# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=344

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

**Page:** 345

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## [Create cylinder from central coordinates](https://discourse.slicer.org/t/create-cylinder-from-central-coordinates/11206)

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**Author:** [@Matt\_B](https://discourse.slicer.org/u/Matt_B)\
**Replies:** 1\
**Last updated:** [April 20, 2020, 3:15pm UTC](https://discourse.slicer.org/t/create-cylinder-from-central-coordinates/11206 "2020-04-20T15:15:01Z")

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Hi, I was wondering if it was possible to (programatically) create a curved cylinder segment from a list of coordinates which run along its centre? This generated segement/mesh would then be subtracted from another to …

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## [How to automate sending of .stl file from cad software to 3D Slicer by scripting](https://discourse.slicer.org/t/how-to-automate-sending-of-stl-file-from-cad-software-to-3d-slicer-by-scripting/11198)

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**Author:** [@rishikesh\_hase](https://discourse.slicer.org/u/rishikesh_hase)\
**Replies:** 1\
**Last updated:** [April 20, 2020, 1:28pm UTC](https://discourse.slicer.org/t/how-to-automate-sending-of-stl-file-from-cad-software-to-3d-slicer-by-scripting/11198 "2020-04-20T13:28:18Z")

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How can I make a script in windows for transferring of .stl file from any folder or from CAD software to slicer automatically.

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## [MRI abdominal fat slice quantification](https://discourse.slicer.org/t/mri-abdominal-fat-slice-quantification/11029)

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**Author:** [@drobnizs](https://discourse.slicer.org/u/drobnizs)\
**Replies:** 6\
**Last updated:** [April 20, 2020, 12:32pm UTC](https://discourse.slicer.org/t/mri-abdominal-fat-slice-quantification/11029 "2020-04-20T12:32:19Z")

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Hi All, Operating system: macOS Catalina Version 10.15.4 Slicer version: Slicer.4.10.2 Expected behavior: I would like quantify fat volume on single slice abdominal MRI image. For some patients the dicom file properly…

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## [Load Dicom series file problems](https://discourse.slicer.org/t/load-dicom-series-file-problems/4160)

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**Author:** [@jiang\_luo](https://discourse.slicer.org/u/jiang_luo)\
**Replies:** 5\
**Last updated:** [April 20, 2020, 7:56am UTC](https://discourse.slicer.org/t/load-dicom-series-file-problems/4160 "2020-04-20T07:56:06Z")

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Operating system:win7 Slicer version: 4.9 Expected behavior: Actual behavior: Hi, I had created the python script that load the series of the DICOM files. the script is follow: def LoadDicomFile(path=None,NodeName…

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## [What can be done with the FMA data?](https://discourse.slicer.org/t/what-can-be-done-with-the-fma-data/11199)

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**Author:** [@Melodicpinpon](https://discourse.slicer.org/u/Melodicpinpon)\
**Replies:** 0\
**Last updated:** [April 20, 2020, 7:48am UTC](https://discourse.slicer.org/t/what-can-be-done-with-the-fma-data/11199 "2020-04-20T07:48:31Z")

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@mhalle Good morning Mister Halle, I have been trying to understand where the 3D files (https://dbarchive.biosciencedbc.jp/en/bodyparts3d/download.html) were coming from and why they had not been used to create a user-…

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## [Importing a Volume in VTK (.vtk) format](https://discourse.slicer.org/t/importing-a-volume-in-vtk-vtk-format/11104)

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**Author:** [@kalpathi](https://discourse.slicer.org/u/kalpathi)\
**Replies:** 2\
**Last updated:** [April 20, 2020, 12:01am UTC](https://discourse.slicer.org/t/importing-a-volume-in-vtk-vtk-format/11104 "2020-04-20T00:01:21Z")

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I have a volume in vtk format (structured points) and am trying to import it into Slicer. I was expecting to see the 3 slice views show up with the data none so far… Any pointers would be appreciated. Thanks. Should it…

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## [Problem with Segment registration](https://discourse.slicer.org/t/problem-with-segment-registration/11182)

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**Author:** [@mccarthyvetsurg](https://discourse.slicer.org/u/mccarthyvetsurg)\
**Replies:** 2\
**Last updated:** [April 19, 2020, 7:45pm UTC](https://discourse.slicer.org/t/problem-with-segment-registration/11182 "2020-04-19T19:45:57Z")

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Good evening, I have been trying to register 2 segmentations and after I choose the files (moving and fixed and click perform registration, a watch pops up and the two segments never register? I am not sure what the be…

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## [How to enable the scalar bar for the foreground layer from Python terminal?](https://discourse.slicer.org/t/how-to-enable-the-scalar-bar-for-the-foreground-layer-from-python-terminal/11178)

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**Author:** [@xlucox](https://discourse.slicer.org/u/xlucox)\
**Replies:** 1\
**Last updated:** [April 19, 2020, 7:44pm UTC](https://discourse.slicer.org/t/how-to-enable-the-scalar-bar-for-the-foreground-layer-from-python-terminal/11178 "2020-04-19T19:44:09Z")

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Hi everyone!!! I’m trying to enable the scalar bar for the foreground layer from Python terminal. Does anyone have idea how to set this?

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## [Pip install numpy failure on Win and MAC](https://discourse.slicer.org/t/pip-install-numpy-failure-on-win-and-mac/11179)

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**Author:** [@tbillah](https://discourse.slicer.org/u/tbillah)\
**Replies:** 9\
**Last updated:** [April 19, 2020, 1:08pm UTC](https://discourse.slicer.org/t/pip-install-numpy-failure-on-win-and-mac/11179 "2020-04-19T13:08:25Z")

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Slicer-4.10.2 I tried to install numpy in another directory: .\\PythonSlicer.exe -m pip install numpy --target \\my\\dir\\ After installation, the following error is observed: .\\PythonSlicer.exe Python 2.7.13 (default,…

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## [Problems exporting segmentation as separate Z slices](https://discourse.slicer.org/t/problems-exporting-segmentation-as-separate-z-slices/11161)

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**Author:** [@Davide\_Cester](https://discourse.slicer.org/u/Davide_Cester)\
**Replies:** 8\
**Last updated:** [April 18, 2020, 5:25pm UTC](https://discourse.slicer.org/t/problems-exporting-segmentation-as-separate-z-slices/11161 "2020-04-18T17:25:55Z")

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Hi everybody, I need some help in exporting segmentations in a way that matches the original data. I searched the forum here and I solved part of the issue, but I can’t move forward. I have a sequence of DICOM files, e…

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## [Can I convert this arrays in slicer?](https://discourse.slicer.org/t/can-i-convert-this-arrays-in-slicer/11174)

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**Author:** [@timeanddoctor](https://discourse.slicer.org/u/timeanddoctor)\
**Replies:** 1\
**Last updated:** [April 18, 2020, 2:01pm UTC](https://discourse.slicer.org/t/can-i-convert-this-arrays-in-slicer/11174 "2020-04-18T14:01:36Z")

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I want to creat a volume by and I need convert the data of ‘bb’ to ‘a’ in slicer quickly. bb array(\[\[\[\[ 70, 95, 109\], \[ 72, 97, 112\], \[ 71, 96, 110\], …, \[ 30, 35, 42\], \[ 28, 36, 40\], \[ 27, 35, 39\]\]\]\], dt…

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## [Rotation of an object at an arbitrary pivot point](https://discourse.slicer.org/t/rotation-of-an-object-at-an-arbitrary-pivot-point/11170)

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**Author:** [@glesage](https://discourse.slicer.org/u/glesage)\
**Replies:** 1\
**Last updated:** [April 17, 2020, 11:37pm UTC](https://discourse.slicer.org/t/rotation-of-an-object-at-an-arbitrary-pivot-point/11170 "2020-04-17T23:37:40Z")

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I am developing an ultrasound system with an inertial tracker attached to a linear array ultrasound probe as shown in the first figure of powerpoint and slide notes. https://1drv.ms/p/s!Ao\_mcYEsQIFVhAKLDa4UKb8rVNFQ?e=B12…

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## [How to write a recursive script to crop volumes with ROI?](https://discourse.slicer.org/t/how-to-write-a-recursive-script-to-crop-volumes-with-roi/4998)

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**Author:** [@jenaflex](https://discourse.slicer.org/u/jenaflex)\
**Replies:** 4\
**Last updated:** [February 8, 2019, 5:54pm UTC](https://discourse.slicer.org/t/how-to-write-a-recursive-script-to-crop-volumes-with-roi/4998 "2019-02-08T17:54:28Z")

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How to write recursive script to run ‘crop volume’ (like attached screenshot) on all 3D volumes (3D volumes extracted from 4D nifti)? I have ‘UtBox.acsv’ ROI file already. (Am I supposed to, OR, ) how to make functi…

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## [Convert .stl file into .bmp image set](https://discourse.slicer.org/t/convert-stl-file-into-bmp-image-set/11149)

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**Author:** [@Mathias](https://discourse.slicer.org/u/Mathias)\
**Replies:** 1\
**Last updated:** [April 17, 2020, 5:37pm UTC](https://discourse.slicer.org/t/convert-stl-file-into-bmp-image-set/11149 "2020-04-17T17:37:12Z")

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Hello, as you see in the title, I need to convert my .stl file into .bmp (bitmap) image set. I searched on internet but I didn’t find any tutorials about it. I need my image set for a 3D printing project, each image n…

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## [What's the risk of changing representation](https://discourse.slicer.org/t/whats-the-risk-of-changing-representation/11045)

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**Author:** [@codecrazer](https://discourse.slicer.org/u/codecrazer)\
**Replies:** 14\
**Last updated:** [April 17, 2020, 3:09pm UTC](https://discourse.slicer.org/t/whats-the-risk-of-changing-representation/11045 "2020-04-17T15:09:22Z")

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What’s the risk of changing representation? Due to I need to use pyradiomics, I need to change Dicom to NRRD, so I need to use binary labelmap, however, every time I click make master, a warning screen pop up, and tell …

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## [Adjust Window Label and choice a LUT for a vtkMRMLScalarVolumeNode](https://discourse.slicer.org/t/adjust-window-label-and-choice-a-lut-for-a-vtkmrmlscalarvolumenode/11154)

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**Author:** [@xlucox](https://discourse.slicer.org/u/xlucox)\
**Replies:** 1\
**Last updated:** [April 17, 2020, 4:42am UTC](https://discourse.slicer.org/t/adjust-window-label-and-choice-a-lut-for-a-vtkmrmlscalarvolumenode/11154 "2020-04-17T04:42:37Z")

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Hello everyone. I’m trying to adjust the window label of a vtkMRMLScalarVolumeNode and to Apply it a Rainbow LUT. I thought to use the object SetWindowLevelToVolumeProp() of the class volumerendering.logic(). The probl…

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## [DICOM to JPEG Convertion](https://discourse.slicer.org/t/dicom-to-jpeg-convertion/11151)

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**Author:** [@Fabricio\_Barbosa](https://discourse.slicer.org/u/Fabricio_Barbosa)\
**Replies:** 2\
**Last updated:** [April 16, 2020, 2:49pm UTC](https://discourse.slicer.org/t/dicom-to-jpeg-convertion/11151 "2020-04-16T14:49:53Z")

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Operating system: Windows 10 x64 Slicer version: 4.10.2 Expected behavior: all the file format changed when I choose one format Actual behavior: format changed at once for the selected file Is it possible change at o…

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## [No extensions for Windows since yesterday](https://discourse.slicer.org/t/no-extensions-for-windows-since-yesterday/11152)

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**Author:** [@ungi](https://discourse.slicer.org/u/ungi)\
**Replies:** 2\
**Last updated:** [April 16, 2020, 2:24pm UTC](https://discourse.slicer.org/t/no-extensions-for-windows-since-yesterday/11152 "2020-04-16T14:24:31Z")

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Hi, I just wanted to let you know, in case you haven’t noticed yet, no extensions are built for the preview version since yesterday for Windows. @Sam\_Horvath

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## [Lofting - Creating a volume from two surfaces, segmentations](https://discourse.slicer.org/t/lofting-creating-a-volume-from-two-surfaces-segmentations/11129)

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**Author:** [@Fluvio\_Lobo](https://discourse.slicer.org/u/Fluvio_Lobo)\
**Replies:** 2\
**Last updated:** [April 15, 2020, 9:25pm UTC](https://discourse.slicer.org/t/lofting-creating-a-volume-from-two-surfaces-segmentations/11129 "2020-04-15T21:25:49Z")

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Hello, Is there a way to create a volume from a linear interpolation between two segmentations? This would similar to a “loft” in a CAD package. Also similar to a “sweep” but without relying on a path. To be more speci…

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## [DICOM to NIFTI conversion](https://discourse.slicer.org/t/dicom-to-nifti-conversion/11124)

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**Author:** [@rickychen](https://discourse.slicer.org/u/rickychen)\
**Replies:** 2\
**Last updated:** [April 15, 2020, 3:47pm UTC](https://discourse.slicer.org/t/dicom-to-nifti-conversion/11124 "2020-04-15T15:47:34Z")

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Operating system: Windows 10 Slicer version: 4.10.2 Hi guys, I’m wondering if someone knows how Slicer deals with the DICOM to NIFTI conversion? More specifically, what packages or tools do they use to achieve this? I…

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## [Can 3d slicer modules be used in python code external to 3d slicer?](https://discourse.slicer.org/t/can-3d-slicer-modules-be-used-in-python-code-external-to-3d-slicer/11126)

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**Author:** [@LisaDuff](https://discourse.slicer.org/u/LisaDuff)\
**Replies:** 1\
**Last updated:** [April 15, 2020, 2:58pm UTC](https://discourse.slicer.org/t/can-3d-slicer-modules-be-used-in-python-code-external-to-3d-slicer/11126 "2020-04-15T14:58:13Z")

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The particular module I am interested in does have a CLI (command line interface) counterpart, am I able to use it in a separate piece of code without having to open 3d slicer?

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## [RTSTRUCT segmentation discrepancy](https://discourse.slicer.org/t/rtstruct-segmentation-discrepancy/10662)

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**Author:** [@athanell](https://discourse.slicer.org/u/athanell)\
**Replies:** 15\
**Last updated:** [April 15, 2020, 9:06am UTC](https://discourse.slicer.org/t/rtstruct-segmentation-discrepancy/10662 "2020-04-15T09:06:24Z")

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Operating system: Windows 7 Slicer version:4.11.0-2020-02-19 Expected behavior: Actual behavior: Hello, After exporting a segmentation to an RTStruct I noticed that there are discrepancies with respect to the origin…

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## [3D element is not filling out the whole cube](https://discourse.slicer.org/t/3d-element-is-not-filling-out-the-whole-cube/11114)

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**Author:** [@zeliair](https://discourse.slicer.org/u/zeliair)\
**Replies:** 4\
**Last updated:** [April 14, 2020, 8:51pm UTC](https://discourse.slicer.org/t/3d-element-is-not-filling-out-the-whole-cube/11114 "2020-04-14T20:51:50Z")

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Operating system: Windows Slicer version: 4.10.2 Expected behavior: When I load my Data into 3D-Slicer I expect the object to be in ) the “centre” of the cube. Actual behavior: Sometimes it happens, that my object is …

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## [Segment Statistics - Input Volume](https://discourse.slicer.org/t/segment-statistics-input-volume/11115)

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**Author:** [@parand](https://discourse.slicer.org/u/parand)\
**Replies:** 0\
**Last updated:** [April 14, 2020, 1:35pm UTC](https://discourse.slicer.org/t/segment-statistics-input-volume/11115 "2020-04-14T13:35:46Z")

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Hi all, I am using segment statistics to extract data from VOIs in brain MR images including MPrage, T1 Post Gd, ADC, rBF, rBV, etc. However, I am not able to apply segment statistics for more than one input volume at t…

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## [Slicer plots de image](https://discourse.slicer.org/t/slicer-plots-de-image/11112)

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**Author:** [@khikho](https://discourse.slicer.org/u/khikho)\
**Replies:** 0\
**Last updated:** [April 14, 2020, 10:25am UTC](https://discourse.slicer.org/t/slicer-plots-de-image/11112 "2020-04-14T10:25:34Z")

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hi I want to extract information frstrong textom the images in the form of a curve. Help me. Thank you

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## [Elastix fails to build](https://discourse.slicer.org/t/elastix-fails-to-build/11077)

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**Author:** [@Alex\_Vergara](https://discourse.slicer.org/u/Alex_Vergara)\
**Replies:** 4\
**Last updated:** [April 13, 2020, 3:43pm UTC](https://discourse.slicer.org/t/elastix-fails-to-build/11077 "2020-04-13T15:43:18Z")

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As seen here http://slicer.cdash.org/buildSummary.php?buildid=1880612 Elastix is failing to build. I can follow the current errors up to 13/03/2020 build. I see nobody has reported this

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## [Segment Comparison - Hausdorff](https://discourse.slicer.org/t/segment-comparison-hausdorff/11101)

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**Author:** [@cmars](https://discourse.slicer.org/u/cmars)\
**Replies:** 3\
**Last updated:** [April 13, 2020, 2:28pm UTC](https://discourse.slicer.org/t/segment-comparison-hausdorff/11101 "2020-04-13T14:28:49Z")

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Hi, For the segment comparison, the Hausdorff distance gives the Maximum, Average and 95%. This is from Plastimatch. Is this the boundary Hausdorff? Thanks

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## [RTStruct Export Missing Segmentation Names](https://discourse.slicer.org/t/rtstruct-export-missing-segmentation-names/10985)

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**Author:** [@rmd](https://discourse.slicer.org/u/rmd)\
**Replies:** 13\
**Last updated:** [April 13, 2020, 1:13pm UTC](https://discourse.slicer.org/t/rtstruct-export-missing-segmentation-names/10985 "2020-04-13T13:13:34Z")

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Operating system: Windows 10 Slicer version: 4.10.2 Hello Slicer Community, I’m experiencing strange behavior when exporting RTStructs. Prior to Export, I have about 170 segments each representing a different biologic…

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## [PETDICOMExtension - change formula lean body mass](https://discourse.slicer.org/t/petdicomextension-change-formula-lean-body-mass/11085)

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**Author:** [@VictorAlves](https://discourse.slicer.org/u/VictorAlves)\
**Replies:** 1\
**Last updated:** [April 12, 2020, 1:09pm UTC](https://discourse.slicer.org/t/petdicomextension-change-formula-lean-body-mass/11085 "2020-04-12T13:09:58Z")

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Hi! I would to calculate the SUV corrected to the lean body mass, using a different formula from that used by the author of the extension. I downloaded the extension for Github, and edited the respective file (a .cxx f…

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## [Problems with modules installation](https://discourse.slicer.org/t/problems-with-modules-installation/11036)

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**Author:** [@doc-xie](https://discourse.slicer.org/u/doc-xie)\
**Replies:** 9\
**Last updated:** [April 12, 2020, 5:14am UTC](https://discourse.slicer.org/t/problems-with-modules-installation/11036 "2020-04-12T05:14:14Z")

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The 3D Slicer of preview release (4.11.0,revision28931) can be installed successfully in my Macbook pro, but after some modules were downloaded from “Extentions manager” and the software was reopenned again, the modules …

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