# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=217

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

**Page:** 218

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## [Save outcome to CSV file, multiple datasets](https://discourse.slicer.org/t/save-outcome-to-csv-file-multiple-datasets/23009)

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**Author:** [@Hanne1234](https://discourse.slicer.org/u/Hanne1234)\
**Replies:** 1\
**Last updated:** [June 28, 2022, 2:59am UTC](https://discourse.slicer.org/t/save-outcome-to-csv-file-multiple-datasets/23009 "2022-06-28T02:59:05Z")

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For my research I want to extract the features of 40 different VOIs. Most ideally, I would like to save the outcome of the features automatically into a csv file. For 1 VOI this is no problem. But my question is, is it …

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## [Surface model of liver vasculature](https://discourse.slicer.org/t/surface-model-of-liver-vasculature/24054)

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**Author:** [@orxshi](https://discourse.slicer.org/u/orxshi)\
**Replies:** 3\
**Last updated:** [June 27, 2022, 7:13pm UTC](https://discourse.slicer.org/t/surface-model-of-liver-vasculature/24054 "2022-06-27T19:13:44Z")

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Hi I am looking for a ready-to-download surface model of liver vasculature. Only the arteries (PHA, RHA, LHA and their child segments) are required for radioembolization simulation. Is there a sample to download?

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## [Extracting coordinates of muscle segmented on all slices from MRI scans](https://discourse.slicer.org/t/extracting-coordinates-of-muscle-segmented-on-all-slices-from-mri-scans/23441)

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**Author:** [@Eva](https://discourse.slicer.org/u/Eva)\
**Replies:** 10\
**Last updated:** [June 27, 2022, 12:12pm UTC](https://discourse.slicer.org/t/extracting-coordinates-of-muscle-segmented-on-all-slices-from-mri-scans/23441 "2022-06-27T12:12:41Z")

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Hello, I have segmented muscles on MRI scans every 10 slices and I would like to find the line of action of a muscle. I have to get the centroid of each area segmented to then draw a line between these points. I can’t …

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## [Questions for the endoscopy module in 3D slicer](https://discourse.slicer.org/t/questions-for-the-endoscopy-module-in-3d-slicer/24010)

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**Author:** [@rbb428](https://discourse.slicer.org/u/rbb428)\
**Replies:** 4\
**Last updated:** [June 27, 2022, 2:12am UTC](https://discourse.slicer.org/t/questions-for-the-endoscopy-module-in-3d-slicer/24010 "2022-06-27T02:12:35Z")

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Hi, I read a lot post on 3D slicer form about endoscopy module in 3D slicer. However i still don’t get it. I am not quite sure about the process of creating a path and using an endoscopy module to fly through. I am tryi…

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## [Seek the source technique for CT and Ultrasound based Mitral Valve/ Annulus](https://discourse.slicer.org/t/seek-the-source-technique-for-ct-and-ultrasound-based-mitral-valve-annulus/24007)

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**Author:** [@whu](https://discourse.slicer.org/u/whu)\
**Replies:** 2\
**Last updated:** [June 27, 2022, 1:52am UTC](https://discourse.slicer.org/t/seek-the-source-technique-for-ct-and-ultrasound-based-mitral-valve-annulus/24007 "2022-06-27T01:52:00Z")

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Dear All, Since 3d slicer support CT and Ultrasound based Mitral Valve/ Annulus segmentation. Where can I found the source technique papers? Maybe that is the way open-source benifits for researchers. Thanks for sugg…

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## [Interactive lung lobe segmentation fails with NIFTI volume](https://discourse.slicer.org/t/interactive-lung-lobe-segmentation-fails-with-nifti-volume/24052)

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**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Replies:** 4\
**Last updated:** [June 26, 2022, 9:03pm UTC](https://discourse.slicer.org/t/interactive-lung-lobe-segmentation-fails-with-nifti-volume/24052 "2022-06-26T21:03:14Z")

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Hi, I am trying to generate lung lobe labels for a MONAI Label segmentation with the “Interactive Lobe Segmentation”. With a COV-19 lung CT demo dataset (as well as with the Slicers “CTChest” demo) I get: … which …

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## [Combine models intersection / logical operator intersection by script](https://discourse.slicer.org/t/combine-models-intersection-logical-operator-intersection-by-script/24047)

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**Author:** [@gfurnari](https://discourse.slicer.org/u/gfurnari)\
**Replies:** 3\
**Last updated:** [June 26, 2022, 2:29pm UTC](https://discourse.slicer.org/t/combine-models-intersection-logical-operator-intersection-by-script/24047 "2022-06-26T14:29:47Z")

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Hi everyone, does anybody know how to run intersection between two models (using combine models module) or two segments (using logical operators in segment editor) by python script?? Thank you very much for your help.

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## [Groups’instructions PDF is not inconsistent with the slicersalt’s option bar](https://discourse.slicer.org/t/groups-instructions-pdf-is-not-inconsistent-with-the-slicersalt-s-option-bar/23933)

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**Author:** [@lili-yu22](https://discourse.slicer.org/u/lili-yu22)\
**Replies:** 11\
**Last updated:** [June 26, 2022, 11:06am UTC](https://discourse.slicer.org/t/groups-instructions-pdf-is-not-inconsistent-with-the-slicersalt-s-option-bar/23933 "2022-06-26T11:06:03Z")

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according the Groups instruction，first run rigid alignment，but on the Slicer salt"input model directory”shows as picture 1，requiring time-regressed shapes.however the instruction（ picture2）show "input model directory”cho…

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## [How to use a 3D interactive pdf?](https://discourse.slicer.org/t/how-to-use-a-3d-interactive-pdf/24049)

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**Author:** [@aakk](https://discourse.slicer.org/u/aakk)\
**Replies:** 1\
**Last updated:** [June 26, 2022, 12:56am UTC](https://discourse.slicer.org/t/how-to-use-a-3d-interactive-pdf/24049 "2022-06-26T00:56:13Z")

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I am trying to load data I found that is a VRML file embedded into an interactive PDF. I am trying to view this data in Slicer but am unsure how to do so because I cannot load a PDF and I don’t know how to access the VRM…

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## [Nrrd file unable to load](https://discourse.slicer.org/t/nrrd-file-unable-to-load/24046)

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**Author:** [@aakk](https://discourse.slicer.org/u/aakk)\
**Replies:** 2\
**Last updated:** [June 25, 2022, 11:55pm UTC](https://discourse.slicer.org/t/nrrd-file-unable-to-load/24046 "2022-06-25T23:55:08Z")

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Hi, I’m very new to Slicer but I couldn’t find an answer to this on any of the previous support questions. I am trying to load a gif that was sent to me as an nrrd file into Slicer. It is giving the error message “load f…

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## [Slicer doesn't show rotation slider value corresponding to a transform after rotation axis is not cannonical](https://discourse.slicer.org/t/slicer-doesnt-show-rotation-slider-value-corresponding-to-a-transform-after-rotation-axis-is-not-cannonical/23943)

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**Author:** [@mau\_igna\_06](https://discourse.slicer.org/u/mau_igna_06)\
**Replies:** 12\
**Last updated:** [June 25, 2022, 8:31pm UTC](https://discourse.slicer.org/t/slicer-doesnt-show-rotation-slider-value-corresponding-to-a-transform-after-rotation-axis-is-not-cannonical/23943 "2022-06-25T20:31:19Z")

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I would suggest we use this formula as a default to get the rotation slider values It may be useful for the users… Do you think a pull request allowing a scale, rotationAxis and pivot point to define a the transform w…

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## [Integrate python file with 3d slicer](https://discourse.slicer.org/t/integrate-python-file-with-3d-slicer/24042)

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**Author:** [@gfurnari](https://discourse.slicer.org/u/gfurnari)\
**Replies:** 2\
**Last updated:** [June 25, 2022, 5:15pm UTC](https://discourse.slicer.org/t/integrate-python-file-with-3d-slicer/24042 "2022-06-25T17:15:39Z")

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Hi everyone, i’m trying to use python code to automate a process that uses 3d slicer’s modules + some functions that i made myself. So basically i need to call 3d slicer’s modules, slicer.util, etc from my file, just lik…

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## [Failure to save work as .mrb](https://discourse.slicer.org/t/failure-to-save-work-as-mrb/24030)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 6\
**Last updated:** [June 25, 2022, 5:03pm UTC](https://discourse.slicer.org/t/failure-to-save-work-as-mrb/24030 "2022-06-25T17:03:08Z")

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i couldnt not save a file as my usual routine. i tried differenlocation but nothing worked

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## [How could I measure the mandibular condyle rotation using 3D Slicer?](https://discourse.slicer.org/t/how-could-i-measure-the-mandibular-condyle-rotation-using-3d-slicer/24041)

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**Author:** [@Moh\_d\_Al-Watary](https://discourse.slicer.org/u/Moh_d_Al-Watary)\
**Replies:** 2\
**Last updated:** [June 25, 2022, 4:46pm UTC](https://discourse.slicer.org/t/how-could-i-measure-the-mandibular-condyle-rotation-using-3d-slicer/24041 "2022-06-25T16:46:04Z")

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Hi dears in 3D SLICER community, wish you are doing well I am running a project in which I am measuring: Mandibular condyle displacement using the following: After doing registration and segmentation of condyles from…

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## [Segmentation Edit Tools Stop Working After Transforming Volume](https://discourse.slicer.org/t/segmentation-edit-tools-stop-working-after-transforming-volume/24039)

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**Author:** [@chris\_nik](https://discourse.slicer.org/u/chris_nik)\
**Replies:** 2\
**Last updated:** [June 25, 2022, 12:45pm UTC](https://discourse.slicer.org/t/segmentation-edit-tools-stop-working-after-transforming-volume/24039 "2022-06-25T12:45:45Z")

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Hello, I noticed that when I use the “Transforms” Module (create new linear transform → harden transform) to rotate my volume around the vertical and sagittal axes 2° each the following problem occurs: the Draw, Paint, …

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## [Clipping volume](https://discourse.slicer.org/t/clipping-volume/23925)

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**Author:** [@mohammed\_alshakhas](https://discourse.slicer.org/u/mohammed_alshakhas)\
**Replies:** 12\
**Last updated:** [June 25, 2022, 12:33pm UTC](https://discourse.slicer.org/t/clipping-volume/23925 "2022-06-25T12:33:33Z")

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i wish to have a scissor/eraser tool for volume. that will allow free hand clipping of volume. I’m aware of other methods like splitting volume but those are more involved. i rather have a simple scissor / eraser of v…

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## [How to import a sequence of radial OCT image(.jpg)](https://discourse.slicer.org/t/how-to-import-a-sequence-of-radial-oct-image-jpg/24006)

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**Author:** [@coastcode](https://discourse.slicer.org/u/coastcode)\
**Replies:** 4\
**Last updated:** [June 25, 2022, 5:40am UTC](https://discourse.slicer.org/t/how-to-import-a-sequence-of-radial-oct-image-jpg/24006 "2022-06-25T05:40:03Z")

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I’m new to 3D Slicer. I have a sequence of radial OCT images(as jpg). How can I load it to slicer and reconstruct it? Really appreciate your help.

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## [Lumbar spine segmentation](https://discourse.slicer.org/t/lumbar-spine-segmentation/24032)

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**Author:** [@MLKADRI](https://discourse.slicer.org/u/MLKADRI)\
**Replies:** 1\
**Last updated:** [June 25, 2022, 4:21am UTC](https://discourse.slicer.org/t/lumbar-spine-segmentation/24032 "2022-06-25T04:21:06Z")

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I m a beginner in 3d slicer. I m trying to create a model of the lumbar spine from dicom data (with cancellous bone, cortical shell, intervertabral disc and interbody cage) but i didn t succeed. Anyone can help ? Thanks …

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## [Improve Markup Rendering Speed (convert to spherical surface?)](https://discourse.slicer.org/t/improve-markup-rendering-speed-convert-to-spherical-surface/24029)

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**Author:** [@skeltoh](https://discourse.slicer.org/u/skeltoh)\
**Replies:** 1\
**Last updated:** [June 24, 2022, 4:43pm UTC](https://discourse.slicer.org/t/improve-markup-rendering-speed-convert-to-spherical-surface/24029 "2022-06-24T16:43:14Z")

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I have a bunch of RAS space coordinates (~1000) that I want to render on top of an MRI, atlas, and surfaces from 3D segmentation. I can make them into an .fcsv and import them into Markups, and they show up appropriately…

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## [Nasal Endoscopy Error (Navigating through/inside the 3D rendering) :(](https://discourse.slicer.org/t/nasal-endoscopy-error-navigating-through-inside-the-3d-rendering/23977)

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**Author:** [@harukam\_122](https://discourse.slicer.org/u/harukam_122)\
**Replies:** 5\
**Last updated:** [June 24, 2022, 3:07pm UTC](https://discourse.slicer.org/t/nasal-endoscopy-error-navigating-through-inside-the-3d-rendering/23977 "2022-06-24T15:07:33Z")

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Hello! I am trying to use the 3D render in 3DSlicer to be able to navigate inside the bodies that I’ve rendered from DICOM data. I was not able to navigate through, for example, the nasal passage just via my mouse and zo…

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## [Trying to take three different volumes to create one 3d model (beginner of 3d slicer)](https://discourse.slicer.org/t/trying-to-take-three-different-volumes-to-create-one-3d-model-beginner-of-3d-slicer/15847)

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**Author:** [@Guy\_Ma](https://discourse.slicer.org/u/Guy_Ma)\
**Replies:** 7\
**Last updated:** [June 24, 2022, 12:24pm UTC](https://discourse.slicer.org/t/trying-to-take-three-different-volumes-to-create-one-3d-model-beginner-of-3d-slicer/15847 "2022-06-24T12:24:47Z")

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Operating system:Windows 10 Slicer version: Latest Expected behavior: I want to use the views that I set in the panels for the 3d model Actual behavior: Only uses one volume, which makes the 3d model poor quality (bec…

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## [Horizontally Gantry Tilt](https://discourse.slicer.org/t/horizontally-gantry-tilt/23959)

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**Author:** [@Mahdiye\_Imanpanah](https://discourse.slicer.org/u/Mahdiye_Imanpanah)\
**Replies:** 5\
**Last updated:** [June 20, 2022, 11:20pm UTC](https://discourse.slicer.org/t/horizontally-gantry-tilt/23959 "2022-06-20T23:20:33Z")

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Hi everyone I’m a medical image processing specialist, and now I’m working on Dicom. I have a question about Tilt in Dicom, which is defined using the (0018, 1120) Dicoms tag. Based on my research, we have 3 types of …

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## [how to create a 3d model of a uterus with fibroids?](https://discourse.slicer.org/t/how-to-create-a-3d-model-of-a-uterus-with-fibroids/23861)

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**Author:** [@Dr.Karpov](https://discourse.slicer.org/u/Dr.Karpov)\
**Replies:** 5\
**Last updated:** [June 22, 2022, 6:48pm UTC](https://discourse.slicer.org/t/how-to-create-a-3d-model-of-a-uterus-with-fibroids/23861 "2022-06-22T18:48:04Z")

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Hello colleagues. I am an obstetrician-gynecologist. I want to create a 3D model of a uterus with fibroids, but I can’t do it due to the lack of technical knowledge of the program. Perhaps someone knows how to solve m…

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## [Image Position (Patient) Attribute (0020,0032) in DICOM file not handled](https://discourse.slicer.org/t/image-position-patient-attribute-0020-0032-in-dicom-file-not-handled/23950)

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**Author:** [@lcaucci78](https://discourse.slicer.org/u/lcaucci78)\
**Replies:** 3\
**Last updated:** [June 22, 2022, 2:53pm UTC](https://discourse.slicer.org/t/image-position-patient-attribute-0020-0032-in-dicom-file-not-handled/23950 "2022-06-22T14:53:35Z")

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Hello, One application I am working on uses dcmtk to create a DICOM file, which I then load into Slicer, along with an STL file I have. I want the voxel volume from the DICOM file be positioned in a specific way with r…

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## [Please provide a working parameters.yml file](https://discourse.slicer.org/t/please-provide-a-working-parameters-yml-file/22928)

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**Author:** [@harad](https://discourse.slicer.org/u/harad)\
**Replies:** 2\
**Last updated:** [June 22, 2022, 9:54am UTC](https://discourse.slicer.org/t/please-provide-a-working-parameters-yml-file/22928 "2022-06-22T09:54:14Z")

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Hi to everyone, I would like to produce a Parameters file for Slicerradiomics to customize the extraction of ALL image types and ALL feature classes. I found several examples of Parameter files in this forum and on GitH…

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## [Segment in different sequences](https://discourse.slicer.org/t/segment-in-different-sequences/23996)

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**Author:** [@miuwells](https://discourse.slicer.org/u/miuwells)\
**Replies:** 1\
**Last updated:** [June 22, 2022, 1:16pm UTC](https://discourse.slicer.org/t/segment-in-different-sequences/23996 "2022-06-22T13:16:48Z")

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Hello everyone, I have a question that I don’t know if it could be solved. I have two sequences, one with 0.4mm Z spacing and one with 1.25mm. I see that the size of the brush adjusts to the size of the slice of each s…

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## [4D volume sequences cropping](https://discourse.slicer.org/t/4d-volume-sequences-cropping/4878)

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**Author:** [@M\_pavi](https://discourse.slicer.org/u/M_pavi)\
**Replies:** 9\
**Last updated:** [June 22, 2022, 1:06pm UTC](https://discourse.slicer.org/t/4d-volume-sequences-cropping/4878 "2022-06-22T13:06:48Z")

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I have been working on 4D volume sequences (.nrrd format) on 3D slicer. I use segmentation editor to crop some parts where after I crop some parts I wanted to save it as another new volume. But after saving this I couldn…

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## [Radiomics module panel is blank](https://discourse.slicer.org/t/radiomics-module-panel-is-blank/23989)

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**Author:** [@harad](https://discourse.slicer.org/u/harad)\
**Replies:** 2\
**Last updated:** [June 22, 2022, 11:51am UTC](https://discourse.slicer.org/t/radiomics-module-panel-is-blank/23989 "2022-06-22T11:51:00Z")

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Thank you. My experience in Windows is that SlicerRadiomics is available in list of extensions and installs in all 3D Slicer versions, always shows up in INFORMATICS, but does not work in any version later than 4.10. Wh…

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## [Easy way to get number of vertices from segmentation in python](https://discourse.slicer.org/t/easy-way-to-get-number-of-vertices-from-segmentation-in-python/23990)

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**Author:** [@ChaoticBrainPerson](https://discourse.slicer.org/u/ChaoticBrainPerson)\
**Replies:** 3\
**Last updated:** [June 22, 2022, 11:25am UTC](https://discourse.slicer.org/t/easy-way-to-get-number-of-vertices-from-segmentation-in-python/23990 "2022-06-22T11:25:52Z")

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Hey everyone. I am would like to get the number of vertices of a model via Python, but I also need this model as a segment, not a modelNode. I found a way to get this on the GUI via models → information → number of poi…

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## [Hiding patient in hierarchy](https://discourse.slicer.org/t/hiding-patient-in-hierarchy/11850)

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**Author:** [@gcsharp](https://discourse.slicer.org/u/gcsharp)\
**Replies:** 7\
**Last updated:** [June 22, 2022, 1:22am UTC](https://discourse.slicer.org/t/hiding-patient-in-hierarchy/11850 "2022-06-22T01:22:32Z")

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When I click on the eyeball at the patient level the subject hierarchy, I would expect it to hide the entire patient (both CT and structure set), but it only hides the structure set. Is this a bug or is this “works as …

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