunch of .stl files to .nrrd binary label maps through python. I’m using the code below: volume = slicer.util.loadVolume('C:\\\\Users\\mreib\\OneDrive - upf.edu\\Burdeos\\images\\Borde…

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## [Test-retest repeatability study: segmentation with image registration or not?](https://discourse.slicer.org/t/test-retest-repeatability-study-segmentation-with-image-registration-or-not/16804)

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**Author:** [@GMA](https://discourse.slicer.org/u/GMA)\
**Replies:** 1\
**Last updated:** [March 28, 2021, 9:11pm UTC](https://discourse.slicer.org/t/test-retest-repeatability-study-segmentation-with-image-registration-or-not/16804 "2021-03-28T21:11:54Z")

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I’m using 3DSlicer to do a repeatability study where I make ADC measurements over two scans which are acquired with the usual “coffee-break” approach, the patient is scanned twice in the same hour. I was reading some lit…

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## [GE Ultrasound Images](https://discourse.slicer.org/t/ge-ultrasound-images/16797)

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**Author:** [@Ziad\_Ahmed](https://discourse.slicer.org/u/Ziad_Ahmed)\
**Replies:** 1\
**Last updated:** [March 28, 2021, 4:55pm UTC](https://discourse.slicer.org/t/ge-ultrasound-images/16797 "2021-03-28T16:55:47Z")

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Hello Everyone, I have a problem when I upload " DICOM " file that I copied it from GE Ultrasound to 3D Slicer & select volume rendering " MR Default " then I click on " volume " , 3D Slicer freeze & close himself, any e…

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## [Error loading a saved scene](https://discourse.slicer.org/t/error-loading-a-saved-scene/16142)

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**Author:** [@Hapietsch](https://discourse.slicer.org/u/Hapietsch)\
**Replies:** 8\
**Last updated:** [March 27, 2021, 7:25pm UTC](https://discourse.slicer.org/t/error-loading-a-saved-scene/16142 "2021-03-27T19:25:00Z")

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Hi Slicer gurus! I’m having trouble loading some saved data. I “saved the scene” I was working on yesterday that included reformatted slice planes, some fiducials, as well as some linear and closed loop measurements fro…

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## [Markups - Creating a SINGLE file including Landmarks (fixed) and Curves (semilandmarks) - problem while resampling](https://discourse.slicer.org/t/markups-creating-a-single-file-including-landmarks-fixed-and-curves-semilandmarks-problem-while-resampling/16158)

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**Author:** [@mariev](https://discourse.slicer.org/u/mariev)\
**Replies:** 8\
**Last updated:** [March 27, 2021, 7:00pm UTC](https://discourse.slicer.org/t/markups-creating-a-single-file-including-landmarks-fixed-and-curves-semilandmarks-problem-while-resampling/16158 "2021-03-27T19:00:58Z")

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Hi all, I would like to pose a serie of (fixed) landmarks on my model and in between those landmarks, curves (semilandmarks). I can make a node for landmarks using ‘create fiducial markup’ and another node for curves u…

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## [Issue working on cropped volume](https://discourse.slicer.org/t/issue-working-on-cropped-volume/16495)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 1\
**Last updated:** [March 27, 2021, 6:34pm UTC](https://discourse.slicer.org/t/issue-working-on-cropped-volume/16495 "2021-03-27T18:34:02Z")

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when i crop volume i have the issue of including part of the cropped area so i end up with this segment any idea how can i get rid of this issue ?

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## [The sequence module](https://discourse.slicer.org/t/the-sequence-module/16490)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 3\
**Last updated:** [March 27, 2021, 6:22pm UTC](https://discourse.slicer.org/t/the-sequence-module/16490 "2021-03-27T18:22:08Z")

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im trying to use the sequence module, however I’m not successful at all . the documentation about it is not cleat at all to my level . id appreciate some help and explanation thanks

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## [How to save CurvedNode as .mrk.json in python?](https://discourse.slicer.org/t/how-to-save-curvednode-as-mrk-json-in-python/16550)

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**Author:** [@newtonsbm](https://discourse.slicer.org/u/newtonsbm)\
**Replies:** 1\
**Last updated:** [March 27, 2021, 6:14pm UTC](https://discourse.slicer.org/t/how-to-save-curvednode-as-mrk-json-in-python/16550 "2021-03-27T18:14:11Z")

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Im trying to export a CurvedNode to .mrk.json in python using Slicer in Jupyter Notebook (lassoan/slicer-notebook:2020-05-15-89b6bb5) but it only saves as fcsv format. Currently Im doing: file\_path = os.path.join("sav…

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## [I am new to slicer,as I am installing it on my ubuntu 20.04 system after installation it crashes immediately and shows error as follows:](https://discourse.slicer.org/t/i-am-new-to-slicer-as-i-am-installing-it-on-my-ubuntu-20-04-system-after-installation-it-crashes-immediately-and-shows-error-as-follows/16762)

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**Author:** [@Bhagyashri\_Ghode](https://discourse.slicer.org/u/Bhagyashri_Ghode)\
**Replies:** 11\
**Last updated:** [March 27, 2021, 5:43am UTC](https://discourse.slicer.org/t/i-am-new-to-slicer-as-i-am-installing-it-on-my-ubuntu-20-04-system-after-installation-it-crashes-immediately-and-shows-error-as-follows/16762 "2021-03-27T05:43:08Z")

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Operating system: Ubuntu 20.04 Slicer version:4.11 Expected behavior: Work well Actual behavior: Gives error error: \[/root/Bhagyashri/Slicer-4.11.20210226-linux-amd64/bin/SlicerApp-real\] exit abnormally - Report the …

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## [Can I change the cells colors in a table node?](https://discourse.slicer.org/t/can-i-change-the-cells-colors-in-a-table-node/12334)

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**Author:** [@Fernando](https://discourse.slicer.org/u/Fernando)\
**Replies:** 8\
**Last updated:** [March 26, 2021, 10:35pm UTC](https://discourse.slicer.org/t/can-i-change-the-cells-colors-in-a-table-node/12334 "2021-03-26T22:35:45Z")

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Hi all, I would like to set custom background and font colors in the cells of my table, to get something like conditional formatting in MS Excel. Is this possible? I’ve been looking into the docs for vtkTable, but could…

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## [Print 3D model from ultrasound](https://discourse.slicer.org/t/print-3d-model-from-ultrasound/2019)

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**Author:** [@Ricardo\_Grana](https://discourse.slicer.org/u/Ricardo_Grana)\
**Replies:** 1\
**Last updated:** [December 23, 2018, 7:20pm UTC](https://discourse.slicer.org/t/print-3d-model-from-ultrasound/2019 "2018-12-23T19:20:25Z")

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Hi all, Once I get the imagen attached what can I do to create an only segmentation or 3D model that can be save in .STL. ? Regards Richard

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## [RGB or RGBA rendering of single 2D image in 3D not working](https://discourse.slicer.org/t/rgb-or-rgba-rendering-of-single-2d-image-in-3d-not-working/16649)

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**Author:** [@klarlund](https://discourse.slicer.org/u/klarlund)\
**Replies:** 3\
**Last updated:** [March 26, 2021, 5:37pm UTC](https://discourse.slicer.org/t/rgb-or-rgba-rendering-of-single-2d-image-in-3d-not-working/16649 "2021-03-26T17:37:04Z")

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Hi! For a complex registration situation, I need to position a 2D tissue image in the 3D viewer. The problem is that the picture won’t show correctly either as a slice view or as a volume rendering. Initially, after loa…

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## [Failed to use module of NVidia clara](https://discourse.slicer.org/t/failed-to-use-module-of-nvidia-clara/16778)

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**Author:** [@pcjaywalker](https://discourse.slicer.org/u/pcjaywalker)\
**Replies:** 1\
**Last updated:** [March 26, 2021, 4:07pm UTC](https://discourse.slicer.org/t/failed-to-use-module-of-nvidia-clara/16778 "2021-03-26T16:07:24Z")

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Problem report for Slicer 4.13.0-2021-03-24 win-amd64: \[please describe expected and actual behavior\] Traceback (most recent call last): File "C:/Users/pcjaywalker/AppData/Local/NA-MIC/Slicer 4.13.0-2021-03-24/NA-MIC/…

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## [Quit Jupyter notebook without shutting down Slicer kernal - Slicer instance is persisting](https://discourse.slicer.org/t/quit-jupyter-notebook-without-shutting-down-slicer-kernal-slicer-instance-is-persisting/16587)

<div class="topic-metadata">

**Author:** [@Carly\_L](https://discourse.slicer.org/u/Carly_L)\
**Replies:** 2\
**Last updated:** [March 26, 2021, 4:07pm UTC](https://discourse.slicer.org/t/quit-jupyter-notebook-without-shutting-down-slicer-kernal-slicer-instance-is-persisting/16587 "2021-03-26T16:07:17Z")

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Hello, I was running a Jupyter notebook script connected to a Slicer kernel. I accidentally quite the instance of Jupyter notebook (closed out of the window in browser) without first shutting down the Slicer kernel. Now…

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## [Glossary of terms](https://discourse.slicer.org/t/glossary-of-terms/16659)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 5\
**Last updated:** [March 26, 2021, 2:21pm UTC](https://discourse.slicer.org/t/glossary-of-terms/16659 "2021-03-26T14:21:45Z")

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i think it will be great idea to add a glossary of terms in the forum . to people learning 3d slicer on their own with technical background ,at the start it was quite hard to translate terms like segmentation , rende…

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## [.CSV files as markup files](https://discourse.slicer.org/t/csv-files-as-markup-files/16574)

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**Author:** [@CHumphreys](https://discourse.slicer.org/u/CHumphreys)\
**Replies:** 3\
**Last updated:** [March 26, 2021, 10:18am UTC](https://discourse.slicer.org/t/csv-files-as-markup-files/16574 "2021-03-26T10:18:04Z")

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Hi everyone, I have a bunch of csv files with landmark data that I got from an older version of 3D slicer. When i try to load the scene that is linked to these csv files, they don’t come seem to open. Has anyone else ha…

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