# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=419

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

**Page:** 420

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## [Does Slicer use Interpolation when rendering DICOMs](https://discourse.slicer.org/t/does-slicer-use-interpolation-when-rendering-dicoms/3303)

<div class="topic-metadata">

**Author:** [@sboebin](https://discourse.slicer.org/u/sboebin)\
**Replies:** 1\
**Last updated:** [June 27, 2018, 12:12pm UTC](https://discourse.slicer.org/t/does-slicer-use-interpolation-when-rendering-dicoms/3303 "2018-06-27T12:12:49Z")

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I am having some thresholding issues that I think may be associated with how slicer renders the DICOMs. Does slicer use an interpolation algorithm when rendering DICOMs? Or does it retain the image intensity?

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## [How to fill inside the holes](https://discourse.slicer.org/t/how-to-fill-inside-the-holes/3169)

<div class="topic-metadata">

**Author:** [@Fang](https://discourse.slicer.org/u/Fang)\
**Replies:** 7\
**Last updated:** [June 24, 2018, 7:05pm UTC](https://discourse.slicer.org/t/how-to-fill-inside-the-holes/3169 "2018-06-24T19:05:40Z")

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Hi, I would like to ask how to fill inside the holes I have tried on ’ Smoothing ’ \> ’ Closing ’ but it just fills in the small holes and if I using a larger number of a kernel, it does not fill in the area that I desi…

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## [Dose warping/deformation for accumulation](https://discourse.slicer.org/t/dose-warping-deformation-for-accumulation/3290)

<div class="topic-metadata">

**Author:** [@Lowey](https://discourse.slicer.org/u/Lowey)\
**Replies:** 5\
**Last updated:** [June 27, 2018, 6:52am UTC](https://discourse.slicer.org/t/dose-warping-deformation-for-accumulation/3290 "2018-06-27T06:52:29Z")

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Hi there, I am trying to deform the dose distribution output from my TPS for research purposes. I have tried using the Plastimatch extension/module but am having difficulty loading my data without errors. Is there some …

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## [Can't import saved data](https://discourse.slicer.org/t/cant-import-saved-data/3304)

<div class="topic-metadata">

**Author:** [@Ash\_Alarfaj](https://discourse.slicer.org/u/Ash_Alarfaj)\
**Replies:** 2\
**Last updated:** [June 26, 2018, 5:46pm UTC](https://discourse.slicer.org/t/cant-import-saved-data/3304 "2018-06-26T17:46:31Z")

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Operating system:Macbook Slicer version:4.8 Expected behavior: import saved data Actual behavior: can’t import

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## [Policies around supported browser versions for Girder platform](https://discourse.slicer.org/t/policies-around-supported-browser-versions-for-girder-platform/3307)

<div class="topic-metadata">

**Author:** [@jcfr](https://discourse.slicer.org/u/jcfr)\
**Replies:** 0\
**Last updated:** [June 26, 2018, 4:38pm UTC](https://discourse.slicer.org/t/policies-around-supported-browser-versions-for-girder-platform/3307 "2018-06-26T16:38:18Z")

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Since the upcoming extension manager is being built using Girder platform, I wanted to share with you their request for feedback. The Girder team is requesting feedback from stakeholders to help form policies around sup…

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## [Need help with volumetric analysis on dental CBCT's](https://discourse.slicer.org/t/need-help-with-volumetric-analysis-on-dental-cbcts/3284)

<div class="topic-metadata">

**Author:** [@JBouwer](https://discourse.slicer.org/u/JBouwer)\
**Replies:** 2\
**Last updated:** [June 26, 2018, 4:15pm UTC](https://discourse.slicer.org/t/need-help-with-volumetric-analysis-on-dental-cbcts/3284 "2018-06-26T16:15:49Z")

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Hi there, I am totally new to slicer and would like to use it for a research study where volumetric changes of alveolar bone is measured before and after grafting. I have gone through the tutorials and there is a quanti…

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## [Can 3D slicer be used with Windows 10](https://discourse.slicer.org/t/can-3d-slicer-be-used-with-windows-10/3286)

<div class="topic-metadata">

**Author:** [@dmjaffey](https://discourse.slicer.org/u/dmjaffey)\
**Replies:** 6\
**Last updated:** [June 26, 2018, 1:31pm UTC](https://discourse.slicer.org/t/can-3d-slicer-be-used-with-windows-10/3286 "2018-06-26T13:31:54Z")

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We are purchasing a new and faster computer for using 3D Slicer. We will be using stable 3D Slicer and not doing any development. Our IT people don’t want to install Windows 7 anymore. Can we use a Windows 10 machine? …

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## [Switching between MRIs](https://discourse.slicer.org/t/switching-between-mris/3293)

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**Author:** [@ad12](https://discourse.slicer.org/u/ad12)\
**Replies:** 0\
**Last updated:** [June 25, 2018, 11:55pm UTC](https://discourse.slicer.org/t/switching-between-mris/3293 "2018-06-25T23:55:22Z")

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Im a new user of the program and I can segment tumors / find the volumes, but I am having trouble when it comes to switching to the next MRI. How do I switch to a new MRI and keep the original segmented tumor with the co…

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## [Bruker MRSI / HighRefT2w MRI](https://discourse.slicer.org/t/bruker-mrsi-highreft2w-mri/3131)

<div class="topic-metadata">

**Author:** [@virginia\_fgc](https://discourse.slicer.org/u/virginia_fgc)\
**Replies:** 7\
**Last updated:** [June 25, 2018, 9:29pm UTC](https://discourse.slicer.org/t/bruker-mrsi-highreft2w-mri/3131 "2018-06-25T21:29:04Z")

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Hi, I have always worked with DICOM and nrrd files in 3D Slicer. However, I am currently working on a project in which I need to handle High Resolution T2w MRI images acquired by Bruker equipment. The problem is that t…

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## [How to register this kind of CT images?](https://discourse.slicer.org/t/how-to-register-this-kind-of-ct-images/3266)

<div class="topic-metadata">

**Author:** [@glhfgg1024](https://discourse.slicer.org/u/glhfgg1024)\
**Replies:** 4\
**Last updated:** [June 25, 2018, 8:36pm UTC](https://discourse.slicer.org/t/how-to-register-this-kind-of-ct-images/3266 "2018-06-25T20:36:39Z")

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Operating system: Windows 10 64bit Slicer version: 4.8.0 Expected behavior: Registration Actual behavior: None Hi, all, I have a question on registration between the whole-body CT (denoted as CT1) and the part-body …

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## [Slicer as front gui and supercomputer as computing engine](https://discourse.slicer.org/t/slicer-as-front-gui-and-supercomputer-as-computing-engine/3282)

<div class="topic-metadata">

**Author:** [@LGKicon\_NYU](https://discourse.slicer.org/u/LGKicon_NYU)\
**Replies:** 3\
**Last updated:** [June 25, 2018, 6:15pm UTC](https://discourse.slicer.org/t/slicer-as-front-gui-and-supercomputer-as-computing-engine/3282 "2018-06-25T18:15:38Z")

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Operating system: front end is windows 10, backend is red hat linux Slicer version: 4.9 night Expected behavior: na Actual behavior: na both storage and computer engine is a HPC. Slicer is used as GUI installed on m…

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## [Volume rendering module issue with imported JPG sequence](https://discourse.slicer.org/t/volume-rendering-module-issue-with-imported-jpg-sequence/3283)

<div class="topic-metadata">

**Author:** [@LeviAthan](https://discourse.slicer.org/u/LeviAthan)\
**Replies:** 1\
**Last updated:** [June 25, 2018, 4:38pm UTC](https://discourse.slicer.org/t/volume-rendering-module-issue-with-imported-jpg-sequence/3283 "2018-06-25T16:38:04Z")

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Hi everyone, I am trying to use the volume rendering module on a volume i imported from a sequence of grayscale JPG images. The sequences I have are thousands of microscopic slices of nerve specimens. When I try to use…

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## [Threshold preview and result are different](https://discourse.slicer.org/t/threshold-preview-and-result-are-different/3275)

<div class="topic-metadata">

**Author:** [@Fernando](https://discourse.slicer.org/u/Fernando)\
**Replies:** 3\
**Last updated:** [June 25, 2018, 12:32pm UTC](https://discourse.slicer.org/t/threshold-preview-and-result-are-different/3275 "2018-06-25T12:32:29Z")

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Hi all, One clinician I’m working with noticed how he gets more little blobs/islands/connected components than he expected from the segmentation preview after applying a threshold in Segment Editor. Can this be avoided? …

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## [Slicer build failed on Mac OS 10.12 Sierra](https://discourse.slicer.org/t/slicer-build-failed-on-mac-os-10-12-sierra/445)

<div class="topic-metadata">

**Author:** [@mschumaker](https://discourse.slicer.org/u/mschumaker)\
**Replies:** 4\
**Last updated:** [June 12, 2017, 3:14pm UTC](https://discourse.slicer.org/t/slicer-build-failed-on-mac-os-10-12-sierra/445 "2017-06-12T15:14:56Z")

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I'm having difficulty building Slicer on Sierra. Operating system: OSX 10.12.5 Slicer: Newest nightly (Jun 6 2017) Qt: cartr/qt4/qt CMake: 3.8.0 Xcode: 8.3.2 I've tried CMAKE\_BUILD\_TYPE set to Debug and Release, CM…

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## [Building 3DSlicer from source using gcc 7.1](https://discourse.slicer.org/t/building-3dslicer-from-source-using-gcc-7-1/884)

<div class="topic-metadata">

**Author:** [@thaenel](https://discourse.slicer.org/u/thaenel)\
**Replies:** 17\
**Last updated:** [August 20, 2017, 9:07am UTC](https://discourse.slicer.org/t/building-3dslicer-from-source-using-gcc-7-1/884 "2017-08-20T09:07:13Z")

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Hello everyone, I am currently getting started on creating an extension for 3DSlicer. As https://www.slicer.org/wiki/Documentation/Nightly/Developers/Build\_Module suggests, I have to build 3DSlicer from source to use C…

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## [Study name and number, confused](https://discourse.slicer.org/t/study-name-and-number-confused/3179)

<div class="topic-metadata">

**Author:** [@Ash\_Alarfaj](https://discourse.slicer.org/u/Ash_Alarfaj)\
**Replies:** 1\
**Last updated:** [June 23, 2018, 3:57am UTC](https://discourse.slicer.org/t/study-name-and-number-confused/3179 "2018-06-23T03:57:28Z")

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hi When I tried to review image name. the programme shows me the wrong path(name of study). I review it from python interactor. as you can see in the attachment. actually, in one file I save V1,V2,V3 but when I segment…

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## [Non-rigid registration between DICOM volume and .stl alias volume](https://discourse.slicer.org/t/non-rigid-registration-between-dicom-volume-and-stl-alias-volume/3225)

<div class="topic-metadata">

**Author:** [@DavideBassano](https://discourse.slicer.org/u/DavideBassano)\
**Replies:** 8\
**Last updated:** [June 22, 2018, 11:56pm UTC](https://discourse.slicer.org/t/non-rigid-registration-between-dicom-volume-and-stl-alias-volume/3225 "2018-06-22T23:56:18Z")

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Hello, I have a CT volume of a homerus and I have a alias generic humerus (.stl file) that I have to adapt to the CT volume. So I thought about doing a sort of non-rigid/elastic registration of my alias with the CT vol…

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## [Advice on graphics tablets](https://discourse.slicer.org/t/advice-on-graphics-tablets/3241)

<div class="topic-metadata">

**Author:** [@Shelley\_Edwards](https://discourse.slicer.org/u/Shelley_Edwards)\
**Replies:** 4\
**Last updated:** [June 22, 2018, 4:41pm UTC](https://discourse.slicer.org/t/advice-on-graphics-tablets/3241 "2018-06-22T16:41:20Z")

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Hi all! I am doing 3d geometric morphometrics analyses on lizard skulls, and have heard that graphics tablets make the job of segmentation much easier. I have looked into pricing of various tablets available in South Af…

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## [Merging two models](https://discourse.slicer.org/t/merging-two-models/931)

<div class="topic-metadata">

**Author:** [@jimmylarson](https://discourse.slicer.org/u/jimmylarson)\
**Replies:** 17\
**Last updated:** [January 25, 2018, 9:58pm UTC](https://discourse.slicer.org/t/merging-two-models/931 "2018-01-25T21:58:08Z")

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Operating system:windows Slicer version:4.6.2 Expected behavior: I am trying to merge two different models that I made in the editor module. I trying to put dots to map out where buds are on a tree trunk that I have a …

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## [Shift key linked motion - crosshair centered in slice view](https://discourse.slicer.org/t/shift-key-linked-motion-crosshair-centered-in-slice-view/373)

<div class="topic-metadata">

**Author:** [@hherhold](https://discourse.slicer.org/u/hherhold)\
**Replies:** 6\
**Last updated:** [June 22, 2018, 3:37pm UTC](https://discourse.slicer.org/t/shift-key-linked-motion-crosshair-centered-in-slice-view/373 "2018-06-22T15:37:32Z")

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I often use the shift key to jump to the same stack position in all views, but if I'm zoomed in on one or more views, the slice does not translate to the same point. Is there a way to do this? Meaning, it should center t…

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## [Could not import multiarray numpy extension](https://discourse.slicer.org/t/could-not-import-multiarray-numpy-extension/3258)

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**Author:** [@pranavkgaur](https://discourse.slicer.org/u/pranavkgaur)\
**Replies:** 2\
**Last updated:** [June 22, 2018, 10:08am UTC](https://discourse.slicer.org/t/could-not-import-multiarray-numpy-extension/3258 "2018-06-22T10:08:37Z")

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Operating system: Ubuntu 16.04 Slicer version: 4.8 Expected behavior: Slicer successfully loads all modules Actual behavior: Throws following error: pranav@pranav-desktop:~/Libraries/Slicer-4.8.0-linux-amd64$ ./Slice…

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## [Table columns customization](https://discourse.slicer.org/t/table-columns-customization/436)

<div class="topic-metadata">

**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Replies:** 2\
**Last updated:** [June 21, 2018, 3:10pm UTC](https://discourse.slicer.org/t/table-columns-customization/436 "2018-06-21T15:10:18Z")

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Slicer supports loading/saving/editing of spreadsheets (.csv, .txt, .tsv files) for a while now, but there was no standard way of specifying data type, unit (mm, cm3, …), default value, or custom properties for the store…

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## [How to decide threshold values for different structures in CT based on histogram?](https://discourse.slicer.org/t/how-to-decide-threshold-values-for-different-structures-in-ct-based-on-histogram/1661)

<div class="topic-metadata">

**Author:** [@Emily\_BM](https://discourse.slicer.org/u/Emily_BM)\
**Replies:** 14\
**Last updated:** [June 21, 2018, 2:33am UTC](https://discourse.slicer.org/t/how-to-decide-threshold-values-for-different-structures-in-ct-based-on-histogram/1661 "2018-06-21T02:33:53Z")

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how to decide threshold values for different structures in CT based on histogram? Operating system: Slicer version: Expected behavior: Actual behavior:

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## [Import medpy fails](https://discourse.slicer.org/t/import-medpy-fails/3206)

<div class="topic-metadata">

**Author:** [@virginia\_fgc](https://discourse.slicer.org/u/virginia_fgc)\
**Replies:** 4\
**Last updated:** [June 21, 2018, 12:12am UTC](https://discourse.slicer.org/t/import-medpy-fails/3206 "2018-06-21T00:12:34Z")

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Operating system: Windows Slicer version: 4.8.0 Hello everyone, I am using the Python Console in Slicer to work with a MR image, and I am facing problems when importing some modules. I wanted to use cv2 and medpy. I m…

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## [Volume rendering from scalars](https://discourse.slicer.org/t/volume-rendering-from-scalars/3247)

<div class="topic-metadata">

**Author:** [@cschmit3](https://discourse.slicer.org/u/cschmit3)\
**Replies:** 4\
**Last updated:** [June 20, 2018, 7:58pm UTC](https://discourse.slicer.org/t/volume-rendering-from-scalars/3247 "2018-06-20T19:58:25Z")

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Operating system: Windows 10 Slicer version: 4.8.1 Expected behavior: create a model or volume from a scalar Actual behavior: no responses All I am hoping to do with Slicer is to generate color coded 3D images to pos…

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## [Two feature requests for the Islands effect](https://discourse.slicer.org/t/two-feature-requests-for-the-islands-effect/3243)

<div class="topic-metadata">

**Author:** [@Fernando](https://discourse.slicer.org/u/Fernando)\
**Replies:** 2\
**Last updated:** [June 20, 2018, 2:32pm UTC](https://discourse.slicer.org/t/two-feature-requests-for-the-islands-effect/3243 "2018-06-20T14:32:52Z")

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Hi all, I’m working on brain vessels segmentation. I need manually annotated data from clinicians, so I wrote a module that uses some effects from the Segment Editor. Their current pipeline for segmentation is: MITK: …

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## [Rotate 90° a stack of DICOM images](https://discourse.slicer.org/t/rotate-90-a-stack-of-dicom-images/3242)

<div class="topic-metadata">

**Author:** [@Tommaso\_Di\_Noto](https://discourse.slicer.org/u/Tommaso_Di_Noto)\
**Replies:** 1\
**Last updated:** [June 20, 2018, 12:40pm UTC](https://discourse.slicer.org/t/rotate-90-a-stack-of-dicom-images/3242 "2018-06-20T12:40:43Z")

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Hi everyone! I have a stack of DICOM images which I would like to rotate 90° counterclockwise. Any suggestion? Thanks a lot in advance!

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## [Volume(mm^3) from voxels](https://discourse.slicer.org/t/volume-mm-3-from-voxels/3227)

<div class="topic-metadata">

**Author:** [@khalendermahfooz](https://discourse.slicer.org/u/khalendermahfooz)\
**Replies:** 0\
**Last updated:** [June 19, 2018, 12:59pm UTC](https://discourse.slicer.org/t/volume-mm-3-from-voxels/3227 "2018-06-19T12:59:30Z")

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Please may i know Why the volume statistics from the segment statistics take volume as volume = no. of voxels \* pixellength \* pixelwidth \* slicethickness\* 2 and not volume = no. of voxels \* pixellength \* pixel…

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## [Running statistical shape analysis after SPHARM-PDM](https://discourse.slicer.org/t/running-statistical-shape-analysis-after-spharm-pdm/3150)

<div class="topic-metadata">

**Author:** [@doganarda](https://discourse.slicer.org/u/doganarda)\
**Replies:** 2\
**Last updated:** [June 20, 2018, 3:31am UTC](https://discourse.slicer.org/t/running-statistical-shape-analysis-after-spharm-pdm/3150 "2018-06-20T03:31:37Z")

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Hello everyone, I am using SPHARM-PDM to represent several subcortical structures (mainly Hippocampus and Caudate) and use the SPHARM coefficients in SVM classification. However, I would really like to apply some statis…

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## [Tractography to Fiber Bundle to PLY mesh](https://discourse.slicer.org/t/tractography-to-fiber-bundle-to-ply-mesh/3235)

<div class="topic-metadata">

**Author:** [@Nicholas.jacobson](https://discourse.slicer.org/u/Nicholas.jacobson)\
**Replies:** 3\
**Last updated:** [June 20, 2018, 2:12am UTC](https://discourse.slicer.org/t/tractography-to-fiber-bundle-to-ply-mesh/3235 "2018-06-20T02:12:47Z")

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Hello, Can anyone run me through the process for converting a tractography to a fiber bundle. Trying to explort the vtk file of curves for our tractography model into a PLY mesh. However, it appears I need to convert th…

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