# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=397

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

**Page:** 398

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## [SIVIC Slicer plugin for Siemens MRSI](https://discourse.slicer.org/t/sivic-slicer-plugin-for-siemens-mrsi/5525)

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**Author:** [@Andreia](https://discourse.slicer.org/u/Andreia)\
**Replies:** 2\
**Last updated:** [February 4, 2019, 9:24pm UTC](https://discourse.slicer.org/t/sivic-slicer-plugin-for-siemens-mrsi/5525 "2019-02-04T21:24:11Z")

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Hello, I need to overlay structural (DICOM or IMA) and multivoxel (rda) spectroscopy Siemens datasets. I’ve learned about the SIVIC MRSpectroscopy module but I’m struggling to find out how to make this module available …

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## [Converting and Transforming Image Coordinate Frames from DICOM to PNG](https://discourse.slicer.org/t/converting-and-transforming-image-coordinate-frames-from-dicom-to-png/5603)

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**Author:** [@dav](https://discourse.slicer.org/u/dav)\
**Replies:** 8\
**Last updated:** [February 4, 2019, 6:30pm UTC](https://discourse.slicer.org/t/converting-and-transforming-image-coordinate-frames-from-dicom-to-png/5603 "2019-02-04T18:30:51Z")

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I have some super high resolution DICOM image sets that take up large amounts of data (40-80gb), and they are a bit overkill for my work. I am limited by my computer specs and am trying to label features in these sets a…

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## [Toggle text visibility on axial/coronal/sagittal planes](https://discourse.slicer.org/t/toggle-text-visibility-on-axial-coronal-sagittal-planes/5634)

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**Author:** [@athanell](https://discourse.slicer.org/u/athanell)\
**Replies:** 1\
**Last updated:** [February 4, 2019, 2:41pm UTC](https://discourse.slicer.org/t/toggle-text-visibility-on-axial-coronal-sagittal-planes/5634 "2019-02-04T14:41:33Z")

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Dear 3D Slicer users, Is it possible to switch on/off the visibility of the text that is displayed on the lower left corner of the 2D planes when a volume/label is selected as it can be seen in the attached screenshot? …

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## [Align dicom series](https://discourse.slicer.org/t/align-dicom-series/5630)

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**Author:** [@Stweie](https://discourse.slicer.org/u/Stweie)\
**Replies:** 3\
**Last updated:** [February 4, 2019, 12:11pm UTC](https://discourse.slicer.org/t/align-dicom-series/5630 "2019-02-04T12:11:15Z")

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Hello Everyone, I am fairly new to CT image. I am struggling with coordinate transformation. I have data of the same patient with following details: Series 1 ‘ImagePositionPatient’, \[’-205.0966796875’, ‘-384.09667968…

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## [Loading VTK files not the same in latest nightly version (only loading as model available)?](https://discourse.slicer.org/t/loading-vtk-files-not-the-same-in-latest-nightly-version-only-loading-as-model-available/5624)

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**Author:** [@docmagda](https://discourse.slicer.org/u/docmagda)\
**Replies:** 2\
**Last updated:** [February 3, 2019, 11:35am UTC](https://discourse.slicer.org/t/loading-vtk-files-not-the-same-in-latest-nightly-version-only-loading-as-model-available/5624 "2019-02-03T11:35:35Z")

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Dear 3DSlicer community, thank you for all your constant efforts making this software better. I just downloaded the latest nightly version and I no longer see the option to open my vtk files as I used to to see the fiber…

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## [Extract Transfer Function from Color Table](https://discourse.slicer.org/t/extract-transfer-function-from-color-table/5489)

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**Author:** [@Valtiel](https://discourse.slicer.org/u/Valtiel)\
**Replies:** 3\
**Last updated:** [February 2, 2019, 7:05pm UTC](https://discourse.slicer.org/t/extract-transfer-function-from-color-table/5489 "2019-02-02T19:05:09Z")

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Hi! I’m trying to apply a transfer function to my volume-rendering. I have a custom vtkMRMLColorTableNode, but GetScalarsToColors() always returns a vtkLookupTable. Is there a way to get a vtkTransferFunction out of thi…

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## [Register labelmap to volume with deformable registration](https://discourse.slicer.org/t/register-labelmap-to-volume-with-deformable-registration/5616)

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**Author:** [@Hamburgerfinger](https://discourse.slicer.org/u/Hamburgerfinger)\
**Replies:** 3\
**Last updated:** [February 2, 2019, 1:56pm UTC](https://discourse.slicer.org/t/register-labelmap-to-volume-with-deformable-registration/5616 "2019-02-02T13:56:56Z")

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Hi! I’d like to deform an atlas (labelmap) to align with a CT image. Can someone please share a convenient way of doing this in Slicer? Thanks!

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## [Crop Volume does not work with labelmaps in 4.10.1 (windows)](https://discourse.slicer.org/t/crop-volume-does-not-work-with-labelmaps-in-4-10-1-windows/5604)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 2\
**Last updated:** [February 2, 2019, 4:49am UTC](https://discourse.slicer.org/t/crop-volume-does-not-work-with-labelmaps-in-4-10-1-windows/5604 "2019-02-02T04:49:29Z")

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If the input volume is of labelmap type, and user chooses to “create a new volume as” Crop Volume does not work (see error below). As a work around, it is possible to clone the original label map, and specify it as the o…

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## [Loadable module ITK filters I/O](https://discourse.slicer.org/t/loadable-module-itk-filters-i-o/5589)

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**Author:** [@Amn3s14](https://discourse.slicer.org/u/Amn3s14)\
**Replies:** 1\
**Last updated:** [February 2, 2019, 2:58am UTC](https://discourse.slicer.org/t/loadable-module-itk-filters-i-o/5589 "2019-02-02T02:58:51Z")

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Hello, I am new to Slicer and ITK. I am trying to perform one of the SimpleFilters in my c++ module, but am having trouble getting the right input/output for ITK. const int dim = 3; typedef unsigned char PType; typedef…

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## [ScreenCapture: how to capture "Rock 3D view" animation](https://discourse.slicer.org/t/screencapture-how-to-capture-rock-3d-view-animation/5610)

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**Author:** [@mangotee](https://discourse.slicer.org/u/mangotee)\
**Replies:** 2\
**Last updated:** [February 2, 2019, 2:48am UTC](https://discourse.slicer.org/t/screencapture-how-to-capture-rock-3d-view-animation/5610 "2019-02-02T02:48:48Z")

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I am trying to use ScreenCapture to record the 3D view. I have my 3D scene nicely laid out, and I get a very nice animation if I switch on “Rock the 3D view” from the drop-down menu. I would like to record that to disc, …

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## [Measure the volume of overlapping part](https://discourse.slicer.org/t/measure-the-volume-of-overlapping-part/5509)

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**Author:** [@Hyeon](https://discourse.slicer.org/u/Hyeon)\
**Replies:** 3\
**Last updated:** [February 2, 2019, 1:06am UTC](https://discourse.slicer.org/t/measure-the-volume-of-overlapping-part/5509 "2019-02-02T01:06:45Z")

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\[Environment\] Slicer 4.10.1/Win10 Hello. I need a help. I have made a 3D model of bone using thrashold paint function in editor module. I want to create the cylinder model, and put it into the model of bone I made, a…

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## [Not able to build 3d slicer in my debian machine ](https://discourse.slicer.org/t/not-able-to-build-3d-slicer-in-my-debian-machine/5600)

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**Author:** [@Mahesh\_Kumar](https://discourse.slicer.org/u/Mahesh_Kumar)\
**Replies:** 2\
**Last updated:** [January 31, 2019, 5:25pm UTC](https://discourse.slicer.org/t/not-able-to-build-3d-slicer-in-my-debian-machine/5600 "2019-01-31T17:25:10Z")

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I want to debug one of the module in 3d slicer. I tried to install 3d slicer as per the documentation mentioned in link below (section Quick build on debian) Documentation/Nightly/Developers/Build Instructions - Slicer …

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## [The menu of Fie, Edit, View and Help doesn't appears](https://discourse.slicer.org/t/the-menu-of-fie-edit-view-and-help-doesnt-appears/5598)

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**Author:** [@amdriss](https://discourse.slicer.org/u/amdriss)\
**Replies:** 1\
**Last updated:** [January 31, 2019, 12:29pm UTC](https://discourse.slicer.org/t/the-menu-of-fie-edit-view-and-help-doesnt-appears/5598 "2019-01-31T12:29:16Z")

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Operating system: Windows 7 Slicer version:4.10.1 and 4.11 Expected behavior: The menu of Fie, Edit, View and Help doesn’t appears Actual behavior: only icon of DATA, DCM and SAVE appears.

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## [Slicer on Virtual Windows OS](https://discourse.slicer.org/t/slicer-on-virtual-windows-os/5555)

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**Author:** [@anandmulay3](https://discourse.slicer.org/u/anandmulay3)\
**Replies:** 7\
**Last updated:** [January 31, 2019, 10:57am UTC](https://discourse.slicer.org/t/slicer-on-virtual-windows-os/5555 "2019-01-31T10:57:29Z")

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I’ve installed Slicer on my remote virtual windows 10 OS, i’m using a batch script to call scriptablemodule and its working fine. In this i’m creating a 3d model from a dicom series. The problem is the output model whi…

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## [Sections from custom curve](https://discourse.slicer.org/t/sections-from-custom-curve/5596)

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**Author:** [@nabilgh](https://discourse.slicer.org/u/nabilgh)\
**Replies:** 1\
**Last updated:** [January 31, 2019, 10:55am UTC](https://discourse.slicer.org/t/sections-from-custom-curve/5596 "2019-01-31T10:55:41Z")

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Is there any way to create a custom curve using fiducial points and create perpendicular custom 2d sections to this curve? The purpose is to follow the trajectory of a dental root canal and analyse the 2d sections perpen…

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## [Slicer 3D to CAD software via .stl file.](https://discourse.slicer.org/t/slicer-3d-to-cad-software-via-stl-file/5464)

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**Author:** [@ColJol](https://discourse.slicer.org/u/ColJol)\
**Replies:** 1\
**Last updated:** [January 31, 2019, 2:12am UTC](https://discourse.slicer.org/t/slicer-3d-to-cad-software-via-stl-file/5464 "2019-01-31T02:12:03Z")

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Operating system: Windows 10 Enterprise Slicer version: Expected behavior: Actual behavior: I want to export models from dicom files to CAD software using .stl file format to obtain surface models (\>25Mb). I have suc…

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## [Extracting Heart and Aorta](https://discourse.slicer.org/t/extracting-heart-and-aorta/2601)

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**Author:** [@zsa26](https://discourse.slicer.org/u/zsa26)\
**Replies:** 3\
**Last updated:** [January 31, 2019, 2:05am UTC](https://discourse.slicer.org/t/extracting-heart-and-aorta/2601 "2019-01-31T02:05:34Z")

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Hi everyone, I am a new user to this software and I have been assigned the task of extracting an aorta to make a 3D print. However, whenever I get to the editor and I select threshold, It always recognizes bones and oth…

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## [Coregistration - intrasubject](https://discourse.slicer.org/t/coregistration-intrasubject/5444)

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**Author:** [@RadioQuest](https://discourse.slicer.org/u/RadioQuest)\
**Replies:** 1\
**Last updated:** [January 31, 2019, 2:00am UTC](https://discourse.slicer.org/t/coregistration-intrasubject/5444 "2019-01-31T02:00:28Z")

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Hi… Can I coregister T1, T2, post gad and FLAIR scans of the same patient with a brain tumor to get a new single volume? ABC module works only with normal brains. I want to perform TA later. Thanks. Kind regards, R…

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## [DICOM import and image does not appear](https://discourse.slicer.org/t/dicom-import-and-image-does-not-appear/5577)

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**Author:** [@choudhry23](https://discourse.slicer.org/u/choudhry23)\
**Replies:** 1\
**Last updated:** [January 31, 2019, 12:38am UTC](https://discourse.slicer.org/t/dicom-import-and-image-does-not-appear/5577 "2019-01-31T00:38:35Z")

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Operating system: Mac Slicer version: 4.10 Expected behavior: load the DICOM data and image appears Actual behavior: I load the DICOM file into slicer but not all three planes of the image appear. only partial images…

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## [Displacement vector from a deformable reg; WARNING inverse innaccuate](https://discourse.slicer.org/t/displacement-vector-from-a-deformable-reg-warning-inverse-innaccuate/5569)

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**Author:** [@Lowey](https://discourse.slicer.org/u/Lowey)\
**Replies:** 4\
**Last updated:** [January 31, 2019, 12:23am UTC](https://discourse.slicer.org/t/displacement-vector-from-a-deformable-reg-warning-inverse-innaccuate/5569 "2019-01-31T00:23:55Z")

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Slicer 4.8.1 Windows 10 Hi there, I am doing research regarding deforming dose distributions and have questions about the warning you can receive regarding inverse displacement vectors. The warning is - Warning: inv…

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## [Model to Model Distance](https://discourse.slicer.org/t/model-to-model-distance/5551)

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**Author:** [@emrobert](https://discourse.slicer.org/u/emrobert)\
**Replies:** 3\
**Last updated:** [January 31, 2019, 12:17am UTC](https://discourse.slicer.org/t/model-to-model-distance/5551 "2019-01-31T00:17:26Z")

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Operating system: OS X MAC Slicer version: 4.11 Expected behavior: Distance calculations between models Actual behavior: I understand that you can use model to model distance to create surface maps using the shape pop…

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## [Plot/table controller bar](https://discourse.slicer.org/t/plot-table-controller-bar/5585)

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**Author:** [@ghnguyen](https://discourse.slicer.org/u/ghnguyen)\
**Replies:** 1\
**Last updated:** [January 31, 2019, 12:14am UTC](https://discourse.slicer.org/t/plot-table-controller-bar/5585 "2019-01-31T00:14:06Z")

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Hi, Is there any way to toggle visibility of the controller bars for Plot/Table or even the main View through Python? I can access that bar for the slice view through sliceController() call but it seems the other Views …

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## [Convert DICOM-RT segmented object into NIFTI format](https://discourse.slicer.org/t/convert-dicom-rt-segmented-object-into-nifti-format/5424)

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**Author:** [@moleps\_islon](https://discourse.slicer.org/u/moleps_islon)\
**Replies:** 2\
**Last updated:** [January 30, 2019, 8:39pm UTC](https://discourse.slicer.org/t/convert-dicom-rt-segmented-object-into-nifti-format/5424 "2019-01-30T20:39:58Z")

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I have a brain MRIs where the tumor is segmented in proprietary software on the T1+C series and output into what I believe is DICOM-RT format. I can import the DICOM directory correctly after installing the RT extension…

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## [Layout icon does not expand in the seconday monitor when scaling is more than 100%](https://discourse.slicer.org/t/layout-icon-does-not-expand-in-the-seconday-monitor-when-scaling-is-more-than-100/5568)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 3\
**Last updated:** [January 30, 2019, 8:21pm UTC](https://discourse.slicer.org/t/layout-icon-does-not-expand-in-the-seconday-monitor-when-scaling-is-more-than-100/5568 "2019-01-30T20:21:59Z")

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Windows 10 with dual monitor setup Happens both with nightly and 4.10.1 Layout icon doesn’t expand when scaling is set to the recommended setting on windows (150%).

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## [Brain Gliomas, Texture Analysis and Machine Learning](https://discourse.slicer.org/t/brain-gliomas-texture-analysis-and-machine-learning/1971)

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**Author:** [@carba86](https://discourse.slicer.org/u/carba86)\
**Replies:** 6\
**Last updated:** [March 21, 2018, 1:40pm UTC](https://discourse.slicer.org/t/brain-gliomas-texture-analysis-and-machine-learning/1971 "2018-03-21T13:40:27Z")

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Operating system: Mac OS Slicer version: 4.9.0 Hi everyone, I am a Neuroradiology Fellow with some background in Biomedical Engineering in Buenos Aires, Argentina and for the past 6 months I’ve been working with Textu…

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## [Could not load: DICOM](https://discourse.slicer.org/t/could-not-load-dicom/5581)

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**Author:** [@alide](https://discourse.slicer.org/u/alide)\
**Replies:** 0\
**Last updated:** [January 30, 2019, 3:55pm UTC](https://discourse.slicer.org/t/could-not-load-dicom/5581 "2019-01-30T15:55:23Z")

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Hi, I am not able to load DICOM files from SPECT or CT. They seem to be imported fine, but when I try to load them to Slicer I get the follwing error message: “3d slicer could not load as a scalar volume”. I can not see…

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## [Is it possible to create/clone a node keeping the same location in the hierarchy of the father node?](https://discourse.slicer.org/t/is-it-possible-to-create-clone-a-node-keeping-the-same-location-in-the-hierarchy-of-the-father-node/5540)

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**Author:** [@Alex\_Vergara](https://discourse.slicer.org/u/Alex_Vergara)\
**Replies:** 5\
**Last updated:** [January 30, 2019, 1:17am UTC](https://discourse.slicer.org/t/is-it-possible-to-create-clone-a-node-keeping-the-same-location-in-the-hierarchy-of-the-father-node/5540 "2019-01-30T01:17:14Z")

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Basically I have a big subject hierarchy (several folders), and inside each I have nodes (volumes, segmentations, transformations). I want to create a table for instance and place it in the same location of the generatin…

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## [isosurface - hangs or crashes](https://discourse.slicer.org/t/isosurface-hangs-or-crashes/5560)

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**Author:** [@njeffery](https://discourse.slicer.org/u/njeffery)\
**Replies:** 2\
**Last updated:** [January 30, 2019, 8:28am UTC](https://discourse.slicer.org/t/isosurface-hangs-or-crashes/5560 "2019-01-30T08:28:42Z")

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Hi All, I am looking to create an isosurface to help with the selection of fiducials. However, when I try to create a surface (segment editor\>show 3D or grayscale model maker \[no smoothing, and permutations of 0 to 0.…

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## [Bezier curves given an extract eskeleton](https://discourse.slicer.org/t/bezier-curves-given-an-extract-eskeleton/5538)

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**Author:** [@ramon](https://discourse.slicer.org/u/ramon)\
**Replies:** 1\
**Last updated:** [January 30, 2019, 2:21am UTC](https://discourse.slicer.org/t/bezier-curves-given-an-extract-eskeleton/5538 "2019-01-30T02:21:07Z")

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my goal is to extract the curve that forms the upper jaw. For this I used extract skeleton tool and I have obtained a set of points. Now I would like to do a Belzier curve from these points. somebody could help me?

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## [DICOM displaying error in Slicer 4.8: it only displays Axial planes](https://discourse.slicer.org/t/dicom-displaying-error-in-slicer-4-8-it-only-displays-axial-planes/5565)

<div class="topic-metadata">

**Author:** [@xmc2018\_ucl](https://discourse.slicer.org/u/xmc2018_ucl)\
**Replies:** 1\
**Last updated:** [January 30, 2019, 1:52am UTC](https://discourse.slicer.org/t/dicom-displaying-error-in-slicer-4-8-it-only-displays-axial-planes/5565 "2019-01-30T01:52:33Z")

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Hi I am a new user of Slicer and it seems I can’t load DICOM image properly? It works for some cases but not for other cases, it keeps giving me display errors… it would be really appreciated if you could help me wit…

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