# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=408

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

**Page:** 409

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## [SlicerVirtualReality Extensions in the nightly build](https://discourse.slicer.org/t/slicervirtualreality-extensions-in-the-nightly-build/4463)

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**Author:** [@Mathieu\_Westphal](https://discourse.slicer.org/u/Mathieu_Westphal)\
**Replies:** 2\
**Last updated:** [October 22, 2018, 5:47pm UTC](https://discourse.slicer.org/t/slicervirtualreality-extensions-in-the-nightly-build/4463 "2018-10-22T17:47:51Z")

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According to this blog https://blog.kitware.com/slicervirtualreality/, a SlicerVirtualReality extension should be available in the nightly build of Slicer. I’ve downloaded revision 27498 and it is nowhere to be found. A…

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## [Calculating the dose of a segment after displacing in radiation fields](https://discourse.slicer.org/t/calculating-the-dose-of-a-segment-after-displacing-in-radiation-fields/4424)

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**Author:** [@aseman](https://discourse.slicer.org/u/aseman)\
**Replies:** 7\
**Last updated:** [October 22, 2018, 2:18pm UTC](https://discourse.slicer.org/t/calculating-the-dose-of-a-segment-after-displacing-in-radiation-fields/4424 "2018-10-22T14:18:01Z")

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Operating system: windows 10 Slicer version:4.8.1 Hi 3D slicer experts and all users I have dose volume and a specific segment(heart) that has been displaced in radiation fields; and following figure shows 2 states fo…

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## [Can not load DTI files correctly](https://discourse.slicer.org/t/can-not-load-dti-files-correctly/4460)

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**Author:** [@wpgao](https://discourse.slicer.org/u/wpgao)\
**Replies:** 2\
**Last updated:** [October 22, 2018, 2:36am UTC](https://discourse.slicer.org/t/can-not-load-dti-files-correctly/4460 "2018-10-22T02:36:29Z")

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Operating system: win10 Slicer version: 4.9 Expected behavior: Actual behavior: Hi Guys, I had encounter a problem when loading the dicom files of DTI obtained from Philips Achieva 3.0T. The file can be read but can…

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## [DICOM data does not load](https://discourse.slicer.org/t/dicom-data-does-not-load/4119)

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**Author:** [@bouliane](https://discourse.slicer.org/u/bouliane)\
**Replies:** 9\
**Last updated:** [October 20, 2018, 5:34pm UTC](https://discourse.slicer.org/t/dicom-data-does-not-load/4119 "2018-10-20T17:34:40Z")

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Operating system:IOS 10.13.6 Slicer version: 4.9.0 Expected behavior: images open when I click “load” Actual behavior: nothing happens, no images appear I can see the series in the database and they appear in the DIC…

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## [Looking to install virtual reality extension on slicer 4.9.0](https://discourse.slicer.org/t/looking-to-install-virtual-reality-extension-on-slicer-4-9-0/4475)

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**Author:** [@Andrue](https://discourse.slicer.org/u/Andrue)\
**Replies:** 1\
**Last updated:** [October 20, 2018, 12:26pm UTC](https://discourse.slicer.org/t/looking-to-install-virtual-reality-extension-on-slicer-4-9-0/4475 "2018-10-20T12:26:22Z")

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Operating system:Windows 10 Slicer version: 4.9.0 Expected behavior: Install virtual reality extension either through extension manager or manually from file Actual behavior: VR extension is missing in the extension m…

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## [Can\`t import DICOM data](https://discourse.slicer.org/t/can-t-import-dicom-data/4464)

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**Author:** [@hide](https://discourse.slicer.org/u/hide)\
**Replies:** 9\
**Last updated:** [October 20, 2018, 1:47am UTC](https://discourse.slicer.org/t/can-t-import-dicom-data/4464 "2018-10-20T01:47:03Z")

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Operating system:windows10 Slicer version:slicer 4.7.0-2017-08-07 i have a problem with load of DICOM datas. i can\`t import DICOM data into 3D slicer with error message. i tried to use DICOM pacher, but failing. hav…

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## [Save scene with written name](https://discourse.slicer.org/t/save-scene-with-written-name/4469)

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**Author:** [@Ash\_Alarfaj](https://discourse.slicer.org/u/Ash_Alarfaj)\
**Replies:** 3\
**Last updated:** [October 19, 2018, 8:33pm UTC](https://discourse.slicer.org/t/save-scene-with-written-name/4469 "2018-10-19T20:33:48Z")

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Problem report for Slicer 4.9.0-2018-10-16 macosx-amd64: \[please describe expected and actual behavior\] expected: usually in version 4.8 I can save my work in mrb format and I can change the file name. actual : I can n…

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## [Duplicate data in MRML tree](https://discourse.slicer.org/t/duplicate-data-in-mrml-tree/4461)

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**Author:** [@torquil](https://discourse.slicer.org/u/torquil)\
**Replies:** 1\
**Last updated:** [October 19, 2018, 11:31am UTC](https://discourse.slicer.org/t/duplicate-data-in-mrml-tree/4461 "2018-10-19T11:31:02Z")

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Hi! After loading a CT DICOM file, then saving the data, closing the scene, and then opening the data again, I seem to end up with duplicate data in the MRML tree, similar to what is described here: The response to t…

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## [Replace UKF modality node with external data](https://discourse.slicer.org/t/replace-ukf-modality-node-with-external-data/4288)

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**Author:** [@mrjeffs](https://discourse.slicer.org/u/mrjeffs)\
**Replies:** 7\
**Last updated:** [October 19, 2018, 4:44am UTC](https://discourse.slicer.org/t/replace-ukf-modality-node-with-external-data/4288 "2018-10-19T04:44:21Z")

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is there a pythonic way to replace one or more of the scalar values in UKF fiberbundle, eg FA1 or trace1 for example, with external data or better yet a volume node or a multivolume node for a movie preserving spacial r…

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## [Segment staststics](https://discourse.slicer.org/t/segment-staststics/4455)

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**Author:** [@Ash\_Alarfaj](https://discourse.slicer.org/u/Ash_Alarfaj)\
**Replies:** 4\
**Last updated:** [October 18, 2018, 7:06pm UTC](https://discourse.slicer.org/t/segment-staststics/4455 "2018-10-18T19:06:16Z")

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Problem report for Slicer 4.9.0-2018-10-16 macosx-amd64: \[please describe expected: show the statstics value for segment and actual behavior: apply icon did not work? this is the same problem I’ve faced in 3Dslicer4.8

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## [Crop volume does not work](https://discourse.slicer.org/t/crop-volume-does-not-work/4450)

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**Author:** [@Ash\_Alarfaj](https://discourse.slicer.org/u/Ash_Alarfaj)\
**Replies:** 3\
**Last updated:** [October 18, 2018, 12:40pm UTC](https://discourse.slicer.org/t/crop-volume-does-not-work/4450 "2018-10-18T12:40:18Z")

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Problem report for Slicer 4.8.1 macosx-amd64: \[please describe expected and actual behavior\] When I apply crop volume it does not work?

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## [Python -called from subprocess- is unable to import SimpleITK](https://discourse.slicer.org/t/python-called-from-subprocess-is-unable-to-import-simpleitk/4437)

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**Author:** [@abertelsen](https://discourse.slicer.org/u/abertelsen)\
**Replies:** 6\
**Last updated:** [October 18, 2018, 11:46am UTC](https://discourse.slicer.org/t/python-called-from-subprocess-is-unable-to-import-simpleitk/4437 "2018-10-18T11:46:27Z")

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Hello everybody, I want to call a python module from Slicer, but I need to call it through the subprocess module and not directly from Slicer’s Python environment. This is because my module uses scipy, which is not avai…

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## [Mean st deviation... segment statistics](https://discourse.slicer.org/t/mean-st-deviation-segment-statistics/4451)

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**Author:** [@Ash\_Alarfaj](https://discourse.slicer.org/u/Ash_Alarfaj)\
**Replies:** 0\
**Last updated:** [October 18, 2018, 11:05am UTC](https://discourse.slicer.org/t/mean-st-deviation-segment-statistics/4451 "2018-10-18T11:05:39Z")

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Hi wonderful 3D slicer team mac, 3D slicer 4.8 can you explain why there are mean.max.min.st deviation for my segmentation. I’ve cropped the image then use threshold then segment. statistics. it is for one region and o…

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## [Cannot import DICOM segmentation file](https://discourse.slicer.org/t/cannot-import-dicom-segmentation-file/4421)

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**Author:** [@mayaslicer](https://discourse.slicer.org/u/mayaslicer)\
**Replies:** 8\
**Last updated:** [October 18, 2018, 1:54am UTC](https://discourse.slicer.org/t/cannot-import-dicom-segmentation-file/4421 "2018-10-18T01:54:50Z")

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Operating system: Linux Slicer version: Slicer-4.9.0-2018-09-26-linux-amd64 Expected behavior: Load segmentation file without error, and display it Actual behavior: After loading all the slices without error, the last…

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## [Image size/formatting](https://discourse.slicer.org/t/image-size-formatting/4438)

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**Author:** [@Michael\_Shorofsky](https://discourse.slicer.org/u/Michael_Shorofsky)\
**Replies:** 9\
**Last updated:** [October 18, 2018, 1:49am UTC](https://discourse.slicer.org/t/image-size-formatting/4438 "2018-10-18T01:49:41Z")

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When I am loading DICOM images into Slicer 4.9 the images are only taking up the bottom corner of the available window. Zooming in does not make the images bigger in the given RYG screens. I am pretty new to this program…

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## [Writing dicom data](https://discourse.slicer.org/t/writing-dicom-data/4410)

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**Author:** [@Melanie](https://discourse.slicer.org/u/Melanie)\
**Replies:** 2\
**Last updated:** [October 17, 2018, 11:32pm UTC](https://discourse.slicer.org/t/writing-dicom-data/4410 "2018-10-17T23:32:32Z")

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Is there a function in slicer to convert .nrrd or tiff images to dicom please. If not what are the possible software’s please. Thanks

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## [Choroidal thickness measurement with Optovue OCT](https://discourse.slicer.org/t/choroidal-thickness-measurement-with-optovue-oct/4442)

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**Author:** [@NegarehYazdani](https://discourse.slicer.org/u/NegarehYazdani)\
**Replies:** 1\
**Last updated:** [October 17, 2018, 8:15pm UTC](https://discourse.slicer.org/t/choroidal-thickness-measurement-with-optovue-oct/4442 "2018-10-17T20:15:36Z")

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Dear Admins This is Negareh. I am PhD candidate in Optometry and Vision Sciences. I want to know if it is possible to do the segmentation with 3D Slicer software on Optovue OCT choroidal images? I want to measure the ch…

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## [Jupyter notebooks are now usable in 3D Slicer](https://discourse.slicer.org/t/jupyter-notebooks-are-now-usable-in-3d-slicer/3438)

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**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Replies:** 3\
**Last updated:** [August 29, 2018, 4:23pm UTC](https://discourse.slicer.org/t/jupyter-notebooks-are-now-usable-in-3d-slicer/3438 "2018-08-29T16:23:56Z")

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We worked hard with @jcfr during the during Slicer project week in Gran Canaria and we are excited to share one of the newest developments: Jupyter notebook support. You can create interactive Python notebooks to run Sl…

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## [Slicer Jupyter notebooks can be launched using just a web browser](https://discourse.slicer.org/t/slicer-jupyter-notebooks-can-be-launched-using-just-a-web-browser/4445)

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**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Replies:** 4\
**Last updated:** [October 17, 2018, 7:09pm UTC](https://discourse.slicer.org/t/slicer-jupyter-notebooks-can-be-launched-using-just-a-web-browser/4445 "2018-10-17T19:09:48Z")

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## [Trouble saving and loading 3d segmentations](https://discourse.slicer.org/t/trouble-saving-and-loading-3d-segmentations/4444)

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**Author:** [@rfrojen](https://discourse.slicer.org/u/rfrojen)\
**Replies:** 1\
**Last updated:** [October 17, 2018, 7:06pm UTC](https://discourse.slicer.org/t/trouble-saving-and-loading-3d-segmentations/4444 "2018-10-17T19:06:41Z")

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Operating system: Windows 10 64 bit Slicer version: 4.7.0 Expected behavior: I should be able to load my previous segmentations in slicer. Actual behavior: I am currently making 3d segmentations of fish muscles. This …

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## [How can I trasform a model in this way?](https://discourse.slicer.org/t/how-can-i-trasform-a-model-in-this-way/1079)

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**Author:** [@Ramttoong](https://discourse.slicer.org/u/Ramttoong)\
**Replies:** 4\
**Last updated:** [October 17, 2018, 11:15am UTC](https://discourse.slicer.org/t/how-can-i-trasform-a-model-in-this-way/1079 "2018-10-17T11:15:43Z")

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I used the ‘representation’ tap in the ‘Model’ module (surface → wireframe). But, its pattern is not clear (messy). How can I trasform a model in this way? (added a picture)

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## [Cannot run the registration in python interactor](https://discourse.slicer.org/t/cannot-run-the-registration-in-python-interactor/4432)

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**Author:** [@Navodini\_Wijethilake](https://discourse.slicer.org/u/Navodini_Wijethilake)\
**Replies:** 2\
**Last updated:** [October 17, 2018, 3:03pm UTC](https://discourse.slicer.org/t/cannot-run-the-registration-in-python-interactor/4432 "2018-10-17T15:03:21Z")

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Hey!! I was trying to run the registration code in the below link in the python interactor, but it doesn’t work. Can somebody please help me to find the terminal I have to use for this? https://www.slicer.org/wiki/Doc…

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## [Compute bounding sphere](https://discourse.slicer.org/t/compute-bounding-sphere/4361)

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**Author:** [@ThomPote](https://discourse.slicer.org/u/ThomPote)\
**Replies:** 6\
**Last updated:** [October 17, 2018, 12:48pm UTC](https://discourse.slicer.org/t/compute-bounding-sphere/4361 "2018-10-17T12:48:01Z")

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Hi everybody, Can you help me to extract bounding sphere of my segment ? I did it with bounding box but not with bounding sphere. I use CT scan and segmentation I’m new on Slicer it’s still difficult for me to unders…

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## [Segmenting Calcaneus bone from the crop created](https://discourse.slicer.org/t/segmenting-calcaneus-bone-from-the-crop-created/4413)

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**Author:** [@SRIKESH](https://discourse.slicer.org/u/SRIKESH)\
**Replies:** 5\
**Last updated:** [October 17, 2018, 12:35pm UTC](https://discourse.slicer.org/t/segmenting-calcaneus-bone-from-the-crop-created/4413 "2018-10-17T12:35:08Z")

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Operating system: Windows Slicer version: 4.8.1 Hello everyone, I am trying to segment the calcaneus bone from the ankle for my project work. I have tried to crop it down as much as possible. Now there are few other b…

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## [transformNode.SetName('some\_string') gives TypeError: 'str' object is not callable](https://discourse.slicer.org/t/transformnode-setname-some-string-gives-typeerror-str-object-is-not-callable/4426)

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**Author:** [@brhoom](https://discourse.slicer.org/u/brhoom)\
**Replies:** 3\
**Last updated:** [October 17, 2018, 12:23pm UTC](https://discourse.slicer.org/t/transformnode-setname-some-string-gives-typeerror-str-object-is-not-callable/4426 "2018-10-17T12:23:22Z")

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Hi, while getName works, why setName does not work? how can one change the transform node name from script. \>\> t =getNode('LinearTransform\_1') \>\> t (vtkCommonCorePython.vtkMRMLLinear…

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## [Diffusion export to PLY extension not available](https://discourse.slicer.org/t/diffusion-export-to-ply-extension-not-available/4417)

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**Author:** [@Matthias\_Cabri](https://discourse.slicer.org/u/Matthias_Cabri)\
**Replies:** 4\
**Last updated:** [October 17, 2018, 8:33am UTC](https://discourse.slicer.org/t/diffusion-export-to-ply-extension-not-available/4417 "2018-10-17T08:33:44Z")

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I have a DTI tractography from a brain that I would like to export as a 3D model with the color map included. I tried exporting as STL file, but that gives me a 3d file with dots (instead of tubes) and no colormap. I in…

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## [Nightly Slicer crashes trying to open Extension Manager](https://discourse.slicer.org/t/nightly-slicer-crashes-trying-to-open-extension-manager/4005)

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**Author:** [@fedorov](https://discourse.slicer.org/u/fedorov)\
**Replies:** 10\
**Last updated:** [October 16, 2018, 9:07pm UTC](https://discourse.slicer.org/t/nightly-slicer-crashes-trying-to-open-extension-manager/4005 "2018-10-16T21:07:55Z")

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I downloaded today’s nightly for Mac. Every time I click “Extension manager” button, I get a crash. Crash stack is here: https://gist.github.com/fedorov/b539889d139d986410acc23370a5c0f2 (unable to include in the message…

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## [How to improve quality of STL models created from CT image](https://discourse.slicer.org/t/how-to-improve-quality-of-stl-models-created-from-ct-image/4399)

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**Author:** [@Pawel\_Pacek](https://discourse.slicer.org/u/Pawel_Pacek)\
**Replies:** 1\
**Last updated:** [October 16, 2018, 6:51pm UTC](https://discourse.slicer.org/t/how-to-improve-quality-of-stl-models-created-from-ct-image/4399 "2018-10-16T18:51:54Z")

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Hello! I have just got ct images and I am tring to achieve stl model in Slicer. Unfortunately there is a lot of artifacts and I don’t know how to make clear model. Do you have some program which could help me improve qu…

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## [Problems with BRAINSfit and Elastix](https://discourse.slicer.org/t/problems-with-brainsfit-and-elastix/4412)

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**Author:** [@torquil](https://discourse.slicer.org/u/torquil)\
**Replies:** 1\
**Last updated:** [October 16, 2018, 2:30pm UTC](https://discourse.slicer.org/t/problems-with-brainsfit-and-elastix/4412 "2018-10-16T14:30:01Z")

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Hi! I’m using the latest nightly build of Slicer on Linux, and I’m trying to learn how to do registration of one temporal bone CT onto another. When I try to use “General Registration (BRAINSfit)”, I’m getting “Status: …

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## [Select images from director](https://discourse.slicer.org/t/select-images-from-director/4416)

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**Author:** [@Ash\_Alarfaj](https://discourse.slicer.org/u/Ash_Alarfaj)\
**Replies:** 3\
**Last updated:** [October 16, 2018, 4:09pm UTC](https://discourse.slicer.org/t/select-images-from-director/4416 "2018-10-16T16:09:45Z")

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mac 3d slicer 4.8 when I need to select specific slices eg from 19 to 43. I just can’t see them nicely and I saw other parts I have excluded

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