# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=329

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

**Page:** 330

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## [Suv calulation not compatible between vendor and 3dslicer software](https://discourse.slicer.org/t/suv-calulation-not-compatible-between-vendor-and-3dslicer-software/12678)

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**Author:** [@Cyril](https://discourse.slicer.org/u/Cyril)\
**Replies:** 2\
**Last updated:** [July 23, 2020, 3:09pm UTC](https://discourse.slicer.org/t/suv-calulation-not-compatible-between-vendor-and-3dslicer-software/12678 "2020-07-23T15:09:14Z")

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HelloSlicer community, i have a problem with suv calculation which seems not wrong between a vendor one and slicer. Operating system:Window Slicer version: 4.10.2 Expected behavior:The suvbw calculation do no corresp…

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## [DICOM image loading fails](https://discourse.slicer.org/t/dicom-image-loading-fails/589)

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**Author:** [@vetyasin](https://discourse.slicer.org/u/vetyasin)\
**Replies:** 12\
**Last updated:** [July 23, 2020, 1:57pm UTC](https://discourse.slicer.org/t/dicom-image-loading-fails/589 "2020-07-23T13:57:26Z")

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Operating system: Windows 7 Ultimate 64 bit. I can not loading DICOM files. I could uploaded to 4.7.0 slicer when I have Windows 7 Home Basic 64 bit. But it is not now. Screen images and log messages are below. I wonder…

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## [Problem with Elastix: Output incomplete (just pixels)](https://discourse.slicer.org/t/problem-with-elastix-output-incomplete-just-pixels/12675)

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**Author:** [@KatS](https://discourse.slicer.org/u/KatS)\
**Replies:** 4\
**Last updated:** [July 23, 2020, 1:55pm UTC](https://discourse.slicer.org/t/problem-with-elastix-output-incomplete-just-pixels/12675 "2020-07-23T13:55:15Z")

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Dear Slicer community, I have a problem with Slicer Elastix extension. I’m using Slicer 4.10.2 on Windows 10 and downloaded the Slicer Elastix Extension using the Extension manager. It usually works fine with my data (…

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## [Issues loading own nrrd file into SlicerWeb Jupyter(Binder tutorial)](https://discourse.slicer.org/t/issues-loading-own-nrrd-file-into-slicerweb-jupyter-binder-tutorial/12679)

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**Author:** [@allihuwa](https://discourse.slicer.org/u/allihuwa)\
**Replies:** 2\
**Last updated:** [July 23, 2020, 10:11am UTC](https://discourse.slicer.org/t/issues-loading-own-nrrd-file-into-slicerweb-jupyter-binder-tutorial/12679 "2020-07-23T10:11:29Z")

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Hello, I am trying to load my own nrrd file to be able to manipulate a volume rendering through the slicerweb notebook extension that runs on jupyter. I am trying to change this example code given on this tutorial: …

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## [Registration of two scans](https://discourse.slicer.org/t/registration-of-two-scans/12558)

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**Author:** [@Tekk\_ya](https://discourse.slicer.org/u/Tekk_ya)\
**Replies:** 1\
**Last updated:** [July 23, 2020, 2:21am UTC](https://discourse.slicer.org/t/registration-of-two-scans/12558 "2020-07-23T02:21:43Z")

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Hi all, I want to register two CBCT scans. Based on my investigation on the required registration process, first, we need to apply some affine transformation and, later, we need to apply some deformable registration met…

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## [Error message,help!](https://discourse.slicer.org/t/error-message-help/12659)

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**Author:** [@wwx992881](https://discourse.slicer.org/u/wwx992881)\
**Replies:** 2\
**Last updated:** [July 23, 2020, 2:02am UTC](https://discourse.slicer.org/t/error-message-help/12659 "2020-07-23T02:02:28Z")

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Hi! when I try to Extract centerline,and I get two error message as follow?what happened?what shoule I do?Thanks!!!

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## [cannot load DICOM RT structure set object](https://discourse.slicer.org/t/cannot-load-dicom-rt-structure-set-object/12680)

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**Author:** [@44REAM](https://discourse.slicer.org/u/44REAM)\
**Replies:** 3\
**Last updated:** [July 22, 2020, 10:13pm UTC](https://discourse.slicer.org/t/cannot-load-dicom-rt-structure-set-object/12680 "2020-07-22T22:13:23Z")

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Im try to convert dicom file (CT, RD, RS) to nrrd by using mpreview processor but it show the error below Switching to temporary DICOM database: C:/Users/dream/AppData/Local/Temp/Slicer\\mpReviewPreprocessor\\CtkDICOM…

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## [vtkMRMLMarkupsCurveNode.GetBounds() : how should we understand it?](https://discourse.slicer.org/t/vtkmrmlmarkupscurvenode-getbounds-how-should-we-understand-it/12692)

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**Author:** [@chir.set](https://discourse.slicer.org/u/chir.set)\
**Replies:** 2\
**Last updated:** [July 22, 2020, 5:22pm UTC](https://discourse.slicer.org/t/vtkmrmlmarkupscurvenode-getbounds-how-should-we-understand-it/12692 "2020-07-22T17:22:39Z")

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I expected the bounds from vtkMRMLMarkupsCurveNode.GetBounds() to stop at the extreme XYZ values in both directions on each axis. It seems that the returned bounds exceed these values, with greater excess as the length i…

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## [nrrd files are duplicated every time the program is opened ](https://discourse.slicer.org/t/nrrd-files-are-duplicated-every-time-the-program-is-opened/12681)

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**Author:** [@sndkf](https://discourse.slicer.org/u/sndkf)\
**Replies:** 3\
**Last updated:** [July 22, 2020, 2:34pm UTC](https://discourse.slicer.org/t/nrrd-files-are-duplicated-every-time-the-program-is-opened/12681 "2020-07-22T14:34:00Z")

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Hello. Every time 3D Slicer is opened, I load the files I need from a directory and 3D Slicer automatically creates duplicates of all these files. They’re usually named “filename\_1nrrd” and it has lead to the situation …

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## [Support flair dti registration](https://discourse.slicer.org/t/support-flair-dti-registration/12688)

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**Author:** [@Rodrigo\_Pessini](https://discourse.slicer.org/u/Rodrigo_Pessini)\
**Replies:** 1\
**Last updated:** [July 22, 2020, 2:16pm UTC](https://discourse.slicer.org/t/support-flair-dti-registration/12688 "2020-07-22T14:16:18Z")

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Dear Sirs I am a 3DSLICER user and I am using the General Registration (BRAINS) module to register flair and dti images. I follow the 3dslicer manual to register the images but the registration is not good. Especially i…

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## [Error using MultiVolumeImporter for a nifti multivolume](https://discourse.slicer.org/t/error-using-multivolumeimporter-for-a-nifti-multivolume/12644)

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**Author:** [@agomez](https://discourse.slicer.org/u/agomez)\
**Replies:** 4\
**Last updated:** [July 22, 2020, 2:10pm UTC](https://discourse.slicer.org/t/error-using-multivolumeimporter-for-a-nifti-multivolume/12644 "2020-07-22T14:10:19Z")

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Hi, we have found this and want to check if it may be a bug. In MultiVolumeImporter there is a Helper function in …/Slicer-4.10.2-linux-amd64/lib/Slicer-4.10/qt-scripted-modules/MultiVolumeImporterLib/Helper.py ------…

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## [loading  large dicom study failure ](https://discourse.slicer.org/t/loading-large-dicom-study-failure/12556)

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**Author:** [@Anand\_Mulay](https://discourse.slicer.org/u/Anand_Mulay)\
**Replies:** 5\
**Last updated:** [July 22, 2020, 2:04pm UTC](https://discourse.slicer.org/t/loading-large-dicom-study-failure/12556 "2020-07-22T14:04:34Z")

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today i tried to load up a study which is 3.6Gb in size , it took 3 hours to show up in DCM database , but failed to load in slicer as a volume , i can view that study in other Dicom viewer but cant load it in slicer. i…

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## [Creating landmarks on isosurface](https://discourse.slicer.org/t/creating-landmarks-on-isosurface/12497)

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**Author:** [@ramyavij](https://discourse.slicer.org/u/ramyavij)\
**Replies:** 13\
**Last updated:** [July 21, 2020, 4:52pm UTC](https://discourse.slicer.org/t/creating-landmarks-on-isosurface/12497 "2020-07-21T16:52:28Z")

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Hi, I am loading DICOM images from CT/MRI. I would like to create the isosurface to obtain the 3D image of the torso surface. On the torso surface, I would like to mark electrode locations. How can I create the isosurf…

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## [STL file model not displaying](https://discourse.slicer.org/t/stl-file-model-not-displaying/12647)

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**Author:** [@Matt\_B](https://discourse.slicer.org/u/Matt_B)\
**Replies:** 4\
**Last updated:** [July 21, 2020, 11:54am UTC](https://discourse.slicer.org/t/stl-file-model-not-displaying/12647 "2020-07-21T11:54:50Z")

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I have a stl file which seems to open in 3D slicer but does not appear to display in any of the views and I’m not sure why. It opens and displays in an online viewer: https://www.viewstl.com/ The file is available here…

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## [Radiomics feature extraction is very slow. ](https://discourse.slicer.org/t/radiomics-feature-extraction-is-very-slow/11658)

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**Author:** [@Ankush\_Jajodia](https://discourse.slicer.org/u/Ankush_Jajodia)\
**Replies:** 1\
**Last updated:** [July 21, 2020, 4:47am UTC](https://discourse.slicer.org/t/radiomics-feature-extraction-is-very-slow/11658 "2020-07-21T04:47:11Z")

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Operating system:mac Slicer version:4.10.2 Expected behavior: After segmentation the radiomic feature extraction is taking unusually long… sometimes even 32 hours for a single study . Actual behavior: In the past it t…

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## [Newbie question - combining segmentations](https://discourse.slicer.org/t/newbie-question-combining-segmentations/12638)

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**Author:** [@Jaswant](https://discourse.slicer.org/u/Jaswant)\
**Replies:** 4\
**Last updated:** [July 20, 2020, 10:25pm UTC](https://discourse.slicer.org/t/newbie-question-combining-segmentations/12638 "2020-07-20T22:25:44Z")

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I have two summer students who are working with same CT contrast DICOM volume of a dog. They copied the same original 3D slicer data directory but worked independently on their laptops to segment forelimb structures (on…

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## [New module for cross-section area measurement](https://discourse.slicer.org/t/new-module-for-cross-section-area-measurement/11429)

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**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Replies:** 4\
**Last updated:** [July 20, 2020, 3:59pm UTC](https://discourse.slicer.org/t/new-module-for-cross-section-area-measurement/11429 "2020-07-20T15:59:38Z")

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We have added a new module for measuring 2D cross-section area of segmented structures. User can choose measurement axis direction and results are available both as table and plot. It is available for latest Slicer P…

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## [How to extract 3D vessels segmentation quickly and accurately?](https://discourse.slicer.org/t/how-to-extract-3d-vessels-segmentation-quickly-and-accurately/12571)

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**Author:** [@wwx992881](https://discourse.slicer.org/u/wwx992881)\
**Replies:** 7\
**Last updated:** [July 20, 2020, 1:45pm UTC](https://discourse.slicer.org/t/how-to-extract-3d-vessels-segmentation-quickly-and-accurately/12571 "2020-07-20T13:45:15Z")

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Hi,All! I need to extract 3D vessels segmentation from 3d TOF MRA,I want to do that more quickly and accurately .Now I use threshold and islands in segment editor to that and my segmentation as follow.But is there a bet…

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## [Problem with the code snippet in “Get information from segmentation nrrd file header” of ScriptRepository](https://discourse.slicer.org/t/problem-with-the-code-snippet-in-get-information-from-segmentation-nrrd-file-header-of-scriptrepository/12608)

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**Author:** [@shahrokh](https://discourse.slicer.org/u/shahrokh)\
**Replies:** 4\
**Last updated:** [July 20, 2020, 12:46pm UTC](https://discourse.slicer.org/t/problem-with-the-code-snippet-in-get-information-from-segmentation-nrrd-file-header-of-scriptrepository/12608 "2020-07-20T12:46:27Z")

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Hello Dear Developers and Users I save RT structure in nrrd format (seg.nrrd suffix). Then I run the code in ScriptRepository. I noticed that Layer and LabelValue keys do not exist in header dictionary. In my case, als…

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## [EPAD Stanford ROI and SEG to 3D slicer](https://discourse.slicer.org/t/epad-stanford-roi-and-seg-to-3d-slicer/12609)

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**Author:** [@Emmanuel\_Salinas\_Mir](https://discourse.slicer.org/u/Emmanuel_Salinas_Mir)\
**Replies:** 5\
**Last updated:** [July 19, 2020, 5:21pm UTC](https://discourse.slicer.org/t/epad-stanford-roi-and-seg-to-3d-slicer/12609 "2020-07-19T17:21:42Z")

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Hi. Stanford software EPAD saves segmentations and ROIs as .json files. Is there any possibility of using these files to create a standard nrrd segmentation or labelmap on 3D slicer ? Regards

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## [CT volume cropping](https://discourse.slicer.org/t/ct-volume-cropping/12629)

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**Author:** [@blizzzardboi\_2020](https://discourse.slicer.org/u/blizzzardboi_2020)\
**Replies:** 0\
**Last updated:** [July 19, 2020, 5:14pm UTC](https://discourse.slicer.org/t/ct-volume-cropping/12629 "2020-07-19T17:14:21Z")

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Hello. I want to crop(28x28x50) all the DCM (CT) volumes(150x150x50) in a folder, any python script for that?

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## [Read In JSON Landmark files](https://discourse.slicer.org/t/read-in-json-landmark-files/8548)

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**Author:** [@stevenagl12](https://discourse.slicer.org/u/stevenagl12)\
**Replies:** 10\
**Last updated:** [July 18, 2020, 2:48pm UTC](https://discourse.slicer.org/t/read-in-json-landmark-files/8548 "2020-07-18T14:48:27Z")

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Hi, I was wondering fi there was a way to read in landmark json files into 3D Slicer. I have Json files such as the following: \[{“id”:“A”,“coordinates”:\[-24.27351391435728,28.911588222173073,-123.59017318765929\],“uncerta…

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## [Export segmentation scene (mrml) and segmentations (nrrd) into Nifti format for dropbox viewing](https://discourse.slicer.org/t/export-segmentation-scene-mrml-and-segmentations-nrrd-into-nifti-format-for-dropbox-viewing/12517)

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**Author:** [@Bo\_Lan](https://discourse.slicer.org/u/Bo_Lan)\
**Replies:** 13\
**Last updated:** [July 18, 2020, 2:34pm UTC](https://discourse.slicer.org/t/export-segmentation-scene-mrml-and-segmentations-nrrd-into-nifti-format-for-dropbox-viewing/12517 "2020-07-18T14:34:54Z")

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Hi! I am trying to export my segmentation scene and its segmentations as a nifti file for my PI to be shared and downloaded from dropbox. However, the entire scene can only be saved as a mrml file and the segmentations c…

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## [DICOM Loading Planes Problems ](https://discourse.slicer.org/t/dicom-loading-planes-problems/12606)

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**Author:** [@chedepablo](https://discourse.slicer.org/u/chedepablo)\
**Replies:** 1\
**Last updated:** [July 17, 2020, 11:30pm UTC](https://discourse.slicer.org/t/dicom-loading-planes-problems/12606 "2020-07-17T23:30:19Z")

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Hello team, I’m relatively new to 3D Slicer, I have a MRI study with several series description, 19 series to be exact with 1957 instances, however, when I tried to load the images, I don’t get the three planes correctl…

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## [Why Slicer automatically scales a MultiVolume by a factor](https://discourse.slicer.org/t/why-slicer-automatically-scales-a-multivolume-by-a-factor/12557)

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**Author:** [@xlucox](https://discourse.slicer.org/u/xlucox)\
**Replies:** 9\
**Last updated:** [July 17, 2020, 9:23pm UTC](https://discourse.slicer.org/t/why-slicer-automatically-scales-a-multivolume-by-a-factor/12557 "2020-07-17T21:23:49Z")

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Hi !!! I have a MRI sequence which consist of a number of images in the time. When I upload it to Slicer the pixel values are scaled with respect to the original values. I plotted the image with matplotlib in python and…

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## [How to define and save output of a cli module in Python script?](https://discourse.slicer.org/t/how-to-define-and-save-output-of-a-cli-module-in-python-script/12289)

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**Author:** [@Ponyo2311](https://discourse.slicer.org/u/Ponyo2311)\
**Replies:** 5\
**Last updated:** [July 17, 2020, 7:27pm UTC](https://discourse.slicer.org/t/how-to-define-and-save-output-of-a-cli-module-in-python-script/12289 "2020-07-17T19:27:11Z")

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Hi, I’m trying to run N4ITK Bias correction (a cli module) from Jupyter Notebook and am struggling with defining the output parameter. The code I wrote reads my inputs and creates a node, but I don’t know whether it ra…

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## [Volume Reslice Driver](https://discourse.slicer.org/t/volume-reslice-driver/12307)

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**Author:** [@mariaelh](https://discourse.slicer.org/u/mariaelh)\
**Replies:** 7\
**Last updated:** [July 17, 2020, 7:25pm UTC](https://discourse.slicer.org/t/volume-reslice-driver/12307 "2020-07-17T19:25:45Z")

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Does this module still exist? I cannot find it. Is it under another name? Thanks

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## [Segmentation inside a ROI](https://discourse.slicer.org/t/segmentation-inside-a-roi/12588)

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**Author:** [@Jaswant](https://discourse.slicer.org/u/Jaswant)\
**Replies:** 2\
**Last updated:** [July 17, 2020, 7:21pm UTC](https://discourse.slicer.org/t/segmentation-inside-a-roi/12588 "2020-07-17T19:21:57Z")

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My question is somewhat similar to ongoing discussion on ROI to segmentation topic. I am working on a whole body CT with contrast of a dog to segment bones, muscles and blood vessels of thoracic and pelvic limbs, axial …

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## [transferring objects from MIM Maestro to Slicer](https://discourse.slicer.org/t/transferring-objects-from-mim-maestro-to-slicer/12598)

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**Author:** [@briannawhitener](https://discourse.slicer.org/u/briannawhitener)\
**Replies:** 3\
**Last updated:** [July 17, 2020, 7:16pm UTC](https://discourse.slicer.org/t/transferring-objects-from-mim-maestro-to-slicer/12598 "2020-07-17T19:16:51Z")

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Operating system: Windows Slicer version: 4.10.2 Expected behavior: Actual behavior: Hello, I’d like to be able to create objects in MIM, then save to a shared folder and open them in Slicer. I’ve been able to open …

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## [File edited in preview version 4.11.0 now lacks all segments. Please help!](https://discourse.slicer.org/t/file-edited-in-preview-version-4-11-0-now-lacks-all-segments-please-help/12591)

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**Author:** [@tessamontague](https://discourse.slicer.org/u/tessamontague)\
**Replies:** 6\
**Last updated:** [July 17, 2020, 6:16pm UTC](https://discourse.slicer.org/t/file-edited-in-preview-version-4-11-0-now-lacks-all-segments-please-help/12591 "2020-07-17T18:16:28Z")

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Operating system: OS X Slicer version: 4.11.0 Expected behavior: I was using the stable version of Slicer (4.10.2) to annotate an MRI brain (months of work) but the paint tool was very laggy, so I downloaded the previe…

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