# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=320

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

**Page:** 321

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## [Unable to Load DICOM data](https://discourse.slicer.org/t/unable-to-load-dicom-data/13714)

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**Author:** [@jax200](https://discourse.slicer.org/u/jax200)\
**Replies:** 4\
**Last updated:** [September 27, 2020, 2:12pm UTC](https://discourse.slicer.org/t/unable-to-load-dicom-data/13714 "2020-09-27T14:12:41Z")

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I’m a new user and trying to follow the tutorial with a 3D Slicer dataset. I am unable to load the DICOM data in that the lower “Load” button remains grayed-out when I select “patient1”. What is more, I have previous…

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## [Rt structure misalignment with image](https://discourse.slicer.org/t/rt-structure-misalignment-with-image/13711)

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**Author:** [@Iman\_Shokatian](https://discourse.slicer.org/u/Iman_Shokatian)\
**Replies:** 3\
**Last updated:** [September 27, 2020, 1:04pm UTC](https://discourse.slicer.org/t/rt-structure-misalignment-with-image/13711 "2020-09-27T13:04:38Z")

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Hi, I have US images with its corresponding rt structure. I am using slicerrt module for visualizing rt structure but as you can see in the attached image, rt structure is not aligned correctly with the image. what shou…

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## [Give a thickness to the lumen](https://discourse.slicer.org/t/give-a-thickness-to-the-lumen/13282)

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**Author:** [@Hamid](https://discourse.slicer.org/u/Hamid)\
**Replies:** 27\
**Last updated:** [September 26, 2020, 3:09am UTC](https://discourse.slicer.org/t/give-a-thickness-to-the-lumen/13282 "2020-09-26T03:09:54Z")

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I extracted a Aorta lumen from a dicom files using 3d slicer, at this point I am looking for an open source software to give the lumen a desired thickness. if you know a software please leave a note. many thanks

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## [\[Tensorflow v 2.3.0\] tf.config.list\_physical\_devices('GPU') shows empty list in PythonSlicer.exe](https://discourse.slicer.org/t/tensorflow-v-2-3-0-tf-config-list-physical-devices-gpu-shows-empty-list-in-pythonslicer-exe/13712)

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**Author:** [@strider\_hunter](https://discourse.slicer.org/u/strider_hunter)\
**Replies:** 2\
**Last updated:** [September 26, 2020, 4:44pm UTC](https://discourse.slicer.org/t/tensorflow-v-2-3-0-tf-config-list-physical-devices-gpu-shows-empty-list-in-pythonslicer-exe/13712 "2020-09-26T16:44:03Z")

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Hi, I am attempting to check if tensorflow installed in 3DSlicer is able to access the GPU for its computation. I get the following outputs in “PythonSlicer.exe” Does anybody know what is missing here? Tensorflow wa…

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## [Is it possible to generate image montage in 3D Slicer?](https://discourse.slicer.org/t/is-it-possible-to-generate-image-montage-in-3d-slicer/13701)

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**Author:** [@Vincent\_C](https://discourse.slicer.org/u/Vincent_C)\
**Replies:** 1\
**Last updated:** [September 25, 2020, 7:28pm UTC](https://discourse.slicer.org/t/is-it-possible-to-generate-image-montage-in-3d-slicer/13701 "2020-09-25T19:28:10Z")

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Hi all, There is a tool is FSL - Miscvis - FslWiki - that can make a montage of multiple slices in axial, sagittal and coronal planes and output in .png format. Is there also a function like this available in Slicer? …

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## [Change spatial calibration](https://discourse.slicer.org/t/change-spatial-calibration/13605)

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**Author:** [@ricounet67](https://discourse.slicer.org/u/ricounet67)\
**Replies:** 5\
**Last updated:** [September 25, 2020, 3:44pm UTC](https://discourse.slicer.org/t/change-spatial-calibration/13605 "2020-09-25T15:44:07Z")

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I would like to know if it is possible to change the spatial calibration of a volume in Slicer. I import a tiff stack from a tomography reconstruction made with TomoJ (in ImageJ). I didn’t found the way to set the voxel…

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## [VMTK Extension Problem](https://discourse.slicer.org/t/vmtk-extension-problem/13699)

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**Author:** [@hannah\_e](https://discourse.slicer.org/u/hannah_e)\
**Replies:** 1\
**Last updated:** [September 25, 2020, 3:39pm UTC](https://discourse.slicer.org/t/vmtk-extension-problem/13699 "2020-09-25T15:39:22Z")

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Hello! I’m trying to use the VMTK extension in 3D slicer but can’t seem to load the qt-loadable-modules. As far as I can tell the qt-scriptable modules load fine, at least I can see them in the modules in Slicer. –I am…

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## [How to export stl file for each structure?](https://discourse.slicer.org/t/how-to-export-stl-file-for-each-structure/13695)

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**Author:** [@Taehyeong](https://discourse.slicer.org/u/Taehyeong)\
**Replies:** 2\
**Last updated:** [September 25, 2020, 2:07pm UTC](https://discourse.slicer.org/t/how-to-export-stl-file-for-each-structure/13695 "2020-09-25T14:07:26Z")

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Hello I have some problem using the 3D slicer Trying to export contoured structures in segments to STL files. I want to create an STL file for each OAR such as Bone stl file, brain stl file, eye ball stl file… But it…

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## [Slicer CLI module compilation error: undefined reference to \`itk::GeometryUtilities](https://discourse.slicer.org/t/slicer-cli-module-compilation-error-undefined-reference-to-itk-geometryutilities/2100)

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**Author:** [@MachadoL](https://discourse.slicer.org/u/MachadoL)\
**Replies:** 13\
**Last updated:** [February 27, 2018, 8:08pm UTC](https://discourse.slicer.org/t/slicer-cli-module-compilation-error-undefined-reference-to-itk-geometryutilities/2100 "2018-02-27T20:08:59Z")

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Hellow friends, I’m very much a beginner in the 3DSlicer development world. I’m struggling with a compilation problem. I created a CLI module through Slicer “Extension Manager” and started to change it according to my …

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## [Creating models from dicom files in 3 different crossections](https://discourse.slicer.org/t/creating-models-from-dicom-files-in-3-different-crossections/13427)

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**Author:** [@BlueLan](https://discourse.slicer.org/u/BlueLan)\
**Replies:** 3\
**Last updated:** [September 25, 2020, 1:20am UTC](https://discourse.slicer.org/t/creating-models-from-dicom-files-in-3-different-crossections/13427 "2020-09-25T01:20:43Z")

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Operating system: Windows Slicer version: 4.10.2 Hi everyone, I am trying to construct a knee model using data from Stanford’s MRI knee images (stored in nonpy arrays). For each knee, the data is stored in 3 different…

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## [SlicerMorph failed to load DICOM](https://discourse.slicer.org/t/slicermorph-failed-to-load-dicom/13684)

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**Author:** [@lv\_xiao](https://discourse.slicer.org/u/lv_xiao)\
**Replies:** 6\
**Last updated:** [September 25, 2020, 12:07am UTC](https://discourse.slicer.org/t/slicermorph-failed-to-load-dicom/13684 "2020-09-25T00:07:56Z")

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Operating system: Win10 Slicer version: 1.5 Expected behavior: Load DICOM images Actual behavior: SlicerMorph crashed Hello, I am new to SlicerMorph. I followed the tutorial https://spujol.github.io/SlicerDICOMTutori…

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## [Issue With 3D TEE from GE Vivid E95 in 3D Slicer](https://discourse.slicer.org/t/issue-with-3d-tee-from-ge-vivid-e95-in-3d-slicer/13642)

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**Author:** [@melaughlin](https://discourse.slicer.org/u/melaughlin)\
**Replies:** 5\
**Last updated:** [September 24, 2020, 4:14pm UTC](https://discourse.slicer.org/t/issue-with-3d-tee-from-ge-vivid-e95-in-3d-slicer/13642 "2020-09-24T16:14:32Z")

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Hi all, I am trying to extract a patient’s left ventricle geometry from 3D TEE using the GE Vivid E95. I have been trying to use 3DSlicer with SlicerHeart but am having some issues importing the DICOM files I received f…

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## [Registration and contour comparison](https://discourse.slicer.org/t/registration-and-contour-comparison/13645)

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**Author:** [@BORIPHAT](https://discourse.slicer.org/u/BORIPHAT)\
**Replies:** 3\
**Last updated:** [September 24, 2020, 3:36am UTC](https://discourse.slicer.org/t/registration-and-contour-comparison/13645 "2020-09-24T03:36:18Z")

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Hello, I would like to compare two data sets. The first CT data set is Reference data and the second data is deformed data. I would like to know “How much the second data deformed”? How to registration between data se…

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## [slicer can't find latest OpenGL drivers in AWS workspaces](https://discourse.slicer.org/t/slicer-cant-find-latest-opengl-drivers-in-aws-workspaces/13598)

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**Author:** [@ashish\_mahabal](https://discourse.slicer.org/u/ashish_mahabal)\
**Replies:** 5\
**Last updated:** [September 23, 2020, 6:21pm UTC](https://discourse.slicer.org/t/slicer-cant-find-latest-opengl-drivers-in-aws-workspaces/13598 "2020-09-23T18:21:07Z")

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Operating system: Linux (AWS workspaces Power Pro x86\_64) Slicer version: 4.10.2 Expected behavior: Display dicom images Actual behavior: Error message about not finding latest OpenGL drivers despite those being prese…

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## [Segmentation Alignment](https://discourse.slicer.org/t/segmentation-alignment/13449)

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**Author:** [@yoomi](https://discourse.slicer.org/u/yoomi)\
**Replies:** 15\
**Last updated:** [September 23, 2020, 4:13pm UTC](https://discourse.slicer.org/t/segmentation-alignment/13449 "2020-09-23T16:13:06Z")

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Hi everyone, I have a pre-determined VOI segmentation and DCE MRI sequence in DICOM format, and want to overlay/align them. What is the best way to go about this? I was thinking about converting the VOI segmentation to …

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## [Change Opacity of Parts of a Model](https://discourse.slicer.org/t/change-opacity-of-parts-of-a-model/13670)

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**Author:** [@CB1](https://discourse.slicer.org/u/CB1)\
**Replies:** 11\
**Last updated:** [September 23, 2020, 3:27pm UTC](https://discourse.slicer.org/t/change-opacity-of-parts-of-a-model/13670 "2020-09-23T15:27:30Z")

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I’m trying to adjust the opacity of everything but a small range of intensities on a 3d model made of MRI slices. It’s a .nii.gz file. I have one small part of my images that is intensity ~8000 and everything else is aro…

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## [Elastix components not installed](https://discourse.slicer.org/t/elastix-components-not-installed/13660)

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**Author:** [@janneke\_slicer](https://discourse.slicer.org/u/janneke_slicer)\
**Replies:** 1\
**Last updated:** [September 23, 2020, 3:23pm UTC](https://discourse.slicer.org/t/elastix-components-not-installed/13660 "2020-09-23T15:23:33Z")

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Hello, I am using Elastix in 3DSlicer. I also used it in Matlab, but Slicer is better for visualization. I’m for example interested in visualizing the deformation field. However, I noticed that in 3D Slicer Elastix is …

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## [Import DICOM Data through series](https://discourse.slicer.org/t/import-dicom-data-through-series/13644)

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**Author:** [@Chintha\_Siva\_Prasad](https://discourse.slicer.org/u/Chintha_Siva_Prasad)\
**Replies:** 1\
**Last updated:** [September 23, 2020, 2:56pm UTC](https://discourse.slicer.org/t/import-dicom-data-through-series/13644 "2020-09-23T14:56:30Z")

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I am trying to load volumes using the series names of the patient. This is my current code to load the volume of a patient. How can I load the volume using the series description as slicer do? How can I load the v…

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## [Measure thickness](https://discourse.slicer.org/t/measure-thickness/13576)

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**Author:** [@lmach](https://discourse.slicer.org/u/lmach)\
**Replies:** 0\
**Last updated:** [September 20, 2020, 4:08pm UTC](https://discourse.slicer.org/t/measure-thickness/13576 "2020-09-20T16:08:54Z")

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Hi, I have previously posted a question about how to measure the thickness (Calculate thickness of thin muscle) but did not come to any solution. I have followed this workflow: How to analyze the thickness of the mode…

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## [How to request DICOM Data from Hospital](https://discourse.slicer.org/t/how-to-request-dicom-data-from-hospital/13608)

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**Author:** [@Brandon\_Holt](https://discourse.slicer.org/u/Brandon_Holt)\
**Replies:** 0\
**Last updated:** [September 22, 2020, 12:59pm UTC](https://discourse.slicer.org/t/how-to-request-dicom-data-from-hospital/13608 "2020-09-22T12:59:05Z")

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Hello everyone, I work for a University and we have been tasked with segmenting out lungs from patient data for a project. We have requested DICOM Data from the hospital (Our Client) and the Data that we have received wi…

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## [Scatter Plot: Colour each point differently](https://discourse.slicer.org/t/scatter-plot-colour-each-point-differently/13548)

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**Author:** [@sthirumal](https://discourse.slicer.org/u/sthirumal)\
**Replies:** 1\
**Last updated:** [September 18, 2020, 3:25pm UTC](https://discourse.slicer.org/t/scatter-plot-colour-each-point-differently/13548 "2020-09-18T15:25:50Z")

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For the scatter plot in Slicer, I’m wondering if there is a way to colour each point uniquely. I’d like for each point to be coloured based on the density of nearest points. I’ve attached an image of what I would like th…

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## [Problems with Load Data from a directory](https://discourse.slicer.org/t/problems-with-load-data-from-a-directory/13567)

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**Author:** [@lars12345](https://discourse.slicer.org/u/lars12345)\
**Replies:** 6\
**Last updated:** [September 21, 2020, 6:31pm UTC](https://discourse.slicer.org/t/problems-with-load-data-from-a-directory/13567 "2020-09-21T18:31:57Z")

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Operating system: Windows 10 Pro Slicer version: 4.10.2 Expected behavior:The red slider scrolls through the images Actual behavior: Adjusting the red slider does nothing First of all thank you for your help, I am pr…

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## [DiceComputation module does not calculate](https://discourse.slicer.org/t/dicecomputation-module-does-not-calculate/1757)

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**Author:** [@aharris](https://discourse.slicer.org/u/aharris)\
**Replies:** 15\
**Last updated:** [September 21, 2020, 6:30pm UTC](https://discourse.slicer.org/t/dicecomputation-module-does-not-calculate/1757 "2020-09-21T18:30:35Z")

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I have segmented label maps from two imaging modalities (3D ultrasound and MRI), and have performed a registration and transformation between them. When the Hausdorff distance option is clicked in the DiceComputation mo…

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## [I'm getting not a useful error when I try to start Slicer Jupyter kernel, how to debug?](https://discourse.slicer.org/t/im-getting-not-a-useful-error-when-i-try-to-start-slicer-jupyter-kernel-how-to-debug/13530)

<div class="topic-metadata">

**Author:** [@myousefi2016](https://discourse.slicer.org/u/myousefi2016)\
**Replies:** 13\
**Last updated:** [September 20, 2020, 5:36pm UTC](https://discourse.slicer.org/t/im-getting-not-a-useful-error-when-i-try-to-start-slicer-jupyter-kernel-how-to-debug/13530 "2020-09-20T17:36:04Z")

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I’m using Slicer 4.10 on our cluster that has Centos8. It’s a headless server and I’m able successfully to run Slicer and even its graphical interface by using Xvfb. The problem is that I want to use Slicer in Jupyter no…

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## [New extension: ArduinoController](https://discourse.slicer.org/t/new-extension-arduinocontroller/12156)

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**Author:** [@PaoloZaffino](https://discourse.slicer.org/u/PaoloZaffino)\
**Replies:** 7\
**Last updated:** [September 21, 2020, 8:39am UTC](https://discourse.slicer.org/t/new-extension-arduinocontroller/12156 "2020-09-21T08:39:18Z")

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Dear all, I am delighted to announce a new Slicer extension: ArduinoController. It can be installed by using the extension manager of any nightly version of Slicer. By using this extension it is possible to send and r…

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## [Obtaining Segmentations for Fiducials](https://discourse.slicer.org/t/obtaining-segmentations-for-fiducials/13407)

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**Author:** [@FatihSogukpinar](https://discourse.slicer.org/u/FatihSogukpinar)\
**Replies:** 31\
**Last updated:** [September 20, 2020, 3:43pm UTC](https://discourse.slicer.org/t/obtaining-segmentations-for-fiducials/13407 "2020-09-20T15:43:51Z")

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Operating system: Windows 10 Pro Slicer version: 4.10 and / or 4.11 Hi all, I have a set of fiducial points and a segmentation and I need to obtain the segments which the points belong to. There are so many points th…

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## [How to install Fiducial registration Wizard](https://discourse.slicer.org/t/how-to-install-fiducial-registration-wizard/13555)

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**Author:** [@nikolay\_dmitriyev](https://discourse.slicer.org/u/nikolay_dmitriyev)\
**Replies:** 2\
**Last updated:** [September 19, 2020, 6:45pm UTC](https://discourse.slicer.org/t/how-to-install-fiducial-registration-wizard/13555 "2020-09-19T18:45:24Z")

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Hello! I spent a lot of time, but it is not clear how I can install - Fiducial registration Wizard and where can I find this extention. In loaded version of 3d Slicer - there only - Fiducial registration. Thank you fo…

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## [Segmentation regions for Fiducial Points](https://discourse.slicer.org/t/segmentation-regions-for-fiducial-points/13560)

<div class="topic-metadata">

**Author:** [@FatihSogukpinar](https://discourse.slicer.org/u/FatihSogukpinar)\
**Replies:** 1\
**Last updated:** [September 19, 2020, 3:06pm UTC](https://discourse.slicer.org/t/segmentation-regions-for-fiducial-points/13560 "2020-09-19T15:06:09Z")

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Operating system: Windows 10 Pro Slicer version: 4.10 and / or 4.11 Hi all, I have a set of fiducial points and a segmentation and I need to obtain the segments which the points belong to. There are so many points th…

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## [cast scalar volume](https://discourse.slicer.org/t/cast-scalar-volume/13546)

<div class="topic-metadata">

**Author:** [@jianyuan](https://discourse.slicer.org/u/jianyuan)\
**Replies:** 3\
**Last updated:** [September 18, 2020, 6:34pm UTC](https://discourse.slicer.org/t/cast-scalar-volume/13546 "2020-09-18T18:34:22Z")

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I faied in the segmentation of tumors with the growcuteffect. I cast PET images to ‘short’ type (using Cast Scalar Volume module). However, the regions of high intensity turned black in “shot” type, and it seems that 3D …

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## [How to start Qt designer in Slicer environment from Ubuntu 20.04?](https://discourse.slicer.org/t/how-to-start-qt-designer-in-slicer-environment-from-ubuntu-20-04/13549)

<div class="topic-metadata">

**Author:** [@Fabiola](https://discourse.slicer.org/u/Fabiola)\
**Replies:** 5\
**Last updated:** [September 18, 2020, 5:28pm UTC](https://discourse.slicer.org/t/how-to-start-qt-designer-in-slicer-environment-from-ubuntu-20-04/13549 "2020-09-18T17:28:17Z")

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Operating system: Ubuntu 20.04 Slicer version: 4.11.0-2020 Expected behavior: ./Slicer-build/Slicer --designer shouldn’t start the Qt Designer? Actual behavior: it starts the Slicer application. Hello Slicer communit…

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