# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=364

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

**Page:** 365

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## [Segmentation gaps fill in for bone model](https://discourse.slicer.org/t/segmentation-gaps-fill-in-for-bone-model/9085)

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**Author:** [@mccarthyvetsurg](https://discourse.slicer.org/u/mccarthyvetsurg)\
**Replies:** 2\
**Last updated:** [November 8, 2019, 6:55pm UTC](https://discourse.slicer.org/t/segmentation-gaps-fill-in-for-bone-model/9085 "2019-11-08T18:55:18Z")

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Attached is a screen shot of a project I have been working on. My goal is to segment the sacrum. I am trying to achieve a filled in bone model and I have pain stakingly been going through with paint to paint all of the…

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## [Setting of MarkerStyle does NOT work!](https://discourse.slicer.org/t/setting-of-markerstyle-does-not-work/9073)

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**Author:** [@aiden.zhu](https://discourse.slicer.org/u/aiden.zhu)\
**Replies:** 12\
**Last updated:** [November 8, 2019, 5:48pm UTC](https://discourse.slicer.org/t/setting-of-markerstyle-does-not-work/9073 "2019-11-08T17:48:16Z")

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Operating system: Windows Slicer version: 4.11.0-2009-06.23 Expected behavior: vtkMRMLPlotSeriesNode → Marker-Style Actual behavior: Only square works with the selection of Marker-style Hi I am using 4.11.0 nightly v…

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## [Point Markups That Show Through All Slices](https://discourse.slicer.org/t/point-markups-that-show-through-all-slices/9079)

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**Author:** [@Claire](https://discourse.slicer.org/u/Claire)\
**Replies:** 1\
**Last updated:** [November 8, 2019, 4:47am UTC](https://discourse.slicer.org/t/point-markups-that-show-through-all-slices/9079 "2019-11-08T04:47:49Z")

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For my project, I need to make linear and closed-curve measurements. I want to mark a point through multiple slices of CT images. I have used the Line Markups tool to make a crosshair at the point, which is visible throu…

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## [Mac version hangs on startup](https://discourse.slicer.org/t/mac-version-hangs-on-startup/9074)

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**Author:** [@hherhold](https://discourse.slicer.org/u/hherhold)\
**Replies:** 3\
**Last updated:** [November 8, 2019, 2:04am UTC](https://discourse.slicer.org/t/mac-version-hangs-on-startup/9074 "2019-11-08T02:04:28Z")

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I think I’ve seen this mentioned somewhere along the line but I’m very behind in keeping up with discourse posts, and a quick search didn’t uncover anything. Slicer seems to hang on my mac when opening - and by hang, I …

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## [Fiducial projection color for unselected/selected](https://discourse.slicer.org/t/fiducial-projection-color-for-unselected-selected/9048)

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**Author:** [@ezgimercan](https://discourse.slicer.org/u/ezgimercan)\
**Replies:** 5\
**Last updated:** [November 7, 2019, 5:53pm UTC](https://discourse.slicer.org/t/fiducial-projection-color-for-unselected-selected/9048 "2019-11-07T17:53:00Z")

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In preview version, when 2D projection is turned on; unselecting one fiducial changes the color of all fiducials in slice view (2D projection). Compare preview and stable: Stable: Preview:

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## [Commercial navigation platform and slicer](https://discourse.slicer.org/t/commercial-navigation-platform-and-slicer/9058)

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**Author:** [@PaoloZaffino](https://discourse.slicer.org/u/PaoloZaffino)\
**Replies:** 1\
**Last updated:** [November 7, 2019, 2:11pm UTC](https://discourse.slicer.org/t/commercial-navigation-platform-and-slicer/9058 "2019-11-07T14:11:51Z")

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Hi all, I’m writing to ask if exists a list of supported surgical navigation systems. I have a commercial navigation platform and I would like to interface it with Slicer…is it possible? Thanks a lot. Paolo

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## [Segment Editor paint brush produces weired labels](https://discourse.slicer.org/t/segment-editor-paint-brush-produces-weired-labels/9049)

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**Author:** [@Dmitriy\_Desser](https://discourse.slicer.org/u/Dmitriy_Desser)\
**Replies:** 2\
**Last updated:** [November 6, 2019, 11:27pm UTC](https://discourse.slicer.org/t/segment-editor-paint-brush-produces-weired-labels/9049 "2019-11-06T23:27:41Z")

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Hi guys, I am doing some segmentation on MRI data (nii.gz) I am trying to label a very small stucture. After zooming in and trying to paint with the smalles size of the brush it produces a very strange square labels. H…

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## [Error loading CT images](https://discourse.slicer.org/t/error-loading-ct-images/9047)

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**Author:** [@INVESTIGACION\_Y\_DESA](https://discourse.slicer.org/u/INVESTIGACION_Y_DESA)\
**Replies:** 1\
**Last updated:** [November 6, 2019, 7:33pm UTC](https://discourse.slicer.org/t/error-loading-ct-images/9047 "2019-11-06T19:33:19Z")

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DICOM plugin failed to load ‘3: Óseo 0.63 H70s’ as a ‘Scalar Volume’. Traceback (most recent call last): File “C:\\Program Files\\Slicer 4.10.2\\lib\\Slicer-4.10\\qt-scripted-modules\\DICOMLib\\DICOMWidgets.py”, line 867, in…

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## [Automation of Create Dicom File step](https://discourse.slicer.org/t/automation-of-create-dicom-file-step/9039)

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**Author:** [@deepz](https://discourse.slicer.org/u/deepz)\
**Replies:** 1\
**Last updated:** [November 6, 2019, 2:21pm UTC](https://discourse.slicer.org/t/automation-of-create-dicom-file-step/9039 "2019-11-06T14:21:04Z")

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Hello Everyone. I wanted to automate the ‘create Dicom files’ from vol files. The conversion pipeline should be like the user just needs to import the vol files . It passes through slicer 3d. it gives the Dicom files. …

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## [Threshold Methods](https://discourse.slicer.org/t/threshold-methods/9035)

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**Author:** [@marie](https://discourse.slicer.org/u/marie)\
**Replies:** 2\
**Last updated:** [November 5, 2019, 8:00pm UTC](https://discourse.slicer.org/t/threshold-methods/9035 "2019-11-05T20:00:34Z")

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Hey there! I am writing my bachelor’s thesis about the topic of segmentation and 3D printing of cerebral arteries (using 3D slicer), what is why i need to know how the different threshold methods are working. I know the…

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## [mpReviewPreprocessor code change for automated DICOM to NRRD conversion ](https://discourse.slicer.org/t/mpreviewpreprocessor-code-change-for-automated-dicom-to-nrrd-conversion/6899)

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**Author:** [@Kramer84](https://discourse.slicer.org/u/Kramer84)\
**Replies:** 5\
**Last updated:** [November 5, 2019, 5:20pm UTC](https://discourse.slicer.org/t/mpreviewpreprocessor-code-change-for-automated-dicom-to-nrrd-conversion/6899 "2019-11-05T17:20:10Z")

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Dear Dr. Fedorov and 3DSlicer support, for an academic project, we are building a database out of anonymized DICOM files (only the directory of the DICOM contains information about age and sex, the metadata is not usabl…

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## [ACPC transform question](https://discourse.slicer.org/t/acpc-transform-question/3525)

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**Author:** [@shebaelena](https://discourse.slicer.org/u/shebaelena)\
**Replies:** 2\
**Last updated:** [July 20, 2018, 4:53am UTC](https://discourse.slicer.org/t/acpc-transform-question/3525 "2018-07-20T04:53:02Z")

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Hello, I have been trying to figure out how to transform a scan so that it aligns to the ACPC plane. I’ve tried using this module (https://www.slicer.org/wiki/Documentation/4.8/Modules/ACPCTransform) and placing fiducia…

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## [Downloading older releases: need to update "Older releases" link?](https://discourse.slicer.org/t/downloading-older-releases-need-to-update-older-releases-link/9015)

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**Author:** [@fedorov](https://discourse.slicer.org/u/fedorov)\
**Replies:** 5\
**Last updated:** [November 5, 2019, 12:52am UTC](https://discourse.slicer.org/t/downloading-older-releases-need-to-update-older-releases-link/9015 "2019-11-05T00:52:34Z")

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For the second time in the last few months I had a need to download an older nightly of Slicer (as a way to mitigate surprises for the users). Today, as before, my first instinct was to go to the “Older releases” link o…

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## [Export 3D distance information form model to model distance ](https://discourse.slicer.org/t/export-3d-distance-information-form-model-to-model-distance/9021)

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**Author:** [@siminpan](https://discourse.slicer.org/u/siminpan)\
**Replies:** 0\
**Last updated:** [November 5, 2019, 12:08am UTC](https://discourse.slicer.org/t/export-3d-distance-information-form-model-to-model-distance/9021 "2019-11-05T00:08:09Z")

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Hi there, new to the software and python. I have the output form model to model distance and be able to view it in color map by ShapePopulationViewer. I have followed the script from https://discourse.slicer.org/t/calc…

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## [Measuring bone surface roughness](https://discourse.slicer.org/t/measuring-bone-surface-roughness/9020)

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**Author:** [@siminpan](https://discourse.slicer.org/u/siminpan)\
**Replies:** 0\
**Last updated:** [November 5, 2019, 12:08am UTC](https://discourse.slicer.org/t/measuring-bone-surface-roughness/9020 "2019-11-05T00:08:01Z")

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Hi, I’m working with microCT of bone with tumor. My scan resolution is 11 micron. I want to find a way to measure the bone surface roughness. Thanks in advance!

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## [Nasal Cavity Geometry Extraction](https://discourse.slicer.org/t/nasal-cavity-geometry-extraction/8798)

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**Author:** [@MSheheryar](https://discourse.slicer.org/u/MSheheryar)\
**Replies:** 27\
**Last updated:** [November 4, 2019, 6:15pm UTC](https://discourse.slicer.org/t/nasal-cavity-geometry-extraction/8798 "2019-11-04T18:15:20Z")

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I need to extract geometry of nasal cavity of sample patients for CFD simulation. Kindly guide me what would be the best method to do so.

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## [Virtual reality recording](https://discourse.slicer.org/t/virtual-reality-recording/9000)

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**Author:** [@sarvpriya1985](https://discourse.slicer.org/u/sarvpriya1985)\
**Replies:** 2\
**Last updated:** [November 4, 2019, 2:24pm UTC](https://discourse.slicer.org/t/virtual-reality-recording/9000 "2019-11-04T14:24:35Z")

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Hi, I am trying to record virtual reality scene using obs studio. The steam VR app doesn’t show mirror option now, rather it shows display VR view that I checked. However, i am not sure which source to select in obs stu…

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## [Edit existing segmentation in 3D](https://discourse.slicer.org/t/edit-existing-segmentation-in-3d/9010)

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**Author:** [@JordinaAviles](https://discourse.slicer.org/u/JordinaAviles)\
**Replies:** 1\
**Last updated:** [November 4, 2019, 12:12pm UTC](https://discourse.slicer.org/t/edit-existing-segmentation-in-3d/9010 "2019-11-04T12:12:41Z")

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Hi everyone, I have a doubt regarding the segmentation in 3D Slicer. I am opening a CT (mha) and it’s segmentation for the heart (.nrrd) and I want to edit the segmentation but the only way I can do it is painting slic…

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## [Segmentation of brain Tumor](https://discourse.slicer.org/t/segmentation-of-brain-tumor/9004)

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**Author:** [@mohammad\_maskani](https://discourse.slicer.org/u/mohammad_maskani)\
**Replies:** 2\
**Last updated:** [November 4, 2019, 7:22am UTC](https://discourse.slicer.org/t/segmentation-of-brain-tumor/9004 "2019-11-04T07:22:56Z")

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hi I have problem with brain tumor segment with Segment Editor module , when i saved my model and import the model file ,its not like my model ! what is the problem ? how can i fix it ?

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## [Accurate measurement of defect skull area. ](https://discourse.slicer.org/t/accurate-measurement-of-defect-skull-area/8970)

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**Author:** [@shiqing\_he](https://discourse.slicer.org/u/shiqing_he)\
**Replies:** 1\
**Last updated:** [November 4, 2019, 4:32am UTC](https://discourse.slicer.org/t/accurate-measurement-of-defect-skull-area/8970 "2019-11-04T04:32:18Z")

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How to perform defective skull reconstruction and accurate measurement of defect skull area?

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## [From tomosynthesis images, can 3D Slicer create a good 3D image?](https://discourse.slicer.org/t/from-tomosynthesis-images-can-3d-slicer-create-a-good-3d-image/8976)

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**Author:** [@leemailbox](https://discourse.slicer.org/u/leemailbox)\
**Replies:** 1\
**Last updated:** [November 4, 2019, 4:27am UTC](https://discourse.slicer.org/t/from-tomosynthesis-images-can-3d-slicer-create-a-good-3d-image/8976 "2019-11-04T04:27:05Z")

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Operating system: Windows 10 Slicer version:4.10.2 Expected behavior: Clean 3D rendering of structures (e.g., bones, body contour) Actual behavior: Fuzzy, indistinct rendering of structures I have a set of DICOM imag…

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## [Extension manager for comparing before and after drill holes in bone](https://discourse.slicer.org/t/extension-manager-for-comparing-before-and-after-drill-holes-in-bone/8977)

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**Author:** [@mccarthyvetsurg](https://discourse.slicer.org/u/mccarthyvetsurg)\
**Replies:** 6\
**Last updated:** [November 4, 2019, 4:12am UTC](https://discourse.slicer.org/t/extension-manager-for-comparing-before-and-after-drill-holes-in-bone/8977 "2019-11-04T04:12:58Z")

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Is there an extension in the extension manager that is similar to comparing the outcome of a proposed drill hole trajectory in a bone? I am a surgeon working on drilling a hole and 3d printing drill guides. I want to …

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## [Is Mimics Software Suitable for Producing 3D Geometric Modeling of MRI Files?](https://discourse.slicer.org/t/is-mimics-software-suitable-for-producing-3d-geometric-modeling-of-mri-files/8974)

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**Author:** [@adele1371](https://discourse.slicer.org/u/adele1371)\
**Replies:** 9\
**Last updated:** [November 4, 2019, 1:01am UTC](https://discourse.slicer.org/t/is-mimics-software-suitable-for-producing-3d-geometric-modeling-of-mri-files/8974 "2019-11-04T01:01:02Z")

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Is Mimics Software Suitable for Producing 3D Geometric Modeling of MRI Files?

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## [Extract labels from labelmap](https://discourse.slicer.org/t/extract-labels-from-labelmap/9003)

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**Author:** [@Vinny](https://discourse.slicer.org/u/Vinny)\
**Replies:** 2\
**Last updated:** [November 3, 2019, 3:59pm UTC](https://discourse.slicer.org/t/extract-labels-from-labelmap/9003 "2019-11-03T15:59:54Z")

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Hello 3d Slicer community, I’d like to extract a specific label(s) from a segmentation labelmap that has multiple labels. I’ve had to either: Use Model Maker module to generate a model of the specific label and then…

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## [Error loading DICOM files - unicode conversion error](https://discourse.slicer.org/t/error-loading-dicom-files-unicode-conversion-error/9005)

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**Author:** [@dixmos](https://discourse.slicer.org/u/dixmos)\
**Replies:** 1\
**Last updated:** [November 3, 2019, 1:12pm UTC](https://discourse.slicer.org/t/error-loading-dicom-files-unicode-conversion-error/9005 "2019-11-03T13:12:38Z")

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Operating system: Windows 10 Slicer version: 4.10.2 Hello I have some problems loading my DICOM files. Other DICOM viewrs open my files but the Slicer didnt recognize them. Could you help me please? LOG: DICOM plug…

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## [Segmentation 2D or 3D ?](https://discourse.slicer.org/t/segmentation-2d-or-3d/8988)

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**Author:** [@mohammad\_maskani](https://discourse.slicer.org/u/mohammad_maskani)\
**Replies:** 1\
**Last updated:** [November 1, 2019, 12:06pm UTC](https://discourse.slicer.org/t/segmentation-2d-or-3d/8988 "2019-11-01T12:06:51Z")

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Hi I have problem with segmentation of Tumor from Brain CT scan images , Which method is better for Radiomics ? single-slice based (2D) or Segment tumor from all slice (3D)

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## [Dividing one segment into several different segments in the same segmentation](https://discourse.slicer.org/t/dividing-one-segment-into-several-different-segments-in-the-same-segmentation/8140)

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**Author:** [@stl](https://discourse.slicer.org/u/stl)\
**Replies:** 2\
**Last updated:** [August 23, 2019, 6:24pm UTC](https://discourse.slicer.org/t/dividing-one-segment-into-several-different-segments-in-the-same-segmentation/8140 "2019-08-23T18:24:54Z")

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Hi, I have segmented a bone and I would like to split the segment into several different segments with different names in the same segmentation. Is this possible? Thanks!

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## [How can matrix transform in slicer using code?](https://discourse.slicer.org/t/how-can-matrix-transform-in-slicer-using-code/8984)

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**Author:** [@ihsanas](https://discourse.slicer.org/u/ihsanas)\
**Replies:** 1\
**Last updated:** [November 1, 2019, 4:26am UTC](https://discourse.slicer.org/t/how-can-matrix-transform-in-slicer-using-code/8984 "2019-11-01T04:26:04Z")

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Hi, As a part of the project I added a button in Dicom file that adds fiducials via code and I want to transform those fiducials using matrix transformation via python code. I am new to Slicer and don’t to how to approa…

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## [IGT Volume Reslice Driver - saving images](https://discourse.slicer.org/t/igt-volume-reslice-driver-saving-images/8850)

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**Author:** [@aptirumalai](https://discourse.slicer.org/u/aptirumalai)\
**Replies:** 16\
**Last updated:** [October 31, 2019, 6:36pm UTC](https://discourse.slicer.org/t/igt-volume-reslice-driver-saving-images/8850 "2019-10-31T18:36:46Z")

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I use the Endoscopy module to define a “flythrough” path and the IGT-\>VolumeResliceDriver to generate resliced images along the path, typically showing them on the Axial plane. This works fine and I am able to generate a…

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## [Slicer package cannot be downloaded - 'SQLSTATE\[HY000\] \[1040\] Too many connections'](https://discourse.slicer.org/t/slicer-package-cannot-be-downloaded-sqlstate-hy000-1040-too-many-connections/8972)

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**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Replies:** 2\
**Last updated:** [October 31, 2019, 2:11pm UTC](https://discourse.slicer.org/t/slicer-package-cannot-be-downloaded-sqlstate-hy000-1040-too-many-connections/8972 "2019-10-31T14:11:24Z")

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Right now, Slicer package download from https://download.slicer.org/ fails due to the following Midas3 error: Uncaught exception ‘PDOException’ with message ‘SQLSTATE\[HY000\] \[1040\] Too many connections’ @Sam\_Horva…

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