# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=298

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

**Page:** 299

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## [2D baby to 3D print](https://discourse.slicer.org/t/2d-baby-to-3d-print/15858)

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**Author:** [@spongebob](https://discourse.slicer.org/u/spongebob)\
**Replies:** 7\
**Last updated:** [February 10, 2021, 1:02pm UTC](https://discourse.slicer.org/t/2d-baby-to-3d-print/15858 "2021-02-10T13:02:03Z")

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i was watching you utube video on how to convert a 2D baby image to a 3D print and there is no sounds so i dunno what file ur putting in etc makes it really hard to follow or understand? Operating system: Slicer versio…

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## [Installing FEniCS Python package inside Slicer](https://discourse.slicer.org/t/installing-fenics-python-package-inside-slicer/12322)

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**Author:** [@benzwick](https://discourse.slicer.org/u/benzwick)\
**Replies:** 11\
**Last updated:** [February 10, 2021, 11:28am UTC](https://discourse.slicer.org/t/installing-fenics-python-package-inside-slicer/12322 "2021-02-10T11:28:47Z")

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Hi, I need some help with installing the fenics Python package inside Slicer. I tried using pip\_install('fenics') in the latest Slicer preview (4.11.0-2020-06-30 r29196 / 07bc921): Python 3.6.7 (default, Jul 1 2020, 0…

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## [Support freesurfer](https://discourse.slicer.org/t/support-freesurfer/15908)

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**Author:** [@Lorenzo\_Ferri](https://discourse.slicer.org/u/Lorenzo_Ferri)\
**Replies:** 2\
**Last updated:** [February 10, 2021, 8:13am UTC](https://discourse.slicer.org/t/support-freesurfer/15908 "2021-02-10T08:13:48Z")

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Operating system: Mac Os Catalina Slicer version: 4.11 Dear experts I have just installed in a different PC the new version of Slicer. I used to use the version 4.8 in another PC. I never had problems in upload the …

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## [Using Scissors to make mask on MRI](https://discourse.slicer.org/t/using-scissors-to-make-mask-on-mri/15867)

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**Author:** [@HodaGH](https://discourse.slicer.org/u/HodaGH)\
**Replies:** 3\
**Last updated:** [February 10, 2021, 3:52am UTC](https://discourse.slicer.org/t/using-scissors-to-make-mask-on-mri/15867 "2021-02-10T03:52:09Z")

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Hi all, I’m trying to create a mask for registration of MRI and CT pelvis scans using scissors in segment editor. It works perfectly for CT but when I draw the same free-form area on the MRI the mask only goes half thro…

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## [My 3D model has a smaller 3D model inside of it???](https://discourse.slicer.org/t/my-3d-model-has-a-smaller-3d-model-inside-of-it/15921)

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**Author:** [@Jezza](https://discourse.slicer.org/u/Jezza)\
**Replies:** 2\
**Last updated:** [February 9, 2021, 9:55pm UTC](https://discourse.slicer.org/t/my-3d-model-has-a-smaller-3d-model-inside-of-it/15921 "2021-02-09T21:55:11Z")

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Operating system: macOS Catalina 10.15.7 Slicer version: 4.11 20200930 Expected behavior: I have very very carefully drawn the circumference of the aorta in green to be as precise as possible. When I click “show 3D” in…

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## [Downloaded Sample Data Not Loading](https://discourse.slicer.org/t/downloaded-sample-data-not-loading/15925)

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**Author:** [@juliawithrow](https://discourse.slicer.org/u/juliawithrow)\
**Replies:** 1\
**Last updated:** [February 9, 2021, 9:14pm UTC](https://discourse.slicer.org/t/downloaded-sample-data-not-loading/15925 "2021-02-09T21:14:51Z")

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Operating system: Mac OS Catalina 10.15.2 Slicer version: 4.10.2 Expected behavior: I am trying to download the head and neck SPL atlas which is from the DataStore and then open it for viewing in the 4 view windows. A…

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## [Volume Rendering CPU VS GPU](https://discourse.slicer.org/t/volume-rendering-cpu-vs-gpu/15922)

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**Author:** [@Raj\_Kumar\_Ranabhat](https://discourse.slicer.org/u/Raj_Kumar_Ranabhat)\
**Replies:** 1\
**Last updated:** [February 9, 2021, 9:14pm UTC](https://discourse.slicer.org/t/volume-rendering-cpu-vs-gpu/15922 "2021-02-09T21:14:07Z")

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Operating system: Windows 10 Slicer version: 2020-03-06 Expected behavior: better rendering Actual behavior: Unknown In our spine simulation project, due to issue on speed of burring. We are trying to switch from sur…

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## [Segmentation problem with MRI (geometric issues)](https://discourse.slicer.org/t/segmentation-problem-with-mri-geometric-issues/15899)

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**Author:** [@hao](https://discourse.slicer.org/u/hao)\
**Replies:** 5\
**Last updated:** [February 9, 2021, 5:42pm UTC](https://discourse.slicer.org/t/segmentation-problem-with-mri-geometric-issues/15899 "2021-02-09T17:42:41Z")

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Hi, I tried to do segmentation with MRI serie, at import moment, slice give a message of "Geometric issue, images are not equally spaced). I have used transform option of dicom plugin configuartion. But each time I paint…

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## [Support for pathlib](https://discourse.slicer.org/t/support-for-pathlib/9131)

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**Author:** [@Fernando](https://discourse.slicer.org/u/Fernando)\
**Replies:** 2\
**Last updated:** [February 9, 2021, 2:49pm UTC](https://discourse.slicer.org/t/support-for-pathlib/9131 "2021-02-09T14:49:25Z")

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Hi all, Now that Python 3 works with Slicer, are there any plans to add support for the standard pathlib library? Currently I just cast all the paths to str before feeding them to Slicer functions: Old style: import o…

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## [Can you tell me the workflow with the latest Slicer that reproduces what I am used to in 4.9.0](https://discourse.slicer.org/t/can-you-tell-me-the-workflow-with-the-latest-slicer-that-reproduces-what-i-am-used-to-in-4-9-0/15875)

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**Author:** [@TudorSlicer](https://discourse.slicer.org/u/TudorSlicer)\
**Replies:** 5\
**Last updated:** [February 9, 2021, 2:29pm UTC](https://discourse.slicer.org/t/can-you-tell-me-the-workflow-with-the-latest-slicer-that-reproduces-what-i-am-used-to-in-4-9-0/15875 "2021-02-09T14:29:29Z")

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Operating system: Windows 10 Slicer version: 4.9.0 I am familiar with using Slicer to take a CT of a limb to make an .stl file of a single bone for printing My work flow using the old version of slicer was basically …

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## [Voxelization of mesh](https://discourse.slicer.org/t/voxelization-of-mesh/4942)

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**Author:** [@zjx1805](https://discourse.slicer.org/u/zjx1805)\
**Replies:** 13\
**Last updated:** [February 9, 2021, 11:40am UTC](https://discourse.slicer.org/t/voxelization-of-mesh/4942 "2021-02-09T11:40:30Z")

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Is there a way in 3D Slicer to voxelize a 3D mesh (preferably through python interpreter)? I would also like to be able to specify the voxel size and shape, if possible. BTW, my complete mesh consists of 100+ separate .v…

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## [Copy Segment from Segmentation Failing](https://discourse.slicer.org/t/copy-segment-from-segmentation-failing/15912)

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**Author:** [@Pete](https://discourse.slicer.org/u/Pete)\
**Replies:** 2\
**Last updated:** [February 9, 2021, 10:24am UTC](https://discourse.slicer.org/t/copy-segment-from-segmentation-failing/15912 "2021-02-09T10:24:31Z")

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Hi, Any help greatly appreciated. I am trying to copy a segment from one segmentation to another (Copy segment “Single” from segmentation “Segmentation” to new segmentation “Margin Expansion” to new segment “Margin + Ex…

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## [How do I add Ultrasonic probe STL into a scene?](https://discourse.slicer.org/t/how-do-i-add-ultrasonic-probe-stl-into-a-scene/15895)

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**Author:** [@Carl098](https://discourse.slicer.org/u/Carl098)\
**Replies:** 3\
**Last updated:** [February 8, 2021, 10:34pm UTC](https://discourse.slicer.org/t/how-do-i-add-ultrasonic-probe-stl-into-a-scene/15895 "2021-02-08T22:34:53Z")

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Hi, I’m writing a module. I’d like to implement a function that will load a probe in the upper right after pressing the Apply button. Like this, How do I write this part of my Python program. Thanks!

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## [Brain and skull segmentation](https://discourse.slicer.org/t/brain-and-skull-segmentation/15859)

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**Author:** [@Saima](https://discourse.slicer.org/u/Saima)\
**Replies:** 4\
**Last updated:** [February 8, 2021, 9:12pm UTC](https://discourse.slicer.org/t/brain-and-skull-segmentation/15859 "2021-02-08T21:12:48Z")

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Hi Andras, I segmented the brain and removed the skull. I now need to get some extra layer on top of the brain extracted assuming that it is a skull how can I do it. and another layer for the scalp as well on top of sku…

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## [CBCT noise removal](https://discourse.slicer.org/t/cbct-noise-removal/15691)

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**Author:** [@martig](https://discourse.slicer.org/u/martig)\
**Replies:** 7\
**Last updated:** [February 8, 2021, 9:06pm UTC](https://discourse.slicer.org/t/cbct-noise-removal/15691 "2021-02-08T21:06:15Z")

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Hi, I would like to remove noise from CBCT images before I import them to a surgery planning software that can only do simple thresholding and only accepts DICOM files as input. I have read the various threads on these…

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## [cropping question ](https://discourse.slicer.org/t/cropping-question/15906)

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**Author:** [@talalzahid](https://discourse.slicer.org/u/talalzahid)\
**Replies:** 1\
**Last updated:** [February 8, 2021, 6:40pm UTC](https://discourse.slicer.org/t/cropping-question/15906 "2021-02-08T18:40:17Z")

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It may be a stupid question, but for some reason after loading a new cbct scan Dicom files, I click crop volume then choose the area that I would like to crop then click apply, nothing happened… usually it used to work h…

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## [Load DICOM data via "networking" with python script?](https://discourse.slicer.org/t/load-dicom-data-via-networking-with-python-script/15693)

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**Author:** [@rbumm](https://discourse.slicer.org/u/rbumm)\
**Replies:** 25\
**Last updated:** [February 8, 2021, 8:40pm UTC](https://discourse.slicer.org/t/load-dicom-data-via-networking-with-python-script/15693 "2021-02-08T20:40:17Z")

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Hi, what would be the recommended way to realize DICOM network access via python script? We would need to load all CT scans of a patient (defined by patient ID) of a certain time period into Slicers DICOM database, the…

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## [Rotation Transform Error](https://discourse.slicer.org/t/rotation-transform-error/15909)

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**Author:** [@MachadoL](https://discourse.slicer.org/u/MachadoL)\
**Replies:** 4\
**Last updated:** [February 8, 2021, 8:21pm UTC](https://discourse.slicer.org/t/rotation-transform-error/15909 "2021-02-08T20:21:41Z")

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Hello, Everyone. I am performing a 3D multistage registration. 1st Stage is a Translation transform initiated with an identity transform. The second stage is a Rotation transform. It is pops up the following errors rig…

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## [Volume rendering of binary label maps](https://discourse.slicer.org/t/volume-rendering-of-binary-label-maps/4411)

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**Author:** [@katharina\_hecker](https://discourse.slicer.org/u/katharina_hecker)\
**Replies:** 10\
**Last updated:** [February 8, 2021, 6:53pm UTC](https://discourse.slicer.org/t/volume-rendering-of-binary-label-maps/4411 "2021-02-08T18:53:42Z")

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Hello everyone, is it generally possible to use the volume rendering module for created binary label maps, which were originating from segmentations? I was exporting my segments to binary label maps and were trying to …

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## [Collaborative planning in Virtual Reality](https://discourse.slicer.org/t/collaborative-planning-in-virtual-reality/14841)

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**Author:** [@justdcinaus](https://discourse.slicer.org/u/justdcinaus)\
**Replies:** 17\
**Last updated:** [February 8, 2021, 5:55am UTC](https://discourse.slicer.org/t/collaborative-planning-in-virtual-reality/14841 "2021-02-08T05:55:01Z")

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Hi I was wondering if there was any further follow up to the older topic https://discourse.slicer.org/t/collaborative-surgery-planning-in-virtual-reality/6407 ? I have managed to get a good internal view of a heart usi…

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## [Visibility of segments from Data Module vs Segment Editor/Segmentations](https://discourse.slicer.org/t/visibility-of-segments-from-data-module-vs-segment-editor-segmentations/15888)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 5\
**Last updated:** [February 8, 2021, 5:41am UTC](https://discourse.slicer.org/t/visibility-of-segments-from-data-module-vs-segment-editor-segmentations/15888 "2021-02-08T05:41:04Z")

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When a segment visibility is turned off via Segment Editor (or Segmentations), associated visibility icon in the Data module doesn’t get updated, it stays turned on. The reciprocal case works fine. It reproduces on wind…

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## [Segment spheres or cubes](https://discourse.slicer.org/t/segment-spheres-or-cubes/15892)

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**Author:** [@Aep93](https://discourse.slicer.org/u/Aep93)\
**Replies:** 1\
**Last updated:** [February 8, 2021, 5:10am UTC](https://discourse.slicer.org/t/segment-spheres-or-cubes/15892 "2021-02-08T05:10:56Z")

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Hello, How can we create segmentations of basic shapes such as a sphere or a cube with specific values of radius, length, or width in the slicer?

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## [Gel Dosimetry Slicelet - Calibration](https://discourse.slicer.org/t/gel-dosimetry-slicelet-calibration/15739)

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**Author:** [@SmHoop](https://discourse.slicer.org/u/SmHoop)\
**Replies:** 5\
**Last updated:** [February 7, 2021, 7:57pm UTC](https://discourse.slicer.org/t/gel-dosimetry-slicelet-calibration/15739 "2021-02-07T19:57:56Z")

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@cpinter Hi, In the calibration step of the slicelet (from the Wiki) I see step 10: Get mean optical densities from the central cylinder of the CALIBRATION volume Must a MeV irradiation be performed down the central…

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## [Too many slices to segment](https://discourse.slicer.org/t/too-many-slices-to-segment/15717)

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**Author:** [@vidyakar555](https://discourse.slicer.org/u/vidyakar555)\
**Replies:** 3\
**Last updated:** [February 7, 2021, 6:59pm UTC](https://discourse.slicer.org/t/too-many-slices-to-segment/15717 "2021-02-07T18:59:04Z")

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Hi, I am new to the community. I am facing an issue with a discrepancy in the number of slices while segmentation. The MRI sequence has 23 slices as per volume information (and also if I open it any other software like …

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## [Transfer scene files from 3DSlicer to Unreal Engine Support](https://discourse.slicer.org/t/transfer-scene-files-from-3dslicer-to-unreal-engine-support/15884)

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**Author:** [@cshreyas](https://discourse.slicer.org/u/cshreyas)\
**Replies:** 2\
**Last updated:** [February 7, 2021, 6:57pm UTC](https://discourse.slicer.org/t/transfer-scene-files-from-3dslicer-to-unreal-engine-support/15884 "2021-02-07T18:57:11Z")

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Hello, I am trying to transfer 3DSlicer image to Magic leap. There doenst seem to be a direct a way to do this (as of I know). One option to explore is to transfer 3DSlicer to Unreal Engine and later import that to Mag…

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## [Out of frame of yellow and green viewer](https://discourse.slicer.org/t/out-of-frame-of-yellow-and-green-viewer/15882)

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**Author:** [@hao](https://discourse.slicer.org/u/hao)\
**Replies:** 0\
**Last updated:** [February 7, 2021, 4:34pm UTC](https://discourse.slicer.org/t/out-of-frame-of-yellow-and-green-viewer/15882 "2021-02-07T16:34:40Z")

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HI, I tried to do the registration of deux CT dicom series but the images could not showed in the green and yellow view (coronal and sagittal). when I put the mouse in these windows, il shows in the left corner that it "…

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## [Error when importing Matplotlib](https://discourse.slicer.org/t/error-when-importing-matplotlib/15860)

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**Author:** [@11141](https://discourse.slicer.org/u/11141)\
**Replies:** 1\
**Last updated:** [February 6, 2021, 5:43am UTC](https://discourse.slicer.org/t/error-when-importing-matplotlib/15860 "2021-02-06T05:43:04Z")

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Hi. I created a extension, but the following error occurred. Blockquote Traceback (most recent call last): File “”, line 1, in File “C:\\Users\\20200\\AppData\\Local\\NA-MIC\\Slicer 4.11.20200930\\lib\\Python\\Lib\\imp.py”,…

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## [Problems with Python and meshtolabelmap with Slicer 4.11 (python module worked on Slicer 4.10)](https://discourse.slicer.org/t/problems-with-python-and-meshtolabelmap-with-slicer-4-11-python-module-worked-on-slicer-4-10/15777)

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**Author:** [@Christian\_Nell](https://discourse.slicer.org/u/Christian_Nell)\
**Replies:** 2\
**Last updated:** [February 5, 2021, 8:25pm UTC](https://discourse.slicer.org/t/problems-with-python-and-meshtolabelmap-with-slicer-4-11-python-module-worked-on-slicer-4-10/15777 "2021-02-05T20:25:47Z")

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I am scripting a module in 3D Slicer using python and the script worked on Slicer 4.10 but now that I’ve updated to the new version 4.11 part of the script is not working. Specifically, a part where I create a handle for…

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## [Problem in calculating D95 using Dose Volume Histogram module](https://discourse.slicer.org/t/problem-in-calculating-d95-using-dose-volume-histogram-module/15870)

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**Author:** [@aseman](https://discourse.slicer.org/u/aseman)\
**Replies:** 0\
**Last updated:** [February 5, 2021, 7:33pm UTC](https://discourse.slicer.org/t/problem-in-calculating-d95-using-dose-volume-histogram-module/15870 "2021-02-05T19:33:12Z")

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Hi 3D Slicer experts and all I want to calculate dosimetric parameters such as mean dose and D95 (the percentage of the prescription dose covering 95% of the volume) for some of head and neck patients(such as larynx can…

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## [Newbie: Overlaying .nii file with Dicom](https://discourse.slicer.org/t/newbie-overlaying-nii-file-with-dicom/15854)

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**Author:** [@jberanoteh](https://discourse.slicer.org/u/jberanoteh)\
**Replies:** 4\
**Last updated:** [February 5, 2021, 5:56pm UTC](https://discourse.slicer.org/t/newbie-overlaying-nii-file-with-dicom/15854 "2021-02-05T17:56:47Z")

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Operating system: Windows 10 Slicer version: 4.11.20200930 I have a DICOM file containing 1 CT scan cross-section slice and an .nii / .nii.gz file containing the tagged muscle volume of the specific DICOM file. I would…

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