# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=353

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

**Page:** 354

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## [RemoveNode does not work to delete a list of node](https://discourse.slicer.org/t/removenode-does-not-work-to-delete-a-list-of-node/10233)

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**Author:** [@tbuikr](https://discourse.slicer.org/u/tbuikr)\
**Replies:** 2\
**Last updated:** [February 13, 2020, 2:55am UTC](https://discourse.slicer.org/t/removenode-does-not-work-to-delete-a-list-of-node/10233 "2020-02-13T02:55:18Z")

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I have two buttons: Add and Delete. The Add uses to add a node, while the Delete is for node removing. The Add function is implemented as follows: self.roiNodes =\[\] for i in range (10): node = slicer.vtkMRMLAnnotati…

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## [Remove small islands alternative (or speedup?)](https://discourse.slicer.org/t/remove-small-islands-alternative-or-speedup/10176)

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**Author:** [@hherhold](https://discourse.slicer.org/u/hherhold)\
**Replies:** 7\
**Last updated:** [February 13, 2020, 2:08am UTC](https://discourse.slicer.org/t/remove-small-islands-alternative-or-speedup/10176 "2020-02-13T02:08:53Z")

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Slicers - In a few scans I’m working with, after thresholding and segmenting with brushes/scissors/etc, I wind up with many thousands of small islands in the integument of some insects. Basically, lots of tiny little bu…

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## [Internal error : Bad array new length](https://discourse.slicer.org/t/internal-error-bad-array-new-length/10179)

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**Author:** [@prorai](https://discourse.slicer.org/u/prorai)\
**Replies:** 3\
**Last updated:** [February 13, 2020, 1:34am UTC](https://discourse.slicer.org/t/internal-error-bad-array-new-length/10179 "2020-02-13T01:34:58Z")

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Hello Slicer Team, Today I run into the issue ‘Slicer has caught an internal error.’ The message detail is: Exception thrown in event: bad array new length i was running a batch script to generate a 3d model using …

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## [Creates Cylinder in Center of a segment for volume calculation](https://discourse.slicer.org/t/creates-cylinder-in-center-of-a-segment-for-volume-calculation/10194)

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**Author:** [@manjula](https://discourse.slicer.org/u/manjula)\
**Replies:** 3\
**Last updated:** [February 13, 2020, 1:31am UTC](https://discourse.slicer.org/t/creates-cylinder-in-center-of-a-segment-for-volume-calculation/10194 "2020-02-13T01:31:01Z")

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Due to the processing difficulty i thought of a work around like in the video attached for my purpose. The script @Juicy @lassoan help with do the trick by automating the process but i takes lot of time. The way i think…

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## [How to load landmarks?](https://discourse.slicer.org/t/how-to-load-landmarks/10127)

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**Author:** [@Tessa\_Frank](https://discourse.slicer.org/u/Tessa_Frank)\
**Replies:** 15\
**Last updated:** [February 13, 2020, 1:03am UTC](https://discourse.slicer.org/t/how-to-load-landmarks/10127 "2020-02-13T01:03:29Z")

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Hello, I have been using the landmark registration tool in 3D slicer. I started this registration yesterday and would like to refine the registration today by adding more landmarks. However, when I opened my saved file,…

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## [Thickness of the model](https://discourse.slicer.org/t/thickness-of-the-model/9670)

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**Author:** [@Tekk\_ya](https://discourse.slicer.org/u/Tekk_ya)\
**Replies:** 6\
**Last updated:** [February 12, 2020, 9:15pm UTC](https://discourse.slicer.org/t/thickness-of-the-model/9670 "2020-02-12T21:15:04Z")

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Hi, I am using the hallow module to create a hallow model, with the desired width. However, when I check the model’s thickness in meshmixer it seems like the thickness is roughly half of the desired width. Would you ple…

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## [Option to disable "minimum bounding box" cropping feature for segmentations](https://discourse.slicer.org/t/option-to-disable-minimum-bounding-box-cropping-feature-for-segmentations/10221)

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**Author:** [@eyjolfur](https://discourse.slicer.org/u/eyjolfur)\
**Replies:** 0\
**Last updated:** [February 12, 2020, 4:51pm UTC](https://discourse.slicer.org/t/option-to-disable-minimum-bounding-box-cropping-feature-for-segmentations/10221 "2020-02-12T16:51:32Z")

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Hello, First of all, thanks to everyone who has worked on the development of Slicer, it is proving immensely useful in my work. This post is regarding the underlying “minimum bounding box” cropping feature of segmentati…

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## [Align images to the side](https://discourse.slicer.org/t/align-images-to-the-side/9764)

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**Author:** [@jonasteuwen](https://discourse.slicer.org/u/jonasteuwen)\
**Replies:** 2\
**Last updated:** [February 12, 2020, 10:53am UTC](https://discourse.slicer.org/t/align-images-to-the-side/9764 "2020-02-12T10:53:12Z")

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For the reading of mammography images there are two views per breast. The straight edge touches the side of the laterality of the breast. However, typically you would like to have the images aligned to this edge (so that…

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## [How to reconstruct 3d heart model from series of short view axis .png files.](https://discourse.slicer.org/t/how-to-reconstruct-3d-heart-model-from-series-of-short-view-axis-png-files/9785)

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**Author:** [@Jonathan](https://discourse.slicer.org/u/Jonathan)\
**Replies:** 20\
**Last updated:** [February 11, 2020, 8:06pm UTC](https://discourse.slicer.org/t/how-to-reconstruct-3d-heart-model-from-series-of-short-view-axis-png-files/9785 "2020-02-11T20:06:56Z")

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Operating system: windows Slicer version:4.10 Expected behavior: 3d - model using consecutive slices. Actual behavior: 1d plane - no volume. I’ve been trying to segment consecutive slices of a porcine heart in short …

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## [Slicer crash when call multiprocessing](https://discourse.slicer.org/t/slicer-crash-when-call-multiprocessing/1044)

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**Author:** [@anqiang-12sigma](https://discourse.slicer.org/u/anqiang-12sigma)\
**Replies:** 21\
**Last updated:** [February 11, 2020, 6:52pm UTC](https://discourse.slicer.org/t/slicer-crash-when-call-multiprocessing/1044 "2020-02-11T18:52:14Z")

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I want to use python multiprocessing, but it makes slicer crash. Traceback (most recent call last): File "C:\\Program Files\\Slicer 4.7.0-2017-08-16\\lib\\Python\\Lib\\multiprocessing\\process.py", line 249, in \_bootstrap …

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## [Calculating shared volume between two models](https://discourse.slicer.org/t/calculating-shared-volume-between-two-models/10144)

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**Author:** [@aalarcon96](https://discourse.slicer.org/u/aalarcon96)\
**Replies:** 8\
**Last updated:** [February 11, 2020, 6:24am UTC](https://discourse.slicer.org/t/calculating-shared-volume-between-two-models/10144 "2020-02-11T06:24:26Z")

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Operating system: MacOS Slicer version: 4.11 Hi, I want to calculate the total volume of these two tumor models and the shared volume (AKA how much they overlap/purple area). They are .vtk files, not segmentations. Th…

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## [Runtime of SegmentMesher](https://discourse.slicer.org/t/runtime-of-segmentmesher/10193)

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**Author:** [@Aep93](https://discourse.slicer.org/u/Aep93)\
**Replies:** 2\
**Last updated:** [February 11, 2020, 1:50am UTC](https://discourse.slicer.org/t/runtime-of-segmentmesher/10193 "2020-02-11T01:50:09Z")

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Hello all, Is there any way to speed up generating mesh using SegmentMesher? Is it possible to use GPU for these calculations or is it possible to run in parallel? or are there any other suggestions? Thanks for your h…

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## [Registration of Head MR/CT](https://discourse.slicer.org/t/registration-of-head-mr-ct/10197)

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**Author:** [@Anonymous2](https://discourse.slicer.org/u/Anonymous2)\
**Replies:** 0\
**Last updated:** [February 11, 2020, 12:10am UTC](https://discourse.slicer.org/t/registration-of-head-mr-ct/10197 "2020-02-11T00:10:10Z")

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Operating system: MacOS 10.14.6 Slicer version: 4.10.2 Expected behavior: MR/CT Head registration Actual behavior: CT is full body and MR is only the head

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## [Meshing separate parts in SegmentMesher](https://discourse.slicer.org/t/meshing-separate-parts-in-segmentmesher/10188)

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**Author:** [@Aep93](https://discourse.slicer.org/u/Aep93)\
**Replies:** 5\
**Last updated:** [February 10, 2020, 6:42pm UTC](https://discourse.slicer.org/t/meshing-separate-parts-in-segmentmesher/10188 "2020-02-10T18:42:57Z")

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Hello all, I use SegmentMesher to mesh two segments that are in contact with each other. The slicer gives me just one vtk file (for both segments). I know that I have to use codes such as meshio to convert these files i…

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## [Is there an easy method to calculate the Cobb Angle using a 3D Slicer module?](https://discourse.slicer.org/t/is-there-an-easy-method-to-calculate-the-cobb-angle-using-a-3d-slicer-module/10189)

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**Author:** [@stevenagl12](https://discourse.slicer.org/u/stevenagl12)\
**Replies:** 1\
**Last updated:** [February 10, 2020, 6:18pm UTC](https://discourse.slicer.org/t/is-there-an-easy-method-to-calculate-the-cobb-angle-using-a-3d-slicer-module/10189 "2020-02-10T18:18:18Z")

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I have CT scans that contain the spine and am trying for an easy way to get the Cobb Angle using them.

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## [Meshing separate parts in SegmentMesher](https://discourse.slicer.org/t/meshing-separate-parts-in-segmentmesher/10190)

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**Author:** [@Aep93](https://discourse.slicer.org/u/Aep93)\
**Replies:** 0\
**Last updated:** [February 10, 2020, 6:10pm UTC](https://discourse.slicer.org/t/meshing-separate-parts-in-segmentmesher/10190 "2020-02-10T18:10:43Z")

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Hello all, I am using SegmentMesher extension to mesh two different segments that are connected to each other. Actually the reason I am using SegmentMesher is that I want a mesh that is conformal in the boundaries of tw…

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## [Can I open the vtk files on my Android platform like KiwiViewer?](https://discourse.slicer.org/t/can-i-open-the-vtk-files-on-my-android-platform-like-kiwiviewer/2793)

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**Author:** [@timeanddoctor](https://discourse.slicer.org/u/timeanddoctor)\
**Replies:** 3\
**Last updated:** [February 10, 2020, 5:32pm UTC](https://discourse.slicer.org/t/can-i-open-the-vtk-files-on-my-android-platform-like-kiwiviewer/2793 "2020-02-10T17:32:04Z")

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The KiwiViewer 2.0 was the best App( iphone) for me to open a vtk file caculated from 3d slicer. But the KiwiViewer have stoped the developing of the software. After a seaching in the internet, the old-one KiwiViewer 1.0…

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## [Slicer - black screen when opening stls or nrrds](https://discourse.slicer.org/t/slicer-black-screen-when-opening-stls-or-nrrds/10140)

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**Author:** [@Mikolaj](https://discourse.slicer.org/u/Mikolaj)\
**Replies:** 9\
**Last updated:** [February 10, 2020, 4:21pm UTC](https://discourse.slicer.org/t/slicer-black-screen-when-opening-stls-or-nrrds/10140 "2020-02-10T16:21:06Z")

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Hi! I’m having problem with Slicer. When importing stl or nrrd (drag’n drop or import) the programme shows only black screens. Literally nothing happens. Another thing is that I don’t know how to install sequences exte…

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## [How to close the greyscale sidebar](https://discourse.slicer.org/t/how-to-close-the-greyscale-sidebar/10178)

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**Author:** [@labixin](https://discourse.slicer.org/u/labixin)\
**Replies:** 1\
**Last updated:** [February 10, 2020, 4:11am UTC](https://discourse.slicer.org/t/how-to-close-the-greyscale-sidebar/10178 "2020-02-10T04:11:26Z")

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Hi all, I want to close the greyscale sidebar in order to get purer screenshoot of the volume. But I forget the setting location. Hope for some help. Thanks a lot! Crayon

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## [Segment Editor - Repetitive function](https://discourse.slicer.org/t/segment-editor-repetitive-function/10156)

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**Author:** [@manjula](https://discourse.slicer.org/u/manjula)\
**Replies:** 6\
**Last updated:** [February 10, 2020, 1:02am UTC](https://discourse.slicer.org/t/segment-editor-repetitive-function/10156 "2020-02-10T01:02:46Z")

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It would be great if we can determine the number of times the same effect is applied. For example, If i want to grow the margin by 5 mm and if my computer processing power is not enough to grow it by 5 mm at the same t…

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## [How can I set masking settings on a segment editor effect in python?](https://discourse.slicer.org/t/how-can-i-set-masking-settings-on-a-segment-editor-effect-in-python/4406)

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**Author:** [@mikebind](https://discourse.slicer.org/u/mikebind)\
**Replies:** 6\
**Last updated:** [February 10, 2020, 12:58am UTC](https://discourse.slicer.org/t/how-can-i-set-masking-settings-on-a-segment-editor-effect-in-python/4406 "2020-02-10T00:58:56Z")

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I am trying to write an extension which automates use of some segment editor effects. Right now, I am trying to use the “Smoothing” effect on several segments, but I want to change the masking settings programmatically …

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## [Pure python extension: Packaging w/o CMAKE/Visual Studio, etc?](https://discourse.slicer.org/t/pure-python-extension-packaging-w-o-cmake-visual-studio-etc/10169)

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**Author:** [@stephan](https://discourse.slicer.org/u/stephan)\
**Replies:** 1\
**Last updated:** [February 8, 2020, 10:19pm UTC](https://discourse.slicer.org/t/pure-python-extension-packaging-w-o-cmake-visual-studio-etc/10169 "2020-02-08T22:19:05Z")

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Hi everybody, I have a rather simple extension module that was based on the Extension Wizard. So it’s pure python, nothing that need to be compiled. However, it seems that in order to package the extension into the .zip…

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## [DICOM volume orientation may be bad](https://discourse.slicer.org/t/dicom-volume-orientation-may-be-bad/10068)

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**Author:** [@chir.set](https://discourse.slicer.org/u/chir.set)\
**Replies:** 12\
**Last updated:** [February 8, 2020, 9:39pm UTC](https://discourse.slicer.org/t/dicom-volume-orientation-may-be-bad/10068 "2020-02-08T21:39:00Z")

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A DICOM volume loaded in the DICOM module shows up rightly. When loaded via the ‘Load data’ menu, its orientation is bad. That’s my preferred method, good or bad. Please see attached images. Can it be fixed ? Thanks. …

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## [Is possible to change the color of the ROI bounding box from white to something else](https://discourse.slicer.org/t/is-possible-to-change-the-color-of-the-roi-bounding-box-from-white-to-something-else/10034)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 5\
**Last updated:** [February 8, 2020, 5:46pm UTC](https://discourse.slicer.org/t/is-possible-to-change-the-color-of-the-roi-bounding-box-from-white-to-something-else/10034 "2020-02-08T17:46:20Z")

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While there seems many settings under the Modify Annotation Properties none of them seem to change the ROI bounding box color from the default white. We have images that we are trying to crop and the background is white…

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## [How to import/export segmentation as nrrd file?](https://discourse.slicer.org/t/how-to-import-export-segmentation-as-nrrd-file/3509)

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**Author:** [@margherita](https://discourse.slicer.org/u/margherita)\
**Replies:** 4\
**Last updated:** [February 8, 2020, 5:42pm UTC](https://discourse.slicer.org/t/how-to-import-export-segmentation-as-nrrd-file/3509 "2020-02-08T17:42:24Z")

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## [Convert rt structure with hole to stl](https://discourse.slicer.org/t/convert-rt-structure-with-hole-to-stl/9988)

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**Author:** [@ali](https://discourse.slicer.org/u/ali)\
**Replies:** 6\
**Last updated:** [February 8, 2020, 5:58am UTC](https://discourse.slicer.org/t/convert-rt-structure-with-hole-to-stl/9988 "2020-02-08T05:58:52Z")

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Hi all, I am able to convert a simple ROI (or rt sturcture) made in our treatment planning system into an STL file for 3D printing. What I want to do is convert an ROI with a hole in it into an STL file. To start out, I…

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## [no conversion from DWI to DTI](https://discourse.slicer.org/t/no-conversion-from-dwi-to-dti/6695)

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**Author:** [@ecgt](https://discourse.slicer.org/u/ecgt)\
**Replies:** 15\
**Last updated:** [February 8, 2020, 2:58am UTC](https://discourse.slicer.org/t/no-conversion-from-dwi-to-dti/6695 "2020-02-08T02:58:09Z")

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Operating system:Windows Slicer version:4.4.0 Expected behavior:transform DWI to DTI Actual behavior:completed with errors MR: GE 3T

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## [Slicer module panel icon in dark mode](https://discourse.slicer.org/t/slicer-module-panel-icon-in-dark-mode/8353)

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**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Replies:** 13\
**Last updated:** [February 7, 2020, 5:49pm UTC](https://discourse.slicer.org/t/slicer-module-panel-icon-in-dark-mode/8353 "2020-02-07T17:49:02Z")

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I noticed that the “3D Slicer” icon at the top of module panel looks quite ugly in dark mode. Current icon in default and dark mode: It is not easy to create a version of the icon that looks acceptable in dark mode …

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## [Generate a "Viewer" for CT scans](https://discourse.slicer.org/t/generate-a-viewer-for-ct-scans/10157)

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**Author:** [@JoeCrozier](https://discourse.slicer.org/u/JoeCrozier)\
**Replies:** 3\
**Last updated:** [February 7, 2020, 5:14pm UTC](https://discourse.slicer.org/t/generate-a-viewer-for-ct-scans/10157 "2020-02-07T17:14:21Z")

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Odd question for you: We’re doing a study here at my hospital that will require a surgeon to look through about 100 ct scans and write down his diagnosis. The scans will be anonymized and in an effort to not take up th…

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## [MR image loaded from DICOM format is not 3D](https://discourse.slicer.org/t/mr-image-loaded-from-dicom-format-is-not-3d/10106)

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**Author:** [@Onur\_Goncu](https://discourse.slicer.org/u/Onur_Goncu)\
**Replies:** 8\
**Last updated:** [February 7, 2020, 2:01pm UTC](https://discourse.slicer.org/t/mr-image-loaded-from-dicom-format-is-not-3d/10106 "2020-02-07T14:01:24Z")

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Operating system:Windows 10 - i7- 9700K - 32GB Ram - 4GB GTX1030 Slicer version:4.10.2 Expected behavior: Actual behavior: Hello Friends! I am a master degree student in Turkey. I am interested in using of this progr…

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